Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003885.1 Hibiscus syriacus cultivar Beakdansim tig00008386_pilon, whole genome shotgun sequence
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: 757743
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 4
Found at i:998 original size:7 final size:7
Alignment explanation
Indices: 988--1017 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
978 ATTATAGACC
988 TTTAAAT
1 TTTAAAT
995 TTTAAAT
1 TTTAAAT
1002 TTTAAAT
1 TTTAAAT
1009 TTTAAAT
1 TTTAAAT
1016 TT
1 TT
1018 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTAAAT
Found at i:2921 original size:21 final size:21
Alignment explanation
Indices: 2896--2937 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2886 GATATGTTAA
2896 AAAATGAA-TAAGAATAATAAT
1 AAAATGAACTAA-AATAATAAT
*
2917 AAAATTAACTAAAATAATAAT
1 AAAATGAACTAAAATAATAAT
2938 CAAAGGAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAATGAACTAAAATAATAAT
Found at i:4430 original size:37 final size:37
Alignment explanation
Indices: 4339--4673 Score: 245
Period size: 37 Copynumber: 9.3 Consensus size: 37
4329 AATAATAAAT
* ** *
4339 AAAAATATTTTCAAAAACATATATAATATATAAATTTCTT
1 AAAAATGTTTT-AAAAAC-TATATAATATATATGTTT-TC
* * *
4379 ATATAT-TTTCAAAAACTATATAATATATATGTTTTC
1 AAAAATGTTTTAAAAACTATATAATATATATGTTTTC
* * *
4415 AAAAATGTTTTAAAAACTATATATTATATTTATTTTC
1 AAAAATGTTTTAAAAACTATATAATATATATGTTTTC
4452 -AAAATGTTTT-AAAACTATAT-ATATATAATGTTTTC
1 AAAAATGTTTTAAAAACTATATAATATAT-ATGTTTTC
*
4487 AAACATGTTTTCAAAAA-TAT-T-ATATA-A-GTTTTC
1 AAAAATGTTTT-AAAAACTATATAATATATATGTTTTC
* * *
4520 AGAAACGTTTTAAAAACTATATATATATAAATGTTTTC
1 AAAAATGTTTTAAAAACTATATA-ATATATATGTTTTC
* * * *
4558 -AAAAT-ATTTCAAAAC--TAT-A-ATATGTGCTTTC
1 AAAAATGTTTTAAAAACTATATAATATATATGTTTTC
* *
4589 AAAAATGTTTTCAAAAATTATAT-ATATATAAGTTTTC
1 AAAAATGTTTT-AAAAACTATATAATATATATGTTTTC
* * * * *
4626 -AAAATGATTTTAAAAATTATACATTATATATATTTTT
1 AAAAATG-TTTTAAAAACTATATAATATATATGTTTTC
*
4663 TAAAATGTTTT
1 AAAAATGTTTT
4674 TTTTTAAAAA
Statistics
Matches: 238, Mismatches: 37, Indels: 43
0.75 0.12 0.14
Matches are distributed among these distances:
31 9 0.04
32 11 0.05
33 20 0.08
34 14 0.06
35 16 0.07
36 63 0.26
37 76 0.32
38 22 0.09
39 3 0.01
40 4 0.02
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
AAAAATGTTTTAAAAACTATATAATATATATGTTTTC
Found at i:4605 original size:70 final size:69
Alignment explanation
Indices: 4384--4640 Score: 272
Period size: 69 Copynumber: 3.7 Consensus size: 69
4374 TTCTTATATA
* * *
4384 TTTTCAAAAACTATATA-ATATATATGTTTTCAAAAATGTTTTAAAAACTATATATTATATTTAT
1 TTTT-AAAAACTATATATATATA-ATGTTTTC-AAAATGATTTCAAAACTATA-A-TATA--TGT
4448 TTTC-AAAATG
59 TTTCAAAAATG
* * * * *
4458 TTTT-AAAACTATATATATATAATGTTTTCAAACATGTTTTCAAAAATATTATATAAGTTTTCAG
1 TTTTAAAAACTATATATATATAATGTTTTCAAA-ATGATTTCAAAACTATAATATATGTTTTCAA
*
4522 AAACG
65 AAATG
* *
4527 TTTTAAAAACTATATATATATAAATGTTTTCAAAAT-ATTTCAAAACTATAATATGTGCTTTCAA
1 TTTTAAAAACTATATATATAT-AATGTTTTCAAAATGATTTCAAAACTATAATATATGTTTTCAA
4591 AAATG
65 AAATG
* *
4596 TTTTCAAAAATTATATATATATAA-GTTTTCAAAATGATTTTAAAA
1 TTTT-AAAAACTATATATATATAATGTTTTCAAAATGATTTCAAAA
4641 ATTATACATT
Statistics
Matches: 159, Mismatches: 17, Indels: 19
0.82 0.09 0.10
Matches are distributed among these distances:
68 16 0.10
69 47 0.30
70 38 0.24
71 16 0.10
72 33 0.21
73 5 0.03
74 4 0.03
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.43
Consensus pattern (69 bp):
TTTTAAAAACTATATATATATAATGTTTTCAAAATGATTTCAAAACTATAATATATGTTTTCAAA
AATG
Found at i:4774 original size:19 final size:19
Alignment explanation
Indices: 4739--4775 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4729 GTAGTTTTAA
*
4739 AATATGTATATATATATAT
1 AATATGTATATACATATAT
*
4758 AATATGTATGTACATATA
1 AATATGTATATACATATA
4776 AAGGAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (19 bp):
AATATGTATATACATATAT
Found at i:5552 original size:165 final size:161
Alignment explanation
Indices: 5383--6088 Score: 707
Period size: 165 Copynumber: 4.3 Consensus size: 161
5373 CGAACCCAGG
* *
5383 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCCTTGAGCTGAGC
* * * * *
5448 GTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTACGCTGCAAATG
66 GTAATCGAACTCAAAGGTC-TTTGG---CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATG
* * * **
5513 ATGTGCCCTAGAAGCTGAGTGTAATCGAACTCGGG
127 ATGTGCCCTTGAAGCTGAGCGTAGTCGAACTCGAA
* * *
5548 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGGAAATGATATGCCGTTGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCCTTGAGCTGAGC
* * * *
5613 GTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATG
66 GTAATCGAACTCAAAGGTC---T-TTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATG
* * *
5678 ATATG-CCTTGGAGCTGAGCATAGTCGAACTCGAA
127 ATGTGCCCTTGAAGCTGAGCGTAGTCGAACTCGAA
* * * * **
5712 GGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATGTGCCCTCAAAGC
1 GGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCCT-TGAGC
* *** * * * *
5777 TGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGGAAAT
61 TGAGCGTAATCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAAT
* *
5842 GATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAA
126 GATGTGCCCTTGAAGCTGAGCGTAGTCGAACTCGAA
* * * * * * *
5877 GGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGC
1 GGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCCTTG-AGC
* * * * *
5942 TGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATTCTGCAAAT
61 TGAGCGTAATCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAAT
*
6007 GATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAA
126 GATGTGCCCTTGAAGCTGAGCGTAGTCGAACTCGAA
* * * * *
6042 GGTCTTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
1 GGTCTT--TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
6089 AGTTTGTTTA
Statistics
Matches: 461, Mismatches: 64, Indels: 34
0.82 0.11 0.06
Matches are distributed among these distances:
162 4 0.01
163 32 0.07
164 32 0.07
165 313 0.68
166 8 0.02
167 3 0.01
168 47 0.10
169 22 0.05
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (161 bp):
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCCTTGAGCTGAGC
GTAATCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGT
GCCCTTGAAGCTGAGCGTAGTCGAACTCGAA
Found at i:5663 original size:249 final size:246
Alignment explanation
Indices: 5388--6066 Score: 916
Period size: 249 Copynumber: 2.7 Consensus size: 246
5378 CCAGGGGTCT
* * * *
5388 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCC-TTGAGCTGAGCGTAGT
* * * *
5453 CGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTACGCTGCAAATGATGTG
65 CGAACTCAAAGGTCTTTTGGT--CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
5518 CCCTAGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
128 CCCTAGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
5583 TACTGGAAATGATATGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
193 TACTGGAAATGATATGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * *
5637 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCATAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTT-GAGCTGAGCGTAGT
* * *
5702 CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATGTG
65 CGAACTCAAAGGTCTTTTG--GTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
5767 CCCTCA-AAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
128 CCCT-AGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
*
5831 ATACTGGAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
192 ATACTGGAAATGATATGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* ** * * * * * *
5886 GTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTG-AGCTGAGCGTAG
* * * *
5951 TCGAACTTAAGGGTC-TTTGG-CAGATAACCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG-
64 TCGAACTCAAAGGTCTTTTGGTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
* * * * ** *
6013 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGGCAGGTAGCCCTTCT
129 CCTAGAAGCTGAGTGTAATCGAACTCGGGGGTCTT--TGGCAGATAGCCCTTCT
6067 GGCCTTGAGC
Statistics
Matches: 381, Mismatches: 40, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
245 28 0.07
246 39 0.10
247 17 0.04
248 2 0.01
249 268 0.70
250 26 0.07
251 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (246 bp):
TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGAGCTGAGCGTAGTC
GAACTCAAAGGTCTTTTGGTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCC
TAGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATAC
TGGAAATGATATGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
Found at i:9454 original size:18 final size:19
Alignment explanation
Indices: 9413--9457 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
9403 AGTTAATGTG
*
9413 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAACAACAA
*
9432 AATGCAAAGAAAACAA-GA
1 AATGCAAAGAAAACAACAA
9450 AATGCAAA
1 AATGCAAA
9458 ATGTCTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.67, C:0.11, G:0.13, T:0.09
Consensus pattern (19 bp):
AATGCAAAGAAAACAACAA
Found at i:10106 original size:17 final size:17
Alignment explanation
Indices: 10080--10112 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10070 TGCAAACAAT
*
10080 GAACACAAAATAAAAGA
1 GAACAAAAAATAAAAGA
10097 GAACAAAAAATAAAAG
1 GAACAAAAAATAAAAG
10113 GGTTAGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:11077 original size:12 final size:12
Alignment explanation
Indices: 11060--11084 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11050 CGAAAATTGA
11060 AAAATTTAAATT
1 AAAATTTAAATT
11072 AAAATTTAAATT
1 AAAATTTAAATT
11084 A
1 A
11085 CCCGATTCGA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTTAAATT
Found at i:12561 original size:5 final size:5
Alignment explanation
Indices: 12547--12605 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
12537 AAAAATAAGG
* *
12547 AATAA AATAA CATAA AATAA TAATAA TAATAA TAAT-A AATAA TA-AA
1 AATAA AATAA AATAA AATAA -AATAA -AATAA -AATAA AATAA AATAA
12593 AATAAA AATAA AA
1 AAT-AA AATAA AA
12606 ATATTTTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 6 0.13
5 20 0.43
6 20 0.43
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:12570 original size:3 final size:3
Alignment explanation
Indices: 12558--12608 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
12548 ATAAAATAAC
* *
12558 ATA A-A ATA ATA ATA ATA ATA ATA ATAA ATA ATA AAA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
