Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold267
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: 2306539
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 4 of 15
Found at i:541651 original size:17 final size:15
Alignment explanation
Indices: 541631--541679 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
541621 TTAGGTAAGA
541631 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
541648 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
541662 AA-AAAGAAA-AAA-
1 AAGAAAGAAAGAAAG
541674 AAGAAA
1 AAGAAA
541680 AAAATATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.07
13 6 0.20
14 9 0.30
15 1 0.03
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:541676 original size:9 final size:9
Alignment explanation
Indices: 541654--541683 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
541644 GATGAAGAAG
541654 AAAGAAAGAA
1 AAAGAAA-AA
541664 AAAGAAAAA
1 AAAGAAAAA
541673 AAAGAAAAA
1 AAAGAAAAA
541682 AA
1 AA
541684 TATGAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:541678 original size:15 final size:17
Alignment explanation
Indices: 541631--541681 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 17
541621 TTAGGTAAGA
541631 AAGAAAGAAAGAAGATGAAG
1 AAGAAAGAAAGAA-A--AAG
541651 AAGAAAGAAAGAAAAAG
1 AAGAAAGAAAGAAAAAG
541668 AA-AAA-AAAGAAAAA
1 AAGAAAGAAAGAAAAA
541682 AATATGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.29
16 3 0.10
17 5 0.16
19 1 0.03
20 13 0.42
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (17 bp):
AAGAAAGAAAGAAAAAG
Found at i:544516 original size:21 final size:20
Alignment explanation
Indices: 544492--544531 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
544482 AGAAAAAACC
*
544492 TAAAAGAAAATGCAAAATTTA
1 TAAAAGAAAAT-AAAAATTTA
*
544513 TAAAATAAAATAAAAATTT
1 TAAAAGAAAATAAAAATTT
544532 TGAAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (20 bp):
TAAAAGAAAATAAAAATTTA
Found at i:546873 original size:22 final size:23
Alignment explanation
Indices: 546845--546900 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
546835 TGGACATGTT
546845 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
546867 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
546890 AAAAATGCATG
1 AAAAATGCATG
546901 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:547839 original size:20 final size:19
Alignment explanation
Indices: 547810--547867 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
547800 GGTAAAAAGA
547810 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
*
547829 CATACATGTATCGATATATT
1 CATA-ATGTATCGATACATT
* *
547849 GAAAAATGTATCGATACAT
1 -CATAATGTATCGATACAT
547868 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 4 0.12
20 27 0.82
21 2 0.06
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (19 bp):
CATAATGTATCGATACATT
Found at i:548521 original size:86 final size:86
Alignment explanation
Indices: 548355--549386 Score: 1372
Period size: 86 Copynumber: 12.0 Consensus size: 86
548345 TGAAAAGGGT
* * * *
548355 TGCCATTGACTTGCATGGGCTTT-AAAAGGGTGCCACTGACGTGCATGGGCTTTG-AAAGAATGC
1 TGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTGACTTG--TGGGCTTTGAAAAGAGTGC
* *
548418 CACTAACTCGTGGGCTTTGAAAGGA
62 CACTGACTTGTGGGCTTTGAAAGGA
*
548443 TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTACCACT
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
* *
548506 GACTTGCGTGAGCTTTAAAAGGA
66 GACTT--GTGGGCTTTGAAAGGA
* *
548529 GTGCCACTAACTTGTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCC
1 -TGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCC
* * *
548592 ACTGAATTGTGGGCTTCGCAATGG-
63 ACTGACTTGTGGGCTTTG-AAAGGA
* * * * *
548616 TGCCATTGACTTGTGGGCTTCG-AAAGGGTGCCACTGACTTGTGGGCTCTG-AAAGGGTGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
* *
548679 AACTTGTGGGCTTTGAAAGGG
66 GACTTGTGGGCTTTGAAAGGA
* *
548700 TGCCACTGACTTGTGAGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
* * *
548765 AATTTGTGGGCTTTGAAAGGG
66 GACTTGTGGGCTTTGAAAGGA
* *
548786 TACCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
* *
548850 GACTTATGGGCTTTGAAAGGG
66 GACTTGTGGGCTTTGAAAGGA
* *
548871 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
* *
548936 GACCTGTGGGCTTTGAAAAGA
66 GACTTGTGGGCTTTGAAAGGA
* * *
548957 GTGCCACTGTCCTGTGGGCTTTG-AAAGCAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCA
1 -TGCCACTGACTTGTGGGCTTTGAAAAG-AGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
* *
549020 CTGAGTTGTGGGCTTTGAAAGGG
64 CTGACTTGTGGGCTTTGAAAGGA
* *
549043 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAAAGTGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
549108 GACTTGTGGGCTTTGAAAGGA
66 GACTTGTGGGCTTTGAAAGGA
* * * *
549129 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTAGGCTTTGAAAGGAGTGCCAC
1 -TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
549193 TGACTTGTGGGCTTTGAAAAGA
65 TGACTTGTGGGCTTTGAAAGGA
* *
549215 GTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
1 -TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
549279 TGACTTGTGGGCTTTGAAAAGA
65 TGACTTGTGGGCTTTGAAAGGA
* *
549301 GTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 -TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
549366 TGACTTGTGGGCTTTGAAAGG
65 TGACTTGTGGGCTTTGAAAGG
549387 GATGAACATT
Statistics
Matches: 841, Mismatches: 81, Indels: 45
0.87 0.08 0.05
Matches are distributed among these distances:
83 4 0.00
84 97 0.12
85 151 0.18
86 384 0.46
87 136 0.16
88 21 0.02
89 48 0.06
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (86 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
GACTTGTGGGCTTTGAAAGGA
Found at i:548736 original size:29 final size:29
Alignment explanation
Indices: 548343--549384 Score: 1386
Period size: 29 Copynumber: 36.2 Consensus size: 29
548333 ACAGTGGTGA
* *
548343 TTTGAAAAGGGTTGCCATTGACTTGCATGGGC
1 TTTGAAAAGAG-TGCCACTGACTTG--TGGGC
* *
548375 TTT-AAAAGGGTGCCACTGACGTGCATGGGC
1 TTTGAAAAGAGTGCCACTGACTTG--TGGGC
* * *
548405 TTTG-AAAGAATGCCACTAACTCGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
548433 TTTGAAAGGA-TGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
548461 TTTG-AAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
548489 TTTGAAAAG-GTACCACTGACTTGCGTGAGC
1 TTTGAAAAGAGTGCCACTGACTT--GTGGGC
*
548519 TTT-AAAAGGAGTGCCACTAACTTGTGTGGGC
1 TTTGAAAA-GAGTGCCACTGAC-T-TGTGGGC
*
548550 TTT-AAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
548578 TTTG-AAAGAGTGCCACTGAATTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
548606 TTCGCAATG-GTGCCATTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
548634 TTCG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
548662 TCTG-AAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
548690 TTTG-AAAGGGTGCCACTGACTTGTGAGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
548718 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
548747 TTTGAAAAGAGTGCCACTAATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
548776 TTTG-AAAGGGTACCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
548804 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
548833 TTTG-AAAGGGTGCCACTGACTTATGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
548861 TTTG-AAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
548889 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
548918 TTTGAAAAGAGTGCCACTGACCTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
548947 TTTGAAAAGAGTGCCACTGTCCTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
548976 TTTG-AAAGCAGTGCCACTGACTTGTGGGC
1 TTTGAAAAG-AGTGCCACTGACTTGTGGGC
* *
549005 TTTG-AAAGGGTGCCACTGAGTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
549033 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
549061 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
549090 TTTGAAAAAAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
549119 TTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
549148 TTTG-AAAGGGTGCCACTAACTTGTAGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
549176 TTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
549205 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
549234 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
549263 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
549291 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
549320 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
549349 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
549378 TTTGAAA
1 TTTGAAA
549385 GGGATGAACA
Statistics
Matches: 912, Mismatches: 78, Indels: 43
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.01
28 371 0.41
29 446 0.49
30 55 0.06
31 28 0.03
32 4 0.00
33 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (29 bp):
TTTGAAAAGAGTGCCACTGACTTGTGGGC
Found at i:550621 original size:1 final size:1
Alignment explanation
Indices: 550617--550670 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
550607 TTTTTTGCTA
* * * * *
550617 TTTTTTCTTTTTTTTTGTTTTTTTTTTGTTTTATTTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
550671 GGGTGTAACG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.02, C:0.02, G:0.06, T:0.91
Consensus pattern (1 bp):
T
Found at i:550637 original size:16 final size:15
Alignment explanation
Indices: 550607--550670 Score: 76
Period size: 16 Copynumber: 4.1 Consensus size: 15
550597 GACCCTTCTA
*
550607 TTTTTTGCTATTTTTTC
1 TTTTTTG-T-TTTTTTT
*
550624 TTTTTT-TTTGTTTT
1 TTTTTTGTTTTTTTT
550638 TTTTTTGTTTTATTTT
1 TTTTTTGTTTT-TTTT
550654 TTTTTTGTTTTTTTT
1 TTTTTTGTTTTTTTT
550669 TT
1 TT
550671 GGGTGTAACG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
14 11 0.26
15 10 0.24
16 15 0.36
17 6 0.14
ACGTcount: A:0.03, C:0.03, G:0.06, T:0.88
Consensus pattern (15 bp):
TTTTTTGTTTTTTTT
Found at i:550669 original size:10 final size:10
Alignment explanation
Indices: 550607--550669 Score: 60
Period size: 10 Copynumber: 6.6 Consensus size: 10
550597 GACCCTTCTA
* *
550607 TTTTTTGCTA
1 TTTTTTGTTT
*
550617 TTTTTTCTTT
1 TTTTTTGTTT
550627 TTTTTTG-TT
1 TTTTTTGTTT
*
550636 TTTTTT-TTG
1 TTTTTTGTTT
*
550645 TTTTAT-TTT
1 TTTTTTGTTT
550654 TTTTTTGTTT
1 TTTTTTGTTT
550664 TTTTTT
1 TTTTTT
550670 TGGGTGTAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
9 21 0.49
10 22 0.51
ACGTcount: A:0.03, C:0.03, G:0.06, T:0.87
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:563751 original size:22 final size:23
Alignment explanation
Indices: 563723--563778 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 23
563713 TGGACATGTT
563723 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
*
563745 AAAAATGAATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
563768 AAAAATGCATG
1 AAAAATGCATG
