Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001478.1 Hibiscus syriacus cultivar Beakdansim tig00002868_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: 623040
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 2 of 5
Found at i:97140 original size:21 final size:21
Alignment explanation
Indices: 97111--97151 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
97101 GGTTGCAGAC
*
97111 TAATTGGGCCTGTGTGCCTTG
1 TAATCGGGCCTGTGTGCCTTG
*
97132 TAATCGGGCTTGTGTGCCTT
1 TAATCGGGCCTGTGTGCCTT
97152 ACTTTGTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.20, G:0.32, T:0.39
Consensus pattern (21 bp):
TAATCGGGCCTGTGTGCCTTG
Found at i:97449 original size:21 final size:21
Alignment explanation
Indices: 97411--97455 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
97401 GGGTTTTTTA
* *
97411 TTTAAGGTTTAGTGTTTATGG
1 TTTAAAGTTTAGTGTTTAGGG
97432 TTTAAAGTTTAG-GATTTAGGG
1 TTTAAAGTTTAGTG-TTTAGGG
97453 TTT
1 TTT
97456 CTATAAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (21 bp):
TTTAAAGTTTAGTGTTTAGGG
Found at i:97556 original size:15 final size:15
Alignment explanation
Indices: 97538--97581 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
97528 TTTATATTGT
97538 TTATATATATATAGG
1 TTATATATATATAGG
*
97553 TTATATATATATAGT
1 TTATATATATATAGG
97568 TTATATATACTATA
1 TTATATATA-TATA
97582 CATGGTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (15 bp):
TTATATATATATAGG
Found at i:98114 original size:11 final size:13
Alignment explanation
Indices: 98087--98131 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
98077 TAATTTACTT
98087 TATATAGATTATATA
1 TATATAG-TT-TATA
98102 TATATAAG-TTATA
1 TATAT-AGTTTATA
98115 TATATAGTTTATA
1 TATATAGTTTATA
98128 TATA
1 TATA
98132 CTATACATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.07
13 18 0.64
14 1 0.04
15 5 0.18
16 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:98136 original size:20 final size:21
Alignment explanation
Indices: 98112--98162 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
98102 TATATAAGTT
*
98112 ATATATATAGTTTATATATAC
1 ATATATATAGTTTATACATAC
* *
98133 -TATACATGGTTTATACATAC
1 ATATATATAGTTTATACATAC
98153 ATATTATATA
1 ATA-TATATA
98163 AAACTATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 2 0.09
22 4 0.17
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (21 bp):
ATATATATAGTTTATACATAC
Found at i:98318 original size:556 final size:558
Alignment explanation
Indices: 97264--98995 Score: 2761
Period size: 556 Copynumber: 3.1 Consensus size: 558
97254 TAGTGTCGAC
*
97264 ATAAGTAATAATAAAACCCAAAAATAAGTCTATTTGCATTAGTGCTAGTCCATTTACATTAGTTT
1 ATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTT
97329 ACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATT
66 ACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATT
* **
97394 TACATTAGGGTTT-T--TTA---TTTAAGGTTTAGTGTTTA-TGGTTTAAAGTTT-AGGATTTAG
131 TACATTAGGGTTTATGATTAGGGTTTAGGGTTTAGTGTTTAGTAATTTAAAGTTTAAGG-TTTAG
* *
97451 GGTTTCTATAAACTATATACTTTATTACTTTATATAGTTGATGCATAGTGTTTCTATAAACTATA
195 GGTTTCTATAAACTATATACTTTATTACTTTATATAGTTTATGCGTAGTGTTTCTATAAACTATA
* *
97516 TAAGTAATTTACTTTATATTGTTTATATATATATAGGTTATATATATATAGTTTATATATACTAT
260 TAAGTAATTTACTTTATATAGATTATATATATATAGGTTATATATATATAGTTTATATATACTAT
*
