Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 22 of 198
Found at i:6539285 original size:30 final size:30
Alignment explanation
Indices: 6539221--6539285 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
6539211 ACCAAGGAAG
***
6539221 CCTTGAGAACTAGTAGAAAAACCTTGAGCC
1 CCTTGAGAACTAGTAGAAAAACCTTGAAAA
* * *
6539251 CCTTGAGCAGTAGTAGGAAAACCTTGAAAA
1 CCTTGAGAACTAGTAGAAAAACCTTGAAAA
6539281 CCTTG
1 CCTTG
6539286 TGGAGAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (30 bp):
CCTTGAGAACTAGTAGAAAAACCTTGAAAA
Found at i:6546602 original size:37 final size:40
Alignment explanation
Indices: 6546506--6546645 Score: 169
Period size: 40 Copynumber: 3.5 Consensus size: 40
6546496 AACACACCAG
* * * *
6546506 TTTGGCACCCAGTGCCTCATCAGATGATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * *
6546546 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
*
6546584 -TTGACACCCAGTGCCTCATCGAATATATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATCCGAAGTAATAA
*
6546624 TTTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
6546646 ACTCAAAGTC
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
37 22 0.26
38 10 0.12
39 2 0.02
40 30 0.36
41 20 0.24
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
Found at i:6546834 original size:2 final size:2
Alignment explanation
Indices: 6546829--6546866 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6546819 AATCCATTCA
6546829 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6546867 CTACTAATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6547667 original size:12 final size:13
Alignment explanation
Indices: 6547650--6547678 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6547640 ATTTACTTAT
6547650 TATAATATATA-A
1 TATAATATATATA
6547662 TATAATATATATA
1 TATAATATATATA
6547675 TATA
1 TATA
6547679 CTTAACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATAATATATATA
Found at i:6548627 original size:46 final size:46
Alignment explanation
Indices: 6548574--6548688 Score: 194
Period size: 46 Copynumber: 2.5 Consensus size: 46
6548564 AGTCAAAACC
* *
6548574 ATTAAGTTAAAACGCAAAACTATGTCGTTTTGATCAATGTTTACCT
1 ATTAAGTTAAAAGGCAAAACTATATCGTTTTGATCAATGTTTACCT
* *
6548620 ATTAAGTTCAAAGGCAAAACTGTATCGTTTTGATCAATGTTTACCT
1 ATTAAGTTAAAAGGCAAAACTATATCGTTTTGATCAATGTTTACCT
6548666 ATTAAGTTAAAAGGCAAAACTAT
1 ATTAAGTTAAAAGGCAAAACTAT
6548689 TATATCGTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (46 bp):
ATTAAGTTAAAAGGCAAAACTATATCGTTTTGATCAATGTTTACCT
Found at i:6550939 original size:12 final size:12
Alignment explanation
Indices: 6550924--6550948 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6550914 CACATATATA
6550924 TACGACATTGAT
1 TACGACATTGAT
6550936 TACGACATTGAT
1 TACGACATTGAT
6550948 T
1 T
6550949 TCTTGTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TACGACATTGAT
Found at i:6551740 original size:26 final size:25
Alignment explanation
Indices: 6551698--6551750 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
6551688 ATTCTTTTTA
* *
6551698 TTTTATTTTTTGAATTTTGA-AATTT
1 TTTTACTTTTTAAATTTT-ATAATTT
6551723 TTTTACTTTTTAATATTTTATAATTT
1 TTTTACTTTTTAA-ATTTTATAATTT
6551749 TT
1 TT
6551751 AAATATTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTTACTTTTTAAATTTTATAATTT
Found at i:6551741 original size:17 final size:18
Alignment explanation
Indices: 6551710--6551757 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
6551700 TTATTTTTTG
* *
6551710 AATTTTGAAAT-TTTTTT
1 AATTTTTAAATATTTTAT
*
6551727 ACTTTTT-AATATTTTAT
1 AATTTTTAAATATTTTAT
6551744 AATTTTTAAATATT
1 AATTTTTAAATATT
6551758 ATCATATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 3 0.12
17 16 0.64
18 6 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
AATTTTTAAATATTTTAT
Found at i:6566418 original size:46 final size:43
Alignment explanation
Indices: 6566311--6566416 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 43
6566301 ATATTGTGGA
* * * *
6566311 TAAATTCAAATATTTGTTAATAATAAATATTATTAAAAAATAT
1 TAAATTTAAATATTTTTTAGTAATAAAAATTATTAAAAAATAT
* *
6566354 TTAATTTAAATATTTTTTAGTAATAAAAATTATT-GAAAATAT
1 TAAATTTAAATATTTTTTAGTAATAAAAATTATTAAAAAATAT
6566396 TAAATTATATGAATATTTTTT
1 TAAATT-TA--AATATTTTTT
6566417 TATTTAATGA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 12 0.23
43 31 0.58
45 10 0.19
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (43 bp):
TAAATTTAAATATTTTTTAGTAATAAAAATTATTAAAAAATAT
Found at i:6573500 original size:5 final size:5
Alignment explanation
Indices: 6573487--6573579 Score: 65
Period size: 5 Copynumber: 19.8 Consensus size: 5
6573477 AAAAATATTT
* * * *
6573487 AAAAA AAAAG AAAAG AAAA- AAAA- ATAAG -AAAG AAAAT AAAAT AAAA-
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
* * *
6573533 ATAAG -AAAG TAAAG AAAAG AAAAAG AATA- AAAAG AAAAG AAAA- AAAA
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
6573580 AATGAGAGGC
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
4 23 0.32
5 45 0.62
6 5 0.07
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (5 bp):
AAAAG
Found at i:6573505 original size:14 final size:14
Alignment explanation
Indices: 6573488--6573579 Score: 89
Period size: 14 Copynumber: 6.6 Consensus size: 14
6573478 AAAATATTTA
6573488 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
*
6573502 AAAAAAAA-ATAAG
1 AAAAAAAAGAAAAG
* * *
6573515 AAAGAAAATAAAAT
1 AAAAAAAAGAAAAG
*
6573529 AAAAATAAG-AAAG
1 AAAAAAAAGAAAAG
*
6573542 TAAAGAAAAGAAAAAG
1 -AAAAAAAAG-AAAAG
*
6573558 AATAAAAAGAAAAG
1 AAAAAAAAGAAAAG
6573572 AAAAAAAA
1 AAAAAAAA
6573580 AATGAGAGGC
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
13 14 0.23
14 36 0.59
15 7 0.11
16 4 0.07
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.07
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:6573536 original size:23 final size:23
Alignment explanation
Indices: 6573493--6573582 Score: 112
Period size: 23 Copynumber: 3.9 Consensus size: 23
6573483 ATTTAAAAAA
6573493 AAAGAAAAG-AAAAAAAAATAAG
1 AAAGAAAAGAAAAAAAAAATAAG
* *
6573515 AAAGAAAATAAAATAAAAATAAG
1 AAAGAAAAGAAAAAAAAAATAAG
*
6573538 AAAGTAAAGAAAAGAAAAAGAATAA-
1 AAAGAAAAG-AAA-AAAAA-AATAAG
6573563 AAAGAAAAGAAAAAAAAAAT
1 AAAGAAAAGAAAAAAAAAAT
6573583 GAGAGGCCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
22 11 0.19
23 24 0.41
24 6 0.10
25 12 0.21
26 5 0.09
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (23 bp):
AAAGAAAAGAAAAAAAAAATAAG
Found at i:6574487 original size:48 final size:44
Alignment explanation
Indices: 6574466--6574576 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
6574456 AAGATCATAG
6574466 CAAACCTTATTTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTA
1 CAAACCTTATTTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTA
* ** ** *
6574510 CTAGTCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
1 CAAACCTTATTTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTA
* * *
6574554 GCGAATCTTATTTCCCAAAAGTT
1 -CAAACCTTATTTCCCTAAAGTT
6574577 ACAATGGAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
44 38 0.67
45 19 0.33
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (44 bp):
CAAACCTTATTTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTA
Found at i:6574532 original size:44 final size:45
Alignment explanation
Indices: 6574462--6575767 Score: 259
Period size: 45 Copynumber: 28.8 Consensus size: 45
6574452 ATTGAAGATC
* * **
6574462 ATAGCAAACCTTATTTCCCTAAAGTTGCAGTGGAGCAGGTTGAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * *
6574507 TTA-CTAGTCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * * *
6574551 ATAGCGAATCTTATTTCCCAAAAGTTACAATGGAACAGATTAAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * ** * * **
6574596 CTAAATTGC-AGATCTTATCTCTTTGAAGTTACAGT--AG-AGTA-T-ATC
1 ----ATAGCGA-ATCTTATTTCCCTAAAGTTGCAGTGGAGCAG-ACTGAAG
* * * **
6574641 ATAGCAAAACTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * * * * *
6574686 TTA-CTAGTCTTATCTCCCTTACGTTGCAGTGAAGCAGACTAAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * * *
6574730 ATAGTGAATCTTATTTCCCTGAAGTTACAGTGGAACAAATTGAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * *
6574775 CTATAATTGC-ATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---C
1 --AT-A--GCGA-ATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * **
6574821 ATAGCAAAAT-TTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAG
1 ATAGC-GAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * *
6574866 TTA-C-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 ATAGCGAA-TCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
** * * * * * *
6574910 ATAATGAATCTTATTTTCCTGAAGTTGTAGTGGAACAGATTAAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * * * *
6574955 CTATAAATTAC-AGATCTTATCTCTC-AGAGGTTACAGTAGAGCAGA-T---C
1 --AT--A--GCGA-ATCTTATTTCCCTA-AAGTTGCAGTGGAGCAGACTGAAG
* * * * * * * ** * *
6575002 ATATCAAACCTTATCTCCCTGAAGTTGTAGTGGAACAGGTTAAAA
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * * * * *
6575047 ATAAACCAACCTTATCTCCCCAAAGTTACAGTGGAGCAAATTGAAG
1 AT-AGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * * * * *
6575093 ATGGGCTACAAATCGTATCTT-CCTAAAGTTGCAGTGAAACATATTAAAG
1 AT-AG---CGAATCTTAT-TTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
** * * * *
6575142 CCA-C-AAACATTATCTCCCTGAAGTTGCAGCGGAGCAGGACTGAAG
1 ATAGCGAATC-TTATTTCCCTAAAGTTGCAGTGGAGCA-GACTGAAG
* * ** *
6575187 TTAACGAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTGAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * *
6575232 CTATAAATTGC-AGATCTTATCTCCCTAAAGTTGTAGTAGAGTAGACTAAAG
1 --AT--A--GCGA-ATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * * *
6575283 ATAACGAATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTAAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * * * ** * *
6575328 CTA-CAAATTACAATTCAGATCCCCATGAAGTTGCAGTGGAACAGGTTAAAA
1 ATAGCGAA-T-C--TT-A-TTTCCC-TAAAGTTGCAGTGGAGCAGACTGAAG
* * * * * * *
6575379 ATAAAC-AGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T---C
1 AT-AGCGA-ATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * *
6575421 ATAGC-AATCTTTATCTCCCTAAAGTTGCAGTAGAGCATG-TTGAAG
1 ATAGCGAATC-TTATTTCCCTAAAGTTGCAGTGGAGCA-GACTGAAG
* * * * * * *
6575466 TTA-CTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAA
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * *
6575510 ATAGCTAGTCTTATTTCCTTAAAGTTGTAGTGGAGTAGACTGAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * *
6575555 ATAGCGAATCTTATTTTCCTGAAGTTACAGTGGAACAGATTGAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * *
6575600 CTAAATTA-C-AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---C
1 ----A-TAGCGA-ATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * **
6575645 ATATC-AAGCCTTATTTCCCTGAAGTTACAGTGGAGCAGGTTGAAG
1 ATAGCGAA-TCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * *
6575690 TTA-CTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * *
6575734 ATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGA
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGA
6575768 ACGAATTGAA
Statistics