*
12603 AAA ATA
1 ATA ATA
12609 TTTTCAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:12577 original size:22 final size:22
Alignment explanation
Indices: 12532--12605 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
12522 CAACAAACAA
*
12532 AACATAAAAATAAGGAATAA-AAT
1 AACAT-AAAATAA-TAATAATAAT
12555 AACATAAAATAATAATAATAAT
1 AACATAAAATAATAATAATAAT
* *
12577 AATA-ATAAATAATAAAAATAA-
1 AACATA-AAATAATAATAATAAT
12598 AA-ATAAAA
1 AACATAAAA
12606 ATATTTTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
20 4 0.09
21 9 0.20
22 27 0.60
23 5 0.11
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (22 bp):
AACATAAAATAATAATAATAAT
Found at i:12579 original size:12 final size:12
Alignment explanation
Indices: 12535--12608 Score: 64
Period size: 12 Copynumber: 6.2 Consensus size: 12
12525 CAAACAAAAC
*
12535 ATAAAAATAAGGA
1 ATAAAAATAA-TA
*
12548 AT-AAAATAA-C
1 ATAAAAATAATA
12558 AT-AAAATAATA
1 ATAAAAATAATA
*
12569 ATAATAATAATA
1 ATAAAAATAATA
*
12581 ATAAATAATAAAA
1 ATAAA-AATAATA
*
12594 ATAAAAATAAAA
1 ATAAAAATAATA
12606 ATA
1 ATA
12609 TTTTCAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
10 9 0.17
11 2 0.04
12 29 0.55
13 13 0.25
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:12587 original size:19 final size:19
Alignment explanation
Indices: 12560--12608 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
12550 AAAATAACAT
*
12560 AAAAT-AATAATAATAATA
1 AAAATAAATAATAAAAATA
*
12578 ATAATAAATAATAAAAATA
1 AAAATAAATAATAAAAATA
12597 AAAATAAA-AATA
1 AAAATAAATAATA
12609 TTTTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATAAATAATAAAAATA
Found at i:12637 original size:39 final size:39
Alignment explanation
Indices: 12585--12745 Score: 109
Period size: 36 Copynumber: 4.3 Consensus size: 39
12575 ATAATAATAA
* *
12585 ATAATAAAAATAAAAAT-AAAAATATTTTCAAAAACATAT
1 ATAATATATATAAAAATCAAAAATATTTTCAAAAAC-TAT
** ** *
12624 ATAATATATATAAATTTCTTATATATTTTCAAAAACTAT
1 ATAATATATATAAAAATCAAAAATATTTTCAAAAACTAT
**** *
12663 ATAATATATAT-GTTTTCAAAAATGTTTT-AAAAACTAT
1 ATAATATATATAAAAATCAAAAATATTTTCAAAAACTAT
* * *** *
12700 ATATTATAT-TTATTTTC-AAAATGTTTT-AAAAACTAT
1 ATAATATATATAAAAATCAAAAATATTTTCAAAAACTAT
12736 ATAATATATA
1 ATAATATATA
12746 AATGTTTTCA
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
36 28 0.27
37 22 0.21
38 11 0.11
39 27 0.26
40 15 0.15
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (39 bp):
ATAATATATATAAAAATCAAAAATATTTTCAAAAACTAT
Found at i:12695 original size:37 final size:37
Alignment explanation
Indices: 12602--12946 Score: 282
Period size: 39 Copynumber: 9.3 Consensus size: 37
12592 AAATAAAAAT
* **
12602 AAAAATATTTTCAAAAACATATATAATATATATAAATTTC
1 AAAAATGTTTT-AAAAAC-TATATAATATATAT-GTTTTC
** * *
12642 TTATATATTTTCAAAAACTATATAATATATATGTTTTC
1 AAAAATGTTTT-AAAAACTATATAATATATATGTTTTC
* * *
12680 AAAAATGTTTTAAAAACTATATATTATATTTATTTTC
1 AAAAATGTTTTAAAAACTATATAATATATATGTTTTC
12717 -AAAATGTTTTAAAAACTATATAATATATAAATGTTTTC
1 AAAAATGTTTTAAAAACTATATAATATAT--ATGTTTTC
*
12755 AAACATGTTTTCAAAAA-TAT-T-ATATA-A-GTTTTC
1 AAAAATGTTTT-AAAAACTATATAATATATATGTTTTC
* *
12788 AGAAACGTTTTAAAAACTATATAATATATAAATGTTTTC
1 AAAAATGTTTTAAAAACTATATAATATAT--ATGTTTTC
* * * * *
12827 AAAAATATTTTCAAAAC--TATAATATTTGTGCTTTC
1 AAAAATGTTTTAAAAACTATATAATATATATGTTTTC
* *
12862 AAAAATGTTTTCAAAAATTATAT-ATATATAAGTTTTC
1 AAAAATGTTTT-AAAAACTATATAATATATATGTTTTC
* * *
12899 -AAAATGATTTTAAAAATTATACATTATATATATATTTT-
1 AAAAATG-TTTTAAAAACTAT--ATAATATATATGTTTTC
12937 -AAAATGTTTT
1 AAAAATGTTTT
12947 TTTTAAAAAC
Statistics
Matches: 252, Mismatches: 35, Indels: 39
0.77 0.11 0.12
Matches are distributed among these distances:
32 5 0.02
33 17 0.07
34 2 0.01
35 21 0.08
36 46 0.18
37 55 0.22
38 30 0.12
39 56 0.22
40 20 0.08
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
AAAAATGTTTTAAAAACTATATAATATATATGTTTTC
Found at i:12816 original size:72 final size:70
Alignment explanation
Indices: 12649--12915 Score: 278
Period size: 72 Copynumber: 3.7 Consensus size: 70
12639 TTCTTATATA
12649 TTTTCAAAAACTATATAATATAT-ATGTTTTCAAAAATGTTTTAAAAACTATATATTATATTTA-
1 TTTTCAAAAACTATATAATATATAATGTTTTCAAAAATGTTTTAAAAA-TAT-TA-TATA---AG
12712 TTTTCAAAATG
60 TTTTCAAAATG
*
12723 TTTT-AAAAACTATATAATATATAAATGTTTTCAAACATGTTTTCAAAAATATTATATAAGTTTT
1 TTTTCAAAAACTATATAATATAT-AATGTTTTCAAAAATGTTTT-AAAAATATTATATAAGTTTT
*
12787 CAGAAACG
64 CA-AAATG
* * * **
12795 TTTT-AAAAACTATATAATATATAAATGTTTTCAAAAATATTTTCAAAACTATAATATTTGTGCT
1 TTTTCAAAAACTATATAATATAT-AATGTTTTCAAAAATGTTTT-AAAAATATTATATAAGT--T
12859 TTCAAAAATG
62 TTC-AAAATG
*
12869 TTTTCAAAAATTATAT-ATATATAA-GTTTTC-AAAATGATTTTAAAAAT
1 TTTTCAAAAACTATATAATATATAATGTTTTCAAAAATG-TTTTAAAAAT
12916 TATACATTAT
Statistics
Matches: 171, Mismatches: 12, Indels: 23
0.83 0.06 0.11
Matches are distributed among these distances:
70 1 0.01
71 16 0.09
72 69 0.40
73 24 0.14
74 24 0.14
75 32 0.19
76 5 0.03
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (70 bp):
TTTTCAAAAACTATATAATATATAATGTTTTCAAAAATGTTTTAAAAATATTATATAAGTTTTCA
AAATG
Found at i:12825 original size:39 final size:38
Alignment explanation
Indices: 12649--12946 Score: 254
Period size: 37 Copynumber: 8.1 Consensus size: 38
12639 TTCTTATATA
12649 TTTTCAAAAACTATATAATATAT--ATGTTTTCAAAAATG
1 TTTT-AAAAACTATATAATATATAAATGTTTTC-AAAATG
** *
12687 TTTTAAAAACTATAT-AT-TATATTTATTTTCAAAATG
1 TTTTAAAAACTATATAATATATAAATGTTTTCAAAATG
12723 TTTTAAAAACTATATAATATATAAATGTTTTCAAACATG
1 TTTTAAAAACTATATAATATATAAATGTTTTCAAA-ATG
* *
12762 TTTTCAAAA--ATAT--TATAT-AA-GTTTTCAGAAACG
1 TTTTAAAAACTATATAATATATAAATGTTTTCA-AAATG
*
12795 TTTTAAAAACTATATAATATATAAATGTTTTCAAAAATA
1 TTTTAAAAACTATATAATATATAAATGTTTTC-AAAATG
* ** *
12834 TTTTCAAAAC--TATAATAT-T-TGTGCTTTCAAAAATG
1 TTTTAAAAACTATATAATATATAAATGTTTTC-AAAATG
*
12869 TTTTCAAAAATTATAT-ATATAT-AA-GTTTTCAAAATG
1 TTTT-AAAAACTATATAATATATAAATGTTTTCAAAATG
* * * * *
12905 ATTTTAAAAATTATACATTATATATATATTTT-AAAATG
1 -TTTTAAAAACTATATAATATATAAATGTTTTCAAAATG
12943 TTTT
1 TTTT
12947 TTTTAAAAAC
Statistics
Matches: 215, Mismatches: 24, Indels: 43
0.76 0.09 0.15
Matches are distributed among these distances:
33 17 0.08
34 4 0.02
35 28 0.13
36 44 0.20
37 58 0.27
38 30 0.14
39 33 0.15
40 1 0.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (38 bp):
TTTTAAAAACTATATAATATATAAATGTTTTCAAAATG
Found at i:12979 original size:24 final size:24
Alignment explanation
Indices: 12947--12993 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
12937 AAAATGTTTT
12947 TTTTAAAAACTATACATTATATAG
1 TTTTAAAAACTATACATTATATAG
*
12971 TTTTAAAAACTATATATTATATA
1 TTTTAAAAACTATACATTATATA
12994 CGTAGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (24 bp):
TTTTAAAAACTATACATTATATAG
Found at i:13018 original size:27 final size:28
Alignment explanation
Indices: 12947--13024 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 28
12937 AAAATGTTTT
*
12947 TTTTAAAAACTATACA-T-TATA--TAG
1 TTTTAAAAACTATATATTATATACGTAG
12971 TTTTAAAAACTATATATTATATACGTAG
1 TTTTAAAAACTATATATTATATACGTAG
*
12999 TTTTAAAATATGTATATATATATATA
1 TTTTAAAA-A-CTATATAT-TATATA
13025 TAAATATGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
24 15 0.33
25 1 0.02
26 4 0.09
28 11 0.24
29 1 0.02
30 7 0.16
31 6 0.13
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (28 bp):
TTTTAAAAACTATATATTATATACGTAG
Found at i:15895 original size:12 final size:11
Alignment explanation
Indices: 15878--15946 Score: 75
Period size: 12 Copynumber: 5.9 Consensus size: 11
15868 TTGGGCCTTG
15878 TAATAATATATT
1 TAATAATA-ATT
*
15890 TAATAATAATA
1 TAATAATAATT
15901 TAATAATAATAT
1 TAATAATAAT-T
* *
15913 TTATAATAATAA
1 TAATAATAAT-T
15925 TAATAATAATTT
1 TAATAATAA-TT
15937 TAATAATAAT
1 TAATAATAAT
15947 AATTTAAGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
11 13 0.27
12 35 0.71
13 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TAATAATAATT
Found at i:15896 original size:3 final size:3
Alignment explanation
Indices: 15890--15949 Score: 77
Period size: 3 Copynumber: 20.3 Consensus size: 3
15880 ATAATATATT
* * **
15890 TAA TAA TAA T-A TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TTT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15937 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
15950 TTAAGTAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:15898 original size:15 final size:15
Alignment explanation
Indices: 15878--15953 Score: 68
Period size: 15 Copynumber: 5.0 Consensus size: 15
15868 TTGGGCCTTG
15878 TAATAATATATTTAA
1 TAATAATATATTTAA
*
15893 TAATAATATA-ATAA
1 TAATAATATATTTAA
* *
15907 TAAT-ATTTATAATAA
1 TAATAATATAT-TTAA
15922 TAATAATAATAATTTTAA
1 TAATAAT-AT-A-TTTAA
15940 TAATAATA-ATTTAA
1 TAATAATATATTTAA
15954 GTAAAATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
13 4 0.08
14 12 0.24
15 19 0.37
16 2 0.04
17 2 0.04
18 11 0.22
19 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATAATATATTTAA
Found at i:16252 original size:76 final size:75
Alignment explanation
Indices: 16126--16871 Score: 1190
Period size: 76 Copynumber: 9.9 Consensus size: 75
16116 TTGAAAGGTT
* *
16126 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGATACATCATGCACTGCAGGACTTACAGAT
1 TTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
*
16191 GACCCGAAGAC
65 GACCCGAAGGC
* *
16202 TTGAAAA-ATCAAAAAGCTCCAGAAGGCTTTTTTTGGAAACATCATGCACTGCAGGACTTACAGA
1 TTGAAAACATCAAAAAGCTCCCGAAGGC--TTTTTGGAAACATCATGCACTGAAGGACTTACAGA
*
16266 TGACCCTAAGGC
64 TGACCCGAAGGC
* *
16278 TTTAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATG
1 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
16343 ACCCGAAGGC
66 ACCCGAAGGC
16353 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 -TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
*
16418 GACCCTAAGGC
65 GACCCGAAGGC
* * * *
16429 TTTAAAACATAAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATG
1 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
16494 ACCCGAAGGC
66 ACCCGAAGGC
* *
16504 TTTG-AAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGAT
1 -TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
*
16568 TACCCGAAGGC
65 GACCCGAAGGC
16579 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 -TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
*
16644 GACCCTAAGGC
65 GACCCGAAGGC
* * *
16655 TTTAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATG
1 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
16720 ACCCGAAGGC
66 ACCCGAAGGC
16730 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 -TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
* *
16795 GACCCTAAGGTT
65 GACCCGAAGG-C
* *
16807 TTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
1 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
16872 TGGGAAATAG
Statistics
Matches: 628, Mismatches: 35, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
75 277 0.44
76 332 0.53
77 19 0.03
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (75 bp):
TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
ACCCGAAGGC
Found at i:16409 original size:151 final size:152
Alignment explanation
Indices: 16120--16871 Score: 1237
Period size: 151 Copynumber: 5.0 Consensus size: 152
16110 CATGTATTGA
* * *
16120 AAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGATACATCATGCACTGCAGGACTT
1 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTT
* *
16185 ACAGATGACCCGAAGAC-TTGAAAA-ATCAAAAAGCTCCAGAAGGCTTTTTTTGGAAACATCATG
65 ACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC--TTTTTGGAAACATCATG
* *
16248 CACTGCAGGACTTACAGATGACCCT
128 CACTGAAGGACTTACAGATGACCCG
*
16273 AAGGCTTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTA
1 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
16337 CAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCAC
66 CAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCAC
*
16402 TGAAGGACTTACAGATGACCCT
131 TGAAGGACTTACAGATGACCCG
* * *
16424 AAGGCTTT-AAAACATAAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTA
1 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
*
16488 CAGATGACCCGAAGGCTTTG-AAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCAC
66 CAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCAC
* *
16552 TGAAGGGCTTACAGATTACCCG
131 TGAAGGACTTACAGATGACCCG
16574 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
1 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
* *
16639 CAGATGACCCTAAGGCTTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCAC
66 CAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCAC
*
16703 TGAAGGGCTTACAGATGACCCG
131 TGAAGGACTTACAGATGACCCG
16725 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
1 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
* * *
16790 CAGATGACCCTAAGGTTTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCAC
66 CAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCAC
*
16855 TGCAGGACTTACAGATG
131 TGAAGGACTTACAGATG
16872 TGGGAAATAG
Statistics
Matches: 571, Mismatches: 23, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
150 70 0.12
151 385 0.67
152 90 0.16
153 26 0.05
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (152 bp):
AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
CAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCAC
TGAAGGACTTACAGATGACCCG
Found at i:17578 original size:22 final size:22
Alignment explanation
Indices: 17550--17626 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
17540 CATAAATATT
17550 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
17572 TCATCTTTAAAAAGAGAATCTT
1 TCATCTTTGAAAAGAGAATCTA
* *
17594 TTATCTTTGAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
17616 TCATCTTTGAA
1 TCATCTTTGAA
17627 GAATGTAGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:22166 original size:12 final size:12
Alignment explanation
Indices: 22151--22184 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22141 TCAATTTTCC
22151 TTTTTCTTTTTTT
1 TTTTTC-TTTTTT
22164 TTTTTCTTTTTT
1 TTTTTCTTTTTT
*
22176 TTCTTCTTT
1 TTTTTCTTT
22185 CTTTGCTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:22167 original size:13 final size:13
Alignment explanation
Indices: 22151--22177 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22141 TCAATTTTCC
22151 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
22164 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
22177 T
1 T
22178 CTTCTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:22176 original size:16 final size:16
Alignment explanation
Indices: 22153--22188 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
22143 AATTTTCCTT
22153 TTTC-TTTTTTT-TT-
1 TTTCTTTTTTTTCTTC
22166 TTTCTTTTTTTTCTTC
1 TTTCTTTTTTTTCTTC
22182 TTTCTTT
1 TTTCTTT
22189 GCTGGATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 7 0.35
15 2 0.10
16 7 0.35
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTCTTTTTTTTCTTC
Found at i:22489 original size:2 final size:2
Alignment explanation
Indices: 22482--22533 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
22472 ACAACAAAGG
22482 AT AT 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 AT AT
22524 AT AT AT AT AT
1 AT AT AT AT AT
22534 TAAAAGATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24791 original size:8 final size:7
Alignment explanation
Indices: 24763--24804 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
24753 TAAAAGTATG
24763 AATGCAA
1 AATGCAA
*
24770 AATGAAA
1 AATGCAA
24777 AATGCAA
1 AATGCAA
24784 AGATGCAA
1 A-ATGCAA
24792 AATTG-AA
1 AA-TGCAA
24799 AATGCA
1 AATGCA
24805 TATATGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 2 0.07
7 19 0.63
8 9 0.30
ACGTcount: A:0.57, C:0.10, G:0.17, T:0.17
Consensus pattern (7 bp):
AATGCAA
Found at i:26937 original size:20 final size:22
Alignment explanation
Indices: 26885--26937 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
26875 ATATAAAAAT
26885 AATAAAT-AA-TAAAAATTTGA
1 AATAAATGAATTAAAAATTTGA
* *
26905 AAGAAAAGAATTAAAAA-TT-A
1 AATAAATGAATTAAAAATTTGA
26925 AATAAATGAATTA
1 AATAAATGAATTA
26938 TTAATTTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 17 0.63
21 4 0.15
22 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (22 bp):
AATAAATGAATTAAAAATTTGA
Found at i:29043 original size:3 final size:3
Alignment explanation
Indices: 29037--29107 Score: 92
Period size: 3 Copynumber: 24.3 Consensus size: 3
29027 ATAATATATT
* *
29037 TAA TAA TAA T-A TAA TAA TAA T-A TAA TAA TAA TAT TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
29083 TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
29108 TTAAGTAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
2 4 0.07
3 54 0.93
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:29045 original size:15 final size:15
Alignment explanation
Indices: 29025--29111 Score: 64
Period size: 15 Copynumber: 6.0 Consensus size: 15
29015 TTGGGCCTTG
29025 TAATAATATATTTAA
1 TAATAATATATTTAA
*
29040 TAATAATATAATAATAATA
1 TAATAATAT-AT--TTA-A
29059 TAATAATAATATTT-A
1 TAATAAT-ATATTTAA
29074 TAATAATA-A--TAA
1 TAATAATATATTTAA
29086 TAAT-A-AT-TTTAA
1 TAATAATATATTTAA
29098 TAATAATA-ATTTAA
1 TAATAATATATTTAA
29112 GTAAAATGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 25
0.68 0.02 0.29
Matches are distributed among these distances:
10 1 0.02
11 2 0.03
12 12 0.21
13 2 0.03
14 7 0.12
15 17 0.29
16 2 0.03
17 1 0.02
18 2 0.03
19 10 0.17
20 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATAATATATTTAA
Found at i:32468 original size:39 final size:40
Alignment explanation
Indices: 32364--32469 Score: 112
Period size: 39 Copynumber: 2.7 Consensus size: 40
32354 CATAATCCTC
* * *
32364 AAATTATTTCAC-TCTAATATTCTAAAATCCTAATTTCTT
1 AAATTATTTCACATCTAACATTCTAAATTCCTAATTACTT
* * *
32403 AAA-T-TTTGACATCATAACATTTTAAATTCTTAATTACTT
1 AAATTATTTCACATC-TAACATTCTAAATTCCTAATTACTT
*
32442 AAATTATTTCACAT-TAACGTTCTAAATT
1 AAATTATTTCACATCTAACATTCTAAATT
32470 AATTTTTTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
37 5 0.09
38 3 0.06
39 38 0.70
40 1 0.02
41 7 0.13
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (40 bp):
AAATTATTTCACATCTAACATTCTAAATTCCTAATTACTT
Found at i:32548 original size:25 final size:25
Alignment explanation
Indices: 32504--32553 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
32494 CTTTAAAACA
*
32504 TTTGAAATTTAATTATATTTCTTTAT
1 TTTGAAATTTAATTAAATTT-TTTAT
*
32530 TTTGAATTTTAA-TAAATTTTTTAT
1 TTTGAAATTTAATTAAATTTTTTAT
32554 CGGTATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 6 0.27
26 11 0.50
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTGAAATTTAATTAAATTTTTTAT
Found at i:32651 original size:2 final size:2
Alignment explanation
Indices: 32644--32670 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32634 ATTATTTAAT
32644 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32671 TAGAATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32899 original size:2 final size:2
Alignment explanation
Indices: 32892--32926 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
32882 TTTATTTAAT
32892 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32927 TAGAATTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50688 original size:2 final size:2
Alignment explanation
Indices: 50681--50708 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50671 TAGAGCTGTA
50681 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
50709 GCTGCTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57703 original size:18 final size:19
Alignment explanation
Indices: 57680--57723 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
57670 CCAGTAATCC
*
57680 TATTCC-CTGGTAATCTTT
1 TATTCCACTGGTAATCTTA
57698 TATTCCCACTGGTAATCTTA
1 TATT-CCACTGGTAATCTTA
57718 TATTCC
1 TATTCC
57724 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.45
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTA
Found at i:57711 original size:20 final size:20
Alignment explanation
Indices: 57686--57723 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57676 ATCCTATTCC
*
57686 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTATATTCCCA
57706 CTGGTAATCTTATATTCC
1 CTGGTAATCTTATATTCC
57724 GTGAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTATATTCCCA
Found at i:65608 original size:14 final size:14
Alignment explanation
Indices: 65589--65616 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65579 ATGGACCTTA
65589 ACTCTTCTCTCTTC
1 ACTCTTCTCTCTTC
65603 ACTCTTCTCTCTTC
1 ACTCTTCTCTCTTC
65617 CTCAGAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.43, G:0.00, T:0.50
Consensus pattern (14 bp):
ACTCTTCTCTCTTC
Found at i:66302 original size:2 final size:2
Alignment explanation
