Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 267 of 433
Found at i:83208720 original size:24 final size:24
Alignment explanation
Indices: 83208662--83208837 Score: 241
Period size: 24 Copynumber: 7.4 Consensus size: 24
83208652 TAGGAAGTGA
83208662 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
83208685 TAAAGGGATTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
83208709 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
83208733 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
83208757 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
83208780 TAAAGGGCTGATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
83208804 AAAAGGGCTTTTTG-CCCAGTTATT
1 AAAAGGGC-TTATGCCCCAGTTATC
83208828 AAAAGAGGCT
1 AAAAG-GGCT
83208838 AGGCCTCCAG
Statistics
Matches: 137, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
23 42 0.31
24 89 0.65
25 6 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:83208731 original size:47 final size:47
Alignment explanation
Indices: 83208662--83208830 Score: 259
Period size: 47 Copynumber: 3.6 Consensus size: 47
83208652 TAGGAAGTGA
*
83208662 AAAAGGGCTTATGCCCCAGTTATTAAAGGGATTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* *
83208709 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
83208757 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTGATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
83208804 AAAAGGGCTTTTTG-CCCAGTTATTAAA
1 AAAAGGGC-TTATGCCCCAGTTATTAAA
83208831 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
47 64 0.57
48 48 0.43
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:83208825 original size:95 final size:96
Alignment explanation
Indices: 83208662--83208837 Score: 284
Period size: 95 Copynumber: 1.8 Consensus size: 96
83208652 TAGGAAGTGA
* *
83208662 AAAAGGGCTTATGCCCCAGTTATTAAAGGGATTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGATGATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
83208727 GTTATCAAAAG-GGCTTATGCCCTAGTTATC
66 GTTATCAAAAGAGGCTTATGCCCTAGTTATC
* *
83208757 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTGATGCCCCAGTTATAAAAAGGGCTTTTTG-CCC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGATGATGCCCCAGTTATAAAAAGGGC-TTATGCCCC
*
83208821 AGTTATTAAAAGAGGCT
65 AGTTATCAAAAGAGGCT
83208838 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
95 66 0.89
96 8 0.11
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (96 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGATGATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATCAAAAGAGGCTTATGCCCTAGTTATC
Found at i:83213233 original size:30 final size:30
Alignment explanation
Indices: 83213188--83213247 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
83213178 ATTTAATACG
*
83213188 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
83213218 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
83213248 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:83218707 original size:18 final size:19
Alignment explanation
Indices: 83218680--83218715 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
83218670 AAACCTTAAA
83218680 AAAAATCCTAAACCACTAG
1 AAAAATCCTAAACCACTAG
*
83218699 AAAAA-CCTAAACTACTA
1 AAAAATCCTAAACCACTA
83218716 AAAGAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAAATCCTAAACCACTAG
Found at i:83221535 original size:8 final size:8
Alignment explanation
Indices: 83221522--83221547 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
83221512 AACTTTAGAG
83221522 AAAGTTGT
1 AAAGTTGT
83221530 AAAGTTGT
1 AAAGTTGT
83221538 AAAGTTGT
1 AAAGTTGT
83221546 AA
1 AA
83221548 TATATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (8 bp):
AAAGTTGT
Found at i:83225981 original size:57 final size:57
Alignment explanation
Indices: 83225911--83226023 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
83225901 TCTTTTACAA
* * *
83225911 AATTTTCCGCAAAGGCTTCCATTTTCATAAATACGCCACAAAGGCTTCCATTTTCTT
1 AATTTTCCACAAAGGCTTCCATTTTCATAAATAAGCCACAAAGACTTCCATTTTCTT
* * *
83225968 AATTTTTCACAAAGGCTTCCATTTTCTTATATAAGCCACAAAGACTTCCATTTTCT
1 AATTTTCCACAAAGGCTTCCATTTTCATAAATAAGCCACAAAGACTTCCATTTTCT
83226024 GACGTGTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (57 bp):
AATTTTCCACAAAGGCTTCCATTTTCATAAATAAGCCACAAAGACTTCCATTTTCTT
Found at i:83225987 original size:28 final size:28
Alignment explanation
Indices: 83225920--83226023 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
83225910 AAATTTTCCG
* *
83225920 CAAAGGCTTCCATTTTCATAAATACGCCA
1 CAAAGGCTTCCATTTTC-TTAATATGCCA
* **
83225949 CAAAGGCTTCCATTTTCTTAATTTTTCA
1 CAAAGGCTTCCATTTTCTTAATATGCCA
*
83225977 CAAAGGCTTCCATTTTCTTATATAAGCCA
1 CAAAGGCTTCCATTTTCTTA-ATATGCCA
*
83226006 CAAAGACTTCCATTTTCT
1 CAAAGGCTTCCATTTTCT
83226024 GACGTGTTCA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 26 0.41
29 38 0.59
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.37
Consensus pattern (28 bp):
CAAAGGCTTCCATTTTCTTAATATGCCA
Found at i:83227879 original size:20 final size:20
Alignment explanation
Indices: 83227854--83227893 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
83227844 ATGTTTACAT
83227854 TTCTAGGATTCATTGCATTA
1 TTCTAGGATTCATTGCATTA
83227874 TTCTAGGATTCATTGCATTA
1 TTCTAGGATTCATTGCATTA
83227894 ACTTTCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (20 bp):
TTCTAGGATTCATTGCATTA
Found at i:83236248 original size:26 final size:26
Alignment explanation
Indices: 83236219--83236271 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
83236209 TCAAACATGC
83236219 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
83236245 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
83236271 A
1 A
83236272 ACTTTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:83237557 original size:24 final size:24
Alignment explanation
Indices: 83237523--83237623 Score: 141
Period size: 24 Copynumber: 4.2 Consensus size: 24
83237513 CCAACTCCTG
*
83237523 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
83237547 CTCCTTTATCAGCTCCTAAATCCTT
1 CTCCTTTATCAGCTCCTAAAT-CTT
* *
83237572 -TCCCTTATCAGCTCCTAAATCCT
1 CTCCTTTATCAGCTCCTAAATCTT
* *
83237595 CTCCCTTATTAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
83237619 CTCCT
1 CTCCT
83237624 GACAGCCTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
23 2 0.03
24 64 0.93
25 3 0.04
ACGTcount: A:0.20, C:0.37, G:0.05, T:0.39
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCTT
Found at i:83243772 original size:32 final size:32
Alignment explanation
Indices: 83243736--83243826 Score: 78
Period size: 32 Copynumber: 2.8 Consensus size: 32
83243726 CAAGCCTATA
*
83243736 GGGCCTAAGCCC-ATTCAGATAACAGTGATACT
1 GGGCCTAAGCCCTATTCAGATAACA-TGAAACT
* * *
83243768 GGGCC-AGAGCCCTTTTCAGATTACATTAAACT
1 GGGCCTA-AGCCCTATTCAGATAACATGAAACT
* *
83243800 GGGCCTTAGCCCTTTTTTCAGATAACA
1 GGGCCTAAGCCC--TATTCAGATAACA
83243827 GTACGGCCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
31 1 0.02
32 25 0.52
33 10 0.21
34 12 0.25
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (32 bp):
GGGCCTAAGCCCTATTCAGATAACATGAAACT
Found at i:83244168 original size:26 final size:26
Alignment explanation
Indices: 83244139--83244191 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
83244129 TCAAACATGC
83244139 ATTTAGGTCAATATA-CTCCTAGGGGT
1 ATTTAGGT-AATATATCTCCTAGGGGT
* * *
83244165 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATATATCTCCTAGGGGT
83244191 A
1 A
83244192 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTAATATATCTCCTAGGGGT
Found at i:83245478 original size:24 final size:24
Alignment explanation
Indices: 83245444--83245544 Score: 141
Period size: 24 Copynumber: 4.2 Consensus size: 24
83245434 CCAACTCCTG
*
83245444 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
83245468 CTCCTTTATCAGCTCCTAAATCCTT
1 CTCCTTTATCAGCTCCTAAAT-CTT
* * *
83245493 -TCCCTTATCATCTCCTAAATCCT
1 CTCCTTTATCAGCTCCTAAATCTT
*
83245516 CTCCCTTATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
83245540 CTCCT
1 CTCCT
83245545 GACAGTCTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 2 0.03
24 63 0.93
25 3 0.04
ACGTcount: A:0.20, C:0.38, G:0.04, T:0.39
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCTT
Found at i:83254403 original size:40 final size:40
Alignment explanation
Indices: 83254324--83254481 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
83254314 TTCGAATGAT
* * * *
83254324 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
83254364 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
83254404 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
83254444 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
83254482 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:83254502 original size:80 final size:80
Alignment explanation
Indices: 83254324--83254511 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
83254314 TTCGAATGAT
* *
83254324 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
83254389 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
83254404 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
83254465 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
83254485 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
83254512 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:83262416 original size:40 final size:40
Alignment explanation
Indices: 83262337--83262494 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
83262327 TTCGAATGAT
* * * *
83262337 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
83262377 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
83262417 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
83262457 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