Matches: 928, Mismatches: 238, Indels: 190
0.68 0.18 0.14
Matches are distributed among these distances:
40 6 0.01
41 128 0.14
42 13 0.01
43 11 0.01
44 200 0.22
45 259 0.28
46 80 0.09
47 13 0.01
48 7 0.01
49 88 0.09
50 37 0.04
51 81 0.09
52 3 0.00
53 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (45 bp):
ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
Found at i:6574857 original size:41 final size:43
Alignment explanation
Indices: 6574787--6576554 Score: 245
Period size: 44 Copynumber: 39.7 Consensus size: 43
6574777 ATAATTGCAT
* *
6574787 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAG-CA-AA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCA-AGTCACAA
* * * *
6574829 AT-TTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATCAAGTCACAA
* * * **
6574872 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAATGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG-TCACAA
* * * * * * *
6574917 ATCTTATTTTCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATTACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T----C---AAGTCACAA
* * * * *
6574968 ATCTTATCTCTCAGAGGTTACAGTAGAGCAGATC-A-T-ATCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGTCA-CAA
* * * * * * * *
6575009 ACCTTATCTCCCTGAAGTTGTAGTGGAACAGGTTAAAAATAAACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GAT-CAAGT-CACAA
* ** * * *
6575055 ACCTTATCTCCCCAAAGTTACAGTGGAGCAAATTGAAGATGGGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG-T---C-ACAA
* * * * * * * *
6575104 ATCGTATCTTCCTAAAGTTGCAGTGAAACATATTAAAGCCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAGTCACAA
* * * *
6575148 A-CATTATCTCCCTGAAGTTGCAGCGGAGCAGGACTGAAGTTAACGA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGCA-GA-TCAAG-TCACAA
* * ** * * *
6575194 ATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATTGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG---T-CA---CAA
* * * * * * *
6575245 ATCTTATCTCCCTAAAGTTGTAGTAGAGTAGACTAAAGATAACGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG-TCACAA
* * * *
6575290 ATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTAAAG-CTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAGTC-ACAA
* * * * * *
6575334 ATTACAATTCAGATC-CCCATGAAGTTGCAGTGGAACAGGTTAAAAATAAACAG
1 A-T-C--TT---ATCTCCC-TGAAGTTGCAGTGGAGCA-GAT-CAAGT-CACAA
* * *
6575387 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATC-A-T-AGC-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGTCA-CAA
* * * * * *
6575427 ATCTTTATCTCCCTAAAGTTGCAGTAGAGCATGTTGAAGTTACTA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGCA-GATCAAGTCACAA
* * * * *
6575472 GTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAAT-AGCTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-CAAGTCA-CAA
* * * * * * * *
6575517 GTCTTATTTCCTTAAAGTTGTAGTGGAGTAGACTGAAGAT-AGCGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG-TCA-CAA
* * * * * * *
6575562 ATCTTATTTTCCTGAAGTTACAGTGGAACAGATTGAAGCTAAATTACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T----C-AAGTCACAA
* *
6575611 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-A-T-ATCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGTCA-CAA
** * * * * * *
6575652 GCCTTATTTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATCAAGTCACAA
* * *
6575696 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG-TCA-CAA
* * * * * * *
6575741 ATCTTATTTCTCTGAAGTTGCAGTGGAACGAATTGAAGCTATAAATTACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGG-A-GCA--G-A--T-CAAGTCACAA
* * *
6575792 ATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATC-A-T-ATCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGTCA-CAA
** * * * * * *
6575833 GCCTTATTTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATCAAGTCACAA
* * *
6575877 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-C---TGA-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGTCACAA
* * * *
6575915 A-CTTATCTCCCT-AA-----AGTAGATCATATCAAGTCT---
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGTCACAA
* * * * *
6575948 ----TATCCCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATCAAGTCACAA
* * * *
6575988 GTCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGAT-AGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG-TCA-CAA
* * * * * * * *
6576033 ATCTTATTTTCCTGAAGTTGTAGTGGAACAAATTGAAGCTAAATTGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG-T-CA---CAA
* * *
6576082 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATC-A-T-ATCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGTCA-CAA
** * * * * * *
6576123 GCCTTATTTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATCAAGTCACAA
* *
6576167 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG-TCA-CAA
* * * * * * *
6576212 ATCTTATTTCTCTGAAGTTGCAGTGGAACGAATTGAAGCTATAAATTACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGG-A-GCA--G-A--T-CAAGTCACAA
* * **
6576263 ATCCTATCTCTCTGAAGTTGCAGTAAAGCAGATC-A-T-AGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGTCA-CAA
* * * * * * *
6576304 ACCTTATCTCCCTGAATTTGTAGTGGAGCAAGTTGAAGTTACGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATCAAGTCACAA
* * * * * * *
6576348 GTCTTATCTCCCTAAAATTGCAGTAGAGCAAGTTGAAGTTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATCAAGTCACAA
* * * * * *
6576392 GTCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAG-CTATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAGTC-ACAA
** * **
6576436 GCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAG-CTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATCAAGTC-ACAA
* * * * * *
6576480 ATTTTATCTCCCTGAAGCTACAGTGGAGTAGATTAAATCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGTC-ACAA
** *
6576524 ATCTTATCTCATTAAAGTTGCAGTGGAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
6576555 GTTGAAATTA
Statistics
Matches: 1273, Mismatches: 317, Indels: 270
0.68 0.17 0.15
Matches are distributed among these distances:
30 8 0.01
31 10 0.01
32 1 0.00
35 1 0.00
36 9 0.01
37 16 0.01
39 2 0.00
40 8 0.01
41 182 0.14
42 23 0.02
43 22 0.02
44 387 0.30
45 243 0.19
46 79 0.06
47 13 0.01
48 8 0.01
49 99 0.08
50 11 0.01
51 134 0.11
52 13 0.01
53 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGTCACAA
Found at i:6574877 original size:180 final size:180
Alignment explanation
Indices: 6574457--6575042 Score: 841
Period size: 180 Copynumber: 3.3 Consensus size: 180
6574447 GATGGATTGA
* * *
6574457 AGATCATAGCAAACCTTATTTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATTT
1 AGATCATAGCAAAACTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
* ** *
6574522 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCAAAAGTTACAATGGAAC
66 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTACAGTGGAAC
* *
6574587 AGATTAAAGCTA-AATTGCAGATCTTATCTCTTTGAAGTTACAGTAGAGT
131 AGATTAAAGCTATAATTGCAGATCTTATCTCTCTGAAGTTACAGTAGAGC
*
6574636 ATATCATAGCAAAACTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
1 AGATCATAGCAAAACTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
* * * *
6574701 CCCTTACGTTGCAGTGAAGCAGACTAAAGATAGTGAATCTTATTTCCCTGAAGTTACAGTGGAAC
66 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTACAGTGGAAC
* * * *
6574766 AAATTGAAGCTATAATTGCATATCTTATCTCTCTGAAGTTGCAGTAGAGC
131 AGATTAAAGCTATAATTGCAGATCTTATCTCTCTGAAGTTACAGTAGAGC
* * * *
6574816 AGATCATAGCAAAATTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCT
1 AGATCATAGCAAAACTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
* * * **
6574881 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATAATGAATCTTATTTTCCTGAAGTTGTAGTGGAAC
66 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTACAGTGGAAC
* * *
6574946 AGATTAAAGCTATAAATTACAGATCTTATCTCTCAGAGGTTACAGTAGAGC
131 AGATTAAAGCTAT-AATTGCAGATCTTATCTCTCTGAAGTTACAGTAGAGC
* * * * *
6574997 AGATCATATCAAACCTTATCTCCCTGAAGTTGTAGTGGAACAGGTT
1 AGATCATAGCAAAACTTATCTCCCTAAAGTTGCAGTGGAGCAGGTT
6575043 AAAAATAAAC
Statistics
Matches: 361, Mismatches: 44, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
179 128 0.35
180 161 0.45
181 72 0.20
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (180 bp):
AGATCATAGCAAAACTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTACAGTGGAAC
AGATTAAAGCTATAATTGCAGATCTTATCTCTCTGAAGTTACAGTAGAGC
Found at i:6575327 original size:45 final size:44
Alignment explanation
Indices: 6575245--6575915 Score: 273
Period size: 45 Copynumber: 14.9 Consensus size: 44
6575235 TAAATTGCAG
* * * * * *
6575245 ATCTTATCTCCCTAAAGTTGTAGTAGAGTAGACTAAAGATAACGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAAC-A
* * * * *
6575290 ATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTAAAGCT-ACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAAC-A
* * * *
6575334 ATTACAATTCAGATC-CCCATGAAGTTGCAGTGGAACAGGTTAAAAATAAACA
1 A-T-C--TT---ATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGAT-AACA
* * ** *
6575386 GATCTTATCTCTCTGAAGTTGCAGT--AG-AG-TAGATCATAGCA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * *
6575427 ATCTTTATCTCCCTAAAGTTGCAGTAGAGCATG-TTGAAG-TTACTA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATAAC-A
* * * * *
6575472 GTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAATAGCTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAAC-A
* * * * * * * *
6575517 GTCTTATTTCCTTAAAGTTGTAGTGGAGTAGACTGAAGATAGCGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAAC-A
* * * * *
6575562 ATCTTATTTTCCTGAAGTTACAGTGGAACAGATTGAAGCTAAATTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----ATAACA
* * * *
6575610 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATATCA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * * *
6575651 AGCCTTATTTCCCTGAAGTTACAGTGGAGCAGGTTGAAG-TTACTA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAAC-A
* * * *
6575696 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAAC-A
* * *
6575741 ATCTTATTTCTCTGAAGTTGCAGTGGAAC-GAATTGAAGCTATAAATTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAG--AT--A--ACA
* * * * *
6575791 GATCCTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATATCA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * * *
6575832 AGCCTTATTTCTCTGAAGTTGCAGTGGAGCAGGTTGAAG-TTACTA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAAC-A
* *
6575877 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
6575916 CTTATCTCCC
Statistics
Matches: 471, Mismatches: 107, Indels: 96
0.70 0.16 0.14
Matches are distributed among these distances:
40 5 0.01
41 79 0.17
42 6 0.01
43 6 0.01
44 104 0.22
45 150 0.32
46 16 0.03
47 4 0.01
48 4 0.01
49 32 0.07
50 5 0.01
51 54 0.11
52 3 0.01
53 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
Found at i:6575723 original size:179 final size:180
Alignment explanation
Indices: 6575474--6575915 Score: 683
Period size: 181 Copynumber: 2.5 Consensus size: 180
6575464 AGTTACTAGT
* * ** ** * * *
6575474 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAATAGCTAGTCTTATTTCCTTAAAGTTGTA
1 CTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CTAGTCTTATCTCCCTAAAGTTGCA
* *
6575539 GTGGAGTAGACTGAAGATAGCGAATCTTATTT-TCCTGAAGTTACAGTGGAAC-AGATTGAAGC-