Indices: 66295--66349 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
66285 CTTAGTGAGG
66295 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66337 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
66350 CAATGCATTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:67379 original size:45 final size:46
Alignment explanation
Indices: 67328--67432 Score: 151
Period size: 45 Copynumber: 2.3 Consensus size: 46
67318 TGCACCACTT
*
67328 GTGCATCGATACACT-GATAACATTCAATGTTTTTATTTTATAGGA
1 GTGCATCGATACACTAAATAACATTCAATGTTTTTATTTTATAGGA
* ** *
67373 GTGCATCGGTACA-TAAATCCCATTCGATGTTTTTATTTTATAGGA
1 GTGCATCGATACACTAAATAACATTCAATGTTTTTATTTTATAGGA
67418 GTGCATCGATACACT
1 GTGCATCGATACACT
67433 TCATGTGCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.02
45 50 0.96
46 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (46 bp):
GTGCATCGATACACTAAATAACATTCAATGTTTTTATTTTATAGGA
Found at i:67995 original size:13 final size:13
Alignment explanation
Indices: 67977--68006 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
67967 CACGTTTAGG
67977 AGAAAAGAAGAAA
1 AGAAAAGAAGAAA
*
67990 AGAAAAGAAGAAG
1 AGAAAAGAAGAAA
68003 AGAA
1 AGAA
68007 CTCTGGAACC
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:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAGAAA
Found at i:72127 original size:21 final size:21
Alignment explanation
Indices: 72083--72140 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
72073 ATTATAATTA
*
72083 ATATT-TTAAGAAT-TT-TTT
1 ATATTATTAAAAATATTATTT
72101 ATATTATTAAAATATATTATTT
1 ATATTATTAAAA-ATATTATTT
72123 A-ATTATTAAAAATATTAT
1 ATATTATTAAAAATATTAT
72141 AAAATATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 5 0.14
19 5 0.14
20 9 0.26
21 12 0.34
22 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATATTATTAAAAATATTATTT
Found at i:72151 original size:24 final size:21
Alignment explanation
Indices: 72100--72172 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 21
72090 AAGAATTTTT
*
72100 TATATTATTAAAATATATTATT
1 TATATTATTAAAA-ATATTATA
72122 TA-ATTATTAAAAATATTATAAAA
1 TATATTATTAAAAATATTAT---A
72145 TATATTATTTTAAAAATATTA-A
1 TATATTA--TTAAAAATATTATA
72167 TATATT
1 TATATT
72173 CGGGTCGGGG
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
20 7 0.16
21 10 0.23
22 9 0.20
23 2 0.05
24 4 0.09
26 12 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTATTAAAAATATTATA
Found at i:72169 original size:32 final size:33
Alignment explanation
Indices: 72101--72162 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
72091 AGAATTTTTT
* *
72101 ATATTATTAAAATATATTATTTAATTATTAAAA
1 ATATTATTAAAATATATTATTTAATAAATAAAA
72134 ATATTA-TAAAATATATTATTTTAA-AAATA
1 ATATTATTAAAATATATTA-TTTAATAAATA
72163 TTAATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (33 bp):
ATATTATTAAAATATATTATTTAATAAATAAAA
Found at i:84485 original size:30 final size:30
Alignment explanation
Indices: 84449--84514 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
84439 AGTGAACTGG
*
84449 CGGTTCAAACCGGTTTTGCCGATTTTCAGC
1 CGGTTCAAACCGGTTTTCCCGATTTTCAGC
** *
84479 CGGTTCACCCCGGTTTTCCCGGTTTTCAGC
1 CGGTTCAAACCGGTTTTCCCGATTTTCAGC
84509 CGGTTC
1 CGGTTC
84515 TTCCGGTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.11, C:0.32, G:0.24, T:0.33
Consensus pattern (30 bp):
CGGTTCAAACCGGTTTTCCCGATTTTCAGC
Found at i:89058 original size:27 final size:27
Alignment explanation
Indices: 89004--89059 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
88994 CCGCCATCAC
* * *
89004 CACTTTGAACTTAAAACTTCATATCAT
1 CACTTTGAACTTAAAACTACACAGCAT
* *
89031 CACTTTGAACTTGAAAGTACACAGCAT
1 CACTTTGAACTTAAAACTACACAGCAT
89058 CA
1 CA
89060 AGATCTTCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
CACTTTGAACTTAAAACTACACAGCAT
Found at i:89921 original size:14 final size:14
Alignment explanation
Indices: 89899--89931 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
89889 GAAAAGAATA
89899 ATAAAAATATTAAT
1 ATAAAAATATTAAT
*
89913 ATAATAATATTAAT
1 ATAAAAATATTAAT
89927 A-AAAA
1 ATAAAA
89932 TGAATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAAAATATTAAT
Found at i:90022 original size:15 final size:16
Alignment explanation
Indices: 89994--90031 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
89984 AGAAAATGAA
* *
89994 AAATATATATAAAGT-
1 AAATAAATAAAAAGTG
90009 AAATAAATAAAAAGTG
1 AAATAAATAAAAAGTG
90025 AAATAAA
1 AAATAAA
90032 AAGAATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (16 bp):
AAATAAATAAAAAGTG
Found at i:90384 original size:33 final size:33
Alignment explanation
Indices: 90325--90393 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
90315 AATGCTTCGA
* *
90325 TTTTAGTGTTTCAATATAACTTAAATACATTAG
1 TTTTAGTGTTTCAATAGAACTCAAATACATTAG
* * *
90358 TTTTAGTGTTTCAATAGGACTCAAATATATTGG
1 TTTTAGTGTTTCAATAGAACTCAAATACATTAG
90391 TTT
1 TTT
90394 ATTTTCTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (33 bp):
TTTTAGTGTTTCAATAGAACTCAAATACATTAG
Found at i:90465 original size:3 final size:3
Alignment explanation
Indices: 90442--90507 Score: 68
Period size: 3 Copynumber: 22.3 Consensus size: 3
90432 GGCCTACAAA
*
90442 AAT AAT AA- AAT AAA AAT -AT AAT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
90486 ATAT ATAT AAT -AT AAT AA- AAT A
1 A-AT A-AT AAT AAT AAT AAT AAT A
90508 TTTTTGTAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
2 8 0.15
3 37 0.67
4 10 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:91044 original size:84 final size:84
Alignment explanation
Indices: 90892--91539 Score: 804
Period size: 84 Copynumber: 7.7 Consensus size: 84
90882 TTCCTTGAGC
* *
90892 TATGCTGCAAATGATGGTGCCTTTGAGCTGAGCGTAGTCGAACTAGAAGGTCTTTGGTTGGCAGA
1 TATGCTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGA
90957 TAACCCTTCTCGACTTAAGT
65 TAACCCTTCTCGACTTAAGT
* * ** * * ** *
90977 TATGGTGCAAATGATATGCCTTGGAGCTGAGTATAGTCGAACTCGAAAGTATTTTGG-TCACATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTTGGTTGGCAGA
* * *
91041 TAACCCTTCTAGCCTTGAGT
65 TAACCCTTCTCGACTTAAGT
91061 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
*
91126 AACCCTTTTCGACTTAAGT
66 AACCCTTCTCGACTTAAGT
* * * *
91145 TATGCTGCAAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* *
91206 AACCCTTCTTGACTTAAGC
66 AACCCTTCTCGACTTAAGT
*
91225 TATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
91290 AACCCTTCTCGACTTAAGT
66 AACCCTTCTCGACTTAAGT
* * * * **
91309 TATGCTACAAATGATATGCTTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG-TCACAGA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGA
* * * *
91373 TAACTCTTCTAGCCTTGAGT
65 TAACCCTTCTCGACTTAAGT
* * * * * * *
91393 TATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTCGGTTGGCAGA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGA
* *
91458 TAACCATTCTTGACTTAAGT
65 TAACCCTTCTCGACTTAAGT
* * * * *
91478 TATGCTGCAAATGATGTGTCTTGGAACTGAGCGTAGTTGAACTCGAAGGCCTTTGGTGGGCA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
91540 CGATTCCCTT
Statistics
Matches: 472, Mismatches: 82, Indels: 19
0.82 0.14 0.03
Matches are distributed among these distances:
80 71 0.15
82 2 0.00
83 5 0.01
84 307 0.65
85 87 0.18
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (84 bp):
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
AACCCTTCTCGACTTAAGT
Found at i:91294 original size:248 final size:250
Alignment explanation
Indices: 90848--91539 Score: 851
Period size: 248 Copynumber: 2.8 Consensus size: 250
90838 CTGAATGGAA
* ** *
90848 TCGAACTCGAAGGTC--T--TTGGCAGATAGCCCTTTTTTCCTTGAGCTATGCTGCAAATGATGG
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGAT-G
* * * * * *
90909 TGCCTTTGAGCTGAGCGTAGTCGAACTAGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
65 TGCCTTGGAGCTGAGTGTAATCGAACTCGAGGGTC-TT-GTTGGCAGATAACCCTTCTTGACTTA
* * ** * * **
90974 AGTTATGGTGCAAATGATATGCCTTGGAGCTGAGTATAGTCGAACTCGAAAGTATTTTGG-TCAC
128 AGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTTGGTTGGC
* * * * *
91038 ATATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
192 AGATAACCCTTCTAGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAG
* * * *
91097 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTTTCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGT
*
91162 GCCTTGGAGCTGAGTGTAATCGAACTCGAGGGTC-T-TTGGCAGATAACCCTTCTTGACTTAAGC
66 GCCTTGGAGCTGAGTGTAATCGAACTCGAGGGTCTTGTTGGCAGATAACCCTTCTTGACTTAAGT
*
91225 TATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
131 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* *
91290 AACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCTTTGGAGCTGAGCGTAG
196 AACCCTTCTAGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAG
* ** * * *
91345 TCAAACTCGAAGGTCTTTTGG-TCACAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATG
* * *
91409 TGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTCGGTTGGCAGATAACCATTCTTGACTT
65 TG-CCTTGGAGCTGAGTGTAATCGAACTCGAGGGTCTT--GTTGGCAGATAACCCTTCTTGACTT
* * * * *
91474 AAGTTATGCTGCAAATGATGTGTCTTGGAACTGAGCGTAGTTGAACTCGAAGGCCTTTGGTGGGC
127 AAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGC
91539 A
192 A
91540 CGATTCCCTT
Statistics
Matches: 382, Mismatches: 50, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
247 5 0.01
248 174 0.46
249 51 0.13
250 2 0.01
251 1 0.00
252 30 0.08
253 119 0.31
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (250 bp):
TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGT
GCCTTGGAGCTGAGTGTAATCGAACTCGAGGGTCTTGTTGGCAGATAACCCTTCTTGACTTAAGT
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
AACCCTTCTAGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAG
Found at i:91850 original size:110 final size:110
Alignment explanation
Indices: 91641--92182 Score: 825
Period size: 110 Copynumber: 5.0 Consensus size: 110
91631 ATCCAAATAT
* * * * *
91641 TTGTGTTGTTTCGAGGCCAATATCCTTCG-TCGTTAAGTTGAATTTGACTC----TGAAACTGGA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGACTCTGAATGAAACTGAA
* **
91701 AAGTTGTTTGTTGACAGCCAACCGCCCCTTCG-TAGTGAAGTTGAGC
65 AAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCT-GTGAAGTTGAGC
* * * *
91747 TTATGTTGTCTCGAGTCCAATATTCTTCGCTGCGAAGTTGAAATTGACTATGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
91812 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
91857 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
*
91922 AGTTGTTTGTTGACAGTCAGTCGCCCTTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* *