83262495 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:83262515 original size:80 final size:80
Alignment explanation
Indices: 83262337--83262524 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
83262327 TTCGAATGAT
* *
83262337 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
83262402 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
83262417 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
83262478 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
83262498 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
83262525 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:83266140 original size:19 final size:19
Alignment explanation
Indices: 83266116--83266155 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
83266106 TTGCACATAG
83266116 AATTTCTTTAGGAAACATT
1 AATTTCTTTAGGAAACATT
*
83266135 AATTTCTTTATGAAACATT
1 AATTTCTTTAGGAAACATT
83266154 AA
1 AA
83266156 CACATACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (19 bp):
AATTTCTTTAGGAAACATT
Found at i:83270586 original size:40 final size:40
Alignment explanation
Indices: 83270512--83270683 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
83270502 GATAACTGGA
* * * *
83270512 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCAGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
* * * *
83270552 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGG
*
83270592 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
83270632 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
83270671 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
83270684 ATACTTGGGT
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 97 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
Found at i:83274033 original size:14 final size:14
Alignment explanation
Indices: 83273998--83274033 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
83273988 GCCTCTTCCT
*
83273998 GGCCTTCGGACATA
1 GGCCTTCTGACATA
83274012 GGCCTTCTGACATA
1 GGCCTTCTGACATA
83274026 GGCCTTCT
1 GGCCTTCT
83274034 ACTACTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.31, G:0.25, T:0.28
Consensus pattern (14 bp):
GGCCTTCTGACATA
Found at i:83280749 original size:27 final size:28
Alignment explanation
Indices: 83280709--83280776 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
83280699 TTTAAAACCC
*
83280709 TAGGGGT-ATATCGGTAA-TTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
83280735 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
83280763 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
83280777 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 9 0.23
28 23 0.59
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:83282427 original size:20 final size:20
Alignment explanation
Indices: 83282404--83282441 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83282394 CACATCCAAA
*
83282404 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
83282424 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
83282442 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:83285170 original size:16 final size:16
Alignment explanation
Indices: 83285151--83285181 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83285141 CTTCTTCACT
83285151 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
83285167 TACTTACTTACTTAA
1 TACTCACTTACTTAA
83285182 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:83285187 original size:20 final size:20
Alignment explanation
Indices: 83285148--83285187 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
83285138 AAACTTCTTC
* *
83285148 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
83285168 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
83285188 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:83285561 original size:107 final size:109
Alignment explanation
Indices: 83285420--83285618 Score: 307
Period size: 107 Copynumber: 1.8 Consensus size: 109
83285410 ATCCTTTTGA
* *
83285420 AACTTACCATTGCCAGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA-
1 AACTTACCAATGCCAGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAAT
83285482 TGCCATGCCTTGGCATGGT-TTACATGGGACCTTTGCCTTATAGT
65 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
83285526 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCA-GTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
83285591 TGCCATGCCTTGGCATGGTCTTACATGG
65 TGCCATGCCTTGGCATGGTCTTACATGG
83285619 TATCCTAAAC
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
106 14 0.17
107 35 0.42
108 7 0.08
109 19 0.23
110 8 0.10
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (109 bp):
AACTTACCAATGCCAGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAATT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:83285595 original size:55 final size:54
Alignment explanation
Indices: 83285373--83285624 Score: 258
Period size: 55 Copynumber: 4.8 Consensus size: 54
83285363 ACGCGGGTAC
* * *
83285373 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
83285422 CTTACC-ATTGCCA-GTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
83285474 CTCACCAA-TGCCATGCCTTGGCATGGT-TTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * *
83285528 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
83285581 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCT
83285625 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 20, Indels: 24
0.79 0.09 0.11
Matches are distributed among these distances:
48 26 0.15
49 13 0.08
51 4 0.02
52 26 0.15
53 20 0.12
54 35 0.21
55 42 0.25
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:83286869 original size:26 final size:26
Alignment explanation
Indices: 83286840--83286892 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
83286830 AATTTTCCCA
83286840 TTGACAAATTTACCCCTAGTAAAATT
1 TTGACAAATTTACCCCTAGTAAAATT
** * *
83286866 TTGATTATTTTACCTCTAGTAAAATT
1 TTGACAAATTTACCCCTAGTAAAATT
83286892 T
1 T
83286893 CAAGAAAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (26 bp):
TTGACAAATTTACCCCTAGTAAAATT
Found at i:83291791 original size:5 final size:5
Alignment explanation
Indices: 83291781--83291821 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
83291771 ATTTTTACTC
83291781 TTTAT TTTAT TTTAT TTTATT TTTAT CTTTAT TTATAT TTT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT -TTTAT TT-TAT TTT
83291822 GAAATTACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 18 0.55
6 15 0.45
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:83291796 original size:10 final size:10
Alignment explanation
Indices: 83291781--83291821 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
83291771 ATTTTTACTC
83291781 TTTATTTTAT
1 TTTATTTTAT
83291791 TTTATTTTATT
1 TTTATTTTA-T
83291802 TTTATCTTTAT
1 TTTAT-TTTAT
83291813 TTATATTTT
1 TT-TATTTT
83291822 GAAATTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 9 0.32
11 12 0.43
12 7 0.25
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:83291801 original size:28 final size:28
Alignment explanation
Indices: 83291768--83291821 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
83291758 ACACCTATTA
83291768 TTTATTTTTACTCTTTATTT-TATTTTAT
1 TTTATTTTTA-TCTTTATTTATATTTTAT
83291796 TTTATTTTTATCTTTATTTATATTTT
1 TTTATTTTTATCTTTATTTATATTTT
83291822 GAAATTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTATTTTTATCTTTATTTATATTTTAT
Found at i:83295620 original size:28 final size:28
Alignment explanation
Indices: 83295580--83295650 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
83295570 TATGAGATTG
83295580 GCACTAAGTGTGCGAGTTTAATT-TTACA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
83295608 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
* *
83295636 GTACTAAGTATGCGA
1 GCACTAAGTGTGCGA
83295651 ACTTACTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 36 0.92
29 3 0.08
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:83298577 original size:40 final size:40
Alignment explanation
Indices: 83298490--83298640 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
83298480 AATTGAATGA
* * * **
83298490 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
83298530 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
83298571 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
* *
83298610 TATCCGAGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
83298641 AAATCGTGAT
Statistics
Matches: 89, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 81 0.91
41 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:83298654 original size:40 final size:39
Alignment explanation
Indices: 83298539--83298655 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 39
83298529 ATAACCGGGT
* * * * *
83298539 TAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCAAGTCG-TATATCCGAGC
* * * *
83298579 TAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGAGC
1 TAAGACCCGAAGGCATTTGTGCAAGTC-GTATATCCGAGC
*
83298619 TAAGACCCGAAGGCATTTGTGCAAATCGTGATATCCG
1 TAAGACCCGAAGGCATTTGTGCAAGTCGT-ATATCCG
83298656 GGTTAAGTCC
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
39 1 0.02
40 61 0.98
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.22
Consensus pattern (39 bp):
TAAGACCCGAAGGCATTTGTGCAAGTCGTATATCCGAGC
Found at i:83305948 original size:25 final size:25
Alignment explanation
Indices: 83305920--83305967 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83305910 TTATAATATG
* * *
83305920 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
83305945 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
83305968 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:83306029 original size:20 final size:20
Alignment explanation