563779 GTCAAAGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.64, C:0.07, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:564738 original size:20 final size:20
Alignment explanation
Indices: 564691--564765 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
564681 AAAAAGACAT
*
564691 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
564710 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
564731 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
564751 AATGTATCGATACAT
1 AATGTATCGATACAT
564766 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:564759 original size:40 final size:39
Alignment explanation
Indices: 564688--564765 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
564678 GGTAAAAAGA
* *
564688 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
564727 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
564766 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:568219 original size:52 final size:52
Alignment explanation
Indices: 568134--568258 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
568124 ATATGAAAAG
* *
568134 TTGCTTGCATGTATCGATACATTTAATAGTGTATCAATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGCAAAT
* *
568186 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGCAAAT
* *
568238 TTACCTACATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
568259 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGCAAAT
Found at i:568271 original size:52 final size:52
Alignment explanation
Indices: 568141--568278 Score: 172
Period size: 52 Copynumber: 2.7 Consensus size: 52
568131 AAGTTGCTTG
* * * *
568141 CATGTATCGATACATTTA-ATAGTGTATCAATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTACCTA
*** *
568193 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTACCTA
1 CATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTACCTA
568245 CATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CATGTATCGATACATAAGAT-AGTGTATCGATACA
568279 ATGTATCAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
51 4 0.05
52 71 0.95
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (52 bp):
CATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTACCTA
Found at i:568369 original size:33 final size:33
Alignment explanation
Indices: 568332--568398 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
568322 AGTAGCTTAA
568332 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
568365 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
568398 A
1 A
568399 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:568372 original size:13 final size:13
Alignment explanation
Indices: 568354--568378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
568344 CAAAAAAATA
568354 TGTATCGATACAT
1 TGTATCGATACAT
568367 TGTATCGATACA
1 TGTATCGATACA
568379 ACACTTTATG
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:571171 original size:15 final size:17
Alignment explanation
Indices: 571135--571174 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
571125 TATCATTCAT
*
571135 ATTTAATAATATTATAA
1 ATTTAAAAATATTATAA
571152 ATTTAAAAATA-TAT-A
1 ATTTAAAAATATTATAA
571167 ATTTAAAA
1 ATTTAAAA
571175 TTTCATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 3 0.14
17 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAAAATATTATAA
Found at i:571174 original size:14 final size:16
Alignment explanation
Indices: 571135--571175 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
571125 TATCATTCAT
571135 ATTTAATAATATTATAA
1 ATTTAA-AATATTATAA
571152 ATTTAAAA-A-TATATA
1 ATTTAAAATATTATA-A
571167 ATTTAAAAT
1 ATTTAAAAT
571176 TTCATTCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.18
15 10 0.45
16 2 0.09
17 6 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAAAATATTATAA
Found at i:571242 original size:2 final size:2
Alignment explanation
Indices: 571235--571268 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
571225 TGGCAGGGCC
571235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
571269 TAAAAAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:574068 original size:27 final size:27
Alignment explanation
Indices: 574036--574091 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
574026 TCTTAACACA
*
574036 TTAGCATCTTCAGAGATGGTCAACAGT
1 TTAGCATCGTCAGAGATGGTCAACAGT
*
574063 TTAGCATGGTCAGAGATGGTCAACAGT
1 TTAGCATCGTCAGAGATGGTCAACAGT
574090 TT
1 TT
574092 TTACTTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (27 bp):
TTAGCATCGTCAGAGATGGTCAACAGT
Found at i:575779 original size:32 final size:32
Alignment explanation
Indices: 575738--575804 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
575728 TTGTGAGAAT
575738 GAAAATCTTATTGAAGGTTTCAATTCCTAATG
1 GAAAATCTTATTGAAGGTTTCAATTCCTAATG
*
575770 GAAAATCTTATTGAAGGTTTCAATTCTTAATG
1 GAAAATCTTATTGAAGGTTTCAATTCCTAATG
575802 GAA
1 GAA
575805 TTGTTATGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.37
Consensus pattern (32 bp):
GAAAATCTTATTGAAGGTTTCAATTCCTAATG
Found at i:576061 original size:72 final size:72
Alignment explanation
Indices: 575939--576083 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
575929 AAAGCACGGC
575939 TATACTGGCATTCTTAACTAAAATTTTCTCTGTTGTTTAATCAATAATGATAAATCTCCAATTAA
1 TATACTGGCATTCTTAACTAAAATTTTCTCTGTTGTTTAATCAATAATGATAAATCTCCAATTAA
576004 GATAATG
66 GATAATG
* *
576011 TATATTGGCATTCTTAGCTAAAATTTTCTCTGTTGTTTAATCAATAATGATAAATCTCCAATTAA
1 TATACTGGCATTCTTAACTAAAATTTTCTCTGTTGTTTAATCAATAATGATAAATCTCCAATTAA
576076 GATAATG
66 GATAATG
576083 T
1 T
576084 CATGTCTTCC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.41
Consensus pattern (72 bp):
TATACTGGCATTCTTAACTAAAATTTTCTCTGTTGTTTAATCAATAATGATAAATCTCCAATTAA
GATAATG
Found at i:577609 original size:2 final size:2
Alignment explanation
Indices: 577604--577631 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
577594 GGGGGGGGGG
577604 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
577632 AATCTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:578873 original size:2 final size:2
Alignment explanation
Indices: 578866--578891 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
578856 AAGGTATGTG
578866 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
578892 TATGTTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:585582 original size:12 final size:11
Alignment explanation
Indices: 585558--585595 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
585548 GAAAGTGTGG
*
585558 TTGAAAGAGGA
1 TTGAGAGAGGA
585569 TTGAGAGAGCGA
1 TTGAGAGAG-GA
585581 TTGAGAGAGGA
1 TTGAGAGAGGA
585592 TTGA
1 TTGA
585596 ATTAGCCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.37, C:0.03, G:0.39, T:0.21
Consensus pattern (11 bp):
TTGAGAGAGGA
Found at i:585979 original size:20 final size:20
Alignment explanation
Indices: 585954--586025 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
585944 TAATTAGATA
*
585954 TATCGATACATTGCAAAATG
1 TATCGATACATCGCAAAATG
585974 TATCGATACATCGCAAAATG
1 TATCGATACATCGCAAAATG
585994 TATCGATACATCGCAAAATG
1 TATCGATACATCGCAAAATG
586014 TATCGATACATC
1 TATCGATACATC
586026 TGGGTAAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (20 bp):
TATCGATACATCGCAAAATG
Found at i:586104 original size:51 final size:51
Alignment explanation
Indices: 585990--586104 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
585980 TACATCGCAA
585990 AATGTATCGATACATCGCAAAATGTATCGATACATCTGGGTAAAAAGACAG
1 AATGTATCGATACATCGCAAAATGTATCGATACATCTGGGTAAAAAGACAG
* * * * ** *
586041 ACTATATCGATACATTG-AAAATTTATCGATACATCTGGGGTAGGAAGACAT
1 AATGTATCGATACATCGCAAAATGTATCGATACATCT-GGGTAAAAAGACAG
*
586092 AATGTATTGATAC
1 AATGTATCGATAC
586105 TGAAAGCTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 18 0.34
51 35 0.66
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (51 bp):
AATGTATCGATACATCGCAAAATGTATCGATACATCTGGGTAAAAAGACAG
Found at i:586896 original size:13 final size:13
Alignment explanation
Indices: 586878--586903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
586868 CAATTTTTGA
586878 TGTATCGATACAT
1 TGTATCGATACAT
586891 TGTATCGATACAT
1 TGTATCGATACAT
586904 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:586919 original size:32 final size:33
Alignment explanation
Indices: 586858--586921 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
586848 TACAAGCCAA
**
586858 TGTATCGATACAATTTTTGATGTATCGATACAT
1 TGTATCGATACAATACTTGATGTATCGATACAT
*
586891 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGATGTATCGATACA
586922 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGATGTATCGATACAT
Found at i:588460 original size:70 final size:70
Alignment explanation
Indices: 588377--588695 Score: 293
Period size: 68 Copynumber: 4.5 Consensus size: 70
588367 AAAGGTACAA
** * * *
588377 GGTGCCATTAGCTTGTGTGGGCTTTAAGAAAGAAAAAAAACCAT-TATGCTCTTT-GCGGACTAA
1 GGTGCCACCAGCTTGTGTGGGCTTTAAGAAAGAAAAAAAAACGTCT-TGCT-TTTAGAGGACTAA
*
588440 AATAAAA
64 AATAAAG
* *
588447 GGTGCTACCAGCTTGTGT-GGCTTT--GAAA-AAAGAAAAAACGTCTTGCTTTTAAAGGACTAAA
1 GGTGCCACCAGCTTGTGTGGGCTTTAAGAAAGAAA-AAAAAACGTCTTGCTTTTAGAGGACT-AA
588508 AAGGTAAAG
64 AA--TAAAG
* * * *
588517 GGTGGCATCAGCTTGTGTGGGCTTTGAA-AAAGAAAAAGATAAAGCGCCATGCTTTTAGAGGACT
1 GGTGCCACCAGCTTGTGTGGGCTTT-AAGAAAGAAAAA-A-AAA-CGTCTTGCTTTTAGAGGACT
*
588581 GAAATAAAG
62 AAAATAAAG
*
588590 GGTGCCACCAGCTTGTGTGGACTTT--GAAA-AAAGAAAAAACGTCTTGCTCTTT-GAGGACTAA
1 GGTGCCACCAGCTTGTGTGGGCTTTAAGAAAGAAA-AAAAAACGTCTTGCT-TTTAGAGGACTAA
*
588651 AATAATG
64 AATAAAG
*
588658 GGTGCCACTAGCTTGTGTGGGCTTTGAA-AAAGAAAAAA
1 GGTGCCACCAGCTTGTGTGGGCTTT-AAGAAAGAAAAAA
588696 TGTCCTGAGG
Statistics
Matches: 204, Mismatches: 24, Indels: 42
0.76 0.09 0.16
Matches are distributed among these distances:
66 6 0.03
67 20 0.10
68 49 0.24
69 12 0.06
70 44 0.22
71 14 0.07
73 32 0.16
74 4 0.02
75 6 0.03
76 17 0.08
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (70 bp):
GGTGCCACCAGCTTGTGTGGGCTTTAAGAAAGAAAAAAAAACGTCTTGCTTTTAGAGGACTAAAA
TAAAG
Found at i:588503 original size:140 final size:138
Alignment explanation
Indices: 588299--588695 Score: 453
Period size: 140 Copynumber: 2.8 Consensus size: 138
588289 GACCAAAAGG
* * * * * * *
588299 ATAAAAGGGTGCCACCAACTTATGTAGGCTTTGAAAAAAGAAAAAGCATCCTACTCTTCGAGGAC
1 ATAAAA-GGTGCCACCAGCTTGTGT-GGCTTTGAAAAAAGAAAAAACGTCTTGCT-TTTGAGGAC
**
588364 TAAAAAGGTACAAGGTGCCATTAGCTTGTGTGGGCTTT-AAGAAAGAAAAAAAACCATTATGCTC
63 TAAAAAGGTA-AAGGTGCCATTAGCTTGTGTGGGCTTTGAA-AAAGAAAAAAAACCACCATGCT-
*
588428 TTT-GCGGACTAAA
125 TTTAGAGGACTAAA
* *
588441 ATAAAAGGTGCTACCAGCTTGTGTGGCTTTGAAAAAAGAAAAAACGTCTTGCTTTTAAAGGACTA
1 ATAAAAGGTGCCACCAGCTTGTGTGGCTTTGAAAAAAGAAAAAACGTCTTGCTTTT-GAGGACTA
* * * *
588506 AAAAGGTAAAGGGTGGCATCAGCTTGTGTGGGCTTTGAAAAAGAAAAAGATAAAGCGCCATGCTT
65 AAAAGGTAAA-GGTGCCATTAGCTTGTGTGGGCTTTGAAAAAG-AAAA-A-AAACCACCATGCTT
*
588571 TTAGAGGACTGAA
126 TTAGAGGACTAAA
*