91967 TTGTGTTGTCTCGAGTCCAATATACTTCGCTGTGAAGTTGAAATTGACTCTTAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
**
92032 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCATTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* *
92077 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGACTCTGAATGAAACTAAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
92142 AGTTGTTTGTT-A-A--CAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
92183 AACCACCATC
Statistics
Matches: 402, Mismatches: 28, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
106 66 0.16
107 1 0.00
108 1 0.00
109 1 0.00
110 332 0.83
111 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (110 bp):
TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
Found at i:93187 original size:95 final size:94
Alignment explanation
Indices: 93018--93203 Score: 284
Period size: 95 Copynumber: 2.0 Consensus size: 94
93008 ATATGTAAAC
* * * *
93018 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATTGCCTTAGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGAGTTTAACCAATTGCCTTAGAGGG
**
93083 ACAGTTCAAGCTTTATTGTATAGTATAATT
66 ACAACTCAAGCTTTATTGTATA-TATAATT
*
93113 ACCTTTATCAGGCTAGTTGAATATTATCCATAAAGCCGGGGAGTTTAACCAATTG-CTCTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGAGTTTAACCAATTGCCT-TAGAGG
93177 GACAACTCAAGCTTTATTGTATATATA
65 GACAACTCAAGCTTTATTGTATATATA
93204 TAACATTATA
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
94 6 0.07
95 77 0.93
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (94 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGAGTTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTATTGTATATATAATT
Found at i:95917 original size:14 final size:14
Alignment explanation
Indices: 95895--95931 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
95885 AAAAAAAATA
95895 ATAAAAATATTAAT
1 ATAAAAATATTAAT
*
95909 ATAATAATATTAAT
1 ATAAAAATATTAAT
*
95923 AAAAAAATA
1 ATAAAAATA
95932 AAATATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAAAATATTAAT
Found at i:95948 original size:37 final size:32
Alignment explanation
Indices: 95886--95977 Score: 103
Period size: 35 Copynumber: 2.7 Consensus size: 32
95876 AAACATGAGA
* *
95886 AAAAAAATAATAAAAATATTAATATAATAATATT
1 AAAAAAA-AATAAAAATATTAATATAACAAT-GT
95920 AATAAAAAAATAAAATATATATATATATAACAATGT
1 AA-AAAAAAATAAAA-ATAT-TA-ATATAACAATGT
95956 AAAAAAGAAATAAAAATATTAA
1 AAAAAA-AAATAAAAATATTAA
95978 AATTAGGAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
33 1 0.02
34 11 0.22
35 17 0.33
36 13 0.25
37 9 0.18
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.28
Consensus pattern (32 bp):
AAAAAAAAATAAAAATATTAATATAACAATGT
Found at i:96472 original size:3 final size:3
Alignment explanation
Indices: 96443--96512 Score: 67
Period size: 3 Copynumber: 23.7 Consensus size: 3
96433 GGCATGTAAA
* *
96443 AAT AAT AA- AAT AAA AAT -AT ATT AAT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
96490 AAAT ATAT AAT -AT AAT -AT AAT AA
1 -AAT A-AT AAT AAT AAT AAT AAT AA
96513 CATATTTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 39 0.68
4 10 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:96484 original size:34 final size:31
Alignment explanation
Indices: 96443--96512 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 31
96433 GGCATGTAAA
96443 AATAATAA-AATAAAAATATATTAATAATAATAAT
1 AATAATAATAA-AAAAATATA-TAAT-ATAAT-AT
*
96477 AATAATAATAAATAAATATATAATATAATAT
1 AATAATAATAAAAAAATATATAATATAATAT
96508 AATAA
1 AATAA
96513 CATATTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
31 7 0.21
32 5 0.15
33 4 0.12
34 16 0.47
35 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (31 bp):
AATAATAATAAAAAAATATATAATATAATAT
Found at i:96517 original size:15 final size:14
Alignment explanation
Indices: 96442--96517 Score: 54
Period size: 14 Copynumber: 5.4 Consensus size: 14
96432 AGGCATGTAA
*
96442 AAATAATAAAATAA-
1 AAAT-ATAATATAAT
*
96456 AAATATATTAATAAT
1 AAATATAAT-ATAAT
96471 -AATAATAATAATAAT
1 AAAT-ATAAT-ATAAT
96486 AAATA-AATAT-AT
1 AAATATAATATAAT
96498 -AATATAATATAAT
1 AAATATAATATAAT
96511 AACATAT
1 AA-ATAT
96518 TTTTATACAC
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
11 4 0.08
12 7 0.14
13 7 0.14
14 15 0.29
15 15 0.29
16 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATATAATATAAT
Found at i:96643 original size:23 final size:23
Alignment explanation
Indices: 96617--96661 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
96607 TCTTATTTGT
*
96617 ATAT-AAAAAATATGTAAAGATTC
1 ATATCAAAAAATA-ATAAAGATTC
96640 ATATCCAAAAAATAATAAAGAT
1 ATAT-CAAAAAATAATAAAGAT
96662 AAATATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (23 bp):
ATATCAAAAAATAATAAAGATTC
Found at i:96667 original size:24 final size:25
Alignment explanation
Indices: 96621--96667 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
96611 ATTTGTATAT
* **
96621 AAAAAATATGTAAAGATTCATATCC
1 AAAAAATATATAAAGATAAATATCC
96646 AAAAAATA-ATAAAGATAAATAT
1 AAAAAATATATAAAGATAAATAT
96668 TATTTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (25 bp):
AAAAAATATATAAAGATAAATATCC
Found at i:98730 original size:32 final size:32
Alignment explanation
Indices: 98683--98743 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
98673 TTGTGTAGGA
** * *
98683 TCAAAATCGGGTCGGTTGGTTTTCGGGTCAGG
1 TCAAAATCGAATCGGTTGATGTTCGGGTCAGG
98715 TCAAAATCGAATCGGTTGATGTTCGGGTC
1 TCAAAATCGAATCGGTTGATGTTCGGGTC
98744 GATATCAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.31
Consensus pattern (32 bp):
TCAAAATCGAATCGGTTGATGTTCGGGTCAGG
Found at i:100247 original size:2 final size:2
Alignment explanation
Indices: 100240--100292 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
100230 AAACAACTTA
100240 AT AT 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 AT AT
100282 AT AT AT AT AT A
1 AT AT AT AT AT A
100293 CTGGGTCGGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:102316 original size:5 final size:5
Alignment explanation
Indices: 102306--102331 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
102296 CAATTATTAC
102306 GTTTG GTTTG GTTTG GTTTG GTTTG G
1 GTTTG GTTTG GTTTG GTTTG GTTTG G
102332 AAAATGAATA
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:0.00, C:0.00, G:0.42, T:0.58
Consensus pattern (5 bp):
GTTTG
Found at i:104508 original size:41 final size:39
Alignment explanation
Indices: 104378--104769 Score: 110
Period size: 41 Copynumber: 9.6 Consensus size: 39
104368 TAACTTTAGC
* *
104378 AGCGTTTCTT-TACAAACGCCGTAATAGGTTCATCTATAGT
1 AGCGTTT-TTATATAAACGCCGCAATAGGTT-ATCTATAGT
* * * * * * *
104418 GGCGTTTTTAAAAAAACGCCACAACA-GTGTAGTACTTTAGC
1 AGCGTTTTTATATAAACGCCGCAATAGGT-TA-T-CTATAGT
* *
104459 GGCGTTTTTATATAAACGCCGTAATAGGTCTATCTATAGT
1 AGCGTTTTTATATAAACGCCGCAATAGGT-TATCTATAGT
* * * *
104499 AGCGTTTTT-TAATAAATGCCGCAATAGATTAGTACTTTAGC
1 AGCGTTTTTAT-ATAAACGCCGCAATAGGTTA-T-CTATAGT
* * * * * * *
104540 GGCGTTTTTATACAAATGTCGTAATAGGATTCACCTATAGC
1 AGCGTTTTTATATAAACGCCGCAATAGG-TT-ATCTATAGT
* * * * * ** * *
104581 GGCATTTTTATACAAACACCCCAATAAATTAGAACTTTAGT
1 AGCGTTTTTATATAAACGCCGCAATAGGTT--ATCTATAGT
* * * * *
104622 GGTGTTTTTATACAAACGCCGCAATAGGGTTCACCGATAGT
1 AGCGTTTTTATATAAACGCCGCAATA-GGTT-ATCTATAGT
* ** * * * *
104663 GGCGTTTTT-TCAATAAACGCTTCAATAGATTATAACTTTGGC
1 AGCGTTTTTAT--ATAAACGCCGCAATAGGTTAT--CTATAGT
* * * *
104705 GGCGTTTTTATACAAACGCCGCAATAGTATTTACCTATAGT
1 AGCGTTTTTATATAAACGCCGCAATAG--GTTATCTATAGT
*
104746 GGCGTTTTT-TCAATAAACGCCGCA
1 AGCGTTTTTAT--ATAAACGCCGCA
104770 GTTGTTTGAA
Statistics
Matches: 260, Mismatches: 70, Indels: 42
0.70 0.19 0.11
Matches are distributed among these distances:
39 8 0.03
40 53 0.20
41 150 0.58
42 44 0.17
43 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (39 bp):
AGCGTTTTTATATAAACGCCGCAATAGGTTATCTATAGT
Found at i:104709 original size:42 final size:42
Alignment explanation
Indices: 104635--104769 Score: 114
Period size: 42 Copynumber: 3.2 Consensus size: 42
104625 GTTTTTATAC
** * * * *
104635 AAACGCCGCAATAGGGTTCACCGATAGTGGCGTTTTTTCAAT
1 AAACGCCGCAATAGTATTTAACTATAGCGGCGTTTTTTCAAT
** * * *
104677 AAACGCTTCAATAG-ATTATAACTTTGGCGGCG-TTTTT-ATAC
1 AAACGCCGCAATAGTATT-TAACTATAGCGGCGTTTTTTCA-AT
* *
104718 AAACGCCGCAATAGTATTTACCTATAGTGGCGTTTTTTCAAT
1 AAACGCCGCAATAGTATTTAACTATAGCGGCGTTTTTTCAAT
104760 AAACGCCGCA
1 AAACGCCGCA
104770 GTTGTTTGAA
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
40 1 0.01
41 30 0.42
42 39 0.55
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (42 bp):
AAACGCCGCAATAGTATTTAACTATAGCGGCGTTTTTTCAAT
Found at i:104719 original size:83 final size:84
Alignment explanation
Indices: 104367--104766 Score: 405
Period size: 81 Copynumber: 4.9 Consensus size: 84
104357 CTACAAAATG
* * *
104367 GTAACTTTAGCAGCGTTTCTT-TACAAACGCCGTAATA-GGTTCATCTATAGTGGCG-TTTTTAA
1 GTAACTTTAGCGGCGTTT-TTATACAAACGCCGTAATAGGGTTCACCTATAGTGGCGTTTTTTCA
* *
104429 AAAAACGCCACAACAG-TGTA
65 ATAAACGCCACAATAGAT-TA
* * *
104449 GT-ACTTTAGCGGCGTTTTTATATAAACGCCGTAATA-GG-TCTATCTATAGTAGCGTTTTTT-A
1 GTAACTTTAGCGGCGTTTTTATACAAACGCCGTAATAGGGTTC-ACCTATAGTGGCGTTTTTTCA
* *
104510 ATAAATGCCGCAATAGATTA
65 ATAAACGCCACAATAGATTA
* * * * *
104530 GT-ACTTTAGCGGCGTTTTTATACAAATGTCGTAATAGGATTCACCTATAGCGGCATTTTTATAC
1 GTAACTTTAGCGGCGTTTTTATACAAACGCCGTAATAGGGTTCACCTATAGTGGCGTTTTT-T-C
* *
104594 AA-ACAC-CC-CAATAAATTA
64 AATAAACGCCACAATAGATTA
* * * *
104612 G-AACTTTAGTGGTGTTTTTATACAAACGCCGCAATAGGGTTCACCGATAGTGGCGTTTTTTCAA
1 GTAACTTTAGCGGCGTTTTTATACAAACGCCGTAATAGGGTTCACCTATAGTGGCGTTTTTTCAA
**
104676 TAAACGCTTCAATAGATTA
66 TAAACGCCACAATAGATTA
* * ** *
104695 -TAACTTTGGCGGCGTTTTTATACAAACGCCGCAATAGTATTTACCTATAGTGGCGTTTTTTCAA
1 GTAACTTTAGCGGCGTTTTTATACAAACGCCGTAATAGGGTTCACCTATAGTGGCGTTTTTTCAA
104759 TAAACGCC
66 TAAACGCC
104767 GCAGTTGTTT
Statistics
Matches: 266, Mismatches: 38, Indels: 27
0.80 0.11 0.08
Matches are distributed among these distances:
80 7 0.03
81 95 0.36
82 83 0.31
83 77 0.29
84 2 0.01
85 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (84 bp):
GTAACTTTAGCGGCGTTTTTATACAAACGCCGTAATAGGGTTCACCTATAGTGGCGTTTTTTCAA
TAAACGCCACAATAGATTA
Found at i:108438 original size:42 final size:43
Alignment explanation
Indices: 108363--108483 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
108353 AGAAAGATAA
* *
108363 TTAGCGGCGTTTGTAT-CAAAAAACGCTGCTATAGATAT-GATTT