65 GTGGAGCAGACTGAAGATAGCAAATCTTATTTCT-CTGAAGTTACAGTGGAACGA-ATTGAAGCA
*
6575601 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAGC
128 TAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAGC
*
6575654 CTTATTTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCCTAAAGTTGCAG
1 CTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCCTAAAGTTGCAG
*
6575719 TGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACGAATTGAAGCTATA
66 TGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTGAAGTTACAGTGGAACGAATTGAAGC-ATA
6575784 AATTACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAGC
130 AATTACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAGC
* *
6575835 CTTATTTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCCTAAAGTTGCAG
6575900 TGGAGCAGACTGAAGA
66 TGGAGCAGACTGAAGA
6575916 CTTATCTCCC
Statistics
Matches: 241, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
179 77 0.32
180 34 0.14
181 130 0.54
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (180 bp):
CTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCCTAAAGTTGCAG
TGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTGAAGTTACAGTGGAACGAATTGAAGCATAA
ATTACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAGC
Found at i:6575959 original size:111 final size:111
Alignment explanation
Indices: 6575821--6576026 Score: 358
Period size: 111 Copynumber: 1.9 Consensus size: 111
6575811 GCAGTAGAGC
** *
6575821 AGATCATATCAAGCCTTATTTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
1 AGATCATATCAAGCCTTATCCCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
6575886 CCCTGAAGTTGCAGTGGAGCAGACTGAAGACTTATCTCCCTAAAGT
66 CCCTGAAGTTGCAGTGGAGCAGACTGAAGACTTATCTCCCTAAAGT
*
6575932 AGATCATATCAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
1 AGATCATATCAAGCCTTATCCCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
* *
6575997 CCTTGAAGTTGCAGTGGAGTAGACTGAAGA
66 CCCTGAAGTTGCAGTGGAGCAGACTGAAGA
6576027 TAGCAAATCT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 89 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (111 bp):
AGATCATATCAAGCCTTATCCCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
CCCTGAAGTTGCAGTGGAGCAGACTGAAGACTTATCTCCCTAAAGT
Found at i:6575992 original size:44 final size:44
Alignment explanation
Indices: 6575941--6576593 Score: 396
Period size: 44 Copynumber: 14.7 Consensus size: 44
6575931 TAGATCATAT
* *
6575941 CAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * *
6575985 CTAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGATA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * * * *
6576029 GCAAATCTTATTTTCCTGAAGTTGTAGTGGAACAAATTGAAGCTA
1 -CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * *
6576074 AATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA-AAT-CA--TA
1 CA----AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * *
6576119 TCAAGCCTTATTTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTA
1 -CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * *
6576164 CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * *
6576208 GCAAATCTTATTTCTCTGAAGTTGCAGTGGAAC-GAATTGAAGCTATAAA
1 -CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAG-T-T--A
* * * ** *
6576257 TTACAGATCCTATCTCTCTGAAGTTGCAGTAAAGCAGA-T-CA--TA
1 -CA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
** * *
6576300 GCAAACCTTATCTCCCTGAATTTGTAGTGGAGCA-AGTTGAAGTTA
1 -CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGTTA
* * * *
6576345 CGAGTCTTATCTCCCTAAAATTGCAGTAGAGCA-AGTTGAAGTTA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGTTA
* * * *
6576389 CAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCTA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * * *
6576433 TAGGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGGAGCTA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * * *
6576477 CAAATTTTATCTCCCTGAAGCTACAGTGGAGTAGATT-AAATCTA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TA
* ** * * *
6576521 CAAATCTTATCTCATTAAAGTTGCAGTGGAGCAGGTTGAAATTA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
** * *
6576565 CATTTCCTATAC-CCCTGAAGTTACAGTGG
1 CAAGTCTTAT-CTCCCTGAAGTTGCAGTGG
6576594 GTTAGAATGA
Statistics
Matches: 463, Mismatches: 117, Indels: 58
0.73 0.18 0.09
Matches are distributed among these distances:
40 1 0.00
41 46 0.10
42 5 0.01
43 5 0.01
44 268 0.58
45 79 0.17
46 1 0.00
47 2 0.00
48 3 0.01
49 26 0.06
50 2 0.00
51 24 0.05
52 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
Found at i:6576012 original size:292 final size:290
Alignment explanation
Indices: 6575640--6576205 Score: 972
Period size: 290 Copynumber: 1.9 Consensus size: 290
6575630 GCAGTAGAGC
**
6575640 AGATCATATCAAGCCTTATTTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
1 AGATCATATCAAGCCTTATCCCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
6575705 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTA-TTTCTCTGAAGTTGCAGTGGAA
66 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTC-CTGAAGTTGCAGTGGAA
* *
6575769 CGAATTGAAGCTATAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAG
130 CAAATTGAAGC--TAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAAATCATATCAAG
* *
6575834 CCTTATTTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCCTGAAGTTGCA
193 CCTTATTTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTACTAGTCTTATCTCCCTGAAGTTGCA
6575899 GTGGAGCAGACTGAAGACTTATCTCCCTAAAGT
258 GTGGAGCAGACTGAAGACTTATCTCCCTAAAGT
* *
6575932 AGATCATATCAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
1 AGATCATATCAAGCCTTATCCCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
* * * *
6575997 CCTTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATTTTCCTGAAGTTGTAGTGGAAC
66 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAAC
* *
6576062 AAATTGAAGCTAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCATATCAAGCCT
131 AAATTGAAGCTAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAAATCATATCAAGCCT
6576127 TATTTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTACTAGTCTTATCTCCCTGAAGTTGCAGTG
196 TATTTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTACTAGTCTTATCTCCCTGAAGTTGCAGTG
6576192 GAGCAGACTGAAGA
261 GAGCAGACTGAAGA
6576206 TAGCAAATCT
Statistics
Matches: 259, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
290 129 0.50
292 126 0.49
293 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (290 bp):
AGATCATATCAAGCCTTATCCCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACTAGTCTTATCT
CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAAC
AAATTGAAGCTAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAAATCATATCAAGCCT
TATTTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTACTAGTCTTATCTCCCTGAAGTTGCAGTG
GAGCAGACTGAAGACTTATCTCCCTAAAGT
Found at i:6576166 original size:179 final size:180
Alignment explanation
Indices: 6575934--6576377 Score: 667
Period size: 179 Copynumber: 2.5 Consensus size: 180
6575924 CCTAAAGTAG
* *
6575934 ATCATATCAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCC
1 ATCATATCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCC
* * *
6575999 TTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATTT-TCCTGAAGTTGTAGTGGAACA
66 CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCT-CTGAAGTTGCAGTGGAACA
* * *
6576063 AATTGAAGC-TAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAA
130 AATTGAAGCATAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAAAGCAA
* *
6576113 ATCATATCAAGCCTTATTTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTACTAGTCTTATCTCC
1 ATCATATCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCC
*
6576178 CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACGA
66 CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAA
*
6576243 ATTGAAGCTATAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAAAGCAG
131 ATTGAAGC-ATAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAAAGCAA
* * * * * *
6576294 ATCATAGCAAACCTTATCTCCCTGAATTTGTAGTGGAGCAAGTTGAAGTTACGAGTCTTATCTCC
1 ATCATATCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCC
* * *
6576359 CTAAAATTGCAGTAGAGCA
66 CTGAAGTTGCAGTGGAGCA
6576378 AGTTGAAGTT
Statistics
Matches: 239, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
179 128 0.54
180 1 0.00
181 110 0.46
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (180 bp):
ATCATATCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCC
CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAA
ATTGAAGCATAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAAAGCAA
Found at i:6576454 original size:471 final size:469
Alignment explanation
Indices: 6575514--6576377 Score: 1413
Period size: 471 Copynumber: 1.8 Consensus size: 469
6575504 CTGAAAATAG
* * *
6575514 CTAGTCTTATTTCCTTAAAGTTGTAGTGGAGTAGACTGAAGATAGCGAATCTTATTTTCCTGAAG
1 CTAGTCTTATCTCCTTAAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATTTTCCTGAAG
* *
6575579 TTACAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
66 TTACAGTGGAACAAATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAAT
*
6575644 CATATCAAGCCTTATTTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCCT
131 CATATCAAGCCTTATTTCCCTGAAGTTACAGTGGAACAGGTTGAAGTTACTAGTCTTATCTCCCT
6575709 AAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACGAAT
196 AAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACGAAT
* * *
6575774 TGAAGCTATAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAGCCTTA
261 TGAAGCTATAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAAAGCAGATCATAGCAAACCTTA
* * * * * * *
6575839 TTTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCCTGAAGTTGCAGTGGA
326 TCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACGAGTCTTATCTCCCTAAAATTGCAGTAGA
* * * ** *
6575904 GCAGACTGAAGACTTATCTCCCTAAAGTAGATCATATCAAGTCTTATCCCCCTGAAGTTGCAGTG
391 GCAGACTGAAGACTTATCTCCCTAAAGTAGATCAGAGCAAGTATTA-CAACCTGAAG-TGCACTG
***
6575969 GAGCAGGTTGAAGTTA
454 GAGCACCCTGAAGTTA
*
6575985 CTAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATTTTCCTGAAG
1 CTAGTCTTATCTCCTTAAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATTTTCCTGAAG
** *
6576050 TTGTAGTGGAACAAATTGAAGCTAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAAT
66 TTACAGTGGAACAAATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAAT
*
6576115 CATATCAAGCCTTATTTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTACTAGTCTTATCTCCCT
131 CATATCAAGCCTTATTTCCCTGAAGTTACAGTGGAACAGGTTGAAGTTACTAGTCTTATCTCCCT
*
6576180 GAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACGAAT
196 AAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACGAAT
6576245 TGAAGCTATAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAAAGCAGATCATAGCAAACCTTA
261 TGAAGCTATAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAAAGCAGATCATAGCAAACCTTA
* *
6576310 TCTCCCTGAATTTGTAGTGGAGCAAGTTGAAGTTACGAGTCTTATCTCCCTAAAATTGCAGTAGA
326 TCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACGAGTCTTATCTCCCTAAAATTGCAGTAGA
6576375 GCA
391 GCA
6576378 AGTTGAAGTT
Statistics