97581 ACATGGTTTATACATACATATTA-ATAAAATTATTTAAGAAATTTAAAAAATAATTTAAATGTAA
325 ACATGGTTTATACATACATATTATATAAAATTATTTAATAAATTTAAAAAATAATTTAAATGTAA
* * * *
97645 ATGATGTAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCATAGTGCATATTATATGGTT
390 ATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTT
97710 CATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGG
455 CATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGG
* * *
97775 TTAATTCACATTAATAGCCCATTTGTTTTGTTATTATGA
520 TTAATTCACATTAATAACCCATTTATTTTGTTGTTATGA
* *
97814 ATAAGTAATAATACAACCCAAAAATAAGTCTATTTGCATTAGTGCTAGTCCATTTACATTAGTTT
1 ATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTT
* *
97879 ACATAGGCCCAATACATAAGCCCACTCTTTTATTACAGATATATATGCATTAGTGCCAGTCCATT
66 ACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATT
* * * *
97944 TACATTAGGGTTTATGATATAGGGCTTAGGGTTTAGGGTTTAGT-ATTTATAGTTTAAAGTTTAG
131 TACATTAGGGTTTATGAT-TAGGGTTTAGGGTTTAGTGTTTAGTAATTTAAAGTTTAAGGTTTAG
* *
98008 GGTTTCTATAAACTATAAACTTTATTATTTTATATAGTTTATGCGTAGTGTTTCTATAAACTATA
195 GGTTTCTATAAACTATATACTTTATTACTTTATATAGTTTATGCGTAGTGTTTCTATAAACTATA
*
98073 TAAGTAATTTACTTTATATAGATTATATATATATAAG-T-TATATATATAGTTTATATATACTAT
260 TAAGTAATTTACTTTATATAGATTATATATATATAGGTTATATATATATAGTTTATATATACTAT
*
98136 ACATGGTTTATACATACATATTATATAAAACTATTTAATAAATTTAAAAAATAATTTAAATGTAA
325 ACATGGTTTATACATACATATTATATAAAATTATTTAATAAATTTAAAAAATAATTTAAATGTAA
*
98201 ATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTACATATTATATGGTT
390 ATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTT
* *
98266 CATAAATAATAGTACATGTCATATTTATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGG
455 CATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGG
* *
98331 TTAATTCACACTAATATCCCATTTATTTTGTTGTTATGA
520 TTAATTCACATTAATAACCCATTTATTTTGTTGTTATGA
* * *
98370 ATAAGTAATAATAAAACCCAAAAATAAGCCCATTTGCATTAGAGCTAGTCCATTTACATTAATTT
1 ATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTT
* * *
98435 ACATAGGCCCAATACATAAGCTCACTCTTTTATTACAAATATATAGGCATTAGTGATAGTCCATT
66 ACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATT
* * ** *
98500 TATATTAGGGTTTATGATTTAGGGTTTAGGGTTTAATGTTTATGGTTCAAAGTTTAGGGTTTAGG
131 TACATTAGGGTTTATGA-TTAGGGTTTAGGGTTTAGTGTTTA--G-T--AA-TTTAAAGTTTAAG
* *
98565 GTTTAGGGTTTCTATAAGCTATATACTTTATTACTTTATATAGTTTATGTGTAGTGTTTCTATAA
189 GTTTAGGGTTTCTATAAACTATATACTTTATTACTTTATATAGTTTATGCGTAGTGTTTCTATAA
98630 ACTATATAAGTAATTTACTTTATATAGTTTATATATATATATATAGGTTATATATATATATAGTT
254 ACTATATAAGTAATTTACTTTATATAG---AT-TATATATATATAGG-T-TATATATATATAGTT
*
98695 TATATATATTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAATTTTAAAAAAT
313 TATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAA-TTTAAAAAAT
*
98760 AATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTTTGTCACATTGC
377 AATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGC
*
98825 ATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTTATTTGCATAATTAGTATTTTA
442 ATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTA
*
98890 GTTGCATGTTAGGTTAATT-ATATTAATAACCCATTTATTTTGTTGTTATGA
507 GTTGCATGTTAGGTTAATTCACATTAATAACCCATTTATTTTGTTGTTATGA
* *
98941 ATAAATAATAATAAAACCAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTT
1 ATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTT
98996 GTAACACCCC
Statistics
Matches: 1089, Mismatches: 66, Indels: 33