588584 ATAAAGGGTGCCACCAGCTTGTGTGGACTTTGAAAAAAGAAAAAACGTCTTGCTCTTTGAGGACT
1 ATAAAAGGTGCCACCAGCTTGTGTGG-CTTTGAAAAAAGAAAAAACGTCTTGCT-TTTGAGGACT
* *
588649 -AAAA--TAATGGGTGCCACTAGCTTGTGTGGGCTTTGAAAAAGAAAAAA
64 AAAAAGGTAA-AGGTGCCATTAGCTTGTGTGGGCTTTGAAAAAGAAAAAA
588696 TGTCCTGAGG
Statistics
Matches: 221, Mismatches: 24, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
138 1 0.00
139 5 0.02
140 71 0.32
141 53 0.24
142 10 0.05
143 45 0.20
144 33 0.15
145 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (138 bp):
ATAAAAGGTGCCACCAGCTTGTGTGGCTTTGAAAAAAGAAAAAACGTCTTGCTTTTGAGGACTAA
AAAGGTAAAGGTGCCATTAGCTTGTGTGGGCTTTGAAAAAGAAAAAAAACCACCATGCTTTTAGA
GGACTAAA
Found at i:597207 original size:18 final size:18
Alignment explanation
Indices: 597171--597211 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
597161 ATGAAAAAGT
* * *
597171 CAAAAGTAAACACACAAA
1 CAAAAGTAAAAAAAAAAA
597189 CAAAAGTAAAAAAAAAAA
1 CAAAAGTAAAAAAAAAAA
597207 CAAAA
1 CAAAA
597212 AAACAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.76, C:0.15, G:0.05, T:0.05
Consensus pattern (18 bp):
CAAAAGTAAAAAAAAAAA
Found at i:597219 original size:19 final size:19
Alignment explanation
Indices: 597197--597233 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
597187 AACAAAAGTA
597197 AAAAAAAAAACAAAAAAAC
1 AAAAAAAAAACAAAAAAAC
* *
597216 AAAAAACACACAAAAAAA
1 AAAAAAAAAACAAAAAAA
597234 GTGCAAAGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAACAAAAAAAC
Found at i:597521 original size:21 final size:20
Alignment explanation
Indices: 597479--597523 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
597469 CCCAACACAA
* *
597479 AAAAACAAAAAAAAGAAGAG
1 AAAAACAAAAAAAAAAACAG
*
597499 AAAAAGAAAAAAACAAAACAG
1 AAAAACAAAAAAA-AAAACAG
597520 AAAA
1 AAAA
597524 TCTCGATAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAACAAAAAAAAAAACAG
Found at i:598581 original size:31 final size:31
Alignment explanation
Indices: 598515--598667 Score: 177
Period size: 31 Copynumber: 4.9 Consensus size: 31
598505 ATACCTTCTT
*
598515 AAAGTCCACGACTCAGTGGCATTTTGTC-CC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
598545 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* *
598576 AAAGTCCACAACTCAGTGGCAATCTCTTT-T-C
1 AAAGTCCACGACTCAGTGGC-AT-TTTTTCTCC
* *
598607 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* * * *
598638 AAAGCCCACAACTCTGTGGCACCTTTTTCT
1 AAAGTCCACGACTCAGTGGCA-TTTTTTCT
598668 TTTCAAAGCC
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
29 3 0.03
30 30 0.28
31 60 0.57
32 9 0.08
33 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTTTCTCC
Found at i:598625 original size:62 final size:61
Alignment explanation
Indices: 598510--598987 Score: 307
Period size: 62 Copynumber: 7.6 Consensus size: 61
598500 TTCAAATACC
* * *
598510 TTCTT-AAAGTCCACGACTCAGTGGCAT-T-TTGTCCCAAAGTCCACGACTCAGTGGCATTTT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTCTT-T-TCAAAGTCCACAACTCAGTGGCATTTT
* * *
598570 TTCTCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAGTCCACGACTCAGTGGCATCTT
1 TTCTTCAAAGTCCACAACTCAGTGGC-ATCTCTTTTCAAAGTCCACAACTCAGTGGCATTTT
* * * * * * **
598632 TTCTTCAAAGCCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTTGCA-TCC
1 TTCTTCAAAGTCCACAACTCAGTGGCA----TCTCTTTTCAAAGTCCACAACTCAGTGGCATTTT
* * * *
598696 TT-TT-AAAGCCCACAACTCCGTGGCATC-CTTTT-AAAGTCCACAACTCCGTGGCACCTTGT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCA--TTTT
* ** * * *
598755 TCCTTTTAAGTCCACAACTCCGTGGCATCT-TTTTCATTTGAAGCCCACAACTCTGTGGCACTCT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCA----AAGTCCACAACTCAGTGGCA-T-T
598819 TT
60 TT
* * *
598821 TTCTTTTTAAAGTCCATAACTCCGTGGCATCTCTTTCCTTCAAAGTCCACAACTCAGTGGCATCC
1 TTC--TTCAAAGTCCACAACTCAGTGGCATCTC-TT--TTCAAAGTCCACAACTCAGTGGCAT--
598886 CTTT
59 -TTT
* * *
598890 TTCCTGTC--AGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCCGTGGCACCTTTT
1 TT-CT-TCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCA--TTTT
* * *
598953 TCTTTTTAAAGCCCACAACTTC-GTGGCA-CTCTTTT
1 T-TCTTCAAAGTCCACAAC-TCAGTGGCATCTCTTTT
598988 TCCCTTTTAA
Statistics
Matches: 341, Mismatches: 41, Indels: 69
0.76 0.09 0.15
Matches are distributed among these distances:
56 19 0.06
57 5 0.01
58 1 0.00
59 2 0.01
60 6 0.02
61 45 0.13
62 72 0.21
63 16 0.05
64 41 0.12
65 29 0.09
66 25 0.07
67 22 0.06
68 44 0.13
69 7 0.02
70 3 0.01
72 4 0.01
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (61 bp):
TTCTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATTTT
Found at i:598678 original size:34 final size:34
Alignment explanation
Indices: 598544--599049 Score: 309
Period size: 34 Copynumber: 15.9 Consensus size: 34
598534 CATTTTGTCC
* * * *
598544 CAAAGTCCACGACTCAGTGGCA--TTTTT-TCTC
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
598575 CAAAGTCCACAACTCAGTGGCA---ATCTCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
598606 CAAAGTCCACGACTCAGTGGCATC-TTTTC--TT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
598637 CAAAGCCCACAACTCTGTGGCACCTTTTTCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
598671 CAAAGCCCACAACTCCGTTGCA-----TCCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
598700 -AAAGCCCACAACTCCGTGGCA-----TCCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
598728 -AAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
* *
598762 --AAGTCCACAACTCCGTGGCATCTTTTTCATTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
598794 -GAAGCCCACAACTCTGTGGCACTCTTTTTCTTTT
1 CAAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTT
* * * * *
598828 TAAAGTCCATAACTCCGTGGCATCTCTTTC-CTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
598861 CAAAGTCCACAACTCAGTGGCATCCCTTTTTCCTGT
1 CAAAGTCCACAACTCCGTGGCA--CCTTTTTCTTTT
* *
598897 C--AGTCCACAACTCAGTGGCA----TCTCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
598925 CTAAGTCCACGACTCCGTGGCACCTTTTTCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
598959 TAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTTTT
1 CAAAGTCCACAACTCCGTGGCAC-CTTTTT--CTTTT
*
598996 --AAGTCCACAACTCTGTGGCACC-----CTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
599023 --AAGTCCACAACTCCGTGGCACCCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTT
599050 AAGTCCACAA
Statistics
Matches: 390, Mismatches: 53, Indels: 63
0.77 0.10 0.12
Matches are distributed among these distances:
27 26 0.07
28 53 0.14
29 6 0.02
30 19 0.05
31 66 0.17
32 11 0.03
33 65 0.17
34 90 0.23
35 47 0.12
36 2 0.01
37 5 0.01
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.33
Consensus pattern (34 bp):
CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:598707 original size:28 final size:28
Alignment explanation
Indices: 598576--598788 Score: 149
Period size: 28 Copynumber: 7.0 Consensus size: 28
598566 TTTTTTCTCC
* *
598576 AAAGTCCACAACTCAGTGGCAATCTCTTTT
1 AAAGCCCACAACTCCGTGGC-ATC-CTTTT
* * * *
598606 CAAAGTCCACGACTCAGTGGCATCTTTTCTT
1 -AAAGCCCACAACTCCGTGGCATC-CTT-TT
* *
598637 CAAAGCCCACAACTCTGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCA-----TCCTTTT
*
598671 CAAAGCCCACAACTCCGTTGCATCCTTTT
1 -AAAGCCCACAACTCCGTGGCATCCTTTT
598700 AAAGCCCACAACTCCGTGGCATCCTTTT
1 AAAGCCCACAACTCCGTGGCATCCTTTT
*
598728 AAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCA------TCCTTTT
* *
598762 -AAGTCCACAACTCCGTGGCATCTTTTT
1 AAAGCCCACAACTCCGTGGCATCCTTTT
598789 CATTTGAAGC
Statistics
Matches: 157, Mismatches: 13, Indels: 28
0.79 0.07 0.14
Matches are distributed among these distances:
27 6 0.04
28 47 0.30
29 6 0.04
30 6 0.04
31 40 0.25
33 20 0.13
34 29 0.18
35 2 0.01
36 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.31
Consensus pattern (28 bp):
AAAGCCCACAACTCCGTGGCATCCTTTT
Found at i:599020 original size:27 final size:27
Alignment explanation
Indices: 598989--599069 Score: 135
Period size: 27 Copynumber: 3.0 Consensus size: 27
598979 CACTCTTTTT
*
598989 CCCTTTTAAGTCCACAACTCTGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
599016 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
* *
599043 CCCTTTTAAGTCCACAAATTCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
599070 TCTTTCTCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.28
Consensus pattern (27 bp):
CCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:599202 original size:49 final size:48
Alignment explanation
Indices: 599142--599888 Score: 709
Period size: 49 Copynumber: 15.8 Consensus size: 48
599132 GGCATCTTCT
* * *
599142 TTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-TTTATC
* * *
599191 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG--C---ATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATC
* * *
599234 TTTAAGTCCAACATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATC
* * * * * *
599283 TTTAAGACCAATGTCGTTGGCCTTGAATCAACACATT-G-AC---ACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATC
** * *
599326 TTTAAGTCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATC
* * * *
599375 TTTATGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATC
* * *
599418 TTTAAGTCTAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATC
* * * *
599467 TTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCAC-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATC
* * *
599510 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATC
* * * * *
599558 TTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGGCAC-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATC
* *
599601 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC-TT-T-ATC
* * *
599653 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATC
*
599702 TTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGTGC-CTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-G-GCAC-TT-T-ATC
* * * * *
599754 TTTAAGTCCAATGTAGCTGGCCTTGATTCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATC
*
599803 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATC
*
599852 TTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
599889 AGAGCCTTCG
Statistics
Matches: 581, Mismatches: 77, Indels: 80
0.79 0.10 0.11
Matches are distributed among these distances:
43 181 0.31
44 3 0.01
45 1 0.00
46 3 0.01
47 2 0.00
48 40 0.07
49 264 0.45
50 5 0.01
51 7 0.01
52 75 0.13
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (48 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATC
Found at i:599304 original size:92 final size:92
Alignment explanation
Indices: 599142--599884 Score: 1002
Period size: 92 Copynumber: 7.9 Consensus size: 92
599132 GGCATCTTCT
* * *
599142 TTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
*
599207 CTGGCCTTGAATCAGCACATTGGCATC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
599234 TTTAAGTCCAACATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* * *
599299 TTGGCCTTGAATCAACACATTGACACC