Indices: 83306004--83306090 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
83305994 GTTTTAATAT
83306004 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
*
83306024 ACATGATGTGTATGATATGC
1 ACATGATATGTATGATATGC
*
83306044 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
83306064 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
83306084 ACATGAT
1 ACATGAT
83306091 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:83306049 original size:11 final size:11
Alignment explanation
Indices: 83306015--83306090 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
83306005 CATGATTGAT
83306015 ATGATATGCAC
1 ATGATATGCAC
* *
83306026 ATGATGTG--T
1 ATGATATGCAC
83306035 ATGATATGCAC
1 ATGATATGCAC
*
83306046 ATGATATGTAC
1 ATGATATGCAC
83306057 --GATATGCAC
1 ATGATATGCAC
*
83306066 ATGATATG--T
1 ATGATATGCAC
83306075 ATGATATGCAC
1 ATGATATGCAC
83306086 ATGAT
1 ATGAT
83306091 GTATTCATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:83306479 original size:39 final size:38
Alignment explanation
Indices: 83306425--83306532 Score: 171
Period size: 38 Copynumber: 2.8 Consensus size: 38
83306415 TCGACCTAGT
* *
83306425 AATATGCAATATGAAAAGGCTTTTGGCCTAGTGTTACGA
1 AATATGAAATATGAAAAGGC-TTCGGCCTAGTGTTACGA
* *
83306464 AATATGAAATATGAAAAGGCTTCAGCCCAGTGTTACGA
1 AATATGAAATATGAAAAGGCTTCGGCCTAGTGTTACGA
83306502 AATATGAAATATGAAAAGGCTTCGGCCTAGT
1 AATATGAAATATGAAAAGGCTTCGGCCTAGT
83306533 ATATGCTGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 44 0.70
39 19 0.30
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCTAGTGTTACGA
Found at i:83310430 original size:2 final size:2
Alignment explanation
Indices: 83310417--83310446 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
83310407 CTCCAATGCC
*
83310417 AT AT AT AC 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
83310447 GGGCTTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:83310502 original size:40 final size:40
Alignment explanation
Indices: 83310458--83310533 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
83310448 GGCTTACATG
83310458 GCTCATTCCTGTCTCCAAAGCCATATAACTGATATATTAA
1 GCTCATTCCTGTCTCCAAAGCCATATAACTGATATATTAA
83310498 GCTCATTCCTGTCTCCAAAGCCATATAACTGATATA
1 GCTCATTCCTGTCTCCAAAGCCATATAACTGATATA
83310534 GACTTACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (40 bp):
GCTCATTCCTGTCTCCAAAGCCATATAACTGATATATTAA
Found at i:83312322 original size:28 final size:28
Alignment explanation
Indices: 83312290--83312360 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
83312280 TATGAGATTG
83312290 GCACTAAGTGTACGAGTTTAATTA-TATA
1 GCACTAAGTGTACGAGTTTAATTACTA-A
* *
83312318 GCACTAAGTGTGCGAGTTTGATTACTAA
1 GCACTAAGTGTACGAGTTTAATTACTAA
83312346 GCACTAAGTGTACGA
1 GCACTAAGTGTACGA
83312361 ACATACTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTACGAGTTTAATTACTAA
Found at i:83314757 original size:31 final size:30
Alignment explanation
Indices: 83314712--83314796 Score: 134
Period size: 31 Copynumber: 2.8 Consensus size: 30
83314702 TCAATCTCAG
*
83314712 CATATACTTGGCCGAAGCCTTTACATTATT
1 CATATACTGGGCCGAAGCCTTTACATTATT
*
83314742 CATATAACTGGGCCGAAGCCTTTTCATTATT
1 CATAT-ACTGGGCCGAAGCCTTTACATTATT
83314773 CATATCACTGGGCCGAAGCCTTTA
1 CATAT-ACTGGGCCGAAGCCTTTA
83314797 TTGTAACAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (30 bp):
CATATACTGGGCCGAAGCCTTTACATTATT
Found at i:83315060 original size:26 final size:26
Alignment explanation
Indices: 83315015--83315085 Score: 110
Period size: 25 Copynumber: 2.8 Consensus size: 26
83315005 CTCTTTTAAT
*
83315015 AACTGGGGCAAAGCCCTTTTTGA-TA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
83315040 AACTGGGGCAAAAGCCC-TTTTCAGTA
1 AACTGGGGC-AAAGCCCTTTTTCAGTA
83315066 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
83315086 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 21 0.50
26 21 0.50
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCAGTA
Found at i:83315257 original size:24 final size:25
Alignment explanation
Indices: 83315216--83315262 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
83315206 ATAATTAAAC
*
83315216 CCTAGGGGTAAAATAGTCATTTTTA
1 CCTAGGGGTAAAACAGTCATTTTTA
83315241 CCTAGGGG-AAAACAGTCATTTT
1 CCTAGGGGTAAAACAGTCATTTT
83315263 CATATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (25 bp):
CCTAGGGGTAAAACAGTCATTTTTA
Found at i:83323090 original size:25 final size:25
Alignment explanation
Indices: 83323062--83323132 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 25
83323052 CTCTTTTAAT
* *
83323062 AACTGGGGCAAAGCTCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* * *
83323087 AACTCGGGCAAAAACCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATA
83323113 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
83323133 GCACTTCCTC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 18 0.47
26 20 0.53
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:83326170 original size:18 final size:18
Alignment explanation
Indices: 83326147--83326185 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
83326137 GAATGTTTCA
83326147 CATTTC-TCTTTTTCTATT
1 CATTTCGTCTTTTT-TATT
83326165 CATTTCGTTCTTTTTTATT
1 CATTTCG-TCTTTTTTATT
83326184 CA
1 CA
83326186 AACACCCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 6 0.32
20 7 0.37
ACGTcount: A:0.13, C:0.21, G:0.03, T:0.64
Consensus pattern (18 bp):
CATTTCGTCTTTTTTATT
Found at i:83328051 original size:24 final size:24
Alignment explanation
Indices: 83327996--83328043 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
83327986 TTATAGTGAG
* *
83327996 TTAACATGGCACTATGTGTCCGGAA
1 TTAA-ATGGCACTATATGTCCAGAA
*
83328021 TTAAATGGCACTATATGTGCAGA
1 TTAAATGGCACTATATGTCCAGA
83328044 TTTGAATGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (24 bp):
TTAAATGGCACTATATGTCCAGAA
Found at i:83328107 original size:24 final size:24
Alignment explanation
Indices: 83328075--83328135 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
83328065 GAAAATTTTA
* *
83328075 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
83328099 GGCACTATGTGTGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
83328123 AGCACTATGTGTG
1 GGCACTATGTGTG
83328136 TGAATTTGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:83331698 original size:39 final size:39
Alignment explanation
Indices: 83331426--83332256 Score: 395
Period size: 39 Copynumber: 21.4 Consensus size: 39
83331416 CGGTTCTCTA
* * ** *
83331426 ATTTATGATCACAACCTTCAGCTTTCTTAC-GATTCATTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAG-TCCATTG
* * *** * *
83331465 ATTCACGATCCCGACCTTCAACTTTCTTA-GGTCCGTTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* * * *
83331503 ATTTACGATCACGACCTTTGGATTTCTTACGGTCTACTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* * * **
83331542 ATTCATGATCACGACCTTTGACTTT-TTATGGTCCATTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* * *
83331580 ATTTACGATCATGACCTTTGGCTTTCTTAC-GATTCGTTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAG-TCCATTG
* * * * *
83331619 AATCACGATCATGACCTTTGACTTTCTTATAGTCCATTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* * * *
83331658 ATTTATGATCACGACCATTGGCTTTCTTACAGCCCGTTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* * * * * ** *
83331697 ATTTATGATCACAATCTTCT-ACTTTCTTACGGTCTGTTA
1 ATTTACGATCACGACCTT-TGGCTTTCTTACAGTCCATTG
* * ** * *
83331736 ATTTACGATCATGACCTTCT-TCTTTCTTATTGTCTACTG
1 ATTTACGATCACGACCTT-TGGCTTTCTTACAGTCCATTG
* * * *
83331775 ATTTACAATCACGACCTTCGGCTTTCTTACGGTCTA-TG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* * * * *
83331813 ATTTAAGAACACGACCTTCGGCTTTCTTACGGTCCATTA
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* * * ***
83331852 ATTTACAATCATGACCTTCGGCTTTCTTAC-GATTTGTTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAG-TCCATTG
* *** * *** *
83331891 ATTTACGATCACGAACTTCAACTTTGTTAC-GATCTGCTA
1 ATTTACGATCACGACCTTTGGCTTTCTTACAG-TCCATTG
* * * * ** * *
83331930 ATTTATGATCATGACCTTCGACTTTCTTATGGTTCACTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* * * * ** * *
83331969 ATATATGATCATGACCTTCGAATTTCTTATAGTCCGTTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* *** *
83332008 ATTTACAATCACGACCTTCAACTTTCTTACAGTCCATTT
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* * * * ** * * *
83332047 ATTTATGGTCTCAACCTTCAGCTTTCTCATC-GTTCGTTG
1 ATTTACGATCACGACCTTTGGCTTTCTTA-CAGTCCATTG
* * ** * ***
83332086 ATTTAAGATCATGACCTTCAGCTTTCTTACTGTCTGCTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* * ** *
83332125 ATTTACAATCACAACCTTTGGCTTTCTTATGGTCCCTTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* * * * *
83332164 ATTTACAATCACGACCTTTTGCTTTCTTACAATCCACTA
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
* *** * * *
83332203 ATTTACGATCACGAACTTTATTTTTCTAATAGTTCATTG
1 ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
83332242 ATTTACGATCACGAC
1 ATTTACGATCACGAC
83332257 TGTCACTTTT
Statistics
Matches: 614, Mismatches: 166, Indels: 24
0.76 0.21 0.03
Matches are distributed among these distances:
38 96 0.16
39 514 0.84
40 4 0.01
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.40
Consensus pattern (39 bp):
ATTTACGATCACGACCTTTGGCTTTCTTACAGTCCATTG
Found at i:83332181 original size:117 final size:116
Alignment explanation
Indices: 83331433--83332193 Score: 509
Period size: 117 Copynumber: 6.5 Consensus size: 116
83331423 CTAATTTATG
* * * * * * * * * *
83331433 ATCACAACCTTCAGCTTTCTTACGATTCATTGATTCACGATCCCGACCTTCAACTTTCTTAGGTC
1 ATCACGACCTTCGGCTTTCTTACGGTCCCTTGATTTACGATCACGACCTTCAGCTTTCTTACGTT
* * * * * **
83331498 CGTTGATTTACGATCACGACCTTTGGATTTCTTACGGTCTACTGATTCATG
66 CGTTGATTTACGATCATGACCTTCGGCTTTCTTACTGTCTACTGATTTACA
* * * * * **
83331549 ATCACGACCTTTGACTTT-TTATGGTCCATTGATTTACGATCATGACCTTTGGCTTTCTTACGAT