0.92 0.06 0.03
Matches are distributed among these distances:
550 140 0.13
551 1 0.00
553 1 0.00
554 2 0.00
555 48 0.04
556 354 0.33
557 125 0.11
558 4 0.00
559 1 0.00
562 1 0.00
563 97 0.09
566 2 0.00
567 13 0.01
570 1 0.00
571 145 0.13
572 154 0.14
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (558 bp):
ATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTT
ACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATT
TACATTAGGGTTTATGATTAGGGTTTAGGGTTTAGTGTTTAGTAATTTAAAGTTTAAGGTTTAGG
GTTTCTATAAACTATATACTTTATTACTTTATATAGTTTATGCGTAGTGTTTCTATAAACTATAT
AAGTAATTTACTTTATATAGATTATATATATATAGGTTATATATATATAGTTTATATATACTATA
CATGGTTTATACATACATATTATATAAAATTATTTAATAAATTTAAAAAATAATTTAAATGTAAA
TTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTC
ATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGT
TAATTCACATTAATAACCCATTTATTTTGTTGTTATGA
Found at i:98527 original size:7 final size:7
Alignment explanation
Indices: 98504--98575 Score: 72
Period size: 7 Copynumber: 10.3 Consensus size: 7
98494 TCCATTTATA
98504 TTAGGGT
1 TTAGGGT
* *
98511 TTATGAT
1 TTAGGGT
98518 TTAGGGT
1 TTAGGGT
98525 TTAGGGT
1 TTAGGGT
**
98532 TTAATGT
1 TTAGGGT
*
98539 TTATGGT
1 TTAGGGT
* **
98546 TCAAAGT
1 TTAGGGT
98553 TTAGGGT
1 TTAGGGT
98560 TTAGGGT
1 TTAGGGT
98567 TTAGGGT
1 TTAGGGT
98574 TT
1 TT
98576 CTATAAGCTA
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:98611 original size:49 final size:49
Alignment explanation
Indices: 98558--98660 Score: 127
Period size: 48 Copynumber: 2.1 Consensus size: 49
98548 AAAGTTTAGG
* * ** *
98558 GTTTAGGGTTTAGGGTTTCTATAAGCTATATACTTTA-TTACTTTATATA
1 GTTTA-GGTGTAGGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
* *
98607 GTTTATGTGTAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATA
1 GTTTAGGTGTAGGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
98656 GTTTA
1 GTTTA
98661 TATATATATA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
48 24 0.52
49 22 0.48
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.50
Consensus pattern (49 bp):
GTTTAGGTGTAGGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
Found at i:98674 original size:19 final size:19
Alignment explanation
Indices: 98650--98718 Score: 88
Period size: 17 Copynumber: 3.7 Consensus size: 19
98640 TAATTTACTT
98650 TATATAGTTTATATATATA
1 TATATAGTTTATATATATA
*
98669 TATATAG-GT-TATATATA
1 TATATAGTTTATATATATA
98686 TATATAGTTTATATATATTA
1 TATATAGTTTATATATA-TA
* *
98706 TACATGGTTTATA
1 TATATAGTTTATA
98719 CATACATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
17 15 0.35
18 2 0.05
19 13 0.30
20 13 0.30
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.51
Consensus pattern (19 bp):
TATATAGTTTATATATATA
Found at i:99868 original size:17 final size:17
Alignment explanation
Indices: 99846--99885 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
99836 ACATTCGACT
**
99846 GTTGACCGTTGACCTGC
1 GTTGACCGTTGAAATGC
99863 GTTGACCGTTGAAATGC
1 GTTGACCGTTGAAATGC
99880 GTTGAC
1 GTTGAC
99886 AACTGTTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (17 bp):
GTTGACCGTTGAAATGC
Found at i:102169 original size:170 final size:172
Alignment explanation
Indices: 101884--102227 Score: 665
Period size: 170 Copynumber: 2.0 Consensus size: 172
101874 ATGTTCTTAT