66 CTGGCCTTGAATCAGCACATTGGCACC
** * *
599326 TTTAAGTCCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTGTCTTTATGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
599391 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
599418 TTTAAGTCTAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
*
599483 TTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* ** *
599510 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGACCGATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
*
599574 TTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
599601 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGACCAATG
599666 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
63 TCGCTGGCCTTGAATCAGCACATTGGCA----C--C
* ** *
599702 TTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGTGCCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGACCAATG
* *
599767 TAGCTGGCCTTGATTCAGCACATTGGCACCTTCATC
63 TCGCTGGCCTTGAATCAGCACATTGGCA----C--C
** * * *
599803 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAGTATCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
599868 CTGGCCTTGAATCAGCA
66 CTGGCCTTGAATCAGCA
599885 TATTAGAGCC
Statistics
Matches: 592, Mismatches: 49, Indels: 14
0.90 0.07 0.02
Matches are distributed among these distances:
91 85 0.14
92 296 0.50
95 40 0.07
98 31 0.05
99 1 0.00
101 139 0.23
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:599834 original size:150 final size:151
Alignment explanation
Indices: 599600--600004 Score: 517
Period size: 150 Copynumber: 2.6 Consensus size: 151
599590 ACATTGGCAC
* * * * *
599600 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TCTCATCTTTAAGTCCAAT
599665 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
64 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
* * * *
599730 CAGTATATTGGTGCCTTTGTCAT
129 CAGCATATTAGAGCCTTCGTCAT
* *
599753 CTTTAAGTCCAATGTAGCTGGCCTTGATTCAGCACATTGGCACCT-TCATCTTTAAGTCCAATAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAATGT
* *
599817 CGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAGTATCGCTGGCCTTGAATCA
66 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
599882 GCATATTAGAGCCTTCGTCAT
131 GCATATTAGAGCCTTCGTCAT
** * ** * *
599903 CTTTAAAACCCAATGTCA-TTGGCCTTGAATCAGCACATTGGCATTTTTCTCATCTTCAAGTCTA
1 CTTT-AAGTCCAATGT-AGCTGGCCTTGAATCAGCACATTGGCA--CCTCTCATCTTTAAGTC-C
* * *
599967 AATGTCGCTGACCATGAATCAGCACATTGACATCCTTC
61 AATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTC
600005 TTCTCATCTT
Statistics
Matches: 220, Mismatches: 25, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
150 102 0.46
151 33 0.15
152 1 0.00
153 40 0.18
154 12 0.05
155 27 0.12
156 5 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (151 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAATGT
CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
GCATATTAGAGCCTTCGTCAT
Found at i:599903 original size:101 final size:100
Alignment explanation
Indices: 599142--600004 Score: 860
Period size: 92 Copynumber: 9.0 Consensus size: 100
599132 GGCATCTTCT
* * ** *
599142 TTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCA-CTT-TTGTCTTTAAGACCAATGT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAATGT
599205 CGCTGGCCTTGAATCAGCACATTGG------CATC
66 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * *
599234 TTTAAGTCCAACATCGCTGGCCTTGAATCAACATATTGGCACCTT-T-GTCTTTAAGACCAATGT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAATGT
* * *
599297 CGTTGGCCTTGAATCAACACATT-G-A----CACC
66 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
** * * * *
599326 TTTAAGTCCAATATCATTGGCCTTGAATCAACATATTGGCACCTT-T-GTCTTTATGACCAATGT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAATGT
599389 CGCTGGCCTTGAATCAGCACATTGGCA----C--C
66 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * *
599418 TTTAAGTCTAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-T-GTCTTTAAGACCAATGT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAATGT
*
599481 CGTTGGCCTTGAATCAGCACATTGGCA----C--C
66 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * *
599510 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACC---TCATCTTTAAGACCGATGT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAATGT
*
599572 CGTTGGCCTTGAATCAGCACATTGGCA----C--C
66 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
599601 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCATCTTTAAGTCCAATG
599666 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
65 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* **
599702 TTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGTGCCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCATCTTTAAGTCCAATG
* *
599767 TAGCTGGCCTTGATTCAGCACATTGGCACCTTCATC
65 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
599803 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T-TCATCTTTAAGTCCAGTAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAATGT
* *
599866 CGCTGGCCTTGAATCAGCATATTAGAGC-CTTCGTCATC
66 CGCTGGCCTTGAATCAGCACATT-G-GCAC--CTTCATC
** * ** * ** * * *
599904 TTTAAAACCCAATGTCATTGGCCTTGAATCAGCACATTGGCATTTTTCTCATCTTCAAGTCTAAA
1 TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTGTCATCTTTAAGTC-CAA
* * *
599969 TGTCGCTGACCATGAATCAGCACATTGACATCCTTC
63 TGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTC
600005 TTCTCATCTT
Statistics
Matches: 685, Mismatches: 60, Indels: 40
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.00
91 85 0.12
92 286 0.42
93 5 0.01
94 2 0.00
95 43 0.06
98 37 0.05
99 4 0.01
100 2 0.00
101 146 0.21
102 32 0.05
104 5 0.01
105 13 0.02
106 24 0.04
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (100 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAATGT
CGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
Found at i:600759 original size:19 final size:18
Alignment explanation
Indices: 600735--600797 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
600725 AACAAGTAAC
600735 TGTATCGATACATAAGTG
1 TGTATCGATACATAAGTG
600753 TTGTATCGATAC--AA---
1 -TGTATCGATACATAAGTG
600767 TGTATCGATACATAAGTG
1 TGTATCGATACATAAGTG
600785 CTGTATCGATACA
1 -TGTATCGATACA
600798 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:0.14, G:0.19, T:0.33
Consensus pattern (18 bp):
TGTATCGATACATAAGTG
Found at i:600772 original size:13 final size:13
Alignment explanation
Indices: 600754--600778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
600744 ACATAAGTGT
600754 TGTATCGATACAA
1 TGTATCGATACAA
600767 TGTATCGATACA
1 TGTATCGATACA
600779 TAAGTGCTGT
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:600776 original size:32 final size:32
Alignment explanation
Indices: 600735--600805 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
600725 AACAAGTAAC
*
600735 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGCTGTATCGATACAA
600767 TGTATCGATACATAAGTGCTGTATCGATACAA
1 TGTATCGATACATAAGTGCTGTATCGATACAA
600799 TGTATCG
1 TGTATCG
600806 CTATGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGCTGTATCGATACAA
Found at i:604933 original size:32 final size:32
Alignment explanation
Indices: 604897--604981 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
604887 TTTCAACAAT
* *
604897 TTGTATCAATACAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
604929 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
604961 TTGTATTGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
604982 CTACGAGCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:604948 original size:13 final size:13
Alignment explanation
Indices: 604930--604954 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
604920 GCATAAGTGT
604930 TGTATCGATACAA
1 TGTATCGATACAA
604943 TGTATCGATACA
1 TGTATCGATACA
604955 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:605042 original size:13 final size:13
Alignment explanation
Indices: 605024--605050 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
605014 CATTACTCAA
605024 TGTATCGATACAT
1 TGTATCGATACAT
605037 TGTATCGATACAT
1 TGTATCGATACAT
605050 T
1 T
605051 TGATCTTTGT
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):
TGTATCGATACAT
Found at i:609101 original size:139 final size:139
Alignment explanation
Indices: 608846--609137 Score: 392
Period size: 139 Copynumber: 2.1 Consensus size: 139
608836 TAAAAAATAA
* * * *
608846 TATTAAAGTTGTAAATTTCGAAAATCTCATTTCGTACCTTAGTGGAGAATCATAAAGATACGAAA
1 TATT-AAGTTGTAAATTTCGAAAATCTCATTTCGTACCTTAATGGAGAACCAAAAAGATAAGAAA
608911 AGTTTTAAAAATTTCTATACCCCTACAGAAAACCATAGGAATATTGAAATCTTAAAAAATTAAGA
65 AGTTTTAAAAATTTCTATACCCCTACAGAAAACCATAGGAATATTGAAATCTTAAAAAATTAAGA
*
608976 CAATAATTTT
130 CAATAATCTT
* *
608986 TATTAAGTTTTAATTTTCGAAAAAT-TCATTTCGTACCTTAATGGAGAACCAAAAAGATAAGAAA
1 TATTAAGTTGTAAATTTCG-AAAATCTCATTTCGTACCTTAATGGAGAACCAAAAAGATAAGAAA
* * * ** * *
609050 AGTTTTGAAGA-TTCTATACCCTTATGGATAACCATAGGAATATTAGAAATCTTGAAAAATTAAG
65 AGTTTTAAAAATTTCTATACCCCTACAGAAAACCATAGGAATATT-GAAATCTTAAAAAATTAAG
*
609114 ATAATAATCTT
129 ACAATAATCTT
*
609125 TATT-AGTTATAAA
1 TATTAAGTTGTAAA
609138 ATAATATTTA
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
138 36 0.27
139 88 0.66
140 9 0.07
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (139 bp):
TATTAAGTTGTAAATTTCGAAAATCTCATTTCGTACCTTAATGGAGAACCAAAAAGATAAGAAAA
GTTTTAAAAATTTCTATACCCCTACAGAAAACCATAGGAATATTGAAATCTTAAAAAATTAAGAC
AATAATCTT
Found at i:612046 original size:44 final size:44
Alignment explanation
Indices: 611983--612070 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
611973 GATAAACCAA
**
611983 GTTTGACCAGGGCTAAACCATCACGTCAAAT-GAGATATGAAAAG
1 GTTTGACCAAAGCTAAACCATCACGTC-AATCGAGATATGAAAAG
*
612027 GTTTGACCAAAGCTAAACCATCATGTCAATCGAGATATGAAAAG
1 GTTTGACCAAAGCTAAACCATCACGTCAATCGAGATATGAAAAG
612071 AGCTTAACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 3 0.08
44 37 0.93
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (44 bp):
GTTTGACCAAAGCTAAACCATCACGTCAATCGAGATATGAAAAG
Found at i:612214 original size:47 final size:47
Alignment explanation
Indices: 612162--612360 Score: 193
Period size: 47 Copynumber: 4.2 Consensus size: 47
612152 AGGGTGAGAG
* ** * **
612162 GAGTTTAACCAGGTTTTAATGCTAATATAGTTAAACAAGGGTAAAAA
1 GAGTTTGACCAGGTCCTAATGCCAATATAGTTAAATGAGGGTAAAAA
* * * * * * *
612209 TAGTTTGACTAGGTTCTAACGCCAATACAGTTAAATGAGAGCAAAAA
1 GAGTTTGACCAGGTCCTAATGCCAATATAGTTAAATGAGGGTAAAAA
** * *
612256 GAGTTTGACCAGGTCCTAATGCCAACGTAGTCAAATGAGGGTGAAAA
1 GAGTTTGACCAGGTCCTAATGCCAATATAGTTAAATGAGGGTAAAAA
* * * *
612303 GATTTTGACCAGGTCCTAATGCTAATATAGTCAAATGAGGGT-GAAA
1 GAGTTTGACCAGGTCCTAATGCCAATATAGTTAAATGAGGGTAAAAA
612349 GAAGTTTGACCA
1 G-AGTTTGACCA
612361 AAACAAACAC
Statistics
Matches: 123, Mismatches: 28, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
46 4 0.03
47 119 0.97