1 ATCACGACCTTCGGCTTTCTTACGGTCCCTTGATTTACGATCACGACCTTCAGCTTTCTTACG-T
* * * * * * **
83331613 TCGTTGAATCACGATCATGACCTTTGACTTTCTTA-TAGTCCATTGATTTATG
65 TCGTTGATTTACGATCATGACCTTCGGCTTTCTTACT-GTCTACTGATTTACA
* * * *
83331665 ATCACGACCATT-GGCTTTCTTACAG-CCCGTTGATTTATGATCACAATCTTCTA-CTTTCTTAC
1 ATCACGACC-TTCGGCTTTCTTACGGTCCC-TTGATTTACGATCACGACCTTC-AGCTTTCTTAC
* * ** *
83331727 GGTCTGTTAATTTACGATCATGACCTTCTTCTTTCTTATTGTCTACTGATTTACA
63 GTTC-GTTGATTTACGATCATGACCTTCGGCTTTCTTACTGTCTACTGATTTACA
* * *
83331782 ATCACGACCTTCGGCTTTCTTACGGT--CTATGATTTAAGAACACGACCTTCGGCTTTCTTACGG
1 ATCACGACCTTCGGCTTTCTTACGGTCCCT-TGATTTACGATCACGACCTTCAGCTTTCTTAC-G
* * * * * ** *
83331845 TCCATTAATTTACAATCATGACCTTCGGCTTTCTTAC-GATTTGTTGATTTACG
64 TTCGTTGATTTACGATCATGACCTTCGGCTTTCTTACTG-TCTACTGATTTACA
* ** * * * * * * *
83331898 ATCACGAACTTCAACTTTGTTACGATCTGC-TAATTTATGATCATGACCTTC-GACTTTCTTATG
1 ATCACGACCTTCGGCTTTCTTACGGTC-CCTTGATTTACGATCACGACCTTCAG-CTTTCTTA-C
** * * ** ***
83331961 GTTCACTGATATATGATCATGACCTTCGAATTTCTTA-TAGTCCGTTGATTTACA
63 GTTCGTTGATTTACGATCATGACCTTCGGCTTTCTTACT-GTCTACTGATTTACA
** * * * * * * * *
83332015 ATCACGACCTTCAACTTTCTTACAGTCCATTTATTTATGGTCTCAACCTTCAGCTTTCTCATCGT
1 ATCACGACCTTCGGCTTTCTTACGGTCCCTTGATTTACGATCACGACCTTCAGCTTTCTTA-CGT
* * *
83332080 TCGTTGATTTAAGATCATGACCTTCAGCTTTCTTACTGTCTGCTGATTTACA
65 TCGTTGATTTACGATCATGACCTTCGGCTTTCTTACTGTCTACTGATTTACA
* * * * **
83332132 ATCACAACCTTTGGCTTTCTTATGGTCCCTTGATTTACAATCACGACCTTTTGCTTTCTTAC
1 ATCACGACCTTCGGCTTTCTTACGGTCCCTTGATTTACGATCACGACCTTCAGCTTTCTTAC
83332194 AATCCACTAA
Statistics
Matches: 500, Mismatches: 121, Indels: 48
0.75 0.18 0.07
Matches are distributed among these distances:
115 36 0.07
116 165 0.33
117 294 0.59
118 4 0.01
119 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (116 bp):
ATCACGACCTTCGGCTTTCTTACGGTCCCTTGATTTACGATCACGACCTTCAGCTTTCTTACGTT
CGTTGATTTACGATCATGACCTTCGGCTTTCTTACTGTCTACTGATTTACA
Found at i:83332521 original size:134 final size:134
Alignment explanation
Indices: 83332233--83332525 Score: 316
Period size: 134 Copynumber: 2.2 Consensus size: 134
83332223 TTTTTCTAAT
* * ** * ** *
83332233 AGTTCATTGATTTACGATCACGACTGTCACTTTTAAAGCTTGTTGGTTTACGATCATGACTTTAG
1 AGTTCATTGATTTACGATCACGACTATCACTTTTAAACCTCATTGATTTACGATCACAACTTCAG
* *
83332298 TTCATTGATTTACGATCATGAACACTTAATAAAGACTTCACCGATTTATGATCGCGAATCCACTT
66 TTCATTGATTTACGATCATGAACACTTAATAAAGACTTCACCAATTTACGATCGCGAATCCACTT
83332363 AAAC
131 AAAC
* **** * * * *
83332367 TGTTTGCCGGTTTACAATCACGACTATCATTTTTAAACCTCATTGATTTACGATCACAACTTCAT
1 AGTTCATTGATTTACGATCACGACTATCACTTTTAAACCTCATTGATTTACGATCACAACTTCAG
* ** * * *** * *
83332432 TTTATTGATTTATTATCATGAACACTTCATAAAGAGTTTGTCAATTTACGATCGTGACTCCACTT
66 TTCATTGATTTACGATCATGAACACTTAATAAAGACTTCACCAATTTACGATCGCGAATCCACTT
83332497 AAAC
131 AAAC
*
83332501 AGTTCATTGATTTATGATCACGACT
1 AGTTCATTGATTTACGATCACGACT
83332526 TCAGTTCATT
Statistics
Matches: 122, Mismatches: 37, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
134 122 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (134 bp):
AGTTCATTGATTTACGATCACGACTATCACTTTTAAACCTCATTGATTTACGATCACAACTTCAG
TTCATTGATTTACGATCATGAACACTTAATAAAGACTTCACCAATTTACGATCGCGAATCCACTT
AAAC
Found at i:83332610 original size:98 final size:98
Alignment explanation
Indices: 83332406--83332602 Score: 268
Period size: 98 Copynumber: 2.0 Consensus size: 98
83332396 TTTTTAAACC
* * * ** * * *
83332406 TCATTGATTTACGATCACAACTTCATTTTATTGATTTATTATCATGAACACTTCATAAAGAGTTT
1 TCATTGATTTACGATCACAACTTCAGTTCATTAATTTACGATCACGAACACTTCAAAAAGAGGTT
* * *
83332471 GTCAATTTACGATCGTGACTCCACTTAAACAGT
66 GGCAATTTACGATCGCGACTCCACTTAAAAAGT
* *
83332504 TCATTGATTTATGATCACGACTTCAGTTCATTAATTTACGATCACGAACACTTCAAAAAGAGGTT
1 TCATTGATTTACGATCACAACTTCAGTTCATTAATTTACGATCACGAACACTTCAAAAAGAGGTT
*
83332569 GGCGATTTACGATCGCGACTCCACTTAAAAAGT
66 GGCAATTTACGATCGCGACTCCACTTAAAAAGT
83332602 T
1 T
83332603 TGTTGATTAC
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (98 bp):
TCATTGATTTACGATCACAACTTCAGTTCATTAATTTACGATCACGAACACTTCAAAAAGAGGTT
GGCAATTTACGATCGCGACTCCACTTAAAAAGT
Found at i:83334091 original size:28 final size:28
Alignment explanation
Indices: 83334051--83334123 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
83334041 GGAGTCTGCC
83334051 ACAAAGG-TGTCTTCTTTCATAGTTCGCA
1 ACAAAGGCT-TCTTCTTTCATAGTTCGCA
* *
83334079 ACAAAGGCTTCTTCTTTCATAGTTTGCC
1 ACAAAGGCTTCTTCTTTCATAGTTCGCA
* *
83334107 ACAAGGGCTTATTCTTT
1 ACAAAGGCTTCTTCTTT
83334124 ACTATCGTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (28 bp):
ACAAAGGCTTCTTCTTTCATAGTTCGCA
Found at i:83335714 original size:38 final size:38
Alignment explanation
Indices: 83335663--83335738 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
83335653 AAAATGGAAA
83335663 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
** *
83335701 AACGTGGTGCTAAGTGGATATGTCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
83335739 TAATTTGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
Found at i:83337733 original size:12 final size:12
Alignment explanation
Indices: 83337718--83337755 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
83337708 AAGAAACATT
83337718 ATCAGAACTAGA
1 ATCAGAACTAGA
83337730 ATCA-AACTGAGA
1 ATCAGAACT-AGA
*
83337742 ATCAGAATTAGA
1 ATCAGAACTAGA
83337754 AT
1 AT
83337756 TAGGTGACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 4 0.17
12 16 0.70
13 3 0.13
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (12 bp):
ATCAGAACTAGA
Found at i:83337777 original size:31 final size:31
Alignment explanation
Indices: 83337739--83337811 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
83337729 AATCAAACTG
* * *
83337739 AGAATCAGAATTAGAATTAGGTGA-CAGAATT
1 AGAATCAGAATCAGAATCAGGT-ATCAGAATC
*
83337770 AGAATCAGAATCAGTATCAGGTATCAGAATC
1 AGAATCAGAATCAGAATCAGGTATCAGAATC
*
83337801 AAAATCAGAAT
1 AGAATCAGAAT
83337812 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTATCAGAATC
Found at i:83337779 original size:6 final size:6
Alignment explanation
Indices: 83337763--83337811 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
83337753 AATTAGGTGA
* * * *
83337763 CAGAAT TAGAAT CAGAAT CAGTAT CAGGTAT CAGAAT CAAAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CA-GAAT CAGAAT CAGAAT CAGAAT
83337812 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.22
Consensus pattern (6 bp):
CAGAAT
Found at i:83338281 original size:27 final size:27
Alignment explanation
Indices: 83338270--83338687 Score: 568
Period size: 27 Copynumber: 15.5 Consensus size: 27
83338260 GGTAAATTTA
* *
83338270 TAAATCGAGGGTAACACAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTG
* * *
83338297 TAAATCGAGGGTAAAATAGTTATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
*
83338324 TAAATCGAGGGTAAAATAGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
* * *
83338351 TCAATCGAGGGTAAAACAGTAATTTTA
1 TAAATCGAGGGTAAAACAGTAATTCTG
*
83338378 TAAATCGAGGGTAAAACAGTAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
*
83338405 TAAATCGAGGGTAAAAC-GATAATTCTA
1 TAAATCGAGGGTAAAACAG-TAATTCTG
* *
83338432 TAAATCGAGGGTAAAATAGTAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
*
83338459 TAAATTGAGGGTAAAACAGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
*
83338486 TAAATCGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTG
* *
83338513 TAAATCGAGGGTAAAACAGTAATTTTA
1 TAAATCGAGGGTAAAACAGTAATTCTG
* * * *
83338540 CAAATCGATGGTAAAATAGTAATTATG
1 TAAATCGAGGGTAAAACAGTAATTCTG
*
83338567 TAAATCGAGGGTAAAACAGTAGTTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
* * *
83338594 TAAATCGAGGGTAAAACGGTAATTTTA
1 TAAATCGAGGGTAAAACAGTAATTCTG
** *
83338621 TAAATCGAGGGTAAAATGGTAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
83338648 TAAATCGAGGGTAAAACAGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
83338675 TAAATCGAGGGTA
1 TAAATCGAGGGTA
83338688 TTTTGATAAT
Statistics
Matches: 346, Mismatches: 43, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 344 0.99
28 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACAGTAATTCTG
Found at i:83338386 original size:81 final size:81
Alignment explanation
Indices: 83338270--83338687 Score: 649
Period size: 81 Copynumber: 5.2 Consensus size: 81
83338260 GGTAAATTTA
* * *
83338270 TAAATCGAGGGTAACACAGTAATTCTATAAATCGAGGGTAAAATAGTTATTTTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGG
*
83338335 TAAAATAGTAATTCTG
66 TAAAACAGTAATTCTG
* *
83338351 TCAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGG
*
83338416 TAAAAC-GATAATTCTA
66 TAAAACAG-TAATTCTG
* * * * *
83338432 TAAATCGAGGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGG
*
83338497 TAAAACAGTAATTCTA
66 TAAAACAGTAATTCTG
* * *
83338513 TAAATCGAGGGTAAAACAGTAATTTTACAAATCGATGGTAAAATAGTAATTATGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGG
*
83338578 TAAAACAGTAGTTCTG
66 TAAAACAGTAATTCTG
* *
83338594 TAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGG
83338659 TAAAACAGTAATTCTG
66 TAAAACAGTAATTCTG
83338675 TAAATCGAGGGTA
1 TAAATCGAGGGTA
83338688 TTTTGATAAT
Statistics
Matches: 308, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
80 1 0.00
81 306 0.99
82 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
TAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGG
TAAAACAGTAATTCTG
Found at i:83338745 original size:27 final size:27
Alignment explanation
Indices: 83338700--83338805 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 27
83338690 TTGATAATCA
*
83338700 GTAATTTTGCAAACT-GAGGGTATTTCG
1 GTAATTTTAC-AACTCGAGGGTATTTCG
* *
83338727 GTAATTTTACAACTCGAGGATATTTGG
1 GTAATTTTACAACTCGAGGGTATTTCG
* *
83338754 GTAATTTTATAAAC-CGGGGGTACTTT-G
1 GTAATTTTA-CAACTCGAGGGTA-TTTCG
*