101884 GGGTCATGAACTACAAATCAAGCACGACATCATTTCATGATATCGTAGAAGCGTGGAAACGAAAT
1 GGGTCATGAACTACAAATCAAGCACGA-ATCATTTCATGATATCGTAGAAGCGTGGAAACGAAAT
101949 TAAGATCATTGGTATATCTGTTAGTTTCTTTAAGATCTATTCAGCGATGATTCCGAAGATGATCT
65 TAAGATCATTGGTATATCTGTTAGTTTCTTTAAGATCTATTCAGCGATGATTCCGAAGATGATCT
102014 ATGGATAAGAATTTTTGGTATTAAAAAGTAAATACCCTGAAAG
130 ATGGATAAGAATTTTTGGTATTAAAAAGTAAATACCCTGAAAG
102057 GGGTCATGAACTACAAATCAAGCACG-A-CATTTCATGATATCGTAGAAGCGTGGAAACGAAATT
1 GGGTCATGAACTACAAATCAAGCACGAATCATTTCATGATATCGTAGAAGCGTGGAAACGAAATT
102120 AAGATCATTGGTATATCTGTTAGTTTCTTTAAGATCTATTCAGCGATGATTCCGAAGATGATCTA
66 AAGATCATTGGTATATCTGTTAGTTTCTTTAAGATCTATTCAGCGATGATTCCGAAGATGATCTA
102185 TGGATAAGAATTTTTGGTATTAAAAAGTAAATACCCTGAAAG
131 TGGATAAGAATTTTTGGTATTAAAAAGTAAATACCCTGAAAG
102227 G
1 G
102228 ACAATGAATT
Statistics
Matches: 171, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
170 144 0.84
171 1 0.01
173 26 0.15
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (172 bp):
GGGTCATGAACTACAAATCAAGCACGAATCATTTCATGATATCGTAGAAGCGTGGAAACGAAATT
AAGATCATTGGTATATCTGTTAGTTTCTTTAAGATCTATTCAGCGATGATTCCGAAGATGATCTA
TGGATAAGAATTTTTGGTATTAAAAAGTAAATACCCTGAAAG
Found at i:102681 original size:24 final size:24
Alignment explanation
Indices: 102549--102667 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
102539 TTCTATTTGA
102549 ATTCTGATATGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
*
102573 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
* * *
102597 ATTTTGATCTGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
*
102621 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
102645 ATTTTGATATGATACTTGACATG
1 ATTCTGATATGATACTTGACATG
102668 AATTATGTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 83 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.40
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:103715 original size:21 final size:21
Alignment explanation
Indices: 103689--103738 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
103679 TATATAGTTT
103689 ATATATATATATAGGTTATAC
1 ATATATATATATAGGTTATAC
*
103710 ATATATATATATAGTTTATAC
1 ATATATATATATAGGTTATAC
103731 ATACTATA
1 ATA-TATA
103739 CATGGTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (21 bp):
ATATATATATATAGGTTATAC
Found at i:103746 original size:20 final size:20
Alignment explanation
Indices: 103682--103754 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 20
103672 TTTACTTTAT
*
103682 ATAGTTTAT--ATA-TATAT
1 ATAGTTTATACATACTATAC
* * *
103699 ATAGGTTATACATATATATAT
1 ATAGTTTATACATA-CTATAC
103720 ATAGTTTATACATACTATAC
1 ATAGTTTATACATACTATAC
* *
103740 ATGGTTTATATATAC
1 ATAGTTTATACATAC
103755 ATGTACAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
17 8 0.17
19 3 0.07
20 17 0.37
21 18 0.39
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (20 bp):
ATAGTTTATACATACTATAC
Found at i:104003 original size:15 final size:17
Alignment explanation
Indices: 103985--104017 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
103975 CTATATATTT
103985 TATATA-TTT-TATACA
1 TATATAGTTTATATACA
104000 TATATAGTTTATATACA
1 TATATAGTTTATATACA
104017 T
1 T
104018 GCATACATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (17 bp):
TATATAGTTTATATACA
Found at i:104003 original size:24 final size:25
Alignment explanation