Matches: 369, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
471 369 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (469 bp):
CTAGTCTTATCTCCTTAAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATTTTCCTGAAG
TTACAGTGGAACAAATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAAT
CATATCAAGCCTTATTTCCCTGAAGTTACAGTGGAACAGGTTGAAGTTACTAGTCTTATCTCCCT
AAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACGAAT
TGAAGCTATAAATTACAGATCCTATCTCTCTGAAGTTGCAGTAAAGCAGATCATAGCAAACCTTA
TCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACGAGTCTTATCTCCCTAAAATTGCAGTAGA
GCAGACTGAAGACTTATCTCCCTAAAGTAGATCAGAGCAAGTATTACAACCTGAAGTGCACTGGA
GCACCCTGAAGTTA
Found at i:6579093 original size:32 final size:32
Alignment explanation
Indices: 6579057--6579120 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
6579047 CCCGAAACTA
6579057 CTATTTTCGACACCACTGAAAACTGAGTCGTT
1 CTATTTTCGACACCACTGAAAACTGAGTCGTT
6579089 CTATTTTCGACACCACTGAAAACTGAGTCGTT
1 CTATTTTCGACACCACTGAAAACTGAGTCGTT
6579121 ACAAAAAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (32 bp):
CTATTTTCGACACCACTGAAAACTGAGTCGTT
Found at i:6588024 original size:9 final size:9
Alignment explanation
Indices: 6588010--6588039 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
6588000 CAATTATAAA
6588010 TTTTTATAT
1 TTTTTATAT
6588019 TTTTTATAAT
1 TTTTTAT-AT
6588029 TTTTTATAT
1 TTTTTATAT
6588038 TT
1 TT
6588040 GTGTTATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTATAT
Found at i:6588025 original size:19 final size:19
Alignment explanation
Indices: 6588003--6588039 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6587993 CTACCAACAA
6588003 TTATAAATTTTTATATTTT
1 TTATAAATTTTTATATTTT
*
6588022 TTATAATTTTTTATATTT
1 TTATAAATTTTTATATTT
6588040 GTGTTATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATAAATTTTTATATTTT
Found at i:6588134 original size:21 final size:20
Alignment explanation
Indices: 6588066--6588134 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
6588056 TTTTATTATT
*
6588066 AAAAAAAATCTAAAAATATATA
1 AAAAAAAATCT-AAAAT-TTTA
* * *
6588088 ATAAAAAACTCCCAAAATTTTG
1 A-AAAAAAAT-CTAAAATTTTA
6588110 AAAAAAAATCTAAAATTTCTA
1 AAAAAAAATCTAAAATTT-TA
6588131 AAAA
1 AAAA
6588135 TACCTAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
20 8 0.22
21 12 0.32
22 4 0.11
23 12 0.32
24 1 0.03
ACGTcount: A:0.64, C:0.10, G:0.01, T:0.25
Consensus pattern (20 bp):
AAAAAAAATCTAAAATTTTA
Found at i:6588962 original size:24 final size:25
Alignment explanation
Indices: 6588930--6588988 Score: 93
Period size: 24 Copynumber: 2.4 Consensus size: 25
6588920 TTTAAAATAC
*
6588930 TTTTAAAATAATTTTT-ATTTTTAT
1 TTTTAAAATAATTTTTAATGTTTAT
6588954 TTTTAAAATAATTTTTAATGTTTAT
1 TTTTAAAATAATTTTTAATGTTTAT
*
6588979 TTTAAAAATA
1 TTTTAAAATA
6588989 GGACGGGCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTAAAATAATTTTTAATGTTTAT
Found at i:6588967 original size:12 final size:12
Alignment explanation
Indices: 6588919--6588971 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
6588909 AATTTTTAAA
*
6588919 TTTTAAAAT-AC
1 TTTTAAAATAAT
6588930 TTTTAAAATAAT
1 TTTTAAAATAAT
*** *
6588942 TTTTATTTTTAT
1 TTTTAAAATAAT
6588954 TTTTAAAATAAT
1 TTTTAAAATAAT
6588966 TTTTAA
1 TTTTAA
6588972 TGTTTATTTT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
11 9 0.28
12 23 0.72
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:6589676 original size:17 final size:17
Alignment explanation
Indices: 6589650--6589687 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6589640 GATTTCGGGG
*
6589650 AAATGGCCCATTCCGGT
1 AAATGACCCATTCCGGT
*
6589667 AAATGACCCATTCCTGT
1 AAATGACCCATTCCGGT
6589684 AAAT
1 AAAT
6589688 AATAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (17 bp):
AAATGACCCATTCCGGT
Found at i:6594273 original size:41 final size:40
Alignment explanation
Indices: 6594170--6594341 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
6594160 GAAATTCGAG
* *
6594170 ATAGCTTCGATTAT-TAATGGCACTTAGTGT-GCAATT-TGGA
1 ATAGCTTCGACTATGTAA-GGCACTTAGTGTGGGAATTAT--A
* * * *
6594210 ATAGCTTTGGCTATATATGGCACTTAGTGTGGGGAATTATA
1 ATAGCTTCGACTATGTAAGGCACTTAGTGT-GGGAATTATA
6594251 ATAGCTTCGACTATGTAAGGCACTTAGTGTGTGGAATTATA
1 ATAGCTTCGACTATGTAAGGCACTTAGTGTG-GGAATTATA
* * * **
6594292 ATAGCTTTGGCTAGGTAAGGCACTTAGTGTGCAAAATTATA
1 ATAGCTTCGACTATGTAAGGCACTTAGTGTG-GGAATTATA
*
6594333 ATAACTTCG
1 ATAGCTTCG
6594342 GGTATATGAT
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
40 24 0.22
41 80 0.73
42 5 0.05
43 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (40 bp):
ATAGCTTCGACTATGTAAGGCACTTAGTGTGGGAATTATA
Found at i:6594318 original size:82 final size:80
Alignment explanation
Indices: 6594170--6594341 Score: 204
Period size: 82 Copynumber: 2.1 Consensus size: 80
6594160 GAAATTCGAG
* * *
6594170 ATAGCTTCGATTATTAATGGCACTTAGTGTGCAATTTGGAATAGCTTTGGCTATATATGGCACTT
1 ATAGCTTCGACTATTAATGGCACTTAGTGTGCAATTT-GAATAGCTTTGGCTAGATAAGGCACTT
***
6594235 AGTGTGGGGAATTATA
65 AGTGTGCAAAATTATA
* *
6594251 ATAGCTTCGACTATGTAA-GGCACTTAGTGTGTGGAATTAT-AATAGCTTTGGCTAGGTAAGGCA
1 ATAGCTTCGACTAT-TAATGGCACTTA--GTGTGCAATT-TGAATAGCTTTGGCTAGATAAGGCA
6594314 CTTAGTGTGCAAAATTATA
62 CTTAGTGTGCAAAATTATA
*
6594333 ATAACTTCG
1 ATAGCTTCG
6594342 GGTATATGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
81 21 0.27
82 47 0.60
83 9 0.12
84 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (80 bp):
ATAGCTTCGACTATTAATGGCACTTAGTGTGCAATTTGAATAGCTTTGGCTAGATAAGGCACTTA
GTGTGCAAAATTATA
Found at i:6597165 original size:26 final size:26
Alignment explanation
Indices: 6597108--6597165 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
6597098 GCAACTCTTA
*
6597108 TGAGCATCCCGTTAAATGGCTCTTTG
1 TGAGCTTCCCGTTAAATGGCTCTTTG
6597134 TGAGCTTCCCGATTAAA-GGCTCTTTG
1 TGAGCTTCCCG-TTAAATGGCTCTTTG
6597160 TGAGCT
1 TGAGCT
6597166 AATTGATATG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (26 bp):
TGAGCTTCCCGTTAAATGGCTCTTTG
Found at i:6600190 original size:21 final size:21
Alignment explanation
Indices: 6600165--6600208 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6600155 TTATAAAAAT
*
6600165 ATAAAATTAAAATTAAATTAA
1 ATAAAAATAAAATTAAATTAA
* *
6600186 ATAAAAATAGATTTAAATTAA
1 ATAAAAATAAAATTAAATTAA
6600207 AT
1 AT
6600209 TTCAATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
ATAAAAATAAAATTAAATTAA
Found at i:6600837 original size:2 final size:2
Alignment explanation
Indices: 6600830--6600886 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
6600820 TTCTGTATGT
6600830 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6600872 TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC T
6600887 AATTTTATCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6616681 original size:9 final size:9
Alignment explanation
Indices: 6616667--6616716 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
6616657 ATTAATATCC
*
6616667 AAATAAGTA
1 AAATAAATA
6616676 AAATAAAATA
1 AAAT-AAATA
6616686 AAATAAA-A
1 AAATAAATA
*
6616694 TAATAAATA
1 AAATAAATA
*
6616703 AAGTAAA-A
1 AAATAAATA
6616711 AAATAA
1 AAATAA
6616717 TAATAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
8 13 0.38
9 13 0.38
10 8 0.24
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (9 bp):
AAATAAATA
Found at i:6616684 original size:5 final size:5
Alignment explanation
Indices: 6616674--6616724 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
6616664 TCCAAATAAG
*
6616674 TAAAA TAAAA TAAAA TAAAA TAATAAA TAAAG T-AAA -AAAA TAATAA
1 TAAAA TAAAA TAAAA TAAAA T-A-AAA TAAAA TAAAA TAAAA TAA-AA
6616720 TAAAA
1 TAAAA
6616725 ATTGGGTTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 5 0.13
5 23 0.59
6 7 0.18
7 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:6616703 original size:17 final size:17
Alignment explanation
Indices: 6616675--6616716 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
6616665 CCAAATAAGT
6616675 AAAATAAAATAAAATAAA
1 AAAAT-AAATAAAATAAA
* *
6616693 ATAATAAATAAAGTAAA
1 AAAATAAATAAAATAAA
6616710 AAAATAA
1 AAAATAA
6616717 TAATAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAATAAATAAAATAAA
Found at i:6616711 original size:23 final size:21
Alignment explanation
Indices: 6616667--6616724 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 21
6616657 ATTAATATCC
6616667 AAATAAGTAAAATAAAATAAAATA
1 AAATAA-T-AAATAAAATAAAA-A
*
6616691 AAATAATAAATAAAGT-AAAA
1 AAATAATAAATAAAATAAAAA
6616711 AAATAAT-AATAAAA
1 AAATAATAAATAAAA
6616725 ATTGGGTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 6 0.19
20 8 0.25
21 3 0.09
22 8 0.25
23 1 0.03
24 6 0.19
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (21 bp):
AAATAATAAATAAAATAAAAA
Found at i:6616726 original size:12 final size:11
Alignment explanation
Indices: 6616675--6616726 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
6616665 CCAAATAAGT
6616675 AAAATAAAAT-
1 AAAATAAAATA
6616685 AAAATAAAATA
1 AAAATAAAATA
*
6616696 ATAAATAAAGTAAA
1 A-AAATAAA--ATA
6616710 AAAATAATAATA
1 AAAATAA-AATA
6616722 AAAAT
1 AAAAT
6616727 TGGGTTGCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 10 0.29
11 1 0.03
12 14 0.40
13 6 0.17
14 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:6624677 original size:35 final size:35
Alignment explanation
Indices: 6624636--6624751 Score: 153
Period size: 35 Copynumber: 3.3 Consensus size: 35
6624626 ACTCTCTGTC
*
6624636 TGGTGTGTTTCGGTTGAATTAGCTCTTAT-AGGCAA
1 TGGTGTGTTTCGGTTGGATTAGCTCTTATGA-GCAA
* *
6624671 TGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCAC
1 TGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCAA
* * *
6624706 TGGCGTGTTTCGGTTGGATTAGCTCTTGTGAGCATT
1 TGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCA-A
6624742 TGGTGTGTTT
1 TGGTGTGTTT
6624752 TGAAGGGATT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
35 61 0.86
36 10 0.14
ACGTcount: A:0.15, C:0.12, G:0.31, T:0.42
Consensus pattern (35 bp):
TGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCAA
Found at i:6632282 original size:28 final size:28
Alignment explanation
Indices: 6632250--6632360 Score: 213
Period size: 28 Copynumber: 4.0 Consensus size: 28
6632240 CAAAATTTTA
6632250 GGGTTTGATAGTGAATTTGATGAATTTG
1 GGGTTTGATAGTGAATTTGATGAATTTG
*
6632278 GGGTTTGATAGTGAATTTGATAAATTTG
1 GGGTTTGATAGTGAATTTGATGAATTTG
6632306 GGGTTTGATAGTGAATTTGATGAATTTG
1 GGGTTTGATAGTGAATTTGATGAATTTG
6632334 GGGTTTGATAGTGAATTTGATGAATTT
1 GGGTTTGATAGTGAATTTGATGAATTT
6632361 TGACTTCGGA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 81 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (28 bp):
GGGTTTGATAGTGAATTTGATGAATTTG
Found at i:6632384 original size:33 final size:28
Alignment explanation
Indices: 6632313--6632427 Score: 106
Period size: 28 Copynumber: 4.0 Consensus size: 28
6632303 TTGGGGTTTG
* * ****
6632313 ATAGTGAATTTGATGAATTTGGGGTTTG
1 ATAGTTAATTTGATGAATTTTGGGAAAA
*
6632341 ATAGTGAATTTGATGAATTTTGACTTCGGAAAA
1 ATAGTTAATTTGATGAATTTTG-----GGAAAA
6632374 ATAGTTAATTTGATGAA-TTTGGGAAAA
1 ATAGTTAATTTGATGAATTTTGGGAAAA
*
6632401 ATAGTTAATTTGATGAATTTGGGGAAA
1 ATAGTTAATTTGATGAATTTTGGGAAA