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (47 bp):
GAGTTTGACCAGGTCCTAATGCCAATATAGTTAAATGAGGGTAAAAA
Found at i:612355 original size:94 final size:94
Alignment explanation
Indices: 612132--612542 Score: 237
Period size: 94 Copynumber: 4.4 Consensus size: 94
612122 AATCGGGACC
* * * * ** * * *
612132 AATGCTAATACAGTCAAACGAGGGTGAGAGGAGTTTAACCAGGTTTTAATGCTAATATAGTTAAA
1 AATGCTAATACAGTCAAATGAGGGTGAAAGAAGTTTGACCAGGTCCTAATGCCAACATAGTCAAA
* * *
612197 CAAGGGTAAAAATAGTTTGACTAGGTTCT
66 CAAGGGTAAAAAGAGTTTGACCAGGTCCT
* * * * * * *
612226 AACGCCAATACAGTTAAATGAGAG-CAAAAAGAGTTTGACCAGGTCCTAATGCCAACGTAGTCAA
1 AATGCTAATACAGTCAAATGAGGGTGAAAGA-AGTTTGACCAGGTCCTAATGCCAACATAGTCAA
** * *
612290 ATGAGGGTGAAAAGATTTTGACCAGGTCCT
65 ACAAGGGTAAAAAGAGTTTGACCAGGTCCT
* *** * ** * * * **
612320 AATGCTAATATAGTCAAATGAGGGTGAAAGAAGTTTGACCA-AAACAAACACTAATACAACCAAA
1 AATGCTAATACAGTCAAATGAGGGTGAAAGAAGTTTGACCAGGTCCTAATGCCAACATAGTCAAA
* * * *
612384 CAAAGG----AAGAATTTGACTATGTCCT
66 CAAGGGTAAAAAGAGTTTGACCAGGTCCT
* * * * * **
612409 AATGCTAATACAGTCAAATGAAGGT-AAAAAACGTTTGACTAGGTCCTAACGCTAGTATAGTCAA
1 AATGCTAATACAGTCAAATGAGGGTGAAAGAA-GTTTGACCAGGTCCTAATGCCAACATAGTCAA
** * *
612473 AGGAGGGTGAAAA-AGTTTGACCAAGTCCT
65 ACAAGGGTAAAAAGAGTTTGACCAGGTCCT
* * * * *
612502 AACG-TCAATACAATTAAATGAGGGTGAGAGGAGTTTGACCA
1 AATGCT-AATACAGTCAAATGAGGGTGAAAGAAGTTTGACCA
612543 CGACTAACAC
Statistics
Matches: 232, Mismatches: 75, Indels: 21
0.71 0.23 0.06
Matches are distributed among these distances:
88 5 0.02
89 47 0.20
90 17 0.07
92 1 0.00
93 56 0.24
94 102 0.44
95 4 0.02
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (94 bp):
AATGCTAATACAGTCAAATGAGGGTGAAAGAAGTTTGACCAGGTCCTAATGCCAACATAGTCAAA
CAAGGGTAAAAAGAGTTTGACCAGGTCCT
Found at i:612449 original size:47 final size:46
Alignment explanation
Indices: 612201--612513 Score: 134
Period size: 47 Copynumber: 6.8 Consensus size: 46
612191 GTTAAACAAG
* * * * *
612201 GGTAAAAATAGTTTGACTAGGTTCTAACGCCAATACAGTTAAATG-A
1 GGTAAAAA-AGTTTGACTAAGTCCTAACGCTAATACAGTCAAAGGAA
* * * * * *** * *
612247 GAGCAAAAAGAGTTTGACCAGGTCCTAATGCCAACGTAGTCAAATGAG
1 G-GTAAAAA-AGTTTGACTAAGTCCTAACGCTAATACAGTCAAAGGAA
* * * * * * * *
612295 GGTGAAAAGATTTTGACCAGGTCCTAATGCTAATATAGTCAAATGAG
1 GGT-AAAAAAGTTTGACTAAGTCCTAACGCTAATACAGTCAAAGGAA
* * ** * * ** **
612342 GGTGAAAGAAGTTTGACCAA-AACAAACACTAATACAACCAAACAAA
1 GGT-AAAAAAGTTTGACTAAGTCCTAACGCTAATACAGTCAAAGGAA
* * * *
612388 GG--AAGAA-TTTGACTATGTCCTAATGCTAATACAGTCAAATGAA
1 GGTAAAAAAGTTTGACTAAGTCCTAACGCTAATACAGTCAAAGGAA
* * * *
612431 GGTAAAAAACGTTTGACTAGGTCCTAACGCTAGTATAGTCAAAGGAG
1 GGTAAAAAA-GTTTGACTAAGTCCTAACGCTAATACAGTCAAAGGAA
* *
612478 GGTGAAAAAGTTTGACCAAGTCCTAACG-TCAATACA
1 GGTAAAAAAGTTTGACTAAGTCCTAACGCT-AATACA
612514 ATTAAATGAG
Statistics
Matches: 204, Mismatches: 54, Indels: 18
0.74 0.20 0.07
Matches are distributed among these distances:
42 7 0.03
43 24 0.12
45 5 0.02
46 39 0.19
47 124 0.61
48 5 0.02
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (46 bp):
GGTAAAAAAGTTTGACTAAGTCCTAACGCTAATACAGTCAAAGGAA
Found at i:612592 original size:182 final size:184
Alignment explanation
Indices: 612210--612614 Score: 478
Period size: 182 Copynumber: 2.2 Consensus size: 184
612200 GGGTAAAAAT
* * * *
612210 AGTTTGACTAGGTTCTAACGCCAATACAGTTAAATG-AGAGCAAAAAGAGTTTGACCAGGTCCTA
1 AGTTTGACTAGGTCCTAATGCTAATACAGTCAAATGAAGAGCAAAAAGAGTTTGACCAGGTCCTA
* * * * * * * *
612274 ATGCCAACGTAGTCAAATGAGGGTGAAAAGATTTTGACCAGGTCCTAATGCTAATATAGTCAAAT
66 ACGCCAACATAGTCAAAGGAGGGTGAAAAGAGTTTGACCAAGTCCTAACGCTAATACAATCAAAT
*
612339 GAGGGTGAAAGAAGTTTGACCAAAACAAACACTAATACAACCAAACAAAGGAAG
131 GAGGGTGAAAGAAGTTTGACCAAAACAAACACCAATACAACCAAACAAAGGAAG
* * * *
612393 AATTTGACTATGTCCTAATGCTAATACAGTCAAATGAAG-GTAAAAA-ACGTTTGACTAGGTCCT
1 AGTTTGACTAGGTCCTAATGCTAATACAGTCAAATGAAGAGCAAAAAGA-GTTTGACCAGGTCCT
* ** *
612456 AACGCTAGTATAGTCAAAGGAGGGTGAAAA-AGTTTGACCAAGTCCTAACG-TCAATACAATTAA
65 AACGCCAACATAGTCAAAGGAGGGTGAAAAGAGTTTGACCAAGTCCTAACGCT-AATACAATCAA
* * ** * * *
612519 ATGAGGGTGAGAGGAGTTTGACCACGACTAACACCAATACAACCAAAGAACGGAAG
129 ATGAGGGTGAAAGAAGTTTGACCAAAACAAACACCAATACAACCAAACAAAGGAAG
* * *
612575 AGTTTGACCAGGTCCTAATGCTAATACGGTCAAACGAAGA
1 AGTTTGACTAGGTCCTAATGCTAATACAGTCAAATGAAGA
612615 AAAAGCTCGA
Statistics
Matches: 185, Mismatches: 33, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
181 1 0.01
182 108 0.58
183 74 0.40
184 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (184 bp):
AGTTTGACTAGGTCCTAATGCTAATACAGTCAAATGAAGAGCAAAAAGAGTTTGACCAGGTCCTA
ACGCCAACATAGTCAAAGGAGGGTGAAAAGAGTTTGACCAAGTCCTAACGCTAATACAATCAAAT
GAGGGTGAAAGAAGTTTGACCAAAACAAACACCAATACAACCAAACAAAGGAAG
Found at i:612601 original size:89 final size:89
Alignment explanation
Indices: 612301--612608 Score: 269
Period size: 89 Copynumber: 3.4 Consensus size: 89
612291 TGAGGGTGAA
* * * *
612301 AAGATTTTGACCAGGTCCTAATGCTAATATAGTCAAATGAGGGTGAAAGAAGTTTGACCAAAACA
1 AAGAGTTTGACCAGGTCCTAATGCTAATACAGTCAAATGAGGGTGAAAGAAGTTTGACCAAGACT
*
612366 AACACTAATACAACCAAACAAAGG
66 AACACTAATACAACCAAAGAAAGG
* * * * * * * *
612390 AAGAATTTGACTATGTCCTAATGCTAATACAGTCAAATGAAGGT-AAAAAACGTTTGACTAGGTC
1 AAGAGTTTGACCAGGTCCTAATGCTAATACAGTCAAATGAGGGTGAAAGAA-GTTTGACCAAG-A
* * * ** **
612454 CTAACGCTAGTATAGTCAAAGGAGGGTG
64 CTAACACTAATACAACCAAA-GAAAG-G
* * * * * * * *
612482 AAAAAGTTTGACCAAGTCCTAACG-TCAATACAATTAAATGAGGGTGAGAGGAGTTTGACCACGA
1 -AAGAGTTTGACCAGGTCCTAATGCT-AATACAGTCAAATGAGGGTGAAAGAAGTTTGACCAAGA
* *
612546 CTAACACCAATACAACCAAAGAACGG
64 CTAACACTAATACAACCAAAGAAAGG
*
612572 AAGAGTTTGACCAGGTCCTAATGCTAATACGGTCAAA
1 AAGAGTTTGACCAGGTCCTAATGCTAATACAGTCAAA
612609 CGAAGAAAAA
Statistics
Matches: 164, Mismatches: 47, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
88 5 0.03
89 76 0.46
90 16 0.10
91 5 0.03
92 16 0.10
93 43 0.26
94 3 0.02
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (89 bp):
AAGAGTTTGACCAGGTCCTAATGCTAATACAGTCAAATGAGGGTGAAAGAAGTTTGACCAAGACT
AACACTAATACAACCAAAGAAAGG
Found at i:613780 original size:13 final size:12
Alignment explanation
Indices: 613761--613785 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
613751 GTTCATTTTT
613761 CTTTTTTTATTG
1 CTTTTTTTATTG
613773 CTTTTTTTATTG
1 CTTTTTTTATTG
613785 C
1 C
613786 CCCATCATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (12 bp):
CTTTTTTTATTG
Found at i:614131 original size:11 final size:11
Alignment explanation
Indices: 614115--614141 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
614105 TCATTCTTCC
614115 TTTTCTTTTCT
1 TTTTCTTTTCT
614126 TTTTCTTTTCT
1 TTTTCTTTTCT
614137 TTTTC
1 TTTTC
614142 ACAAAGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:622762 original size:13 final size:13
Alignment explanation
Indices: 622744--622774 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
622734 ACATTTCTTC
622744 ATGTATCGATACA
1 ATGTATCGATACA
622757 ATGTATCGATACA
1 ATGTATCGATACA
*
622770 TTGTA
1 ATGTA
622775 CCATGTATCG
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:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:622762 original size:33 final size:33
Alignment explanation
Indices: 622724--622790 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
622714 GTTACAAGCT
622724 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
622757 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
622790 A
1 A
622791 GTAGTGATAG
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:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:622879 original size:13 final size:13
Alignment explanation
Indices: 622861--622886 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
622851 ACAATGAACT
622861 TGTATCGATACAA
1 TGTATCGATACAA
622874 TGTATCGATACAA
1 TGTATCGATACAA
622887 AGTAGCATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:624425 original size:13 final size:13
Alignment explanation
Indices: 624407--624432 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
624397 TACACAAAGT
624407 ATGTATCGATACA
1 ATGTATCGATACA
624420 ATGTATCGATACA
1 ATGTATCGATACA
624433 CCAGAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:624430 original size:32 final size:33
Alignment explanation
Indices: 624389--624452 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
624379 TAGCCAAACT
*
624389 TGTATCGATACA-CA-AAGTATGTATCGATACAA
1 TGTATCGATACACCAGAAAT-TGTATCGATACAA
624421 TGTATCGATACACCAGAAATTGTATCGATACA
1 TGTATCGATACACCAGAAATTGTATCGATACA
624453 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 14 0.48
34 3 0.10
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAGAAATTGTATCGATACAA
Found at i:624517 original size:20 final size:22
Alignment explanation
Indices: 624486--624529 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
624476 GCTACATTTT
624486 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
624507 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
624528 CA
1 CA
624530 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:626690 original size:22 final size:21
Alignment explanation
Indices: 626663--626714 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
626653 TTGCAAGTTG
626663 AAATAAAAAATTTAGCTAATG-A
1 AAATAAAAAA-TTAGCTAA-GAA
**
626685 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
626706 AAATAAAAA
1 AAATAAAAA
626715 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:630615 original size:13 final size:13
Alignment explanation
Indices: 630597--630635 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
630587 ACATTTTTCT
630597 TTGTATCGATACA
1 TTGTATCGATACA
630610 TTGTATCGATACA
1 TTGTATCGATACA
*
630623 CTGTATCGATACA
1 TTGTATCGATACA
630636 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:632298 original size:22 final size:20
Alignment explanation
Indices: 632256--632298 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
632246 GTGTTTAATG
*
632256 TATTTGCTTGACTTTGTTTT
1 TATTTGCTTGACTTTGATTT
632276 TATTTGCATTGTACTTTGATTT
1 TATTTGC-TTG-ACTTTGATTT
632298 T
1 T
632299 TTTAATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 3 0.15
22 10 0.50
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.63
Consensus pattern (20 bp):
TATTTGCTTGACTTTGATTT
Found at i:633219 original size:13 final size:13
Alignment explanation
Indices: 633201--633226 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
633191 TACACAAAGT
633201 ATGTATCGATACA
1 ATGTATCGATACA
633214 ATGTATCGATACA
1 ATGTATCGATACA
633227 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:633224 original size:32 final size:33
Alignment explanation
Indices: 633183--633246 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
633173 TAGCCAAACT
*
633183 TGTATCGATACA-C-AAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAT-TGTATCGATACAA
633215 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