1 TTAGCGGCATTTGT-TCCAAAAAA-GCCGCTATAGATATCGATTT
*
108406 TTAGTGGCATTTGTTCCAAAAAAGCCGCTATAGATATCGATTT
1 TTAGCGGCATTTGTTCCAAAAAAGCCGCTATAGATATCGATTT
* * *
108449 TTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGAT
1 TTAGCGGCATTTGTTCCAAAAAAGCCGCTATAGAT
108484 CTTGACTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 14 0.20
43 55 0.80
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (43 bp):
TTAGCGGCATTTGTTCCAAAAAAGCCGCTATAGATATCGATTT
Found at i:114264 original size:19 final size:20
Alignment explanation
Indices: 114242--114281 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
114232 TTCTCTCATC
114242 TCTTCTTC-CTTCTT-TCTTA
1 TCTTCTTCAC-TCTTCTCTTA
114261 TCTTCTTCACTCTTCTCTTA
1 TCTTCTTCACTCTTCTCTTA
114281 T
1 T
114282 TCCAAACGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (20 bp):
TCTTCTTCACTCTTCTCTTA
Found at i:116371 original size:18 final size:18
Alignment explanation
Indices: 116336--116371 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
116326 AAAATGGGTA
* *
116336 CATATGTTATATGTATTG
1 CATATGTTACATGAATTG
116354 CATATGTTACATGAATTG
1 CATATGTTACATGAATTG
116372 AATGAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (18 bp):
CATATGTTACATGAATTG
Found at i:117558 original size:18 final size:18
Alignment explanation
Indices: 117529--117598 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 18
117519 TTAAGGAGTA
*
117529 GTCCTTCGGGACATAGTG
1 GTCCTACGGGACATAGTG
*
117547 GCCCTACGGGACATATACAGTG
1 GTCCTACGGGAC--AT--AGTG
*
117569 GTCCTTCGGGACATAGTG
1 GTCCTACGGGACATAGTG
117587 GTCCTACGGGAC
1 GTCCTACGGGAC
117599 GAATACTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 25 0.58
20 4 0.09
22 14 0.33
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (18 bp):
GTCCTACGGGACATAGTG
Found at i:118544 original size:22 final size:21
Alignment explanation
Indices: 118490--118553 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
118480 AGTCGAGGGT
*
118490 TTCATAGGTCATTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
*
118511 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
* *
118533 TTCACAGGTCCTTCGAGACAA
1 TTCATAGGTCCTTCGGGACAA
118554 ATTTCATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.51
22 18 0.49
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:119095 original size:22 final size:22
Alignment explanation
Indices: 119067--119112 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
119057 TGTAGCAGTA
*
119067 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCAGGGGAATCGATTCC
119089 CTGTAGCAGGGGAATCGATTCC
1 CTGTAGCAGGGGAATCGATTCC
119111 CT
1 CT
119113 ATTTGTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.24
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGATTCC
Found at i:120573 original size:52 final size:53
Alignment explanation
Indices: 120508--120614 Score: 162
Period size: 52 Copynumber: 2.0 Consensus size: 53
120498 CACAAGATGG
* *
120508 GGCACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATGACAACTAATTACAA
1 GGCACATA-AAATAGGAAACTAGCCTAGAGTTAGGGAATGACAACTAATCACAA
* *
120562 GGCACAT-AAATAGGAGACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
1 GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATGACAACTAATCACAA
120614 G
1 G
120615 AATATTATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 42 0.86
54 7 0.14
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (53 bp):
GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATGACAACTAATCACAA
Found at i:123642 original size:13 final size:13
Alignment explanation
Indices: 123624--123648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123614 AGCCATTAGT
123624 TTCATAATTAATA
1 TTCATAATTAATA
123637 TTCATAATTAAT
1 TTCATAATTAAT
123649 GTGAAATGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCATAATTAATA
Found at i:125761 original size:20 final size:20
Alignment explanation
Indices: 125732--125769 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
125722 GAACCCTAGG
*
125732 GGGGGTATCGATTCCCCTGT
1 GGGGGAATCGATTCCCCTGT
*
125752 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
125770 TCAAAGGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCCTGT
Found at i:125778 original size:23 final size:22
Alignment explanation
Indices: 125752--125810 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 22
125742 ATTCCCCTGT
125752 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTC-AA
125775 GGGGGAATCGGTT--CCTTCAA
1 GGGGGAATCGGTTCCCCTTCAA
* *
125795 GGGGGGATCGATTCCC
1 GGGGGAATCGGTTCCC
125811 TCTGCACCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 13 0.41
21 5 0.16
22 1 0.03
23 13 0.41
ACGTcount: A:0.19, C:0.24, G:0.36, T:0.22
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTTCAA
Found at i:134802 original size:52 final size:53
Alignment explanation
Indices: 134737--134843 Score: 162
Period size: 52 Copynumber: 2.0 Consensus size: 53
134727 CACAAGATGG
* *
134737 GGCACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAA
1 GGCACATA-AAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
**
134791 GGCACAT-AAATAGGAGGCTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
1 GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
134843 G
1 G
134844 AATATTATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 42 0.86
54 7 0.14
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (53 bp):
GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
Found at i:135886 original size:48 final size:48
Alignment explanation
Indices: 135808--135992 Score: 289
Period size: 48 Copynumber: 3.9 Consensus size: 48
135798 TTACACCCCG
* * * * * * *
135808 CCAATAGGAATGAAACATATTTTATTATCAATCAAATACCTAAACTCA
1 CCAATAGTAATGGAATATATTTCATGATCAATCATACACCTAAACTCA
135856 CCAATAGTAATGGAATATATTTCATGATCAATCATACACCTAAACTCA
1 CCAATAGTAATGGAATATATTTCATGATCAATCATACACCTAAACTCA
135904 CCAATAGTAATGGAATATATTTCATGATCAATCATACACCTAAACTCA
1 CCAATAGTAATGGAATATATTTCATGATCAATCATACACCTAAACTCA
* *
135952 CCAATAGTAATGGAATATATTTCATGATCAATTATATACCT
1 CCAATAGTAATGGAATATATTTCATGATCAATCATACACCT
135993 CTTAAGAGAA
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 128 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (48 bp):
CCAATAGTAATGGAATATATTTCATGATCAATCATACACCTAAACTCA
Found at i:137212 original size:15 final size:15
Alignment explanation
Indices: 137170--137217 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
137160 AGATCCACCT
137170 CCACCGTAACCGCCG
1 CCACCGTAACCGCCG
* ***
137185 CCGCCGCCTCCGCCG
1 CCACCGTAACCGCCG
137200 CCACCGTAACCGCCG
1 CCACCGTAACCGCCG
137215 CCA
1 CCA
137218 TAACCGCCTC
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.15, C:0.58, G:0.21, T:0.06
Consensus pattern (15 bp):
CCACCGTAACCGCCG
Found at i:145319 original size:19 final size:18
Alignment explanation
Indices: 145295--145332 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
145285 ATTTTTTATA
145295 TATTTTT-TATTAAAAATT
1 TATTTTTCTATT-AAAATT
*
145313 TATTTTTCTCTTAAAATT
1 TATTTTTCTATTAAAATT
145331 TA
1 TA
145333 ATAAACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTTCTATTAAAATT
Found at i:148120 original size:31 final size:31
Alignment explanation
Indices: 148085--148147 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
148075 CTCTTACATA
*
148085 CAATATTCCAGTAATACCATGTCTTATATTT
1 CAATACTCCAGTAATACCATGTCTTATATTT
**
148116 CAATACTCTGGTAATACCATGTCTTATATTT
1 CAATACTCCAGTAATACCATGTCTTATATTT
148147 C
1 C
148148 TAATGTAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (31 bp):
CAATACTCCAGTAATACCATGTCTTATATTT
Found at i:148324 original size:12 final size:12
Alignment explanation
Indices: 148309--148334 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
148299 TTTATATATA
148309 TTTTTTTTCTTT
1 TTTTTTTTCTTT
148321 TTTTTTTTCTTT
1 TTTTTTTTCTTT
148333 TT
1 TT
148335 ACTTTTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:152542 original size:44 final size:44
Alignment explanation
Indices: 152489--152629 Score: 144
Period size: 43 Copynumber: 3.2 Consensus size: 44
152479 TTTTGAGATT
* * ** *
152489 TAGCGGCGTTTTTTGGATACAAATGTTGCTAAAGGTCTGGTATA
1 TAGCGGCGTTTTTAGGATACAAACGCCGCTAAAGATCTGGTATA
* *
152533 TAGTGGCGTTTTTAGGAT-GAAACGCCGCTAAAGATCTGGTATA
1 TAGCGGCGTTTTTAGGATACAAACGCCGCTAAAGATCTGGTATA
* * * *
152576 TAGCGGCATTTTTAGTATACAAACGCGGCTAAATG-T-TGATATA
1 TAGCGGCGTTTTTAGGATACAAACGCCGCTAAA-GATCTGGTATA
*
152619 TAGCGACGTTT
1 TAGCGGCGTTT
152630 GTTACAAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
43 50 0.62
44 29 0.36
45 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (44 bp):
TAGCGGCGTTTTTAGGATACAAACGCCGCTAAAGATCTGGTATA
Found at i:156056 original size:18 final size:18
Alignment explanation
Indices: 156035--156083 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
156025 TTTATTTCTT
156035 TTTATTTGTAAATATTAA
1 TTTATTTGTAAATATTAA
* * *
156053 TTTATTTTTTAATATTGA
1 TTTATTTGTAAATATTAA
* *
156071 TTAATATGTAAAT
1 TTTATTTGTAAAT
156084 GTTTACTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTATTTGTAAATATTAA
Found at i:160654 original size:34 final size:34
Alignment explanation
Indices: 160611--160735 Score: 120
Period size: 34 Copynumber: 3.8 Consensus size: 34
160601 TTCGTCCTAC
160611 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
160645 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
*
160680 GCTAGGATTC--A-----AAAAATAGGATATAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
160709 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
160736 CCACAAGCAC
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 12 0.16
34 39 0.53
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:161034 original size:24 final size:23
Alignment explanation
Indices: 161002--161069 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 23
160992 TTTTTCTTTT
161002 TTTTCATGTAATATTTTTTTTTACA
1 TTTT-ATGTAATATTTTTTTTTA-A
161027 TTTTATGT-AT-TTTCTTTTTTAA
1 TTTTATGTAATATTT-TTTTTTAA
161049 -TTTA-GTATATATTTTTATTTT
1 TTTTATGTA-ATATTTTT-TTTT
161070 TTTTAGATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
20 2 0.05
21 4 0.11
22 8 0.21
23 16 0.42
24 4 0.11
25 4 0.11
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTTATGTAATATTTTTTTTTAA
Found at i:161052 original size:21 final size:21
Alignment explanation
Indices: 160993--161056 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 21