6632428 TTATGTAAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
27 23 0.31
28 29 0.39
32 4 0.05
33 18 0.24
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (28 bp):
ATAGTTAATTTGATGAATTTTGGGAAAA
Found at i:6632399 original size:27 final size:27
Alignment explanation
Indices: 6632368--6632423 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
6632358 TTTTGACTTC
6632368 GGAAAAATAGTTAATTTGATGAATTTG
1 GGAAAAATAGTTAATTTGATGAATTTG
6632395 GGAAAAATAGTTAATTTGATGAATTTG
1 GGAAAAATAGTTAATTTGATGAATTTG
6632422 GG
1 GG
6632424 GAAATTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (27 bp):
GGAAAAATAGTTAATTTGATGAATTTG
Found at i:6632438 original size:28 final size:27
Alignment explanation
Indices: 6632368--6632439 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
6632358 TTTTGACTTC
*
6632368 GGAAAAATAGTTAATTTGATGAATTTG
1 GGAAAAATAGTAAATTTGATGAATTTG
*
6632395 GGAAAAATAGTTAATTTGATGAATTTG
1 GGAAAAATAGTAAATTTGATGAATTTG
* *
6632422 GGGAAATTATGTAAATTT
1 GGAAAAATA-GTAAATTT
6632440 TGAAAATGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 34 0.83
28 7 0.17
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (27 bp):
GGAAAAATAGTAAATTTGATGAATTTG
Found at i:6632963 original size:35 final size:35
Alignment explanation
Indices: 6632878--6633026 Score: 140
Period size: 35 Copynumber: 4.2 Consensus size: 35
6632868 TCTTTGTCTA
* * *
6632878 GTGTGTTTCGATTGAATTAA-CTCTTATGTGCACTG
1 GTGTGTTTCGATTGGA-TAAGCTCTTATGAGCAATG
* * *
6632913 GCGTATTTC-AGTTGGATGAGCTCTTATGAGCAATG
1 GTGTGTTTCGA-TTGGATAAGCTCTTATGAGCAATG
* *
6632948 GTTTGTTTCGATTGGATAAGCTCTTATGAGAAATG
1 GTGTGTTTCGATTGGATAAGCTCTTATGAGCAATG
* * * * *
6632983 GTGTGTTTTGGTTGGATTAGCTCTTGTGAGCATTTG
1 GTGTGTTTCGATTGGATAAGCTCTTATGAGCA-ATG
6633019 GTGTGTTT
1 GTGTGTTT
6633027 TGGAGGGATT
Statistics
Matches: 92, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
34 3 0.03
35 78 0.85
36 11 0.12
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.42
Consensus pattern (35 bp):
GTGTGTTTCGATTGGATAAGCTCTTATGAGCAATG
Found at i:6633028 original size:36 final size:36
Alignment explanation
Indices: 6632923--6633070 Score: 140
Period size: 35 Copynumber: 4.2 Consensus size: 36
6632913 GCGTATTTCA
* * *
6632923 GTTGGATGAGCTCTTATGAGCA-ATGGTTTGTTTCG
1 GTTGGATTAGCTCTTATGAGCATATGGTGTGTTTTG
* * *
6632958 ATTGGATAAGCTCTTATGAG-AAATGGTGTGTTTTG
1 GTTGGATTAGCTCTTATGAGCATATGGTGTGTTTTG
* *
6632993 GTTGGATTAGCTCTTGTGAGCATTTGGTGTGTTTTG
1 GTTGGATTAGCTCTTATGAGCATATGGTGTGTTTTG
** * * * *
6633029 GAGGGATT-GACTCGTATGAGCATCTGGCGTGTTATG
1 GTTGGATTAG-CTCTTATGAGCATATGGTGTGTTTTG
6633065 GTTGGA
1 GTTGGA
6633071 CTGATGATGT
Statistics
Matches: 92, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
34 1 0.01
35 47 0.51
36 44 0.48
ACGTcount: A:0.18, C:0.09, G:0.33, T:0.39
Consensus pattern (36 bp):
GTTGGATTAGCTCTTATGAGCATATGGTGTGTTTTG
Found at i:6633949 original size:12 final size:12
Alignment explanation
Indices: 6633932--6633961 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6633922 TTCAAAAGTT
6633932 ACACGGCCTAGC
1 ACACGGCCTAGC
*
6633944 ACACGGCCTGGC
1 ACACGGCCTAGC
6633956 ACACGG
1 ACACGG
6633962 GCGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:6646052 original size:16 final size:16
Alignment explanation
Indices: 6646031--6646066 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6646021 TAAGATCTTG
*
6646031 TATATCTAGATAAAAA
1 TATATCTAGAAAAAAA
*
6646047 TATATCTATAAAAAAA
1 TATATCTAGAAAAAAA
6646063 TATA
1 TATA
6646067 GACAATAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (16 bp):
TATATCTAGAAAAAAA
Found at i:6647785 original size:25 final size:25
Alignment explanation
Indices: 6647753--6647808 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
6647743 TTCTATAATT
6647753 TTTTTCTTAGCATAAAATATTTTAA
1 TTTTTCTTAGCATAAAATATTTTAA
6647778 TTTTTCTTAGCATAAAATATTTTAA
1 TTTTTCTTAGCATAAAATATTTTAA
*
6647803 GTTTTC
1 TTTTTC
6647809 ATATTAGGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (25 bp):
TTTTTCTTAGCATAAAATATTTTAA
Found at i:6651243 original size:2 final size:2
Alignment explanation
Indices: 6651238--6651270 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6651228 ATATATATAT
6651238 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6651271 TGAAAGAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6658473 original size:11 final size:11
Alignment explanation
Indices: 6658457--6658490 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
6658447 CAAGGTAGAG
6658457 ACTCACCTAAT
1 ACTCACCTAAT
6658468 ACTCACCTAAT
1 ACTCACCTAAT
6658479 ACTCACCTAAT
1 ACTCACCTAAT
6658490 A
1 A
6658491 TTGTTCTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (11 bp):
ACTCACCTAAT
Found at i:6659778 original size:3 final size:3
Alignment explanation
Indices: 6659770--6659815 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6659760 AAGGGCTAAA
6659770 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6659816 CTACTACTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6660057 original size:8 final size:8
Alignment explanation
Indices: 6660044--6660069 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6660034 TTTTAATGAA
6660044 TATATCTT
1 TATATCTT
6660052 TATATCTT
1 TATATCTT
6660060 TATATCTT
1 TATATCTT
6660068 TA
1 TA
6660070 ATTGTTTTTA
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:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATCTT
Found at i:6670928 original size:18 final size:17
Alignment explanation
Indices: 6670896--6670937 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
6670886 GTCATTACAA
*
6670896 GTAATATTTTATATTAT
1 GTAATTTTTTATATTAT
6670913 GTAATTTTTATATATTAT
1 GTAATTTTT-TATATTAT
6670931 GTAATTT
1 GTAATTT
6670938 GTAACACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (17 bp):
GTAATTTTTTATATTAT
Found at i:6671306 original size:3 final size:3
Alignment explanation
Indices: 6671298--6671342 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
6671288 TCTTTTGGAC
6671298 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6671343 CTTAGGTTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6671460 original size:20 final size:19
Alignment explanation
Indices: 6671437--6671474 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6671427 AACATTTCTA
6671437 TTCGTTTTATTTAATTTTAT
1 TTCGTTTTATTT-ATTTTAT
*
6671457 TTCGTTTTGTTTATTTTA
1 TTCGTTTTATTTATTTTA
6671475 CTACAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.71
Consensus pattern (19 bp):
TTCGTTTTATTTATTTTAT
Found at i:6673394 original size:2 final size:2
Alignment explanation
Indices: 6673389--6673413 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6673379 TCCCCCCCCC
6673389 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
6673414 GTCCTCCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:6680462 original size:19 final size:19
Alignment explanation
Indices: 6680435--6680477 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6680425 TGAAAATAAC
*
6680435 TTTTAAAAAATAATT-TATT
1 TTTTGAAAAA-AATTATATT
*
6680454 TTTTGAAAAAATTTATATT
1 TTTTGAAAAAAATTATATT
6680473 TTTTG
1 TTTTG
6680478 TTGTTTAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTGAAAAAAATTATATT
Found at i:6680466 original size:17 final size:19
Alignment explanation
Indices: 6680441--6680475 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6680431 TAACTTTTAA
6680441 AAAATAATTTAT-TTTTTG
1 AAAATAATTTATATTTTTG
6680459 AAAA-AATTTATATTTTT
1 AAAATAATTTATATTTTT
6680476 TGTTGTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
AAAATAATTTATATTTTTG
Found at i:6680544 original size:13 final size:13
Alignment explanation
Indices: 6680526--6680551 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6680516 TATTTGACAA
6680526 ATTTCCTAAAAAT
1 ATTTCCTAAAAAT
6680539 ATTTCCTAAAAAT
1 ATTTCCTAAAAAT
6680552 TGTTTTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTCCTAAAAAT
Found at i:6690413 original size:12 final size:12
Alignment explanation
Indices: 6690396--6690425 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
6690386 CATATCTGTC
6690396 TTGTATGTATGT
1 TTGTATGTATGT
6690408 TTGTATGTATGT
1 TTGTATGTATGT
6690420 TATGTA
1 T-TGTA
6690426 CGTGCCTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (12 bp):
TTGTATGTATGT
Found at i:6695035 original size:8 final size:8
Alignment explanation
Indices: 6695022--6695050 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
6695012 TTAAAGTTAC
6695022 AAAATCAG
1 AAAATCAG
6695030 AAAATCAG
1 AAAATCAG
6695038 AAAATCAG
1 AAAATCAG
6695046 AAAAT
1 AAAAT
6695051 AGTTTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.14
Consensus pattern (8 bp):
AAAATCAG
Found at i:6696171 original size:21 final size:21
Alignment explanation
Indices: 6696146--6696186 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6696136 TAATGCAAAA
*
6696146 TTGTTGAGGATTTAGTGGAGG
1 TTGTTGAAGATTTAGTGGAGG
*
6696167 TTGTTGAAGATTTTGTGGAG
1 TTGTTGAAGATTTAGTGGAG
6696187 ATGTGGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (21 bp):
TTGTTGAAGATTTAGTGGAGG
Found at i:6702477 original size:13 final size:13
Alignment explanation
Indices: 6702461--6702490 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6702451 AGTGTTGAGT
6702461 AAAAATACTTTTA
1 AAAAATACTTTTA
*
6702474 AAAAATATTTTTA
1 AAAAATACTTTTA
6702487 AAAA
1 AAAA
6702491 TTTTGAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAAATACTTTTA
Found at i:6702757 original size:8 final size:8
Alignment explanation
Indices: 6702744--6702771 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
6702734 TATATAAACT
6702744 ATATTTAA
1 ATATTTAA
6702752 ATATTTAA
1 ATATTTAA
6702760 ATATTTAA
1 ATATTTAA
6702768 ATAT
1 ATAT
6702772 AATAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTTAA
Found at i:6704713 original size:35 final size:35
Alignment explanation
Indices: 6704667--6704737 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
6704657 TCTGTTGAAA
6704667 GTGTTGTGCAATCAACAGATGTGAGATGTGAATGT
1 GTGTTGTGCAATCAACAGATGTGAGATGTGAATGT
6704702 GTGTTGTGCAATCAACAGATGTGAGATGTGAATGT
1 GTGTTGTGCAATCAACAGATGTGAGATGTGAATGT
6704737 G
1 G
6704738 CCGTTGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.31
Consensus pattern (35 bp):
GTGTTGTGCAATCAACAGATGTGAGATGTGAATGT
Found at i:6718665 original size:9 final size:9
Alignment explanation
Indices: 6718647--6718692 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
6718637 CGAAGAAACA
*
6718647 TCATCATCC
1 TCATCGTCC
6718656 TCATCGTCC
1 TCATCGTCC
* *
6718665 TCAACGTCG
1 TCATCGTCC
*
6718674 TCATCGTCT
1 TCATCGTCC
6718683 TCATCGTCC
1 TCATCGTCC
6718692 T
1 T
6718693 TTTTGCAACC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.15, C:0.39, G:0.11, T:0.35
Consensus pattern (9 bp):
TCATCGTCC
Found at i:6720969 original size:13 final size:13
Alignment explanation
Indices: 6720951--6721011 Score: 70
Period size: 13 Copynumber: 4.6 Consensus size: 13
6720941 ATTTAATGTG
6720951 TATTAAAACAATA
1 TATTAAAACAATA
6720964 TATTAAAA-AATTA
1 TATTAAAACAA-TA
* * *
6720977 TATTTATAATAGTA
1 TA-TTAAAACAATA
6720991 TATTAAAACAATA