633247 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 13 0.45
34 4 0.14
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:633311 original size:20 final size:22
Alignment explanation
Indices: 633280--633323 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
633270 GCTACATTTT
*
633280 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCAATACATTCA
633301 CAAAT-TGTATCAATACATTCA
1 CAAATATGTATCAATACATTCA
633322 CA
1 CA
633324 CGGGAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCAATACATTCA
Found at i:635995 original size:8 final size:8
Alignment explanation
Indices: 635984--636047 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
635974 GCAAAAGCAT
635984 AAAAAAAC
1 AAAAAAAC
*
635992 -AAAAAAT
1 AAAAAAAC
**
635999 AAAAAATG
1 AAAAAAAC
636007 AAAAACAA-
1 AAAAA-AAC
*
636015 AAAAAAATA
1 AAAAAAA-C
636024 AAAAACAAC
1 AAAAA-AAC
636033 AAAAAAAC
1 AAAAAAAC
636041 AAAAAAA
1 AAAAAAA
636048 ATGTAAAGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
7 8 0.17
8 25 0.54
9 11 0.24
10 2 0.04
ACGTcount: A:0.86, C:0.08, G:0.02, T:0.05
Consensus pattern (8 bp):
AAAAAAAC
Found at i:635997 original size:7 final size:7
Alignment explanation
Indices: 635985--636046 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
635975 CAAAAGCATA
635985 AAAAAAC
1 AAAAAAC
*
635992 AAAAAAT
1 AAAAAAC
*
635999 AAAAAAT
1 AAAAAAC
*
636006 GAAAAAC
1 AAAAAAC
636013 AAAAAA-
1 AAAAAAC
636019 AAATAAA-
1 AAA-AAAC
*
636026 AAACAAC
1 AAAAAAC
636033 AAAAAAAC
1 -AAAAAAC
636041 AAAAAA
1 AAAAAA
636047 AATGTAAAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
6 5 0.11
7 35 0.76
8 6 0.13
ACGTcount: A:0.85, C:0.08, G:0.02, T:0.05
Consensus pattern (7 bp):
AAAAAAC
Found at i:636019 original size:17 final size:18
Alignment explanation
Indices: 635999--636046 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
635989 AACAAAAAAT
*
635999 AAAAAATGAAAAACAA-A
1 AAAAAATAAAAAACAACA
636016 AAAAAATAAAAAACAACA
1 AAAAAATAAAAAACAACA
*
636034 AAAAAACAAAAAA
1 AAAAAATAAAAAA
636047 AATGTAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.85, C:0.08, G:0.02, T:0.04
Consensus pattern (18 bp):
AAAAAATAAAAAACAACA
Found at i:637454 original size:34 final size:34
Alignment explanation
Indices: 637416--637523 Score: 94
Period size: 34 Copynumber: 3.2 Consensus size: 34
637406 CATAGCCCAC
*
637416 AACTCTGTGGCACCCTTTTTCCTTTTAAGACCAT
1 AACTCTATGGCACCCTTTTTCCTTTTAAGACCAT
* * * * * *
637450 AACTCCATGGCA-CATGTTT-CTTATCAAAGCCCAC
1 AACTCTATGGCACCCTTTTTCCTT-T-TAAGACCAT
* * *
637484 AACCCTATGACACCCTTTTTCCTTTTAAGTCCAT
1 AACTCTATGGCACCCTTTTTCCTTTTAAGACCAT
637518 AACTCT
1 AACTCT
637524 GTGTCACACT
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
32 3 0.06
33 6 0.11
34 36 0.67
35 6 0.11
36 3 0.06
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.34
Consensus pattern (34 bp):
AACTCTATGGCACCCTTTTTCCTTTTAAGACCAT
Found at i:637516 original size:165 final size:163
Alignment explanation
Indices: 637271--637577 Score: 375
Period size: 165 Copynumber: 1.9 Consensus size: 163
637261 TCTGTGACAC
* * * * * * * ** **
637271 CCTTTTAAGTCCACAATTCCATGGTACCTTTTTTTTTTCAAAGCCCACAACTTTATGGTACCCTT
1 CCTTTTAAGACCACAACTCCATGGCACATGTTTCTTATCAAAGCCCACAACCCTATGACACCCTT
* * *
637336 TTCCCTTTAAAGTCCATGACT-TAGTGCCATCTCTTCTCCAAGTCCACAACTCAGTGGCATCTTT
66 TTCCCTTTAAAGTCCATAACTCT-GTGCCA-CACTT-T-CAAGTCCACAACTCAGTGGCACCTTT
*
637400 TT-TTTTCATAGCCCACAACTCTGTGGCACCCTTTTT
127 TTCTTTTCAAAGCCCACAACTCTGTGGCACCCTTTTT
*
637436 CCTTTTAAGACCATAACTCCATGGCACATGTTTCTTATCAAAGCCCACAACCCTATGACACCCTT
1 CCTTTTAAGACCACAACTCCATGGCACATGTTTCTTATCAAAGCCCACAACCCTATGACACCCTT
* * * * *
637501 TTTCCTTTTAAGTCCATAACTCTGTGTCACACTTTTAAGTCCACAACTCTGTGGCACCTTTTTCT
66 TTCCCTTTAAAGTCCATAACTCTGTGCCACACTTTCAAGTCCACAACTCAGTGGCACCTTTTTCT
637566 TTTCAAAGCCCA
131 TTTCAAAGCCCA
637578 TAATTTCGTG
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
162 25 0.21
163 13 0.11
164 4 0.03
165 76 0.64
166 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.36
Consensus pattern (163 bp):
CCTTTTAAGACCACAACTCCATGGCACATGTTTCTTATCAAAGCCCACAACCCTATGACACCCTT
TTCCCTTTAAAGTCCATAACTCTGTGCCACACTTTCAAGTCCACAACTCAGTGGCACCTTTTTCT
TTTCAAAGCCCACAACTCTGTGGCACCCTTTTT
Found at i:637543 original size:27 final size:26
Alignment explanation
Indices: 637504--637649 Score: 114
Period size: 27 Copynumber: 5.2 Consensus size: 26
637494 CACCCTTTTT
* *
637504 CCTTTTAAGTCCATAACTCTGTGTCA
1 CCTTTTAAGTCCACAACTCTGTGGCA
637530 CACTTTTAAGTCCACAACTCTGTGGCA
1 C-CTTTTAAGTCCACAACTCTGTGGCA
* * *
637557 CCTTTTTCTTTTCAAAGCCCATAA-TTTCGTGGCA
1 -C-----CTTTT--AAGTCCACAACTCT-GTGGCA
* *
637591 CCTTTTAAGTGCACAACTCTGTGGTA
1 CCTTTTAAGTCCACAACTCTGTGGCA
*
637617 CCCTTTTAAGTCCACAACTCTATGGCA
1 -CCTTTTAAGTCCACAACTCTGTGGCA
637644 CCTTTT
1 CCTTTT
637650 TCTTCTAAAG
Statistics
Matches: 95, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
26 19 0.20
27 48 0.51
28 6 0.06
32 5 0.05
33 3 0.03
34 14 0.15
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (26 bp):
CCTTTTAAGTCCACAACTCTGTGGCA
Found at i:637545 original size:61 final size:59
Alignment explanation
Indices: 637480--637607 Score: 134
Period size: 61 Copynumber: 2.1 Consensus size: 59
637470 TTATCAAAGC
* *
637480 CCACAACCCTATGACACCCTTTTTCCTTTT-AAGTCCATAA-CTCTGTGTCACACTTTTAAGT
1 CCACAACCCTATGACA-CCTTTTT-CTTTTAAAGCCCATAATCTC-GTGGCAC-CTTTTAAGT
* * * *
637541 CCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCCATAATTTCGTGGCACCTTTTAAGT
1 CCACAACCCTATGACACCTTTTTCTTTT-AAAGCCCATAATCTCGTGGCACCTTTTAAGT
*
637601 GCACAAC
1 CCACAAC
637608 TCTGTGGTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
59 5 0.09
60 22 0.39
61 28 0.49
62 2 0.04
ACGTcount: A:0.24, C:0.30, G:0.11, T:0.34
Consensus pattern (59 bp):
CCACAACCCTATGACACCTTTTTCTTTTAAAGCCCATAATCTCGTGGCACCTTTTAAGT
Found at i:637563 original size:60 final size:59
Alignment explanation
Indices: 637497--637623 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 59
637487 CCTATGACAC
* *
637497 CCTTTTTCCTTTT-AAGTCCATAA-CTCTGTGTCACACTTTTAAGTCCACAACTCTGTGGCA
1 CCTTTTT-CTTTTAAAGCCCATAATCTC-GTGGCAC-CTTTTAAGTCCACAACTCTGTGGCA
* * *
637557 CCTTTTTCTTTTCAAAGCCCATAATTTCGTGGCACCTTTTAAGTGCACAACTCTGTGGTA
1 CCTTTTTCTTTT-AAAGCCCATAATCTCGTGGCACCTTTTAAGTCCACAACTCTGTGGCA
*
637617 CCCTTTT
1 CCTTTTT
637624 AAGTCCACAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
59 5 0.09
60 36 0.62
61 15 0.26
62 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (59 bp):
CCTTTTTCTTTTAAAGCCCATAATCTCGTGGCACCTTTTAAGTCCACAACTCTGTGGCA
Found at i:637766 original size:33 final size:32
Alignment explanation
Indices: 637651--637818 Score: 126
Period size: 32 Copynumber: 5.2 Consensus size: 32
637641 GCACCTTTTT
* * * *
637651 CTTCTAAAGCTCACACAAGGT-GGTGGCAA-CT
1 CTTCTAAAACCCACACAA-GTCAGTGGCAACCC
* * *
637682 CTTCTCAAAGCCCTCACAAGTCGGTGGCAACCC
1 CTTCT-AAAACCCACACAAGTCAGTGGCAACCC
* *
637715 CTTCTAAAGCCCACACAAGTTAGTGGCAACCC
1 CTTCTAAAACCCACACAAGTCAGTGGCAACCC
* *
637747 CTCTCTAAAACCCATACAAGTCAGTGGTAACCC
1 CT-TCTAAAACCCACACAAGTCAGTGGCAACCC
* * * * * *
637780 TTTC-AAAAGCCCACATAAGGCGGTGGCATCTC
1 CTTCTAAAA-CCCACACAAGTCAGTGGCAACCC
637812 CTTCTAA
1 CTTCTAA
637819 GCCCAATGTC
Statistics
Matches: 112, Mismatches: 19, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
31 11 0.10
32 66 0.59
33 35 0.31
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.21
Consensus pattern (32 bp):
CTTCTAAAACCCACACAAGTCAGTGGCAACCC
Found at i:637806 original size:65 final size:64
Alignment explanation
Indices: 637651--637807 Score: 172
Period size: 65 Copynumber: 2.4 Consensus size: 64
637641 GCACCTTTTT
* * * * * *
637651 CTTCTAAAGCTCACACAAGGTGGTGGCAACTCTTCTCAAAGCCCTCACAAGTCGGTGGCAACCC
1 CTTCAAAAGCCCACACAAGGTGGTGGCAACCCCTCTCAAAACCCTCACAAGTCAGTGGCAACCC
* * * *
637715 CTTCTAAAGCCCACACAAGTTAGTGGCAACCCCTCTCTAAAACCCAT-ACAAGTCAGTGGTAACC
1 CTTCAAAAGCCCACACAAGGTGGTGGCAACCCCTCTC-AAAACCC-TCACAAGTCAGTGGCAACC
637779 C
64 C
* * *
637780 TTTCAAAAGCCCACATAAGGCGGTGGCA
1 CTTCAAAAGCCCACACAAGGTGGTGGCA
637808 TCTCCTTCTA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
64 32 0.42
65 44 0.57
66 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (64 bp):
CTTCAAAAGCCCACACAAGGTGGTGGCAACCCCTCTCAAAACCCTCACAAGTCAGTGGCAACCC
Found at i:638061 original size:104 final size:101
Alignment explanation
Indices: 637930--638277 Score: 331
Period size: 104 Copynumber: 3.4 Consensus size: 101
637920 TTTTCTTTTT
* * ** *
637930 TTAAGTCTGATAATACTGGCCTTGAATCAGCATATTGACGCCTTTATCATCTTTAGGTCCAATGT
1 TTAAGTCTAAT-ATACTGGCCTTGAATCAGCATATTGATGCCTTCGTCATCTTTAAGTCCAATGT
* * *
637995 CACTAGTCTTGAATTAGCATAGTGGCACTTTTTTCTTCC
65 CGCTAG-CTTGAATCAGCATATTGGCACTTTTTTCTT-C
* * * * * *
638034 TTAAGTCTAATACTGCTGGCCTTGAATCAACATATTGGTGCCTTGGTCATCTTTAAATCTAATGT
1 TTAAGTCTAATA-TACTGGCCTTGAATCAGCATATTGATGCCTTCGTCATCTTTAAGTCCAATGT
* **
638099 CGCTAGCGTTGAATCAGCACATTATCACATTTTTT-TTC
65 CGCTAGC-TTGAATCAGCATATTGGCAC-TTTTTTCTTC
* * * * *
638137 TTAAGTCCAATAT-CGTTGGCCATGAATTAGCATATTGATGCCTTCGCCATCTTTATGTCCAATG
1 TTAAGTCTAATATAC--TGGCCTTGAATCAGCATATTGATGCCTTCGTCATCTTTAAGTCCAATG
* * *
638201 TTGCTAGCCTTGAATCAACATATTGGCACCTTTTTCTTTC
64 TCGCTAG-CTTGAATCAGCATATTGGCACTTTTTTC-TTC
* * *
638241 TTAAGTCTGATATTACTGGCCTTGAATTATCATATTG
1 TTAAGTCTAATA-TACTGGCCTTGAATCAGCATATTG
638278 GCATCTTTGT
Statistics
Matches: 198, Mismatches: 36, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
101 1 0.01
102 6 0.03
103 75 0.38
104 108 0.55
105 7 0.04
106 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (101 bp):
TTAAGTCTAATATACTGGCCTTGAATCAGCATATTGATGCCTTCGTCATCTTTAAGTCCAATGTC
GCTAGCTTGAATCAGCATATTGGCACTTTTTTCTTC
Found at i:638714 original size:20 final size:19
Alignment explanation
Indices: 638689--638765 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 19
638679 TTTTACCTTG
638689 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTT-A
* * * *
638709 ATGTATTGATATATGTATGA
1 ATGTATCGATACAT-TTTTA
* *
638729 CTGTATTGATACATTCTTTA
1 ATGTATCGATACATT-TTTA
638749 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
638766 GTCTTTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.07
20 40 0.89
21 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (19 bp):
ATGTATCGATACATTTTTA
Found at i:650195 original size:11 final size:11
Alignment explanation
Indices: 650181--650222 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
650171 AAAAAAATAG
650181 AAAAAAACCAA
1 AAAAAAACCAA
650192 AAAAAAACCAA
1 AAAAAAACCAA
*
650203 GAAAAAATAGCAA
1 -AAAAAA-ACCAA
650216 AAAAAAA
1 AAAAAAA
650223 ATAGAAAGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 12 0.43
12 12 0.43
13 4 0.14
ACGTcount: A:0.81, C:0.12, G:0.05, T:0.02
Consensus pattern (11 bp):
AAAAAAACCAA
Found at i:650228 original size:23 final size:22
Alignment explanation