Indices: 103962--104014 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
103952 TAATATAAAT
*
103962 TATAATTTATAAACTATATATTTTA
1 TATAATTTATAAACTATATAGTTTA
* *
103987 TATATTTTATACA-TATATAGTTTA
1 TATAATTTATAAACTATATAGTTTA
104011 TATA
1 TATA
104015 CATGCATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (25 bp):
TATAATTTATAAACTATATAGTTTA
Found at i:104271 original size:19 final size:21
Alignment explanation
Indices: 104247--104301 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 21
104237 CCAACTTCCC
104247 AAATTTTTCT-A-TTCCCTCT
1 AAATTTTTCTAATTTCCCTCT
104266 AAA--TTTCTAATTTCCCTCT
1 AAATTTTTCTAATTTCCCTCT
104285 AAA-TTTTC-AATTTCCCT
1 AAATTTTTCTAATTTCCCT
104302 ATATTCTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.15
18 1 0.03
19 23 0.70
20 4 0.12
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATTTTTCTAATTTCCCTCT
Found at i:109364 original size:50 final size:47
Alignment explanation
Indices: 109289--109386 Score: 169
Period size: 50 Copynumber: 2.0 Consensus size: 47
109279 GCACTACTCG
109289 GTCTAGGGTAAAACGTGTATATTTATGTAATGCGTGTATATGTACAGAGA
1 GTCTAGGGTAAAACGTGTATATTTATGTAA---GTGTATATGTACAGAGA
109339 GTCTAGGGTAAAACGTGTATATTTATGTAAGTGTATATGTACAGAGA
1 GTCTAGGGTAAAACGTGTATATTTATGTAAGTGTATATGTACAGAGA
109386 G
1 G
109387 AGATTATATT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
47 18 0.38
50 30 0.62
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.34
Consensus pattern (47 bp):
GTCTAGGGTAAAACGTGTATATTTATGTAAGTGTATATGTACAGAGA
Found at i:110054 original size:177 final size:181
Alignment explanation
Indices: 109605--110260 Score: 1002
Period size: 182 Copynumber: 3.6 Consensus size: 181
109595 GTCGATACAA
** *
109605 ATAAAAA--TATCGATCCATAGTAATATAACAGTTAAAAATATGATAAAACCGGTCTCGAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATGA
* * *
109668 CGAAACCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATATAAGTATCGACACT
* *
109733 TTTGGAATTTAAAATACAAGCAGTAATAGTGCCTATAAAGTGTCGATACTTT
131 TTTGGAATTTAAAAGACAAGCAGTAATA-CGCCTATAAAGTGTCGATACTTT
* * *
109785 ATAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAACG
1 AT-AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATG
*
109850 ACAAAATCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATATAAGTATCGACAC
65 ACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATATAAGTATCGACAC
109915 -TTTGGAATTTAAAAGACAA-CAGTAATA-GCCTATAAA-TGTCGATACTTT
130 TTTTGGAATTTAAAAGACAAGCAGTAATACGCCTATAAAGTGTCGATACTTT
*
109963 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCGAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATGA
* * * **
110028 TAAAACCGGTAATGAGCTGTCGGATATGTTGAAAGTGTCGATACATTAATATAAGTATCGACACT
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATATAAGTATCGACACT
*
110093 TTTGGAATTTAAAAGAGAAGCAGTAATAACGCCTATAAAGTGTCGATACTTT
131 TTTGGAATTTAAAAGACAAGCAGTAAT-ACGCCTATAAAGTGTCGATACTTT
* * *
110145 ATCAAAATATATCGATCCATAATAATATAACAGGTAAAAATATG-TCAAAACCGGTCTCGAAATG
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT-AAAACCGGTCTCGAAATG
* * *
110209 ACAAAATCGGTAAAGCGCTACCGGATATGTTGAAAGTGTTGATACTTTAATA
65 ACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATA
110261 AGTACGTGTA
Statistics
Matches: 435, Mismatches: 32, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
177 119 0.27
178 32 0.07
179 16 0.04
180 3 0.01