83338781 GTAATTTTACAACTAG-GGGTATTTC
1 GTAATTTTACAACTCGAGGGTATTTC
83338806 ATTAATTTGG
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
25 3 0.05
26 12 0.18
27 45 0.68
28 6 0.09
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAACTCGAGGGTATTTCG
Found at i:83342762 original size:24 final size:24
Alignment explanation
Indices: 83342730--83342798 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
83342720 AAGCTGCACG
*
83342730 TTGTGGTCAATCCACTCAATAGCA
1 TTGTGGTCAATCCACTCAATAACA
*
83342754 TTGTGGTCAAGT-CACTCAATAACG
1 TTGTGGTCAA-TCCACTCAATAACA
*
83342778 TTGTGGTCAAGCCACTCAATA
1 TTGTGGTCAATCCACTCAATA
83342799 TTGTAGTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (24 bp):
TTGTGGTCAATCCACTCAATAACA
Found at i:83343845 original size:51 final size:51
Alignment explanation
Indices: 83343781--83343883 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 51
83343771 TATCAAGAAA
* * *
83343781 AAGGAGAGTGGTGGTCATGATGGGGGTCCAGCGGTGGTGCAGTTAACTAAT
1 AAGGAGAGCGGTGGTCACGATGAGGGTCCAGCGGTGGTGCAGTTAACTAAT
* ** *
83343832 AAGGAGAGCGGTGGTCACGATGATGGTCTGGCGGTGGTGCGGTTAACTAAT
1 AAGGAGAGCGGTGGTCACGATGAGGGTCCAGCGGTGGTGCAGTTAACTAAT
83343883 A
1 A
83343884 GTGGTGGAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.23, C:0.13, G:0.41, T:0.23
Consensus pattern (51 bp):
AAGGAGAGCGGTGGTCACGATGAGGGTCCAGCGGTGGTGCAGTTAACTAAT
Found at i:83353794 original size:17 final size:16
Alignment explanation
Indices: 83353768--83353799 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
83353758 GAAATTTCAT
83353768 CCTCAAAATTTTCAAC
1 CCTCAAAATTTTCAAC
83353784 CCTCTAAAATTTTCAA
1 CCTC-AAAATTTTCAA
83353800 TTATATGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (16 bp):
CCTCAAAATTTTCAAC
Found at i:83356923 original size:41 final size:41
Alignment explanation
Indices: 83356849--83356932 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
83356839 TTTGCCTATC
* * *
83356849 TGTAACTGTATCTAAATGTGAAATTGGCTCAGGCCCGAATA
1 TGTAACTGTATCTAAATGGGAAATGGGCCCAGGCCCGAATA
* * * *
83356890 TGTATCTGTATCTATATGGGATATGGGCCCAGGCCTGAATA
1 TGTAACTGTATCTAAATGGGAAATGGGCCCAGGCCCGAATA
83356931 TG
1 TG
83356933 AATTCGTCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (41 bp):
TGTAACTGTATCTAAATGGGAAATGGGCCCAGGCCCGAATA
Found at i:83361466 original size:24 final size:24
Alignment explanation
Indices: 83361432--83361505 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
83361422 GGTTGTCAGT
*
83361432 AGAAGATTTAGGAGCTGATAAGGG
1 AGAATATTTAGGAGCTGATAAGGG
**
83361456 AGAGA-ATTTAGGAGCTGATAAAAG
1 AGA-ATATTTAGGAGCTGATAAGGG
* *
83361480 AGAATATTTAGGAGCTAATAGGGG
1 AGAATATTTAGGAGCTGATAAGGG
83361504 AG
1 AG
83361506 CAGGAGTTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
23 1 0.02
24 40 0.95
25 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.34, T:0.22
Consensus pattern (24 bp):
AGAATATTTAGGAGCTGATAAGGG
Found at i:83363204 original size:33 final size:33
Alignment explanation
Indices: 83363127--83363206 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
83363117 GCCGTACTGT
*
83363127 ACTGTTATCTGAAAAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTG-AAAAGGGGCTAAGGCCCAGTTC
* * **
83363161 AATGTAATCTGAAAA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAAAAGGGGCTAAGGCCCAGT-TC
83363194 ACTGTTATCTGAA
1 ACTGTTATCTGAA
83363207 TGGGCTTAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 13 0.34
33 16 0.42
34 9 0.24
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (33 bp):
ACTGTTATCTGAAAAGGGGCTAAGGCCCAGTTC
Found at i:83363219 original size:32 final size:32
Alignment explanation
Indices: 83363133--83363219 Score: 79
Period size: 32 Copynumber: 2.7 Consensus size: 32
83363123 CTGTACTGTT
* *
83363133 ATCTGAAAAAGGGGCTAAGGCCCAGTTTAATGTA
1 ATCTG-AAAA-GGGCTTAGGCCCAGTTCAATGTA
* *
83363167 ATCTGAAAAGGGCTCT-GGCCCAGTATCACTGTT
1 ATCTGAAAAGGGCT-TAGGCCCAGT-TCAATGTA
*
83363200 ATCTG-AATGGGCTTAGGCCC
1 ATCTGAAAAGGGCTTAGGCCC
83363220 GATGGGCTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
31 1 0.02
32 25 0.56
33 14 0.31
34 5 0.11
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (32 bp):
ATCTGAAAAGGGCTTAGGCCCAGTTCAATGTA
Found at i:83369617 original size:40 final size:40
Alignment explanation
Indices: 83369531--83369794 Score: 327
Period size: 40 Copynumber: 6.6 Consensus size: 40
83369521 TATTCGGATG
* *
83369531 ATATACGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
83369572 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
83369612 ATATCCGGGCTGA-TACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGT-CCCGAAGGCA-TTTGTGCTAGTGACT
* *
83369653 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
83369693 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
83369733 ATATCCGGGCTAAGTTCCAAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
83369773 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
83369795 TACTTGGGTT
Statistics
Matches: 201, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 13 0.06
40 128 0.64
41 59 0.29
42 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:83369665 original size:81 final size:80
Alignment explanation
Indices: 83369530--83369766 Score: 323
Period size: 81 Copynumber: 2.9 Consensus size: 80
83369520 TTATTCGGAT
* *
83369530 GATATACGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAATACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
*
83369595 CATTTGCGCTAGTGAC
65 CATTTGCGCGAGTGAC
*
83369611 GATATCCGGGCTGATACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAATACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
* *
83369676 CATTTGTGCGAGTTAC
65 CATTTGCGCGAGTGAC
* * * * * *
83369692 TATATCCGGGCTAAGT-CCCAAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTTCCAAAGG
1 GATATCCGGGCTAA-TACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
*
83369756 CATTTGTGCGA
65 CATTTGCGCGA
83369767 TTTGCTATAT
Statistics
Matches: 141, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 45 0.32
81 95 0.67
82 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
GATATCCGGGCTAATACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
ATTTGCGCGAGTGAC
Found at i:83369756 original size:121 final size:121
Alignment explanation
Indices: 83369531--83369799 Score: 330
Period size: 121 Copynumber: 2.2 Consensus size: 121
83369521 TATTCGGATG
* * * *
83369531 ATATACGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGACTATATCCGGGCTAAGTCCCAAAGGC
* * * *
83369596 ATTTGCGCTAGTGACGATATCCGGGCTGATACCCGAAGGCATTTTGTGCTA-GTGACT
66 ATTTGCGCGAGTGACGATATCCGGGCTAATACCCAAAGGCA-TTTGTGCGATGTG-CT
*
83369653 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGACTATATCCGGGCTAAGTCCCAAAGGC
* * * * *
83369717 ATTTGTGCGAGTTACTATATCCGGGCTAAGT-TCCAAAGGCATTTGTGCGATTTGCT
66 ATTTGCGCGAGTGACGATATCCGGGCTAA-TACCCAAAGGCATTTGTGCGATGTGCT
* * *
83369773 ATATCC-GGTTAAATCCCGAAGGTACTT
1 ATATCCGGGCTAAGTCCCGAAGGCACTT
83369800 GGGTTTGGAA
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
119 15 0.12
120 18 0.14
121 70 0.55
122 24 0.19
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (121 bp):
ATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGACTATATCCGGGCTAAGTCCCAAAGGC
ATTTGCGCGAGTGACGATATCCGGGCTAATACCCAAAGGCATTTGTGCGATGTGCT
Found at i:83372777 original size:24 final size:24
Alignment explanation
Indices: 83372750--83372847 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
83372740 AAGGCTGTCA
83372750 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
83372774 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * * *
83372798 GGAGAGGATTTAAGAGCTAATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
83372822 GGAGAAGATTTAGGAGCTGATTAAG
1 GGAGAAGATTTAGGAGCTGA-TAAG
83372847 G
1 G
83372848 AGCAGGAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 61 0.94
25 4 0.06
ACGTcount: A:0.38, C:0.04, G:0.37, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:83381527 original size:37 final size:37
Alignment explanation
Indices: 83381476--83381567 Score: 157
Period size: 37 Copynumber: 2.5 Consensus size: 37
83381466 CTTATTACGA
83381476 AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
1 AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
83381513 GGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
1 AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
83381550 AGTCTCACCCGGAACATA
1 AGTCTTACCCGG-ACATA
83381568 TTTCCAAGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 46 0.90
38 5 0.10
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (37 bp):
AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:83381666 original size:48 final size:48
Alignment explanation
Indices: 83381607--83381806 Score: 373
Period size: 48 Copynumber: 4.2 Consensus size: 48
83381597 TGTTACAACA
*
83381607 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
83381655 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
83381703 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
83381751 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
83381799 TTCACATT
1 TTCACATT
83381807 CATCACATCG
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 148 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:83381853 original size:18 final size:18
Alignment explanation
Indices: 83381822--83381857 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
83381812 CATCGGCAAT
*
83381822 TAGGCCTTATCACATATA
1 TAGGCCTTACCACATATA
*
83381840 TAGGCTTTACCACATATA
1 TAGGCCTTACCACATATA
83381858 CATATCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TAGGCCTTACCACATATA
Found at i:83381862 original size:123 final size:123
Alignment explanation
Indices: 83381719--83381964 Score: 474
Period size: 123 Copynumber: 2.0 Consensus size: 123