Indices: 650171--650229 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
650161 CTAAAAAAAT
650171 AAAAAAATAGAAAAAAACCAAA
1 AAAAAAATAGAAAAAAACCAAA
*
650193 AAAAAACCA-AGAAAAAATAGCAAA
1 AAAAAA--ATAGAAAAAA-ACCAAA
650217 AAAAAAATAGAAA
1 AAAAAAATAGAAA
650230 GGGGTCCAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 7 0.22
23 13 0.41
24 12 0.38
ACGTcount: A:0.80, C:0.08, G:0.07, T:0.05
Consensus pattern (22 bp):
AAAAAAATAGAAAAAAACCAAA
Found at i:651482 original size:28 final size:28
Alignment explanation
Indices: 651442--652152 Score: 852
Period size: 28 Copynumber: 24.9 Consensus size: 28
651432 CATTCATCTC
*
651442 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
651470 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
651498 TTCAAAGCCCACAAGT-AGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
651526 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
651554 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
651582 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
651610 TTCAAAGCCTACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
651638 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
651666 TTCAAAGCCCACAAGTCAGTGGCAGCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
651694 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* ** * *
651722 TTCAATGCCCATGAGTTAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* *
651752 TTTAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
651780 TTAAAAGCCCACAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
651808 TTCAAAGCCCACGAGTCATTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* * * *
651838 TTCAAAGCCCACGAGTCAATGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
651866 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
651894 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
651922 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
651951 TTCAAAGCTCACCCAAGTC-GATGGCAACTCTT
1 TTCAAAGC-C-CACAAGTCAG-TGGC-AC-CCT
*
651983 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
652011 TTCAAAGCCCACAAGTCAGTGGCATTCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* *
652040 TTCAAAGCCCACAAGTTAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
652068 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
652097 TTCAAAGCCCATAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CAC-CCT
*
652127 TTCAAAGCCTACACGAGTCAGTGGCA
1 TTCAAAGCC--CACAAGTCAGTGGCA
652153 ACTCTTTTCA
Statistics
Matches: 606, Mismatches: 58, Indels: 35
0.87 0.08 0.05
Matches are distributed among these distances:
27 7 0.01
28 417 0.69
29 71 0.12
30 73 0.12
31 14 0.02
32 23 0.04
33 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:652946 original size:40 final size:40
Alignment explanation
Indices: 652900--653053 Score: 130
Period size: 40 Copynumber: 3.6 Consensus size: 40
652890 GGTAGAGGAT
652900 CATTCTTTAATGTATCGATACATGTATGAATGTATCGATA
1 CATTCTTTAATGTATCGATACATGTATGAATGTATCGATA
* * * *
652940 CATTCTTCAATGTATTGATACATTCTATCTTTTTACCCAGATGTATCGATA
1 CATTCTTTAATGTATCGATACA-TGTA------T---GA-ATGTATCGATA
* * *
652991 CATT-TTTCAATGTATTGATATATGTATGATTGTATCGATA
1 CATTCTTT-AATGTATCGATACATGTATGAATGTATCGATA
653031 CATTCTTTAATGTATCGATACAT
1 CATTCTTTAATGTATCGATACAT
653054 TCTGTTTTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
40 47 0.52
41 7 0.08
44 1 0.01
47 1 0.01
50 6 0.07
51 28 0.31
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (40 bp):
CATTCTTTAATGTATCGATACATGTATGAATGTATCGATA
Found at i:652951 original size:20 final size:20
Alignment explanation
Indices: 652900--653056 Score: 84
Period size: 20 Copynumber: 7.3 Consensus size: 20
652890 GGTAGAGGAT
*
652900 CATTCTTTAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* *
652920 CATGT-ATGAATGTATCGATA
1 CAT-TCTTCAATGTATCGATA
*
652940 CATTCTTCAATGTATTGATA
1 CATTCTTCAATGTATCGATA
652960 CATTCTATCTTTTTACCCAGATGTATCGATA
1 CA---T-TC---TT---CA-ATGTATCGATA
* *
652991 CATTTTTCAATGTATTGATA
1 CATTCTTCAATGTATCGATA
* * * *
653011 TATGT-ATGATTGTATCGATA
1 CAT-TCTTCAATGTATCGATA
*
653031 CATTCTTTAATGTATCGATA
1 CATTCTTCAATGTATCGATA
653051 CATTCT
1 CATTCT
653057 GTTTTTTTTC
Statistics
Matches: 105, Mismatches: 17, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
19 2 0.02
20 76 0.72
21 4 0.04
23 1 0.01
24 4 0.04
27 3 0.03
28 1 0.01
30 2 0.02
31 12 0.11
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (20 bp):
CATTCTTCAATGTATCGATA
Found at i:653064 original size:91 final size:89
Alignment explanation
Indices: 652900--653085 Score: 264
Period size: 91 Copynumber: 2.1 Consensus size: 89
652890 GGTAGAGGAT
*
652900 CATTCTTTAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTATTGATACATTC
1 CATT-TTTAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTATCGATACATTC
652965 TATCTTTTTACCCAGATGTATCGATA
65 TATCTTTTT-CCCAGATGTATCGATA
* * * *
652991 CATTTTTCAATGTATTGATATATGTATGATTGTATCGATACATTCTTTAATGTATCGATACATTC
1 CATTTTT-AATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTATCGATACATTC
* * * *
653056 TGTTTTTTTTCTAGATGTATCGATA
65 TATCTTTTTCCCAGATGTATCGATA
653081 CATTT
1 CATTT
653086 CGGGTCATTT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
90 22 0.26
91 63 0.74
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (89 bp):
CATTTTTAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTATCGATACATTCT
ATCTTTTTCCCAGATGTATCGATA
Found at i:656251 original size:52 final size:51
Alignment explanation
Indices: 656151--656283 Score: 169
Period size: 52 Copynumber: 2.6 Consensus size: 51
656141 CCAATGACAT
* * *
656151 TGGCCTTGAATCAGCACATTGGCATTTTTCTCATCTTCAAGTCTAATATCGC
1 TGGCCTTGAATCAGCACATTGGCATTTTTCT-ATCTTCAAGCCAAATATCAC
* *
656203 TGGCCGTGAATCAGCACATTGGCATTCTTTGCT-TCTTTAAGCCAAATATCAC
1 TGGCCTTGAATCAGCACATTGGCATT-TTT-CTATCTTCAAGCCAAATATCAC
* *
656255 TGGCCTTGAATTAGCATATTGGCATTTTT
1 TGGCCTTGAATCAGCACATTGGCATTTTT
656284 ATCATTCTTC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
51 3 0.04
52 63 0.89
53 3 0.04
54 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (51 bp):
TGGCCTTGAATCAGCACATTGGCATTTTTCTATCTTCAAGCCAAATATCAC
Found at i:657131 original size:20 final size:20
Alignment explanation
Indices: 657106--657162 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
657096 ACTGCTAAGG
*
657106 AAATGTATCGTTACATTACT
1 AAATGTATCGATACATTACT
*
657126 AAATGTATCGATACATTTCT
1 AAATGTATCGATACATTACT
* *
657146 CATTGTATCGATACATT
1 AAATGTATCGATACATT
657163 CTAGGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:659241 original size:20 final size:19
Alignment explanation
Indices: 659216--659287 Score: 81
Period size: 20 Copynumber: 3.7 Consensus size: 19
659206 CACACCCAGA
659216 TGTATCGATACATCTTGCAT
1 TGTATCGATACATCTT-CAT
* *
659236 TTTATCGATACATGTTCAT
1 TGTATCGATACATCTTCAT
***
659255 TGTATCGATACATGGACAAT
1 TGTATCGATACATCTTC-AT
659275 TGTATCGATACAT
1 TGTATCGATACAT
659288 GAGATTGGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 17 0.37
20 29 0.63
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATCTTCAT
Found at i:659288 original size:20 final size:19
Alignment explanation
Indices: 659233--659288 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
659223 ATACATCTTG
* **
659233 CATTTTATCGATACATGTT
1 CATTGTATCGATACATGGA
659252 CATTGTATCGATACATGGA
1 CATTGTATCGATACATGGA
659271 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
659289 AGATTGGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGGA
Found at i:666061 original size:12 final size:12
Alignment explanation
Indices: 666044--666070 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
666034 ACATGGTACA
666044 ATGTATCGATAC
1 ATGTATCGATAC
666056 ATGTATCGATAC
1 ATGTATCGATAC
666068 ATG
1 ATG
666071 ATGAATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:670123 original size:20 final size:19
Alignment explanation
Indices: 670094--670132 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
670084 AGGTCAAAAC
670094 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
670113 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
670133 TAATGTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:670266 original size:13 final size:13
Alignment explanation
Indices: 670248--670272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
670238 CTTAACTGTT
670248 TGTATCGATACAA
1 TGTATCGATACAA
670261 TGTATCGATACA
1 TGTATCGATACA
670273 TCCCAAATTG
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:675506 original size:13 final size:13
Alignment explanation
Indices: 675488--675513 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
675478 TACAGCAAGT
675488 ATGTATCGATACA
1 ATGTATCGATACA
675501 ATGTATCGATACA
1 ATGTATCGATACA
675514 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:677764 original size:21 final size:21
Alignment explanation
Indices: 677731--677775 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
677721 TTGCAAGTTG
*
677731 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
677753 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
677773 AAA
1 AAA
677776 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:679599 original size:15 final size:15
Alignment explanation
Indices: 679579--679609 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
679569 TAAAAATGTC
*
679579 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
679594 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
679609 C
1 C
679610 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:681476 original size:8 final size:8
Alignment explanation
Indices: 681463--681494 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
681453 ATTTGATTAA
681463 ATTTTGTG
1 ATTTTGTG
681471 ATTTTGTG
1 ATTTTGTG
681479 ATTTTGTG
1 ATTTTGTG
681487 ATTTTGTG
1 ATTTTGTG
681495 TTGAATGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:681715 original size:13 final size:13
Alignment explanation
Indices: 681697--681735 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
681687 ACATTTTTCT
681697 TTGTATCGATACA
1 TTGTATCGATACA
681710 TTGTATCGATACA
1 TTGTATCGATACA
681723 TTGTATCGATACA
1 TTGTATCGATACA
681736 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:686151 original size:8 final size:8
Alignment explanation
Indices: 686138--686169 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
686128 ATTTGATTAA
686138 ATTTTGTG
1 ATTTTGTG
686146 ATTTTGTG
1 ATTTTGTG
686154 ATTTTGTG
1 ATTTTGTG
686162 ATGTTTGT
1 AT-TTTGT
686170 TGTTGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.78
9 5 0.22
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:686386 original size:13 final size:13
Alignment explanation
Indices: 686368--686403 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
686358 ACATTCTCTA
*
686368 TATCGATACATTG
1 TATCGATACAGTG
686381 TATCGATACAGTG
1 TATCGATACAGTG