181 23 0.05
182 132 0.30
183 110 0.25
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATGA
CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATATAAGTATCGACACT
TTTGGAATTTAAAAGACAAGCAGTAATACGCCTATAAAGTGTCGATACTTT
Found at i:110341 original size:21 final size:21
Alignment explanation
Indices: 110315--110369 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
110305 TATCCTATTG
* *
110315 AAAGTATCAACACCTGACATA
1 AAAGTATCGACACCTAACATA
110336 AAAGTATCGACACCTAACATA
1 AAAGTATCGACACCTAACATA
110357 AAAGTATCGACAC
1 AAAGTATCGACAC
110370 TTGGGTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.47, C:0.24, G:0.11, T:0.18
Consensus pattern (21 bp):
AAAGTATCGACACCTAACATA
Found at i:112253 original size:22 final size:23
Alignment explanation
Indices: 112202--112257 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
112192 AACATTTTTG
* *
112202 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAGAA
*
112225 TAATTATTATATAAAATGATA-AA
1 T-TTTATTATATAAAATGATAGAA
112248 TTTTATTATA
1 TTTTATTATA
112258 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAGAA
Found at i:117456 original size:21 final size:21
Alignment explanation
Indices: 117428--117467 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
117418 AGTCATATCT
117428 AGCCTTTGGGGATG-TTTTGG
1 AGCCTTTGGGGATGATTTTGG
117448 AGCCGTTTGGGGATGATTTT
1 AGCC-TTTGGGGATGATTTT
117468 TCTGCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.38, T:0.40
Consensus pattern (21 bp):
AGCCTTTGGGGATGATTTTGG
Found at i:117532 original size:20 final size:21
Alignment explanation
Indices: 117495--117537 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
117485 CCCATAACAG
*
117495 AGGGTATCAGTACCCCTTTAT
1 AGGGTATCAGTACCCCTTCAT
*
117516 AGGGTATC-GTACTCCTTCAT
1 AGGGTATCAGTACCCCTTCAT
117536 AG
1 AG
117538 AATTCAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (21 bp):
AGGGTATCAGTACCCCTTCAT
Found at i:118033 original size:21 final size:21
Alignment explanation
Indices: 117997--118039 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
117987 AGCGTCGAGC
*
117997 CTATTATCCACTGCATTGAAT
1 CTATTATCCACTGCATCGAAT
118018 CTATTATCCA-TCGCATCGAAT
1 CTATTATCCACT-GCATCGAAT
118039 C
1 C
118040 GACCTCGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (21 bp):
CTATTATCCACTGCATCGAAT
Found at i:119340 original size:20 final size:20
Alignment explanation
Indices: 119311--119348 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
119301 CCTAAAATCA
* *
119311 TCGAGTAGTATCGGTACTCC
1 TCGAGGAGTATCGATACTCC
119331 TCGAGGAGTATCGATACT
1 TCGAGGAGTATCGATACT
119349 TCAAGGCAAA
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:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (20 bp):
TCGAGGAGTATCGATACTCC
Found at i:119457 original size:20 final size:20
Alignment explanation
Indices: 119432--119502 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
119422 ACAAGATCAA
119432 TATCGATACTAGATGAGTAG
1 TATCGATACTAGATGAGTAG
* * *
119452 TATCGATATCAAGTAAGAGCAG
1 TATCGATA-CTAG-ATGAGTAG
* *
119474 TATCGATACTATATAAGTAG
1 TATCGATACTAGATGAGTAG
119494 TATCGATAC
1 TATCGATAC
119503 CAAGTGCACA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 22 0.54
21 5 0.12
22 14 0.34
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (20 bp):
TATCGATACTAGATGAGTAG