160983 TTGTTATTTT
*
160993 TTTTCTTTTTT--TTCATGTAA
1 TTTTCTTTTTTAATTTATGT-A
161013 TATTT-TTTTTTACATTTTATGTA
1 T-TTTCTTTTTTA-A-TTTATGTA
161036 TTTTCTTTTTTAATTTA-GTA
1 TTTTCTTTTTTAATTTATGTA
161056 T
1 T
161057 ATATTTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
20 11 0.30
21 7 0.19
22 4 0.11
23 9 0.24
24 6 0.16
ACGTcount: A:0.19, C:0.06, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTCTTTTTTAATTTATGTA
Found at i:161164 original size:29 final size:28
Alignment explanation
Indices: 161132--161257 Score: 102
Period size: 29 Copynumber: 4.6 Consensus size: 28
161122 TATATATATA
161132 TATATATATTTACTTTTTTTTTTTTATTT
1 TATATATATTTA-TTTTTTTTTTTTATTT
*
161161 TATATATATATTATTTTTACTTTTTTA--T
1 TATATATAT-TTATTTTT-TTTTTTTATTT
* *
161189 TAT-TAT-TTTATTTATTTGTTTTATTT
1 TATATATATTTATTTTTTTTTTTTATTT
* * * * *
161215 CTATATTTTTTTCTTCTTTTTCTTTATTT
1 -TATATATATTTATTTTTTTTTTTTATTT
161244 T-T-TATATTTATTTT
1 TATATATATTTATTTT
161258 ACTTACTATT
Statistics
Matches: 76, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
24 6 0.08
25 7 0.09
26 10 0.13
27 7 0.09
28 7 0.09
29 29 0.38
30 10 0.13
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.75
Consensus pattern (28 bp):
TATATATATTTATTTTTTTTTTTTATTT
Found at i:161165 original size:31 final size:31
Alignment explanation
Indices: 161130--161194 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
161120 TTTATATATA
*
161130 TATATATATATTTACTTTTT-TTTTTTTATT-T
1 TATATATATA-TTA-TTTTTACTTTTTTATTAT
161161 TATATATATATTATTTTTACTTTTTTATTAT
1 TATATATATATTATTTTTACTTTTTTATTAT
161192 TAT
1 TAT
161195 TTTATTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 5 0.16
30 12 0.39
31 14 0.45
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (31 bp):
TATATATATATTATTTTTACTTTTTTATTAT
Found at i:161184 original size:23 final size:19
Alignment explanation
Indices: 161152--161257 Score: 65
Period size: 20 Copynumber: 5.2 Consensus size: 19
161142 TACTTTTTTT
161152 TTTTTATTTTATATATATATTA
1 TTTTTATTTT-T-TAT-TATTA
161174 TTTTTACTTTTTTATTATTA
1 TTTTTA-TTTTTTATTATTA
*
161194 -TTTTATTTATTTGTT-TTA
1 TTTTTATTT-TTTATTATTA
* * *
161212 TTTCTATATTTTTTTCTTCTTT
1 TTT-T-TA-TTTTTTATTATTA
161234 TTCTTTATTTTTTA-TATTTA
1 TT-TTTATTTTTTATTA-TTA
161254 TTTT
1 TTTT
161258 ACTTACTATT
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
18 6 0.09
19 15 0.22
20 16 0.23
21 12 0.17
22 15 0.22
23 5 0.07
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (19 bp):
TTTTTATTTTTTATTATTA
Found at i:161221 original size:21 final size:20
Alignment explanation
Indices: 161181--161256 Score: 59
Period size: 21 Copynumber: 3.8 Consensus size: 20
161171 TTATTTTTAC
161181 TTTTTTATTATTATTT-TAT-
1 TTTTTTATT-TTATTTCTATA
* *
161200 TTATTTGTTTTATTTCTATA
1 TTTTTTATTTTATTTCTATA
* *
161220 TTTTTT-TCTTCTTTTTCTTTA
1 TTTTTTAT-TT-TATTTCTATA
161241 TTTTTTATATTTATTT
1 TTTTTTAT-TTTATTT
161257 TACTTACTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 7 0.16
21 18 0.40
22 3 0.07
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (20 bp):
TTTTTTATTTTATTTCTATA
Found at i:161363 original size:15 final size:15
Alignment explanation
Indices: 161345--161374 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
161335 TATTTATTTC
161345 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
161360 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
161375 ACATGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (15 bp):
TTACCTTTTTATCTA
Found at i:164397 original size:22 final size:22
Alignment explanation
Indices: 164374--164435 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
164364 CAAAAAGGGC
164374 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
* *
164397 AAAAAGGAAAAAACAAGAA-CA
1 AAAAAGAAAAAAAAAAGAAGCA
164418 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
164436 TAAAAAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:164426 original size:20 final size:20
Alignment explanation
Indices: 164374--164443 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
164364 CAAAAAGGGC
*
164374 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAG-AAAAA-ACAAGAA-CA
164397 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
164418 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
164438 AAAAAG
1 AAAAAG
164444 GGAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 18 0.43
21 7 0.17
22 6 0.14
23 10 0.24
24 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:165501 original size:18 final size:18
Alignment explanation
Indices: 165478--165513 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
165468 TCAACATGAA
*
165478 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
165496 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
165514 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:166175 original size:36 final size:36
Alignment explanation
Indices: 166077--166234 Score: 280
Period size: 36 Copynumber: 4.3 Consensus size: 36
166067 ATTGAAAACA
*
166077 TTTCCCTTGAAATAAATTTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAATAAATTTT-GTCTCTCTTGAGACAG
*
166114 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGACAG
166151 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
166187 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
166223 TTTCCCTTGAAA
1 TTTCCCTTGAAA
166235 CAAAATATTT
Statistics
Matches: 117, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
36 71 0.61
37 39 0.33
38 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
Found at i:166320 original size:138 final size:137
Alignment explanation
Indices: 166114--166437 Score: 450
Period size: 138 Copynumber: 2.4 Consensus size: 137
166104 CTTGAGATAG
* *
166114 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCT
1 TTTCCCCTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCT
* * *
166179 TGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATT
65 TGAGACAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATT
*
166244 TGAATATG
130 TGAATATA
* * * * ** * *
166252 TTTTCTCTGAAACAAATTTCGTCCCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCCTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCT
* *
166317 TGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTT
65 TGAGACAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATT
*
166382 TGAATTTA
130 TGAATATA
* * *
166390 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAA
1 TTTCCCCTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
166438 CACAAAATCT
Statistics
Matches: 160, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
137 29 0.18
138 131 0.82
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (137 bp):
TTTCCCCTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTT
GAATATA
Found at i:166321 original size:174 final size:173
Alignment explanation
Indices: 165994--166376 Score: 511
Period size: 174 Copynumber: 2.2 Consensus size: 173
165984 ACTAGAAGAG
* *
165994 TTTTGTCTTTCTTGAGACAGTTTCCCTTGAAACAAATTGTCTCCCTTGAGACAGTTTCTCTTGAA
1 TTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTGTCTCCCTTGAGACAGTTTCCCTTGAA
* * * *
166059 ACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTCGTCTCTCTTGAGATAGTTTCCCTTGA
66 ACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTCGTCCCCCTTGAGACAGTTTCCCTTGA
*
166124 AACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAA
131 AACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
166167 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAA--TTGTCTCCCTTGAGACAGTTTCCCTTG
* * ** * **
166232 AAACA-AAATATTTGAATATGTTT-TCTCTGAAACAAA-TTTCGTCCCCCTTGAGACAGTTTCTT
64 AAACATAAACA-TTGAAAACATTTCCCT-TGAAACAAATTTTCGTCCCCCTTGAGACAGTTTCCC
* * * *
166294 TTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
127 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
166341 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
166377 ATCTTTGAAT
Statistics
Matches: 183, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
173 34 0.19
174 102 0.56
175 47 0.26
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (173 bp):
TTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTGTCTCCCTTGAGACAGTTTCCCTTGAA
ACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTCGTCCCCCTTGAGACAGTTTCCCTTGA
AACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:166334 original size:102 final size:101
Alignment explanation
Indices: 166158--166340 Score: 276
Period size: 102 Copynumber: 1.8 Consensus size: 101
166148 CAGTTTCCCT
* * * *
166158 TGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TGAAACAAATTTCGTCCCCCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
166223 TTTCCCTTGAAACAAAATATTTGAATATGTTTTCTC
66 TTTCCCTTGAAACAAAATATTTGAATATGTTTTCTC
** * *
166259 TGAAACAAATTTCGTCCCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 TGAAACAAATTTCGTCCCCCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCTTGAGACA
*
166324 GTTTCTCTTGAAACAAA
65 GTTTCCCTTGAAACAAA
166341 TTTCGTCTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 31 0.43
102 41 0.57
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (101 bp):
TGAAACAAATTTCGTCCCCCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
TTTCCCTTGAAACAAAATATTTGAATATGTTTTCTC
Found at i:166361 original size:36 final size:36
Alignment explanation
Indices: 166253--166376 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
166243 TTGAATATGT
* *
166253 TTTCTC-TGAAACAAATTTCGTCCCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * * *
166288 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
*
166325 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
166361 TTTCCCTTGAAACAAA
1 TTTCTCTTGAAACAAA
166377 ATCTTTGAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
35 5 0.07
36 40 0.53
37 30 0.40
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.38
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:166438 original size:65 final size:65
Alignment explanation
Indices: 166334--166508 Score: 215
Period size: 65 Copynumber: 2.6 Consensus size: 65
166324 GTTTCTCTTG
* ** * **
166334 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
* *
166399 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
166464 TA
64 TA
* * * *
166466 AGACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
166509 CAGATATCTT
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
65 31 0.33
66 6 0.06