83381709 TTAGCCCTTC
83381719 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
83381784 ATATCACACATATGTTTCACATTCATCACATCGGCAATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCAATTAGGCCTTATCACATATATA
*
83381842 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
*
83381907 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCAATTAGGCCTTATCACATATATA
83381965 TACACCTTCA
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.33
Consensus pattern (123 bp):
GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ATATCACACATATGTTTCACATTCATCACATCGGCAATTAGGCCTTATCACATATATA
Found at i:83382028 original size:96 final size:96
Alignment explanation
Indices: 83381921--83382156 Score: 418
Period size: 96 Copynumber: 2.5 Consensus size: 96
83381911 CACACATATG
*
83381921 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
83381986 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACAC
* *
83382017 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
83382082 TTGGCCATTAGGCCTTATCACATATATACAC
66 TCGGCCATTAGGCCTTATCACATATATACAC
*
83382113 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
83382157 CATCTCATAC
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 133 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACAC
Found at i:83382029 original size:47 final size:47
Alignment explanation
Indices: 83381921--83382158 Score: 395
Period size: 47 Copynumber: 5.0 Consensus size: 47
83381911 CACACATATG
*
83381921 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACAC
* * *
83381970 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
83382017 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA--TATATACAC
83382066 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
*
83382113 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
83382159 TCTCATACAT
Statistics
Matches: 181, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
47 99 0.55
49 82 0.45
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (47 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
Found at i:83384751 original size:28 final size:28
Alignment explanation
Indices: 83384682--83384753 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
83384672 AGTCAGCCAC
*
83384682 AAAGGCTTATTCTTTCATAGTTCGCCAT
1 AAAGGCTTATTCTTTCATAGTTCACCAT
* * *
83384710 AAACGTTTAGTCTTTCATAGTTCACCAT
1 AAAGGCTTATTCTTTCATAGTTCACCAT
*
83384738 GAAGGCTTATTCTTTC
1 AAAGGCTTATTCTTTC
83384754 CTGTTGTGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (28 bp):
AAAGGCTTATTCTTTCATAGTTCACCAT
Found at i:83385418 original size:26 final size:26
Alignment explanation
Indices: 83385382--83385432 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
83385372 TCTTCATTTT
83385382 ATTACTCAATCACATAAAACAGGCTC
1 ATTACTCAATCACATAAAACAGGCTC
* *
83385408 ATTATTCAATCACATAAAATAGGCT
1 ATTACTCAATCACATAAAACAGGCT
83385433 TACTCTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (26 bp):
ATTACTCAATCACATAAAACAGGCTC
Found at i:83387073 original size:21 final size:22
Alignment explanation
Indices: 83387049--83387095 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
83387039 GTTTAATTGA
*
83387049 TTTAGGG-TATGGTTTTTAGGG
1 TTTAGGGTTAGGGTTTTTAGGG
83387070 TTTAGGGTTAGGGTTTTTAGGG
1 TTTAGGGTTAGGGTTTTTAGGG
83387092 TTTA
1 TTTA
83387096 TAATTTAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (22 bp):
TTTAGGGTTAGGGTTTTTAGGG
Found at i:83387209 original size:19 final size:19
Alignment explanation
Indices: 83387187--83387257 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 19
83387177 AGTTTAGGGT
*
83387187 ATTAGGGTTAATTTATTAA
1 ATTAGGGTTAATTGATTAA
83387206 ATTAGGG---ATTGATTAA
1 ATTAGGGTTAATTGATTAA
*
83387222 ATTA-GGATATATTGATTAA
1 ATTAGGGTTA-ATTGATTAA
83387241 ATTTAGGGTTAATTGAT
1 A-TTAGGGTTAATTGAT
83387258 ACATAATCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
15 2 0.05
16 12 0.27
19 17 0.39
20 9 0.20
21 4 0.09
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (19 bp):
ATTAGGGTTAATTGATTAA
Found at i:83388016 original size:126 final size:126
Alignment explanation
Indices: 83387788--83388042 Score: 411
Period size: 126 Copynumber: 2.0 Consensus size: 126
83387778 TTTCTGCAAG
* * *
83387788 AATAATTTTAAGTAGACGTTTCTGAACAAATAGTGTCAAAAATGTTTCAAGCAGGATGCACTGTC
1 AATAATTTTAAGTAAACGTTTCTAAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTC
* * * *
83387853 AGCAAAATTTCTGAAAAAAGCTCTCACGTGGATGCTCTTTTGCTACAGTAGTTCGTGGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTACTACAGTAGTTCGTAGAAA
* * *
83387914 AATAATTTTGAGTAAACGTTTCTAAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTT
1 AATAATTTTAAGTAAACGTTTCTAAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTC
*
83387979 AGCAAAATTTTTGAAAAAAGCTCCCACGTGGACGCTCTTTTACTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTACTACAGTAGTTCGTAGAAA
83388040 AAT
1 AAT
83388043 GAGGCTATAA
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 118 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (126 bp):
AATAATTTTAAGTAAACGTTTCTAAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTACTACAGTAGTTCGTAGAAA
Found at i:83392542 original size:40 final size:39
Alignment explanation
Indices: 83392498--83392610 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 39
83392488 GTTATAATAG
* *
83392498 CTCGCATAAATGCCTTCGGGACTAATCTCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTAA-CCCGGATTTGGGAA
* * * *
83392538 CTCGCACAAACGCCTTCGGGAATTAACCCGGTTTTGGTAA
1 CTCGCACAAATGCCTTCGGG-ACTAACCCGGATTTGGGAA
* * *
83392578 CTTGCACAAATGCCTTAGGGACTTAGCCCGGAT
1 CTCGCACAAATGCCTTCGGGAC-TAACCCGGAT
83392611 ACCATTCAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.02
40 54 0.92
41 4 0.07
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGGACTAACCCGGATTTGGGAA
Found at i:83400383 original size:39 final size:39
Alignment explanation
Indices: 83400333--83400443 Score: 143
Period size: 39 Copynumber: 2.8 Consensus size: 39
83400323 GTTATAATAG
*
83400333 CTCGCATAAATGCCTTCGGGACTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTAACCCGGATTTGGGAA
* *
83400372 CTCGCACAAATGCCTTCGGGAATTAACCCGG-TTTGGTAA
1 CTCGCACAAATGCCTTCGGG-ACTAACCCGGATTTGGGAA
* * *
83400411 CTTGCACAAATGCCTTAGGGACTTAGCCCGGAT
1 CTCGCACAAATGCCTTCGGGAC-TAACCCGGAT
83400444 ACCATTCAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.02
39 51 0.82
40 10 0.16
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGGACTAACCCGGATTTGGGAA
Found at i:83404704 original size:39 final size:40
Alignment explanation
Indices: 83404540--83404690 Score: 200
Period size: 40 Copynumber: 3.8 Consensus size: 40
83404530 TCGAATGATG
* ** *
83404540 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGAT-CCGAAGGCATTTGTGC-GAGTTCCCAAA
*
83404580 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
*
83404620 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
*
83404660 TCCGGGTTAAG-TCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGATCCGAAGGCATTTGTGCGAG
83404691 CTATTATAAC
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
39 20 0.20
40 74 0.73
41 8 0.08
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
Found at i:83404716 original size:79 final size:79
Alignment explanation
Indices: 83404540--83404757 Score: 212
Period size: 79 Copynumber: 2.7 Consensus size: 79
83404530 TCGAATGATG
* *
83404540 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGC-GAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *
83404605 GTGCGAGTTCCCAAA
65 GTGCGAGCTACCAAA
* ** **
83404620 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAG-TCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
**
83404683 TGTGCGAGCTATTATAA
64 TGTGCGAGCTACCA-AA
* * * *
83404700 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGTCG-CTATATCCGGA-TAAGATCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGT-GACCAAATCCGGACTAAGATCCGAAGG
83404758 TACGTGATTC
Statistics
Matches: 113, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
78 5 0.04
79 64 0.57
80 36 0.32
81 8 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGCTACCAAA
Found at i:83412669 original size:40 final size:40
Alignment explanation
Indices: 83412612--83412758 Score: 149
Period size: 40 Copynumber: 3.7 Consensus size: 40
83412602 TCGAACGATG
* *
83412612 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGTGACCAAA
* **
83412652 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACCAAA
* **
83412692 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACCAAA
*
83412732 TCCAGG-TTAAG-TCCCGAAGGCATTTGT
1 TCC-GGACTAAGAT-CCGAAGGCATTTGT
83412759 ACGAGCTATT
Statistics
Matches: 97, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
39 1 0.01
40 86 0.89
41 10 0.10
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACCAAA
Found at i:83414690 original size:43 final size:43
Alignment explanation
Indices: 83414642--83414735 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 43
83414632 GATTAATGAG
* *
83414642 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGACATCATT
1 ATGTGATTACGTGTAAAACCATGTCTGGGACATTGACATCATT
* * * * * *
83414685 ATGTGATAACGTGTAAAATCATTTTTGGGACATTGGCATCGTT
1 ATGTGATTACGTGTAAAACCATGTCTGGGACATTGACATCATT
*
83414728 ATTTGATT
1 ATGTGATT
83414736 TCGAATAAGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (43 bp):
ATGTGATTACGTGTAAAACCATGTCTGGGACATTGACATCATT
Found at i:83422305 original size:43 final size:43
Alignment explanation
Indices: 83422257--83422364 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
83422247 GATTAACGAG
83422257 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGACATCATT
1 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGACATCATT
* * * * *
83422300 ATGTGATTATGTGTAAAATCATGTTTGGGACATTGGCATTATT