Found at i:119757 original size:78 final size:78
Alignment explanation
Indices: 119660--119813 Score: 308
Period size: 78 Copynumber: 2.0 Consensus size: 78
119650 ATAAAACACA
119660 AGATGTAAAATTTAACAAAAATAGTGGTATAGGCAACTCTAATTGAAAAAATCAATTATGTTCAA
1 AGATGTAAAATTTAACAAAAATAGTGGTATAGGCAACTCTAATTGAAAAAATCAATTATGTTCAA
119725 GTAAACGAACAAC
66 GTAAACGAACAAC
119738 AGATGTAAAATTTAACAAAAATAGTGGTATAGGCAACTCTAATTGAAAAAATCAATTATGTTCAA
1 AGATGTAAAATTTAACAAAAATAGTGGTATAGGCAACTCTAATTGAAAAAATCAATTATGTTCAA
119803 GTAAACGAACA
66 GTAAACGAACA
119814 TGCAATTAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (78 bp):
AGATGTAAAATTTAACAAAAATAGTGGTATAGGCAACTCTAATTGAAAAAATCAATTATGTTCAA
GTAAACGAACAAC
Found at i:119837 original size:57 final size:57
Alignment explanation
Indices: 119768--119882 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
119758 ATAGTGGTAT
119768 AGGCAACTCTAATTGAAAAAATCAATTATGTTCAAGTAAACGAACATGCAATTAAAC
1 AGGCAACTCTAATTGAAAAAATCAATTATGTTCAAGTAAACGAACATGCAATTAAAC
119825 AGGCAACTCTAATTGAAAAAATCAATTATGTTCAAGTAAACGAACATGCAATTAAAC
1 AGGCAACTCTAATTGAAAAAATCAATTATGTTCAAGTAAACGAACATGCAATTAAAC
119882 A
1 A
119883 TAATTTGAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (57 bp):
AGGCAACTCTAATTGAAAAAATCAATTATGTTCAAGTAAACGAACATGCAATTAAAC
Found at i:120169 original size:15 final size:15
Alignment explanation
Indices: 120149--120178 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
120139 CTTCTTTTGA
120149 GAAATGATCTCTAAT
1 GAAATGATCTCTAAT
*
120164 GAAATGATGTCTAAT
1 GAAATGATCTCTAAT
120179 TTCAATGTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (15 bp):
GAAATGATCTCTAAT
Found at i:121126 original size:25 final size:28
Alignment explanation
Indices: 121087--121137 Score: 72
Period size: 25 Copynumber: 1.9 Consensus size: 28
121077 ACATACACTT
121087 CTTTTATAAATCCATTT-AAA-AATGCA
1 CTTTTATAAATCCATTTGAAATAATGCA
*
121113 CTTTTA-ACATCCATTTGAAATAATG
1 CTTTTATAAATCCATTTGAAATAATG
121138 TAAATCCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 9 0.41
27 4 0.18
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (28 bp):
CTTTTATAAATCCATTTGAAATAATGCA
Found at i:123962 original size:18 final size:15
Alignment explanation
Indices: 123924--123981 Score: 98
Period size: 15 Copynumber: 3.9 Consensus size: 15
123914 ACACCAATCT
123924 TTTTCTTCTTTTCCA
1 TTTTCTTCTTTTCCA
123939 TTTTCTTCTTTTCCA
1 TTTTCTTCTTTTCCA
*
123954 TTTACTTCTTTTCCA
1 TTTTCTTCTTTTCCA
*
123969 TTTCCTTCTTTTC
1 TTTTCTTCTTTTC
123982 TTCATCTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTCTTCTTTTCCA
Found at i:136276 original size:21 final size:21
Alignment explanation
Indices: 136229--136276 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
136219 CAACTCAGTT
*
136229 TCCAAATTCGCAACGCGAAAT
1 TCCAAATTCGCAACGCGAAAG
* ** *
136250 TACAAATTCGCATTGCGATAG
1 TCCAAATTCGCAACGCGAAAG
136271 TCCAAA
1 TCCAAA
136277 ATCGTTGTGA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (21 bp):
TCCAAATTCGCAACGCGAAAG
Found at i:137351 original size:20 final size:20
Alignment explanation
Indices: 137326--137374 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
137316 TGTAATTTCG
137326 CATTGCGAAATGGAAAATCA
1 CATTGCGAAATGGAAAATCA
*
137346 CATTGCGAAATGGAAAATCG
1 CATTGCGAAATGGAAAATCA
*
137366 CTTTGCGAA
1 CATTGCGAA