686394 TATCGATACA
1 TATCGATACA
686404 AAGGGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:686560 original size:22 final size:22
Alignment explanation
Indices: 686535--686598 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
686525 CAAATTTCTT
686535 ATTTTTCACTTCAAAATACATC
1 ATTTTTCACTTCAAAATACATC
*
686557 ATTTTTCACTTCAAAAAACATC
1 ATTTTTCACTTCAAAATACATC
686579 ATTTTTCA--TCAAAAT-CATC
1 ATTTTTCACTTCAAAATACATC
686598 A
1 A
686599 ACAAAAACAG
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
19 5 0.12
20 6 0.15
22 29 0.73
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTTTTCACTTCAAAATACATC
Found at i:686892 original size:21 final size:21
Alignment explanation
Indices: 686859--686899 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
686849 CACTCACCAA
*
686859 GTCGCGACCGGC-ACCCCCAG
1 GTCGCAACCGGCAACCCCCAG
686879 GTCGCAACCAGGCAACCCCCA
1 GTCGCAACC-GGCAACCCCCA
686900 CACTCACAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.22, C:0.49, G:0.24, T:0.05
Consensus pattern (21 bp):
GTCGCAACCGGCAACCCCCAG
Found at i:688274 original size:16 final size:16
Alignment explanation
Indices: 688253--688283 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
688243 GTGATTAAAA
688253 GAAATTATTAAATTGT
1 GAAATTATTAAATTGT
*
688269 GAAATTGTTAAATTG
1 GAAATTATTAAATTG
688284 CTTTATTAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
GAAATTATTAAATTGT
Found at i:688898 original size:13 final size:13
Alignment explanation
Indices: 688880--688904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
688870 ATAATGCACA
688880 GTATCGATACATT
1 GTATCGATACATT
688893 GTATCGATACAT
1 GTATCGATACAT
688905 GACCAAATGT
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):
GTATCGATACATT
Found at i:689023 original size:13 final size:13
Alignment explanation
Indices: 689005--689030 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
688995 ACACACAAGA
689005 TGTATCGATACAT
1 TGTATCGATACAT
689018 TGTATCGATACAT
1 TGTATCGATACAT
689031 CCCAAATTGT
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:689047 original size:33 final size:32
Alignment explanation
Indices: 688985--689052 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
688975 CCTTAACTGT
688985 TTGTATCGATACACACAAGATGTATCGATACA
1 TTGTATCGATACACACAAGATGTATCGATACA
*
689017 TTGTATCGATACATCCCAA-ATTGTATCGATACA
1 TTGTATCGATACA-CACAAGA-TGTATCGATACA
689050 TTG
1 TTG
689053 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAGATGTATCGATACA
Found at i:692164 original size:47 final size:47
Alignment explanation
Indices: 692131--692239 Score: 155
Period size: 47 Copynumber: 2.3 Consensus size: 47
692121 TACATTGAAG
* *
692131 CATGTATTGATACATCTAGAAAACCCAAATGTATCGATACAACATTC
1 CATGTATCGATACATCTAGAAAACCCAAATGTATCGATACAACATAC
* * * *
692178 CTTGTATCGATACATCTGGAAAACCCAAATGTATCGACACAACATTC
1 CATGTATCGATACATCTAGAAAACCCAAATGTATCGATACAACATAC
*
692225 CTTGTATCGATACAT
1 CATGTATCGATACAT
692240 TGTATCAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (47 bp):
CATGTATCGATACATCTAGAAAACCCAAATGTATCGATACAACATAC
Found at i:694133 original size:22 final size:22
Alignment explanation
Indices: 694108--694149 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
694098 TTTTTTTAGA
694108 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
**
694130 TTTGATTAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
694150 TTTTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.24
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:694159 original size:22 final size:22
Alignment explanation
Indices: 694115--694170 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
694105 AGATTTGACA
694115 AAGGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAATGCTTTGATT
** *
694137 AAGGGGGAGAAATTTTTTTATT
1 AAGGGGGAGAAATGCTTTGATT
694159 AAGGGGGAGAAA
1 AAGGGGGAGAAA
694171 AACGAAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.02, G:0.36, T:0.27
Consensus pattern (22 bp):
AAGGGGGAGAAATGCTTTGATT
Found at i:694823 original size:13 final size:13
Alignment explanation
Indices: 694791--694823 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
694781 ATTGATACAT
*
694791 GATACAATGTATC
1 GATACATTGTATC
694804 GATACATTGTATC
1 GATACATTGTATC
694817 GATACAT
1 GATACAT
694824 AATGAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:695756 original size:23 final size:22
Alignment explanation
Indices: 695730--695787 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
695720 CCTTCTTCTT
*
695730 AAAAAAAAACAAAAAA-ACAAAAC
1 AAAAAAAAAAAAAAAACA-AAA-C
*
695753 AAAAAATAAAAAAAAAACACAAC
1 AAAAAA-AAAAAAAAAACAAAAC
*
695776 AAAGAAAAAAAA
1 AAAAAAAAAAAA
695788 GATAGAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 6 0.20
23 12 0.40
24 11 0.37
25 1 0.03
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAAAAAAAACAAAAC
Found at i:695758 original size:20 final size:20
Alignment explanation
Indices: 695733--695787 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
695723 TCTTCTTAAA
695733 AAAAAACAAAAAAACAAA-AC
1 AAAAAACAAAAAAA-AAACAC
*
695753 AAAAAATAAAAAAAAAACAC
1 AAAAAACAAAAAAAAAACAC
* *
695773 AACAAAGAAAAAAAA
1 AAAAAACAAAAAAAA
695788 GATAGAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (20 bp):
AAAAAACAAAAAAAAAACAC
Found at i:695768 original size:31 final size:32
Alignment explanation
Indices: 695730--695801 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
695720 CCTTCTTCTT
695730 AAAAAAAAACA-AAAAAACAAAACAAAAAATA-
1 AAAAAAAAACACAAAAAACAAAA-AAAAAATAG
* * *
695761 AAAAAAAAACACAACAAAGAAAAAAAAGATAG
1 AAAAAAAAACACAAAAAACAAAAAAAAAATAG
695793 AAAAAAAAA
1 AAAAAAAAA
695802 AGAACCGGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 18 0.50
32 18 0.50
ACGTcount: A:0.85, C:0.08, G:0.04, T:0.03
Consensus pattern (32 bp):
AAAAAAAAACACAAAAAACAAAAAAAAAATAG
Found at i:697080 original size:61 final size:61
Alignment explanation
Indices: 696902--697737 Score: 964
Period size: 61 Copynumber: 13.8 Consensus size: 61
696892 AAGTAGGACA
* * ** * *
696902 CCTTTCAAAGCCTACAC-AGTTGGTGGCATTTTCCAGTCCTCAAAGTGCAGGACGCC-TTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
*
696961 -C----AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
697016 CCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAATCCTCAAAGAGTAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
697077 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCTTCAAAAAGTAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
697138 CCTTTTAAAGACCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
* * **
697199 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
697261 CCTTTTAAAGTCCACGCAAGTTGGTAGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTT-T
* * * *
697322 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTT-CAGTTCTCAAAGAGCAGGATGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * **
697382 CCTTTTAAAGCCCACACAAGGTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
697444 CCTTTTAAAGTCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGCTG-CTTTCA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTT-T
* * * * * * *
697505 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCTTC-AAGAAACAGGACGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG-AGCAGGATGCCTTTT
* * *
697566 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAAAGCAGGATG-C-TTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
697625 CTCTTTGCAAAGCCCACATAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
1 C-CTTT-TAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
* ** * **
697688 -CTTTTCAAAGCCCATATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCA
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCA
697738 AGACACCTTT
Statistics
Matches: 668, Mismatches: 87, Indels: 42
0.84 0.11 0.05
Matches are distributed among these distances:
54 31 0.05
55 15 0.02
56 1 0.00
58 1 0.00
59 3 0.00
60 89 0.13
61 414 0.62
62 111 0.17
63 3 0.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:697864 original size:85 final size:83
Alignment explanation
Indices: 697721--698077 Score: 302
Period size: 85 Copynumber: 4.3 Consensus size: 83
697711 GTGGCACTTT
* * * *
697721 TTAGTCCTCAAAGAGCAAGA--CAC-CTTTTCTTTCTCTCCTTTGTCCTCAAAGAGTAGGACACA
1 TTAGTCCTCAAAGAGCAGGATGCACTTTTTTCTTT-TTTCCTTTGTCCTCAAAGAGCAGGACACA
697783 TTTCATTTCCTTCTTTTCCC
65 TTTCATTTCCTTCTTTT-CC
* * *
697803 TTTTGTCCTCAAAGAGCAGGATGC-CTTTTTTACTTTTTTCCTTTGTCCTCAAAGTGCAGGACGC
1 -TTAGTCCTCAAAGAGCAGGATGCACTTTTTT-CTTTTTTCCTTTGTCCTCAAAGAGCAGGACAC
*
697867 ACTTCATTTCCTTCTTTTCCC
64 ATTTCATTTCCTTCTTTT-CC
* * * * * *
697888 TTCTAGTTCTTAAAGAGCAGGACGCACTTTATTCTCCTTTTTCCTTTGTCCTTAAAAAGCTA-GA
1 -T-TAGTCCTCAAAGAGCAGGATGCACTTT-TT-TCTTTTTTCCTTTGTCCTCAAAGAGC-AGGA
*
697952 CACATTTAATTTCCTT-TTTT-C
61 CACATTTCATTTCCTTCTTTTCC
* * * * * * * *
697973 TTTGTCTTCAAAGGGCAGGATGCATTTTTTTCCTTTTTT-CTTTAGTCCCCAAGGAGCAAGACCC
1 TTAGTCCTCAAAGAGCAGGATGCACTTTTTT-CTTTTTTCCTTT-GTCCTCAAAGAGCAGGACAC
* *
698037 ATTCCA-TT-CTCCTTTTCC
64 ATTTCATTTCCTTCTTTTCC
*
698055 TTAATCCTCAAAGAGCAGGATGC
1 TTAGTCCTCAAAGAGCAGGATGC
698078 CCCCTTCTTT
Statistics
Matches: 221, Mismatches: 39, Indels: 29
0.76 0.13 0.10
Matches are distributed among these distances:
80 2 0.01
81 12 0.05
82 45 0.20
83 38 0.17
84 2 0.01
85 52 0.24
86 22 0.10
87 8 0.04
88 38 0.17
89 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (83 bp):
TTAGTCCTCAAAGAGCAGGATGCACTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACAT
TTCATTTCCTTCTTTTCC
Found at i:697999 original size:41 final size:41
Alignment explanation
Indices: 697756--698074 Score: 238
Period size: 41 Copynumber: 7.6 Consensus size: 41
697746 TTTCTTTCTC
* *
697756 TCCTTTGTCCTCAAAGAGTAGGACACATTTCATTTCCTTCTTT
1 TCCTTTGTCCTCAAAGAGCAGGACGCATTT-ATTTCCTT-TTT
* * *
697799 TCCCTTTTGTCCTCAAAGAGCAGGATGCCTTT-TTTACTTTTT
1 T-CC-TTTGTCCTCAAAGAGCAGGACGCATTTATTTCCTTTTT
* *
697841 TCCTTTGTCCTCAAAGTGCAGGACGCACTTCATTTCCTTCTTT
1 TCCTTTGTCCTCAAAGAGCAGGACGCA-TTTATTTCCTT-TTT
* *
697884 TCCCTTCTAGTTCTTAAAGAGCAGGACGCACTTTATTCTCC-TTTT
1 T-CCTT-T-GTCCTCAAAGAGCAGGACGCA-TTTATT-TCCTTTTT
* * *
697929 TCCTTTGTCCTTAAAAAGCTA-GACACATTTAATTTCCTTTTT
1 TCCTTTGTCCTCAAAGAGC-AGGACGCATTT-ATTTCCTTTTT
* * * *
697971 T-CTTTGTCTTCAAAGGGCAGGATGCATTTTTTTCCTTTTT
1 TCCTTTGTCCTCAAAGAGCAGGACGCATTTATTTCCTTTTT
* * * * *
698011 T-CTTTAGTCCCCAAGGAGCAAGACCCATTCCATTCTCC--TTT
1 TCCTTT-GTCCTCAAAGAGCAGGACGCATT-TATT-TCCTTTTT
**
698052 TCCTTAATCCTCAAAGAGCAGGA
1 TCCTTTGTCCTCAAAGAGCAGGA
698075 TGCCCCCTTC
Statistics
Matches: 221, Mismatches: 38, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
40 37 0.17
41 63 0.29
42 39 0.18
43 16 0.07
44 10 0.05
45 28 0.13
46 25 0.11
47 3 0.01
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (41 bp):
TCCTTTGTCCTCAAAGAGCAGGACGCATTTATTTCCTTTTT
Done.