1 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGACATCATT
* *
83422343 ATTTGATT-TCGAGTAAGACCAT
1 ATGTGATTAT-GTGTAAGACCAT
83422365 AGCTGGGCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCTGGGACATTGACATCATT
Found at i:83425903 original size:41 final size:41
Alignment explanation
Indices: 83425853--83425933 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
83425843 AATAATATTG
* * *
83425853 AATTACACATACGTGCCCCTGTTTGTTCTTCGGTACCCCTA
1 AATTACACATACGTGCCCCTGTTTGTACTACAGTACCCCTA
*
83425894 AATTGCACATACGTGCCCCTGTTTGTACTACAGTACCCCT
1 AATTACACATACGTGCCCCTGTTTGTACTACAGTACCCCT
83425934 GGATATACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.32
Consensus pattern (41 bp):
AATTACACATACGTGCCCCTGTTTGTACTACAGTACCCCTA
Found at i:83428734 original size:42 final size:44
Alignment explanation
Indices: 83428657--83428748 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 44
83428647 CCTCGATTGA
**
83428657 GATTTACGTATAAGACTATGTCTGGGACATTGGCATC-ATATCT
1 GATTTACGTATAAGACTATGTCTGGGACAGAGGCATCGATATCT
*
83428700 GATTT-CGTGTAAGACCT-TGTCTGGGACAGAGGCATCGATAT-T
1 GATTTACGTATAAGA-CTATGTCTGGGACAGAGGCATCGATATCT
*
83428742 GAATTAC
1 GATTTAC
83428749 ATGTAATACC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
42 30 0.71
43 12 0.29
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (44 bp):
GATTTACGTATAAGACTATGTCTGGGACAGAGGCATCGATATCT
Found at i:83431337 original size:28 final size:28
Alignment explanation
Indices: 83431305--83431373 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
83431295 GCGTAGATCA
83431305 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
83431333 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
83431361 C-AAAATACCCCTA
1 CGAAATTACCCCTA
83431374 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 11 0.28
28 28 0.72
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:83436892 original size:40 final size:40
Alignment explanation
Indices: 83436839--83437039 Score: 280
Period size: 40 Copynumber: 5.0 Consensus size: 40
83436829 ATGATAACCA
* * * *
83436839 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
83436879 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
83436919 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* **
83436959 GGTTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* **
83436999 GGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
83437039 G
1 G
83437040 TTGAAGCCCG
Statistics
Matches: 147, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 146 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:83441231 original size:16 final size:15
Alignment explanation
Indices: 83441210--83441257 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
83441200 CACCCGGATT
83441210 CACATAATCACATATG
1 CACATAATCACATA-G
**
83441226 CACATAATTTCATGAG
1 CACATAATCACAT-AG
*
83441242 CTCATAATCACATAG
1 CACATAATCACATAG
83441257 C
1 C
83441258 TCCTAGTGAC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 3 0.12
16 22 0.85
17 1 0.04
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (15 bp):
CACATAATCACATAG
Found at i:83443463 original size:40 final size:40
Alignment explanation
Indices: 83443414--83443500 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
83443404 GTGCTGTACA
*
83443414 TAGCTGAAGCTAT-CTCAAATCACACACTAAGTGCCAAAAT
1 TAGCCGAAGCTATAC-CAAATCACACACTAAGTGCCAAAAT
* * * *
83443454 TAGCCGAAGCTGTACCGAATCGCACACTAAGTGCCATAAT
1 TAGCCGAAGCTATACCAAATCACACACTAAGTGCCAAAAT
83443494 TAGCCGA
1 TAGCCGA
83443501 TATGTCATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (40 bp):
TAGCCGAAGCTATACCAAATCACACACTAAGTGCCAAAAT
Found at i:83444317 original size:36 final size:36
Alignment explanation
Indices: 83444277--83444357 Score: 153
Period size: 36 Copynumber: 2.2 Consensus size: 36
83444267 ATTTATTATT
83444277 AACTTTAATTACCTATTTACCTTTTTACCCTTTAAA
1 AACTTTAATTACCTATTTACCTTTTTACCCTTTAAA
83444313 AACTTTAATTACCTATTTACCTTTTTACCCTTTAAA
1 AACTTTAATTACCTATTTACCTTTTTACCCTTTAAA
*
83444349 AACATTAAT
1 AACTTTAAT
83444358 AAATACACTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (36 bp):
AACTTTAATTACCTATTTACCTTTTTACCCTTTAAA
Found at i:83455154 original size:93 final size:93
Alignment explanation
Indices: 83455042--83455213 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
83455032 GCCCATAAGT
* *
83455042 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83455107 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
83455135 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83455200 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
83455214 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:83455209 original size:46 final size:46
Alignment explanation
Indices: 83455034--83455209 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
83455024 TGTAACCCGC
* * *
83455034 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
83455080 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
83455130 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
83455173 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
83455210 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:83457638 original size:30 final size:30
Alignment explanation
Indices: 83457594--83457682 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
83457584 CAAAGATAAC
83457594 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
83457623 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
83457653 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
83457683 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:83457642 original size:15 final size:15
Alignment explanation
Indices: 83457594--83457673 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
83457584 CAAAGATAAC
*
83457594 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
83457608 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
83457623 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
83457638 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
83457653 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
83457668 AAGAAA
1 AAGAAA
83457674 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:83457682 original size:15 final size:15
Alignment explanation
Indices: 83457605--83457682 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
83457595 AGAAAACCGA
83457605 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
83457620 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
83457634 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
83457649 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
83457665 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
83457680 ATA
1 ATA
83457683 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:83460744 original size:93 final size:93
Alignment explanation
Indices: 83460632--83460803 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
83460622 GCCCATAAGT
* *
83460632 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83460697 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
83460725 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83460790 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
83460804 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:83460799 original size:46 final size:46
Alignment explanation
Indices: 83460624--83460799 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
83460614 TGTAACCCGC
* * *
83460624 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
83460670 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
83460720 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
83460763 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
83460800 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:83466189 original size:77 final size:80
Alignment explanation
Indices: 83466077--83466256 Score: 228
Period size: 77 Copynumber: 2.3 Consensus size: 80
83466067 TACTCGTTCA
* *
83466077 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
83466140 ATTTA-TAAC-TCGCAC
65 A-TTAGTAACTTAGCAC
* **
83466155 CATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
83466218 TTAGTCACTTAGCAC
66 TTAGTAACTTAGCAC
*
83466233 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
83466257 CATCATTCGA
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
76 6 0.07
77 44 0.50
78 27 0.31
79 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTAGTAACTTAGCAC
Found at i:83466204 original size:39 final size:40
Alignment explanation
Indices: 83466075--83466256 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
83466065 GCTACTCGTT
* *
83466075 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
83466115 CAAATGCCTTCGGGACTTAACCCGGATTTA-TAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
83466154 C-CATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
83466192 CAAATGCCTTC-GGATCTTAGTCCGG-ATTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTAGTAAC-TCGCA
83466232 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
83466257 CATCATTCGA
Statistics
Matches: 124, Mismatches: 10, Indels: 16
0.83 0.07 0.11
Matches are distributed among these distances:
37 13 0.10
38 23 0.19
39 41 0.33
40 45 0.36
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:83474268 original size:40 final size:40
Alignment explanation
Indices: 83474224--83474404 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
83474214 GCTACTCGTT
*
83474224 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
83474264 CAAATGCCTTCAGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
83474304 C-CATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
83474342 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
83474383 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