1 TATTAAAACAATA
6721004 TATTAAAA
1 TATTAAAA
6721012 AAGTATACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 2 0.05
13 28 0.70
14 9 0.22
15 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (13 bp):
TATTAAAACAATA
Found at i:6721018 original size:13 final size:12
Alignment explanation
Indices: 6720951--6721018 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 12
6720941 ATTTAATGTG
6720951 TATTAAAACAATA
1 TATTAAAA-AATA
6720964 TATTAAAAAATTA
1 TATTAAAAAA-TA
* *
6720977 TATTTATAATAGTA
1 TA-TTA-AAAAATA
6720991 TATTAAAACAATA
1 TATTAAAA-AATA
6721004 TATTAAAAAAGTA
1 TATTAAAAAA-TA
6721017 TA
1 TA
6721019 CATACATGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
12 6 0.13
13 30 0.65
14 7 0.15
15 3 0.07
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (12 bp):
TATTAAAAAATA
Found at i:6721148 original size:182 final size:182
Alignment explanation
Indices: 6720833--6721200 Score: 700
Period size: 182 Copynumber: 2.0 Consensus size: 182
6720823 TATATACTTA
*
6720833 TATATATACATGTATTAAAATTAAATAAACTTTCATACATAGTTTTCTAGTATTTTATTAAAAAC
1 TATACATACATGTATTAAAATTAAATAAACTTTCATACATAGTTTTCTAGTATTTTATTAAAAAC
6720898 GGTAAGTATATTAAAATTTGTTATAATACATTAGGACACCAACATTTAATGTGTATTAAAACAAT
66 GGTAAGTATATTAAAATTTGTTATAATACATTAGGACACCAACATTTAATGTGTATTAAAACAAT
*
6720963 ATATTAAAAAATTATATTTATAATAGTATATTAAAACAATATATTAAAAAAG
131 ATATTAAAAAAGTATATTTATAATAGTATATTAAAACAATATATTAAAAAAG
6721015 TATACATACATGTATTAAAATTAAATAAACTTTCATACATAGTTTTCTAGTATTTTATTAAAAAC
1 TATACATACATGTATTAAAATTAAATAAACTTTCATACATAGTTTTCTAGTATTTTATTAAAAAC
*
6721080 GGTAAGTATATTAAAATTTGTTATAATACATTAGGACACCAACATTTAATGTGTATTAAAATAAT
66 GGTAAGTATATTAAAATTTGTTATAATACATTAGGACACCAACATTTAATGTGTATTAAAACAAT
*
6721145 ATATTAAAAAAGTATATTTATAATAGTATATTAAAACAATATATTAAAACAG
131 ATATTAAAAAAGTATATTTATAATAGTATATTAAAACAATATATTAAAAAAG
6721197 TATA
1 TATA
6721201 TTACATTAAA
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 182 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (182 bp):
TATACATACATGTATTAAAATTAAATAAACTTTCATACATAGTTTTCTAGTATTTTATTAAAAAC
GGTAAGTATATTAAAATTTGTTATAATACATTAGGACACCAACATTTAATGTGTATTAAAACAAT
ATATTAAAAAAGTATATTTATAATAGTATATTAAAACAATATATTAAAAAAG
Found at i:6721151 original size:13 final size:13
Alignment explanation
Indices: 6721133--6721203 Score: 72
Period size: 13 Copynumber: 5.4 Consensus size: 13
6721123 ATTTAATGTG
*
6721133 TATTAAAATAATA
1 TATTAAAACAATA
6721146 TATTAAAA-AAGTA
1 TATTAAAACAA-TA
* * *
6721159 TATTTATAATAGTA
1 TA-TTAAAACAATA
6721173 TATTAAAACAATA
1 TATTAAAACAATA
*
6721186 TATTAAAACAGTA
1 TATTAAAACAATA
6721199 TATTA
1 TATTA
6721204 CATTAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
12 2 0.04
13 37 0.76
14 9 0.18
15 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (13 bp):
TATTAAAACAATA
Found at i:6721176 original size:27 final size:26
Alignment explanation
Indices: 6721133--6721203 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
6721123 ATTTAATGTG
*
6721133 TATTAAAATAATATATTAAAA-AAGTA
1 TATTAAAATAGTATATTAAAACAA-TA
*
6721159 TATTTATAATAGTATATTAAAACAATA
1 TA-TTAAAATAGTATATTAAAACAATA
*
6721186 TATTAAAACAGTATATTA
1 TATTAAAATAGTATATTA
6721204 CATTAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 16 0.41
27 21 0.54
28 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (26 bp):
TATTAAAATAGTATATTAAAACAATA
Found at i:6721645 original size:58 final size:59
Alignment explanation
Indices: 6721575--6721686 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 59
6721565 GGCAACAACG
* * * *
6721575 AAACAAATGGAACTGTAAGGCAACAATAG-GAGGAAACAACGACATATTATAAACAGCT
1 AAACAAAGGGAACTGTAAGGCAACAATAGTAAGGAAACAACAACAGATTATAAACAGCT
* *
6721633 AAACAAAGGGAACTGTAAGGCAACATTAGTAAGGCAACAACAACAGATTATAAA
1 AAACAAAGGGAACTGTAAGGCAACAATAGTAAGGAAACAACAACAGATTATAAA
6721687 GAAGATTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 27 0.57
59 20 0.43
ACGTcount: A:0.51, C:0.15, G:0.19, T:0.15
Consensus pattern (59 bp):
AAACAAAGGGAACTGTAAGGCAACAATAGTAAGGAAACAACAACAGATTATAAACAGCT
Found at i:6721705 original size:11 final size:11
Alignment explanation
Indices: 6721674--6721711 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
6721664 AGGCAACAAC
6721674 AACAGATTATA
1 AACAGATTATA
*
6721685 AAGAAGATTATA
1 AA-CAGATTATA
6721697 AACAGATTATA
1 AACAGATTATA
6721708 AACA
1 AACA
6721712 AAAGACATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.24
Consensus pattern (11 bp):
AACAGATTATA
Found at i:6721927 original size:16 final size:15
Alignment explanation
Indices: 6721901--6721943 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
6721891 GGGTTAGGTT
6721901 AGGGAGAAATGTCGAAA
1 AGGG-GAAATG-CGAAA
*
6721918 AGGGGAAATGGGAAA
1 AGGGGAAATGCGAAA
6721933 AGGGGGAAATG
1 A-GGGGAAATG
6721944 GGTTACTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 5 0.21
16 15 0.62
17 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.44, T:0.09
Consensus pattern (15 bp):
AGGGGAAATGCGAAA
Found at i:6721944 original size:16 final size:15
Alignment explanation
Indices: 6721914--6721945 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
6721904 GAGAAATGTC
6721914 GAAAAGGGGAAATGG
1 GAAAAGGGGAAATGG
6721929 GAAAAGGGGGAAATGG
1 GAAAA-GGGGAAATGG
6721945 G
1 G
6721946 TTACTGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.50, T:0.06
Consensus pattern (15 bp):
GAAAAGGGGAAATGG
Found at i:6723825 original size:27 final size:27
Alignment explanation
Indices: 6723795--6723847 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
6723785 TTTCAGCTAG
* *
6723795 AGATGTTGGTGTCTTGGGTTCTTCTTC
1 AGATGCTGCTGTCTTGGGTTCTTCTTC
6723822 AGATGCTGCTGTCTTGGGTTCTTCTT
1 AGATGCTGCTGTCTTGGGTTCTTCTT
6723848 TGAATGATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (27 bp):
AGATGCTGCTGTCTTGGGTTCTTCTTC
Found at i:6726959 original size:3 final size:3
Alignment explanation
Indices: 6726945--6727036 Score: 96
Period size: 3 Copynumber: 29.7 Consensus size: 3
6726935 CTAATTAGTT
* * *
6726945 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
6726993 TTA TT- GTA TTTA TTA TTA TTA CTTA CCTTA TTA TTA TTT TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA -TTA --TTA TTA TTA TTA TTA TT
6727037 TACCCATTTA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
2 1 0.01
3 65 0.87
4 5 0.07
5 4 0.05
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6727047 original size:21 final size:20
Alignment explanation
Indices: 6727000--6727048 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
6726990 TTATTATTGT
6727000 ATTTATTATTATTACTTACC
1 ATTTATTATTATTACTTACC
* * *
6727020 TTATTATTATTTTTATTTACCC
1 AT-TTATTATTATTACTTA-CC
6727042 ATTTATT
1 ATTTATT
6727049 CCCCTTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 19 0.83
22 3 0.13
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTATTATTATTACTTACC
Found at i:6728244 original size:6 final size:6
Alignment explanation
Indices: 6728233--6728257 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6728223 TGGCGACTCC
6728233 CGTTTT CGTTTT CGTTTT CGTTTT C
1 CGTTTT CGTTTT CGTTTT CGTTTT C
6728258 AAAATCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.20, G:0.16, T:0.64
Consensus pattern (6 bp):
CGTTTT
Found at i:6735636 original size:2 final size:2
Alignment explanation
Indices: 6735629--6735669 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6735619 TAACAAAGAG
6735629 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6735670 CCCCTTCCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:6739440 original size:4 final size:4
Alignment explanation
Indices: 6739433--6739478 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
6739423 AAATGCAAGG
*
6739433 AAAT AAAT AAAT AAAT AAAT AAAT GAAGT AAGAT -AA- AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AA-AT AAAT AAAT AAAT AA
6739479 CTTGAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
3 3 0.08
4 29 0.81
5 4 0.11
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:6739725 original size:19 final size:21
Alignment explanation
Indices: 6739690--6739731 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
6739680 ATGCATGTAT
6739690 ATAAAAACATAAAGTATAAAA
1 ATAAAAACATAAAGTATAAAA
6739711 ATAAAAA-AT-AAGTATAAAA
1 ATAAAAACATAAAGTATAAAA
6739730 AT
1 AT
6739732 TAAAGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 2 0.10
21 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (21 bp):
ATAAAAACATAAAGTATAAAA
Found at i:6740503 original size:14 final size:15
Alignment explanation
Indices: 6740484--6740512 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6740474 GTATACAATA
6740484 TGTGTGT-TTTTTTT
1 TGTGTGTGTTTTTTT
6740498 TGTGTGTGTTTTTTT
1 TGTGTGTGTTTTTTT
6740513 CTTTTTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (15 bp):
TGTGTGTGTTTTTTT
Found at i:6746056 original size:16 final size:16
Alignment explanation
Indices: 6746035--6746073 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6746025 AATAATAGAA
6746035 ATATATAAAAACATGT
1 ATATATAAAAACATGT
* **
6746051 ATATATGAAAGTATGT
1 ATATATAAAAACATGT
6746067 ATATATA
1 ATATATA
6746074 TACAAATTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:6746359 original size:3 final size:3
Alignment explanation
Indices: 6746345--6746381 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
6746335 AAGGGAAAAT
* *
6746345 ATA ATG ATA ATA ATA ATA ATA ATA ATT ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6746382 CATCAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6748010 original size:132 final size:132
Alignment explanation
Indices: 6747773--6748013 Score: 446
Period size: 132 Copynumber: 1.8 Consensus size: 132
6747763 GATAAGATTC
* * *
6747773 CCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATA
1 CCACTACTGCTTAGGGTGATAGGACAAATGGCTTAAATCTGATTCTCCACTGTATTGGAAAGATA
*
6747838 AGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTA
66 AGATTCACCATCTTTGATCTGCTCCACTACTGATTAGGGTGACAGAATCTGCAATCTTCAACCTA
6747903 CT
131 CT
6747905 CCACTACTGCTTAGGGTGATAGGACAAATGGCTTAAATCTGATTCTCCACTGTATTGGAAAGATA
1 CCACTACTGCTTAGGGTGATAGGACAAATGGCTTAAATCTGATTCTCCACTGTATTGGAAAGATA
6747970 AGATTCACCATCTTTGATCTGCTCCACTACTGATTAGGGTGACA
66 AGATTCACCATCTTTGATCTGCTCCACTACTGATTAGGGTGACA
6748014 NNNNNNNNNN
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 105 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (132 bp):
CCACTACTGCTTAGGGTGATAGGACAAATGGCTTAAATCTGATTCTCCACTGTATTGGAAAGATA
AGATTCACCATCTTTGATCTGCTCCACTACTGATTAGGGTGACAGAATCTGCAATCTTCAACCTA
CT
Found at i:6750218 original size:88 final size:88
Alignment explanation
Indices: 6750069--6750964 Score: 1506
Period size: 88 Copynumber: 10.2 Consensus size: 88
6750059 NNNNNNNNNN
* *
6750069 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCA-CTACAATCGAGAGAGGCAAGGTTTGTGTCTT
1 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-ACAACCGAGAGAGGCAAGGTTTGTGTCTT
*
6750133 CGATCTGCTTCGCTGTCAATGCAG
65 CGACCTGCTTCGCTGTCAATGCAG
*
6750157 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGAGAGAGGCAAGGTTTGTGTCTTC
1 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTC
6750222 GACCTGCTTCGCTGTCAATGCAG
66 GACCTGCTTCGCTGTCAATGCAG
* * *
6750245 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCATAAACGAGAGAGGCAAGGTTTGTGTCTTT
1 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTC
6750310 GACCTGCTTCGCTGTCAATGCAG
66 GACCTGCTTCGCTGTCAATGCAG
* *
6750333 GAAAGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTC
1 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTC
*
6750398 GACCTGCTTCGCTGTCAATACAG
66 GACCTGCTTCGCTGTCAATGCAG
* * *
6750421 GAATGCAAGATCTTTTGTTTTCAACCAGCTCCATCACCACCGAGAGAGGCAAGGTTTGTGTCTTC
1 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTC
*
6750486 GACCTACTTCGCTGTCAATGCAG
66 GACCTGCTTCGCTGTCAATGCAG
* *
6750509 GAAGGCAAGATCTTTTGTCTTCAACCAACTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTC
1 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTC
6750574 GACCTGCTTCGCTGTCAATGCAG
66 GACCTGCTTCGCTGTCAATGCAG
*
6750597 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCCGAGAGAGGCAAGGTTTATGTCTT
1 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAA-CCGAGAGAGGCAAGGTTTGTGTCTT
6750662 CGACCTGCTTCGCTGTCAATGCAG
65 CGACCTGCTTCGCTGTCAATGCAG
* *
6750686 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCAAGAGAGGCAAGGTTTGTGTCTTC
1 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTC
* * *
6750751 AATCTGCTTCGCTGTCAATACAG
66 GACCTGCTTCGCTGTCAATGCAG
*
6750774 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAAGTTTGTGTCTTC
1 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTC
*
6750839 GACCTGCTTCGCTGTTAATGCAG
66 GACCTGCTTCGCTGTCAATGCAG
* * * *
6750862 GAAGACAAGATCTGTTGTCTTCAACCAGCTCAATCACAACCGAGAGAGGCAAGGTTTGTGTGTTC
1 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTC
*
6750927 GACCTACTTCGCTGTCAATGCAG
66 GACCTGCTTCGCTGTCAATGCAG
6750950 GAAGGCAAGATCTTT
1 GAAGGCAAGATCTTT
6750965 AACTTCGTTG
Statistics
Matches: 758, Mismatches: 48, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
88 672 0.89
89 86 0.11
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.27
Consensus pattern (88 bp):
GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTC
GACCTGCTTCGCTGTCAATGCAG
Found at i:6752198 original size:9 final size:9
Alignment explanation
Indices: 6752179--6752253 Score: 86
Period size: 9 Copynumber: 8.6 Consensus size: 9
6752169 CCATTTTTAC
6752179 TTTTTCA-T
1 TTTTTCATT
6752187 TTTTTCA-T
1 TTTTTCATT
6752195 TTTTTCATT
1 TTTTTCATT
6752204 TTTTTCA--
1 TTTTTCATT
6752211 TTTTTCATT
1 TTTTTCATT
6752220 TTTTCATCATT
1 TTTT--TCATT
6752231 TTTTTCATT
1 TTTTTCATT
**
6752240 TTCATCATT
1 TTTTTCATT
6752249 TTTTT
1 TTTTT
6752254 TGACTCAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
7 7 0.12
8 15 0.26
9 27 0.47
11 9 0.16
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTCATT
Found at i:6752215 original size:18 final size:17
Alignment explanation
Indices: 6752179--6752252 Score: 89
Period size: 16 Copynumber: 4.3 Consensus size: 17
6752169 CCATTTTTAC
6752179 TTTTTCA-TTTTTTCAT
1 TTTTTCATTTTTTTCAT
6752195 TTTTTCATTTTTTTCA-
1 TTTTTCATTTTTTTCAT
6752211 TTTTTCATTTTTTCATCATT
1 TTTTTCATTTTTT--TCA-T
**
6752231 TTTTTCATTTTCATCAT
1 TTTTTCATTTTTTTCAT
6752248 TTTTT
1 TTTTT
6752253 TTGACTCAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
16 20 0.39
17 14 0.27
18 6 0.12
20 11 0.22
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTCATTTTTTTCAT
Found at i:6752241 original size:8 final size:8
Alignment explanation
Indices: 6752179--6752226 Score: 80
Period size: 8 Copynumber: 6.0 Consensus size: 8
6752169 CCATTTTTAC
6752179 TTTTTCAT
1 TTTTTCAT
6752187 TTTTTCAT
1 TTTTTCAT
6752195 TTTTTCATT
1 TTTTTCA-T
6752204 TTTTTCA-
1 TTTTTCAT
6752211 TTTTTCAT
1 TTTTTCAT
6752219 TTTTTCAT
1 TTTTTCAT
6752227 CATTTTTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTCAT
Found at i:6753113 original size:7 final size:7
Alignment explanation
Indices: 6753101--6753125 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6753091 GACTTCGATT
6753101 TTTTTGA
1 TTTTTGA
6753108 TTTTTGA
1 TTTTTGA
6753115 TTTTTGA
1 TTTTTGA
6753122 TTTT
1 TTTT
6753126 GTTTTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (7 bp):
TTTTTGA
Found at i:6753136 original size:6 final size:6
Alignment explanation
Indices: 6753101--6753147 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
6753091 GACTTCGATT
*
6753101 TTTTTG ATTTTTG ATTTTTG ATTTTG -TTTTG TTTTT- TTTTTG TTTTT
1 TTTTTG -TTTTTG -TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
6753148 CCTTTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
5 10 0.27
6 14 0.38
7 13 0.35
ACGTcount: A:0.06, C:0.00, G:0.13, T:0.81
Consensus pattern (6 bp):
TTTTTG
Found at i:6756570 original size:16 final size:16
Alignment explanation
Indices: 6756549--6756587 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6756539 AATAATAGAA
6756549 ATATATAAAAACATGT
1 ATATATAAAAACATGT
* **
6756565 ATATATGAAAGTATGT
1 ATATATAAAAACATGT
6756581 ATATATA
1 ATATATA
6756588 TACAAATTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:6760067 original size:19 final size:19
Alignment explanation
Indices: 6760025--6760061 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6760015 ATTTCGAAAT
6760025 AAAAATAAATATAAAAAAC
1 AAAAATAAATATAAAAAAC
*
6760044 AAAAATGAATATAAAAAA
1 AAAAATAAATATAAAAAA
6760062 GGAAAACACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (19 bp):
AAAAATAAATATAAAAAAC
Found at i:6760981 original size:20 final size:20
Alignment explanation
Indices: 6760956--6760996 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6760946 CTGTTATGTC
*
6760956 AAATATAATTTGAACAATAA
1 AAATATAATTTGAAAAATAA
**
6760976 AAATATTTTTTGAAAAATAA
1 AAATATAATTTGAAAAATAA
6760996 A
1 A
6760997 TAAAATTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATATAATTTGAAAAATAA
Found at i:6764728 original size:33 final size:33
Alignment explanation
Indices: 6764691--6764757 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
6764681 ATAAATGGAG
6764691 AAATCAGTTGAAGTATTTGAAGGATATAAGAAA
1 AAATCAGTTGAAGTATTTGAAGGATATAAGAAA
6764724 AAATCAGTTGAAGTATTTGAAGGATATAAGAAA
1 AAATCAGTTGAAGTATTTGAAGGATATAAGAAA
6764757 A
1 A
6764758 GAGCTTTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.03, G:0.21, T:0.27
Consensus pattern (33 bp):
AAATCAGTTGAAGTATTTGAAGGATATAAGAAA
Found at i:6765189 original size:26 final size:26
Alignment explanation
Indices: 6765155--6765216 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
6765145 TATATTTTTA
*
6765155 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATATGTAATAATAATTATT
6765181 TTAAATTATATGTAATAATAATTATT
1 TTAAATTATATGTAATAATAATTATT
6765207 TTAAATTATA
1 TTAAATTATA
6765217 CAAATTCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TTAAATTATATGTAATAATAATTATT
Found at i:6765441 original size:25 final size:24
Alignment explanation
Indices: 6765391--6765445 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
6765381 TTATTAAATT
6765391 ATATATTTTAATTATAATATACTTA
1 ATATATTTTAATTAT-ATATACTTA
*
6765416 ATATATTTAATAATTAT-TATATTTA
1 ATATATTT--TAATTATATATACTTA
6765441 A-ATAT
1 ATATAT
6765446 GATTAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.15
25 16 0.59
27 7 0.26
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATATTTTAATTATATATACTTA
Found at i:6765679 original size:16 final size:16
Alignment explanation
Indices: 6765660--6765705 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
6765650 TTGCTATTAT
*
6765660 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
6765676 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
6765692 AATACACCTCTAAT
1 ATTACACCTCTAAT
6765706 TCAATACAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:6765710 original size:16 final size:16
Alignment explanation
Indices: 6765662--6765713 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
6765652 GCTATTATAT
*
6765662 TACACCTCT-ATTCCAT
1 TACACCTCTAATT-CAA
*
6765678 TACACCTCTAATCCAA
1 TACACCTCTAATTCAA
6765694 TACACCTCTAATTCAA
1 TACACCTCTAATTCAA
6765710 TACA
1 TACA
6765714 GAGAACCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 30 0.94
17 2 0.06
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATTCAA
Found at i:6766063 original size:17 final size:17
Alignment explanation
Indices: 6766041--6766091 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
6766031 AAACCCAAAC
6766041 GAAAATGATATTTAAAT
1 GAAAATGATATTTAAAT
6766058 GAAAATGATATTTAAAT
1 GAAAATGATATTTAAAT
* *
6766075 GAAAATAATTTTTAAAT
1 GAAAATGATATTTAAAT
6766092 ATTAAGTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (17 bp):
GAAAATGATATTTAAAT
Found at i:6769231 original size:10 final size:10
Alignment explanation
Indices: 6769216--6769240 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6769206 CTGTATGTAT
6769216 CACATTACTC
1 CACATTACTC
6769226 CACATTACTC
1 CACATTACTC
6769236 CACAT
1 CACAT
6769241 GGAACCAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.40, G:0.00, T:0.28
Consensus pattern (10 bp):
CACATTACTC
Found at i:6773482 original size:67 final size:67
Alignment explanation
Indices: 6773374--6773509 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
6773364 TGTGTATTAA
6773374 TGGAACATCACATGTAATCCATTGCATTATCTTTGAATTTAGCAGAAACAGACTCAACAAAATTA
1 TGGAACATCACATGTAATCCATTGCATTATCTTTGAATTTAGCAGAAACAGACTCAACAAAATTA
6773439 CC
66 CC
*
6773441 TGGAACATCACATGTAATCCATTGCATTATCTTTGCATTTAGCAGAAACAGACTCAACAAAATTA
1 TGGAACATCACATGTAATCCATTGCATTATCTTTGAATTTAGCAGAAACAGACTCAACAAAATTA
6773506 CC
66 CC
6773508 TG
1 TG
6773510 TTCCATTCCC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (67 bp):
TGGAACATCACATGTAATCCATTGCATTATCTTTGAATTTAGCAGAAACAGACTCAACAAAATTA
CC
Found at i:6776093 original size:14 final size:15
Alignment explanation
Indices: 6776074--6776102 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6776064 TTCACTCAAC
6776074 ATTTTTCT-TTTTGT
1 ATTTTTCTCTTTTGT
6776088 ATTTTTCTCTTTTGT
1 ATTTTTCTCTTTTGT
6776103 TTTATGACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.76
Consensus pattern (15 bp):
ATTTTTCTCTTTTGT
Found at i:6788350 original size:5 final size:5
Alignment explanation
Indices: 6788340--6788365 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6788330 ATATCATTGC
6788340 ACAAA ACAAA ACAAA ACAAA ACAAA A
1 ACAAA ACAAA ACAAA ACAAA ACAAA A
6788366 AAAGAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:6788947 original size:18 final size:17
Alignment explanation
Indices: 6788914--6788947 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6788904 GAGTGGCTTA
*
6788914 GCTTGAAAAAGAAAAAG
1 GCTTGAAAAAAAAAAAG
6788931 GCTTGGAAAAAAAAAAA
1 GCTT-GAAAAAAAAAAA
6788948 AAACTGACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.06, G:0.21, T:0.12
Consensus pattern (17 bp):
GCTTGAAAAAAAAAAAG
Found at i:6789724 original size:153 final size:151
Alignment explanation
Indices: 6789286--6790102 Score: 1075
Period size: 153 Copynumber: 5.4 Consensus size: 151
6789276 TTTAGTGTGT
* *
6789286 TTTTTATTGAAAGTAATAAAATCCGGG-AAAAAATACGAACAAAGGGCCGAAATAA-ATTTTTTT
1 TTTTT-TTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTT
*
6789349 AAAATTTATTTTAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
65 -AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
* *
6789414 ATAATAAAATAATAAAATAGTATA
129 ATAATAAAATTAGAAAATA-TATA
* *
6789438 -TTTTTTAAAAGTAATAAAATTCGGGGAAAAAAATACGAACAAAGGGCCGAAATAAAAAGTTTTT
1 TTTTTTTGAAAGTAATAAAATTC-GGGAAAAAAATACGAACAAAGGGCCGAAAT--AAGGTTTTT
*
6789502 TACTAAATTTATTT-AAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
63 T--TAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
6789566 AAAATAATAAAATTAGAAAAATATATA
126 AAAATAATAAAATTAG-AAAATATATA
*
6789593 TTTTTATTGAAAGGAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTT
1 TTTTT-TTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTT
*
6789658 AAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
65 AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
6789723 TAATAAAATTAGAAAATAGTATA
130 TAATAAAATTAGAAAATA-TATA
* *
6789746 TTTTTTT-AAAGTAATAAACTCTGGGGAAAAAAATACGAACAAAGGGCCGAAATAATGGTTTTTT
1 TTTTTTTGAAAGTAATAAAAT-TCGGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTTT
*
6789810 TAAAATTTATTT-AAAAA-ACACTAAATTAATACATTTCAAACATGATGTACTAAAATAATGTAA
64 T-AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
6789873 AATAATAAAA-TACGAAAATAATATA
128 AATAATAAAATTA-GAAAAT-ATATA
* * * * **
6789898 TTTTTATTGAAAGTAATAAAA-TCAGCGAAAAAAATACGAATAAAGGGTCGAAATAAAGATTTAA
1 TTTTT-TTGAAAGTAATAAAATTC-GGGAAAAAAATACGAACAAAGGGCCGAAAT-AAGGTTTTT
* * * * *
6789962 TT-ACTTTCA-ATAAAAAACACACTAAATTAATAAATTTAAAATATAATGTACTAAAATAATGTA
63 TTAAATTT-ATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTA
*
6790025 AAATAAAAAAATTAGAAAATAT-TA
127 AAATAATAAAATTAGAAAATATATA
* * * * * *
6790049 TATTTTTTAAAAGTAATAAAATCCGAG-AAAAAATACGAATAGAGGGCCAAAATA
1 T-TTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATA
6790103 CGAACAATTG
Statistics
Matches: 603, Mismatches: 35, Indels: 57
0.87 0.05 0.08
Matches are distributed among these distances:
149 1 0.00
150 39 0.06
151 44 0.07
152 161 0.27
153 182 0.30
154 36 0.06
155 73 0.12
156 50 0.08
157 17 0.03
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (151 bp):
TTTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTA
AATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
AATAAAATTAGAAAATATATA
Found at i:6789993 original size:305 final size:304
Alignment explanation
Indices: 6789286--6790102 Score: 1177
Period size: 305 Copynumber: 2.7 Consensus size: 304
6789276 TTTAGTGTGT
*
6789286 TTTTTATTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAA-ATTTTTTTA
1 TTTTTATTGAAAGTAATAAAAT-CGGAAAAAAATACGAACAAAGGGCCGAAATAAGATTTTTTT-
*
6789350 AAATTTATTTTAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
64 AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
* *
6789415 TAATAAAATAATAAAATAGTATATTTTTTAAAAGTAATAAAAT-TCGGGGAAAAAAATACGAACA
129 TAATAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATCT-GGGGAAAAAAATACGAACA
*
6789479 AAGGGCCGAAATAAAAAGTTTTTTACTAAATTTATTTAAAAACACAGTAAATTAATACATTTCAA
193 AAGGGCCGAAAT-AAAAGTTTTTTAC-AAATTTATTTAAAAACACACTAAATTAATACATTTCAA
6789544 ACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAAATATATA
256 ACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAAATATATA
* *
6789593 TTTTTATTGAAAGGAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTT
1 TTTTTATTGAAAGTAATAAAA-TC-GGAAAAAAATACGAACAAAGGGCCGAAATAAGATTTTTTT
*
6789658 AAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
64 AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
* *
6789723 TAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAACTCTGGGGAAAAAAATACGAACAA
129 TAATAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGGGAAAAAAATACGAACAA
**
6789788 AGGGCCGAAATAATGGTTTTTTTA-AAATTTATTTAAAAA-ACACTAAATTAATACATTTCAAAC
194 AGGGCCGAAATAAAAG-TTTTTTACAAATTTATTTAAAAACACACTAAATTAATACATTTCAAAC
*
6789851 ATGATGTACTAAAATAATGTAAAATAATAAAA-TACG-AAAATAATATA
258 ATAATGTACTAAAATAATGTAAAATAATAAAATTA-GAAAAAT-ATATA
* * **
6789898 TTTTTATTGAAAGTAATAAAATCAGCGAAAAAAATACGAATAAAGGGTCGAAATAAAGATTTAAT
1 TTTTTATTGAAAGTAATAAAATC-G-GAAAAAAATACGAACAAAGGGCCGAAAT-AAGATTTTTT
* * * * *
6789963 T-ACTTTCA-ATAAAAAACACACTAAATTAATAAATTTAAAATATAATGTACTAAAATAATGTAA
63 TAAATTT-ATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
* * * * *
6790026 AATAAAAAAATTAGAAAATATTATATTTTTTAAAAGTAATAAAATC-CGAG-AAAAAATACGAAT
127 AATAATAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGGGAAAAAAATACGAAC
* *
6790089 AGAGGGCCAAAATA
192 AAAGGGCCGAAATA
6790103 CGAACAATTG
Statistics
Matches: 465, Mismatches: 35, Indels: 24
0.89 0.07 0.05
Matches are distributed among these distances:
303 24 0.05
304 12 0.03
305 202 0.43
306 24 0.05
307 24 0.05
308 171 0.37
309 8 0.02
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (304 bp):
TTTTTATTGAAAGTAATAAAATCGGAAAAAAATACGAACAAAGGGCCGAAATAAGATTTTTTTAA
ATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATA
ATAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGGGAAAAAAATACGAACAAAG
GGCCGAAATAAAAGTTTTTTACAAATTTATTTAAAAACACACTAAATTAATACATTTCAAACATA
ATGTACTAAAATAATGTAAAATAATAAAATTAGAAAAATATATA
Found at i:6792261 original size:113 final size:109
Alignment explanation
Indices: 6792054--6792275 Score: 363
Period size: 113 Copynumber: 2.0 Consensus size: 109
6792044 TTTAATAGTA
* *
6792054 GTGACTAATTTGCACAATTATTTTATTTAGAGTGACTAAATTAAGAAAAAATAGAGTGACCAAAA
1 GTGACTAATTCGCACAATTATCTTATTTAGAGTGACTAAATTAAGAAAAAATAGAGTGACCAAAA
* *
6792119 TAGGACAGACCCTATTTTAGAGTGATCATGGGTGTAATTTATCC
66 TAGGACAAACCCTATTTTAGAGTGATCATGGGTGTAATCTATCC
*
6792163 GTGACTAATTCGCACAATTATCTTATTTAGAGTGACTAAATTAAGAAAAAAAATATGGAGTGGCC
1 GTGACTAATTCGCACAATTATCTTATTTAGAGTGACTAAATTAAG--AAAAAATA--GAGTGACC
6792228 AAAATAGGACAAACCCTATTTTAGAGTGATCATGGGTGTAATCTATCC
62 AAAATAGGACAAACCCTATTTTAGAGTGATCATGGGTGTAATCTATCC
6792276 TTATTTTTAT
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
109 43 0.41
111 8 0.08
113 53 0.51
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (109 bp):
GTGACTAATTCGCACAATTATCTTATTTAGAGTGACTAAATTAAGAAAAAATAGAGTGACCAAAA
TAGGACAAACCCTATTTTAGAGTGATCATGGGTGTAATCTATCC
Found at i:6793780 original size:20 final size:19
Alignment explanation
Indices: 6793731--6793790 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
6793721 AGGGTTTGGG
*
6793731 GTTTAAGGTTTGGGTTTGT
1 GTTTAAGGTTTGGGTTTGA
* * *
6793750 TTTTGATGTTTGGGGTTTGA
1 GTTTAAGGTTT-GGGTTTGA
*
6793770 GTTTAAGGTTTAGGATTTGA
1 GTTTAAGGTTT-GGGTTTGA
6793790 G
1 G
6793791 ATTTTAGATT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (19 bp):
GTTTAAGGTTTGGGTTTGA
Found at i:6798196 original size:22 final size:23
Alignment explanation
Indices: 6798166--6798211 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6798156 CTACCGTTAA
6798166 AGTTATTATT-ATTTT-TATTTGG
1 AGTTATTATTGATTTTGT-TTTGG
*
6798188 AGTTTTTATTGATTTTGTTTTGG
1 AGTTATTATTGATTTTGTTTTGG
6798211 A
1 A
6798212 ATAATTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 11 0.52
24 1 0.05
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (23 bp):
AGTTATTATTGATTTTGTTTTGG
Found at i:6798804 original size:9 final size:9
Alignment explanation
Indices: 6798792--6798821 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6798782 GAGAGAGAAG
*
6798792 AAAACAAAA
1 AAAATAAAA
6798801 AAAATAAAA
1 AAAATAAAA
6798810 AAAATAAAA
1 AAAATAAAA
6798819 AAA
1 AAA
6798822 TTGATTAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.07
Consensus pattern (9 bp):
AAAATAAAA
Found at i:6805385 original size:25 final size:25
Alignment explanation
Indices: 6805357--6805441 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
6805347 CATGTAACAA
*
6805357 GAAGCATATTTGGGCTGTATAACGG
1 GAAGCATATATGGGCTGTATAACGG
* ** * *
6805382 GAAGC-TCATATGAGCCATGTAACAG
1 GAAGCAT-ATATGGGCTGTATAACGG
**
6805407 GAAGCATATCCGGGCTGTATAACGG
1 GAAGCATATATGGGCTGTATAACGG
*
6805432 GAAGCTTATA
1 GAAGCATATA
6805442 AGAGCCTAAA
Statistics
Matches: 43, Mismatches: 15, Indels: 4
0.69 0.24 0.06
Matches are distributed among these distances:
24 1 0.02
25 41 0.95
26 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (25 bp):
GAAGCATATATGGGCTGTATAACGG
Found at i:6805387 original size:50 final size:50
Alignment explanation
Indices: 6805327--6805447 Score: 179
Period size: 50 Copynumber: 2.4 Consensus size: 50
6805317 CGAACCATAG
* * **
6805327 AACGGGAAGCTCATGTGAGTCATGTAACAAGAAGCATATTTGGGCTGTAT
1 AACGGGAAGCTCATATGAGCCATGTAACAAGAAGCATATCCGGGCTGTAT
*
6805377 AACGGGAAGCTCATATGAGCCATGTAACAGGAAGCATATCCGGGCTGTAT
1 AACGGGAAGCTCATATGAGCCATGTAACAAGAAGCATATCCGGGCTGTAT
* *
6805427 AACGGGAAGCTTATAAGAGCC
1 AACGGGAAGCTCATATGAGCC
6805448 TAAATCAGGA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.21
Consensus pattern (50 bp):
AACGGGAAGCTCATATGAGCCATGTAACAAGAAGCATATCCGGGCTGTAT
Found at i:6805673 original size:64 final size:64
Alignment explanation
Indices: 6805568--6805691 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 64
6805558 TCCAGAGAGC
* * *
6805568 CATATAATAGGACACTGACAAAGAGTTACGGTATGTCCGCAACACGTGCAGGATTACTACCGAT
1 CATATAATAGGACACTGACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATAACTACCGAT
* * * *
6805632 CATATAATAGGACGCTTACAAAGAGCTGCGGTATGTTCGCAACACATGCAGGATAACTAC
1 CATATAATAGGACACTGACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATAACTAC
6805692 TGATTAGGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (64 bp):
CATATAATAGGACACTGACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATAACTACCGAT
Found at i:6812193 original size:25 final size:24
Alignment explanation
Indices: 6812135--6812197 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 24
6812125 TCCGGGCTGT
6812135 ATAATGGGAAGCTCATAAGAGCCTAA
1 ATAA-GGGAAGCTCATAAGAGCCT-A
6812161 ATAA-GGAAGCTCATAAAGAGCCT-
1 ATAAGGGAAGCTCAT-AAGAGCCTA
*
6812184 TTAACGGGAAGCTC
1 ATAA-GGGAAGCTC
6812198 TGAAGATCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 3 0.09
24 10 0.30
25 16 0.48
26 4 0.12
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (24 bp):
ATAAGGGAAGCTCATAAGAGCCTA
Found at i:6812211 original size:24 final size:25
Alignment explanation
Indices: 6812140--6812211 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 25
6812130 GCTGTATAAT
*
6812140 GGGAAGCTCAT-AAGAGCCTAAATAA-
1 GGGAAGCTCATAAAGAGCC--ATTAAC
*
6812165 -GGAAGCTCATAAAGAGCCTTTAAC
1 GGGAAGCTCATAAAGAGCCATTAAC
* *
6812189 GGGAAGCTC-TGAAGATCCATTAA
1 GGGAAGCTCATAAAGAGCCATTAA
6812212 TCAGAAGCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 3 0.08
24 21 0.54
25 15 0.38
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (25 bp):
GGGAAGCTCATAAAGAGCCATTAAC
Found at i:6814265 original size:32 final size:32
Alignment explanation
Indices: 6814224--6814288 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
6814214 GACTTAGACA
6814224 AATTTTATGATCCTGTTCCATTCATCCGTATC
1 AATTTTATGATCCTGTTCCATTCATCCGTATC
6814256 AATTTTATGATCCTGTTCCATTCATCCGTATC
1 AATTTTATGATCCTGTTCCATTCATCCGTATC
6814288 A
1 A
6814289 CTTGCTAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.09, T:0.43
Consensus pattern (32 bp):
AATTTTATGATCCTGTTCCATTCATCCGTATC
Done.