67 30 0.32
68 27 0.29
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:166505 original size:68 final size:67
Alignment explanation
Indices: 166334--166507 Score: 217
Period size: 68 Copynumber: 2.6 Consensus size: 67
166324 GTTTCTCTTG
* ** * **
166334 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCC
166397 TA
66 TA
* *
166399 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCC
166464 TA
66 TA
* * * *
166466 AGACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
166508 ACAGATATCT
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
65 31 0.33
66 2 0.02
67 28 0.30
68 32 0.34
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:167232 original size:105 final size:105
Alignment explanation
Indices: 166976--167422 Score: 434
Period size: 105 Copynumber: 4.3 Consensus size: 105
166966 AACATCCACG
* * * *
166976 ATTTCAACTCCACGATGGAGGATATCGTGCCACTCAAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACGACGGAGGATAT--TG-GACCCAAGACAACACAAGTTCAACTTCACAACGAA
* * * * **
167041 GGGACGACTGGTTGTCAACGAACAACTTTCCAATTTCAAAGCTG
63 GGGACGGCTGGTTGTCAACAAACAA-TTTCCAGTTTCAGAGCCA
* * * *
167085 ATTT----TCCACGACGGAGGATATCATGCTACCTATGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACGACGGAGGATAT--TG-GACCCAAGACAACACAAGTTCAACTTCACAACGAA
*
167146 GGGACGGCTGGTTGTCAAC-AACAATTTCCCAGTTTCAGGGCCA
63 GGGACGGCTGGTTGTCAACAAACAATTT-CCAGTTTCAGAGCCA
* * *
167189 ATTTCAACTTCAC-AGCGGAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGG
1 ATTTCAACTTCACGA-CGGAGGATATTGGACCCAAGACAACACAAGTTCAACTTCACAACGAAGG
* **
167253 GGCGGCTGACTGTCAACAAACAATTT-C-G-----GAGCCA
65 GACGGCTGGTTGTCAACAAACAATTTCCAGTTTCAGAGCCA
* * * * * *
167287 ATCTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACGACGGAGGATATTGGACCCAAGACAACACAAGTTCAACTTCACAACGAAGGG
* * * *
167352 ACGGCTGGTTGTCAACAAACAATTTTTCGGTTCCAGAGCTA
66 ACGGCTGGTTGTCAACAAACAA-TTTCCAGTTTCAGAGCCA
167393 ATTTCAACTTCACGACGGAGGATATTGGAC
1 ATTTCAACTTCACGACGGAGGATATTGGAC
167423 TTGGAACAAT
Statistics
Matches: 283, Mismatches: 39, Indels: 35
0.79 0.11 0.10
Matches are distributed among these distances:
98 79 0.28
99 4 0.01
100 1 0.00
101 1 0.00
103 4 0.01
104 20 0.07
105 114 0.40
106 41 0.14
107 1 0.00
108 14 0.05
109 4 0.01
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACGACGGAGGATATTGGACCCAAGACAACACAAGTTCAACTTCACAACGAAGGG
ACGGCTGGTTGTCAACAAACAATTTCCAGTTTCAGAGCCA
Found at i:168015 original size:34 final size:34
Alignment explanation
Indices: 167972--168096 Score: 129
Period size: 34 Copynumber: 3.8 Consensus size: 34
167962 TTCGTCCTAC
167972 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
168006 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
168041 GCTAGGATTC--A-----AAAAATAGGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
168070 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
168097 CCACAAGCAC
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 13 0.18
34 39 0.53
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:168381 original size:23 final size:19
Alignment explanation
Indices: 168355--168408 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 19
168345 TGTTATTTTT
168355 TTTTCTTTTTTTTTCATGTAA
1 TTTTCTTTTTTTTT-ATGT-A
*
168376 TATTTTTTTTATATTTTATGTA
1 T-TTTCTTTT-T-TTTTATGTA
168398 TTTTCTTTTTT
1 TTTTCTTTTTT
168409 ACTTTAGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 1 0.04
20 1 0.04
21 8 0.29
22 9 0.32
23 5 0.18
24 4 0.14
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTTCTTTTTTTTTATGTA
Found at i:168468 original size:9 final size:9
Alignment explanation
Indices: 168454--168610 Score: 54
Period size: 9 Copynumber: 16.1 Consensus size: 9
168444 TATATAAATA
168454 TATTATTTT
1 TATTATTTT
168463 TATTATCAGTTT
1 TATTAT---TTT
*
168475 TATTAATTTA
1 TATT-ATTTT
*
168485 TATATATATT
1 TAT-TATTTT
168495 TACTT-TTTT
1 TA-TTATTTT
168504 TATT-TTTT
1 TATTATTTT
*
168512 TATTTTATATATA
1 TA--TTAT-T-TT
168525 TATTATTTT
1 TATTATTTT
*
168534 TACT-TTTT
1 TATTATTTT
168542 TATTATTATTT
1 TATTA-T-TTT
168553 TATTTATTTGT
1 TA-TTATTT-T
168564 T-TTATTTCT
1 TATTATTT-T
168573 ATATT-TTTT
1 -TATTATTTT
* *
168582 TCTTCTTTT
1 TATTATTTT
*
168591 TCTTATTTT
1 TATTATTTT
*
168600 TCTTTATTTT
1 T-ATTATTTT
168610 T
1 T
168611 TATATTTATT
Statistics
Matches: 116, Mismatches: 12, Indels: 39
0.69 0.07 0.23
Matches are distributed among these distances:
8 18 0.16
9 36 0.31
10 29 0.25
11 17 0.15
12 11 0.09
13 5 0.04
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.73
Consensus pattern (9 bp):
TATTATTTT
Found at i:168503 original size:71 final size:69
Alignment explanation
Indices: 168403--168535 Score: 153
Period size: 71 Copynumber: 1.9 Consensus size: 69
168393 ATGTATTTTC
* *
168403 TTTTTTACTTTAGTATATATTTTTATTTTTT-TTAGATTATATATATAAATATATTATTTTTATT
1 TTTTTTAATTTAGTATATATATTTATTTTTTATTAGATTAT-TATATAAATATATTATTTTTATT
168467 ATCAG
65 ATCAG
*** * *
168472 TTTTATTAATTTA-TATATATATTTACTTTTTTTATTTTTTTATTTTATATATATATTATTTTTA
1 TTTT-TTAATTTAGTATATATATTTA--TTTTTTATTAGATTATTATATAAATATATTATTTTTA
168536 CTTTTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
69 15 0.28
70 7 0.13
71 25 0.47
72 6 0.11
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (69 bp):
TTTTTTAATTTAGTATATATATTTATTTTTTATTAGATTATTATATAAATATATTATTTTTATTA
TCAG
Found at i:168504 original size:41 final size:39
Alignment explanation
Indices: 168442--168561 Score: 113
Period size: 41 Copynumber: 3.0 Consensus size: 39
168432 TTTTAGATTA
* * *
168442 TATATATAAATATA-TTATTTTTATTATCAGTTTTATTAATT
1 TATATATATATTTACTT-TTTTTATTAT-A-TTTTATTTATT
*
168483 TATATATATATTTACTTTTTTTATT-T-TTTTATTTTATA
1 TATATATATATTTACTTTTTTTATTATATTTTA-TTTATT
*
168521 TATATATTATTTTTAC-TTTTTTATTATTATTTTATTTATT
1 TATATA-TATATTTACTTTTTTTATTA-TATTTTATTTATT
168561 T
1 T
168562 GTTTTATTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
37 5 0.07
38 19 0.28
39 8 0.12
40 8 0.12
41 25 0.37
42 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.68
Consensus pattern (39 bp):
TATATATATATTTACTTTTTTTATTATATTTTATTTATT
Found at i:168523 original size:30 final size:29
Alignment explanation
Indices: 168487--168622 Score: 107
Period size: 30 Copynumber: 4.5 Consensus size: 29
168477 TTAATTTATA
168487 TATATATTTACTTTTTTTATTTTTTTATTT
1 TATATATTTA-TTTTTTTATTTTTTTATTT
* *
168517 TATATATATATTATTTTTACTTTTTTATTAT
1 TATATATTTATT-TTTTTATTTTTTTATT-T
* * *
168548 TATTTTATTTATTTGTTTTATTTCTATATTT
1 TA-TATATTTATTT-TTTTATTTTTTTATTT
*
168579 T-T-T-TCTTCTTTTTCTTATTTTTCTTTATTT
1 TATATAT-TTATTTTT-TTA-TTTT-TTTATTT
*
168609 TTTATATTTATTTT
1 TATATATTTATTTT
168623 ACTTACTATT
Statistics
Matches: 84, Mismatches: 11, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
27 3 0.04
28 9 0.11
29 6 0.07
30 31 0.37
31 7 0.08
32 27 0.32
33 1 0.01
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (29 bp):
TATATATTTATTTTTTTATTTTTTTATTT
Found at i:168534 original size:32 final size:32
Alignment explanation
Indices: 168446--168579 Score: 105
Period size: 30 Copynumber: 4.0 Consensus size: 32
168436 AGATTATATA
* *
168446 TATAAATATATTATTTTTATTATCAGTTTTATTAATT
1 TATATATATATTATTTTT-TTAT---TTTT-TTATTT
168483 TATATATATATTTACTTTTTTTATTTTTTTATTT
1 TATATATATA-TTA-TTTTTTTATTTTTTTATTT
*
168517 TATATATATATTA--TTTTTACTTTTTTATTAT
1 TATATATATATTATTTTTTTATTTTTTTATT-T
* * *
168548 TAT-TTTAT-TTATTTGTTTTATTTCTATATTT
1 TATATATATATTATTT-TTTTATTTTTTTATTT
168579 T
1 T
168580 TTTCTTCTTT
Statistics
Matches: 84, Mismatches: 7, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
29 3 0.04
30 19 0.23
31 7 0.08
32 12 0.14
33 3 0.04
34 15 0.18
35 4 0.05
37 9 0.11
38 7 0.08
39 5 0.06
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (32 bp):
TATATATATATTATTTTTTTATTTTTTTATTT
Found at i:168542 original size:25 final size:24
Alignment explanation
Indices: 168514--168590 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
168504 TATTTTTTTA
168514 TTTTATATATATATTATTTTTACTT-
1 TTTTAT-TATATATT-TTTTTACTTC
* *
168539 TTTTATTAT-TATTTTATTTATTTG
1 TTTTATTATATATTTT-TTTACTTC
*
168563 TTTTATTTCTATATTTTTTT-CTTC
1 TTTTA-TTATATATTTTTTTACTTC
168587 TTTT
1 TTTT
168591 TCTTATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
22 2 0.05
23 10 0.23
24 14 0.32
25 12 0.27
26 6 0.14
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.74
Consensus pattern (24 bp):
TTTTATTATATATTTTTTTACTTC
Found at i:168569 original size:38 final size:37
Alignment explanation
Indices: 168459--168570 Score: 100
Period size: 38 Copynumber: 2.9 Consensus size: 37
168449 AAATATATTA
* * * *
168459 TTTTTATTATCAGTTTTATTAATTTATATATATATTTAC
1 TTTTTATTATTA-TTTTATTTATTTAT-TTTATTTTTAC
* *
168498 TTTTT-TTATTTTTTTATTTTATATATATATTATTTTTAC
1 TTTTTATTATTATTTTA-TTTAT-T-TATTTTATTTTTAC
*
168537 TTTTTTATTATTATTTTATTTATTTGTTTTATTT
1 -TTTTTATTATTATTTTATTTATTTATTTTATTT
168571 CTATATTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
37 5 0.08
38 16 0.27
39 15 0.25
40 13 0.22
41 10 0.17
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (37 bp):
TTTTTATTATTATTTTATTTATTTATTTTATTTTTAC
Found at i:168609 original size:18 final size:19
Alignment explanation
Indices: 168588--168665 Score: 65
Period size: 18 Copynumber: 4.2 Consensus size: 19
168578 TTTTTCTTCT
168588 TTTTCTTATTTT-TCTTTA
1 TTTTCTTATTTTATCTTTA
168606 TTTT-TTATATTTAT-TTTA
1 TTTTCTTAT-TTTATCTTTA
* * *
168624 CTTAC-TATTTTATCTTTG
1 TTTTCTTATTTTATCTTTA
*
168642 TTTTCTTTATCTTATCTTTTA
1 TTTTC-TTATTTTATC-TTTA
168663 TTT
1 TTT
168666 AATTTGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
17 9 0.20
18 22 0.48
19 1 0.02
20 8 0.17
21 6 0.13
ACGTcount: A:0.15, C:0.10, G:0.01, T:0.73
Consensus pattern (19 bp):
TTTTCTTATTTTATCTTTA
Found at i:168617 original size:47 final size:49
Alignment explanation
Indices: 168501--168617 Score: 125
Period size: 49 Copynumber: 2.4 Consensus size: 49
168491 TATTTACTTT
* * * * *
168501 TTTTATTTTTTTATTTTATATATATATTATTTTTACTTTTTTATTATTA
1 TTTTATTTATTTGTTTTATTTCTATATTATTTTTACTTCTTTATTATTA
*
168550 TTTTATTTATTTGTTTTATTTCTATATT-TTTTT-CTTCTTT-TTCTTA
1 TTTTATTTATTTGTTTTATTTCTATATTATTTTTACTTCTTTATTATTA
*
168596 TTTTTCTTTATTT-TTTATATTT
1 -TTTTATTTATTTGTTT-TATTT
168618 ATTTTACTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 8 0.14
47 22 0.37
48 5 0.08
49 24 0.41
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (49 bp):
TTTTATTTATTTGTTTTATTTCTATATTATTTTTACTTCTTTATTATTA
Done.