83474405 AGACATCATT
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 25 0.21
39 18 0.15
40 64 0.53
41 13 0.11
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:83474338 original size:78 final size:80
Alignment explanation
Indices: 83474226--83474404 Score: 231
Period size: 78 Copynumber: 2.3 Consensus size: 80
83474216 TACTCGTTCA
* *
83474226 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
*
83474290 TTTAATAAC-TCGCAC
65 TTTAATAACTTAGCAC
* **
83474305 CATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
83474368 TTTAGTCACTTAGCAC
65 TTTAATAACTTAGCAC
*
83474384 AAAGCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACTTAGCCC
83474405 AGACATCATT
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 4 0.05
78 48 0.56
79 26 0.30
80 8 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
TTAATAACTTAGCAC
Found at i:83493957 original size:49 final size:49
Alignment explanation
Indices: 83493830--83494182 Score: 587
Period size: 49 Copynumber: 7.4 Consensus size: 49
83493820 CCCTTCGGGA
* *
83493830 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
83493877 CCTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
83493924 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83493973 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
83494022 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83494071 CTTAT--C--ATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83494116 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
83494165 CTTATCACATATATATAC
1 CTTATCACATATATATAC
83494183 CTCATACAAA
Statistics
Matches: 288, Mismatches: 10, Indels: 14
0.92 0.03 0.04
Matches are distributed among these distances:
45 43 0.15
46 1 0.00
47 49 0.17
49 195 0.68
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:83494102 original size:143 final size:145
Alignment explanation
Indices: 83493830--83494182 Score: 592
Period size: 143 Copynumber: 2.5 Consensus size: 145
83493820 CCCTTCGGGA
* * * *
83493830 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGCCCTATCAC--ATATAT
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
83493891 ACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACCTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACA-ATATACACACTTTCACATTCAT
83493956 CACATCGGCCATTAGGC
129 CACATCGGCCATTAGGC
83493973 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
83494038 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-C-ATATACACACTTTCACATTCATCA
66 ACACCTTCACATTCATCACATCGGCCATTAGGCCTTATACAATATACACACTTTCACATTCATCA
83494101 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
83494116 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
83494181 AC
66 AC
83494183 CTCATACAAA
Statistics
Matches: 200, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
143 115 0.57
144 1 0.00
145 41 0.20
147 43 0.22
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (145 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACCTTCACATTCATCACATCGGCCATTAGGCCTTATACAATATACACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:83494107 original size:94 final size:95
Alignment explanation
Indices: 83493830--83494177 Score: 576
Period size: 94 Copynumber: 3.6 Consensus size: 95
83493820 CCCTTCGGGA
* * * *
83493830 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACATATACAC
*
83493893 ACCTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
83493924 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-AC--ATATAC
83493989 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
83494022 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-CATATACACA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATACATATACACA
83494086 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
83494116 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACATATA
83494178 TATACCTCAT
Statistics
Matches: 242, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
94 102 0.42
95 1 0.00
96 48 0.20
98 91 0.38
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (95 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATACATATACACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:83494157 original size:192 final size:191
Alignment explanation
Indices: 83493830--83494179 Score: 612
Period size: 192 Copynumber: 1.8 Consensus size: 191
83493820 CCCTTCGGGA
* * *
83493830 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGCCCTATCACATATATACAC
1 CTTATCACATTTATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT-ACATATACACAC
*
83493895 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
65 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
83493960 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
130 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
83494022 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-CATATACACA
1 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATACATATACACA
*
83494086 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAC
64 CCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAC
83494151 ATCGGCCATTAGGCCTTATCACATATATA
129 ATCGGCCATTAGGCCTTATCACATATATA
83494180 TACCTCATAC
Statistics
Matches: 150, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
192 111 0.74
193 1 0.01
194 38 0.25
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (191 bp):
CTTATCACATTTATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATACATATACACACC
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:83501266 original size:32 final size:32
Alignment explanation
Indices: 83501230--83501294 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
83501220 CCTTTTCATA
*
83501230 TTTCATATTACATAACACTGGGCTGAAGCCTT
1 TTTCATATTACATAACACTGGGCCGAAGCCTT
* **
83501262 TTTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTTCATATTACATAACACTGGGCCGAAGCCTT
83501294 T
1 T
83501295 ACTACAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (32 bp):
TTTCATATTACATAACACTGGGCCGAAGCCTT
Found at i:83501531 original size:25 final size:25
Alignment explanation
Indices: 83501503--83501562 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
83501493 CTGGAGGCCT
83501503 AGCCTCTTTTAAT-AACTAGGGCATA
1 AGCC-CTTTTAATAAACTAGGGCATA
** *
83501528 AGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCC-TTTTAATAAACTAGGGCATA
83501554 AGCCCTTTT
1 AGCCCTTTT
83501563 GCACTTCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 13 0.43
26 16 0.53
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTAGGGCATA
Found at i:83501631 original size:9 final size:9
Alignment explanation
Indices: 83501619--83501675 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
83501609 GCATCATGTG
83501619 CATATCATA
1 CATATCATA
*
83501628 CATATCATGTG
1 CATATCA--TA
*
83501639 CATATCGTA
1 CATATCATA
*
83501648 CATATCATGTG
1 CATATCA--TA
83501659 CATATCATA
1 CATATCATA
83501668 CATATCAT
1 CATATCAT
83501676 GTGCATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:83501636 original size:20 final size:20
Alignment explanation
Indices: 83501611--83501687 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
83501601 TTATGAATGC
83501611 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
83501631 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
83501651 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
83501671 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
83501688 TCAATATTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:83501642 original size:11 final size:11
Alignment explanation
Indices: 83501611--83501686 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
83501601 TTATGAATGC
83501611 ATCATGTGCAT
1 ATCATGTGCAT
*
83501622 ATCA--TACAT
1 ATCATGTGCAT
83501631 ATCATGTGCAT
1 ATCATGTGCAT
*
83501642 ATC--GTACAT
1 ATCATGTGCAT
83501651 ATCATGTGCAT
1 ATCATGTGCAT
*
83501662 ATCA--TACAT
1 ATCATGTGCAT
83501671 ATCATGTGCAT
1 ATCATGTGCAT
83501682 ATCAT
1 ATCAT
83501687 ATCAATATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:83503873 original size:2 final size:2
Alignment explanation
Indices: 83503866--83503892 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
83503856 TGTGGACTAC
83503866 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
83503893 CAATTGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:83506101 original size:14 final size:14
Alignment explanation
Indices: 83506082--83506117 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
83506072 ATGTTAAGCT
83506082 ATATGAATTGGGAA
1 ATATGAATTGGGAA
83506096 ATATGAATTGGGAA
1 ATATGAATTGGGAA
83506110 ATATGAAT
1 ATATGAAT
83506118 ATACATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (14 bp):
ATATGAATTGGGAA
Found at i:83508343 original size:18 final size:18
Alignment explanation
Indices: 83508320--83508399 Score: 88
Period size: 18 Copynumber: 4.4 Consensus size: 18
83508310 TGGCCCATTA
*
83508320 CAGTAACAATAAACAGTG
1 CAGTAACAATAATCAGTG
** *
83508338 CAGTAATGATAGTCAGTG
1 CAGTAACAATAATCAGTG
* *
83508356 CAGTAACAGTGATCAGTG
1 CAGTAACAATAATCAGTG
* *
83508374 TAGTAACAATAATCAATG
1 CAGTAACAATAATCAGTG
83508392 CAGTAACA
1 CAGTAACA
83508400 GTATACAAGT
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (18 bp):
CAGTAACAATAATCAGTG
Found at i:83508714 original size:27 final size:27
Alignment explanation
Indices: 83508670--83508725 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
83508660 ATACATCTCC
83508670 TAGGGGCATTTCAATCATTTTACCATG
1 TAGGGGCATTTCAATCATTTTACCATG
* *
83508697 TAGGGGCATTTTAGTCATTTTACCATG
1 TAGGGGCATTTCAATCATTTTACCATG
83508724 TA
1 TA
83508726 AGGGTGAAAT
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:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (27 bp):
TAGGGGCATTTCAATCATTTTACCATG
Done.