137375 TTTGTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (20 bp):
CATTGCGAAATGGAAAATCA
Found at i:137395 original size:41 final size:41
Alignment explanation
Indices: 137348--137645 Score: 479
Period size: 41 Copynumber: 7.2 Consensus size: 41
137338 GAAAATCACA
* * *
137348 TTGCGAAATGGAAAATCGCTTTGCGAATTTGTAATTTCGCG
1 TTGCGAAATGGAGATTCGCGTTGCGAATTTGTAATTTCGCG
*
137389 TTGCGAAATGGAGATTCGCGTTGAGAATTTGTAATTTCGCG
1 TTGCGAAATGGAGATTCGCGTTGCGAATTTGTAATTTCGCG
*
137430 TTGCGAAATGGAGATTCGCGTTGAGAATTTGTAATTTCGCG
1 TTGCGAAATGGAGATTCGCGTTGCGAATTTGTAATTTCGCG
**
137471 TTGCGAAATGGAGATTAACGTTGCGAATTTGTAATTTCGCG
1 TTGCGAAATGGAGATTCGCGTTGCGAATTTGTAATTTCGCG
*
137512 TTGCGAAATGGAGATTAGCGTTGCGAATTTGTAATTTCGCG
1 TTGCGAAATGGAGATTCGCGTTGCGAATTTGTAATTTCGCG
* *
137553 TTGCGAAATGGAGATTAGCGTTGCAAATTTGTAATTTCGCG
1 TTGCGAAATGGAGATTCGCGTTGCGAATTTGTAATTTCGCG
* *
137594 TTGCGAAATGGAAATACGCGTTGCGAAATTTGTAATTTCGCG
1 TTGCGAAATGGAGATTCGCGTTGCG-AATTTGTAATTTCGCG
137636 TTGCGAAATG
1 TTGCGAAATG
137646 TTACGAAGTT
Statistics
Matches: 243, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
41 217 0.89
42 26 0.11
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.34
Consensus pattern (41 bp):
TTGCGAAATGGAGATTCGCGTTGCGAATTTGTAATTTCGCG
Found at i:138294 original size:144 final size:143
Alignment explanation
Indices: 138111--138392 Score: 474
Period size: 144 Copynumber: 2.0 Consensus size: 143
138101 TTTGGCAACT
* * *
138111 TACGTTGTGACTTTATGTTTTATAATATTTTTTATATAATAATGCAAGCCTATATGCATATATTA
1 TACGTTGTAACTATATGTTTTATAATATTTTTTATATAATAATACAAGCCTATATGCATATATTA
*
138176 ATTAAATGTTAGTTATTAACATTTGACTTTTGTTACATTGTTGTTTATTTATGAAATTGGATTAT
66 ATTAAATGTTAGTTATT-ACATTTGACTTTTGTTACATTGTTGTTTATTTATAAAATTGGATTAT
138241 TTGGCATTAGTAAC
130 TTGGCATTAGTAAC
*
138255 TACGTTGTAACTATATGTTTTATAATATTTTTTATATAATAATACAAGCCTATATGTATATATTA
1 TACGTTGTAACTATATGTTTTATAATATTTTTTATATAATAATACAAGCCTATATGCATATATTA
* * *
138320 ATTGAATGTTAGTTATTACATTTGATTTTTGTTACATTGTTGTTTGTTTATAAAATTGGATTATT
66 ATTAAATGTTAGTTATTACATTTGACTTTTGTTACATTGTTGTTTATTTATAAAATTGGATTATT
*
138385 TGGTATTA
131 TGGCATTA
138393 TGTGAATGTG
Statistics
Matches: 129, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
143 52 0.40
144 77 0.60
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (143 bp):
TACGTTGTAACTATATGTTTTATAATATTTTTTATATAATAATACAAGCCTATATGCATATATTA
ATTAAATGTTAGTTATTACATTTGACTTTTGTTACATTGTTGTTTATTTATAAAATTGGATTATT
TGGCATTAGTAAC
Found at i:140748 original size:142 final size:142
Alignment explanation
Indices: 140492--140915 Score: 764
Period size: 142 Copynumber: 3.0 Consensus size: 142
140482 CACATTCACA
*
140492 TAATGCCAAATAATCCAATTTCATAAACAAACAACAATGTAACAAAAGTCAAATGTTAATAACTA
1 TAATGTCAAATAATCCAATTTCATAAACAAACAACAATGTAACAAAAGTCAAATGTTAATAACTA
140557 ACATTCAATTAAATACATATAGGCTTGCATTATTATATAAAAAATATTATAAAACATATAGTTAC
66 ACATTCAATTAAATACATATAGGCTTGCATTATTATATAAAAAATATTATAAAACATATAGTTAC
140622 AACGTAGGTTAC
131 AACGTAGGTTAC
140634 TAATGTCAAATAATCCAATTTCATAAACAAACAACAATGTAACAAAAGTCAAATGTTAATAACTA
1 TAATGTCAAATAATCCAATTTCATAAACAAACAACAATGTAACAAAAGTCAAATGTTAATAACTA
140699 ACATTCAATTAAATACATATAGGCTTGCATTATTATATAAAAAATATTATAAAACATATAGTTAC
66 ACATTCAATTAAATACATATAGGCTTGCATTATTATATAAAAAATATTATAAAACATATAGTTAC
*
140764 AAAGTAGGTTAC
131 AACGTAGGTTAC
*
140776 TAATGTCAAATAATCCAATTTCATAAAC--A-AACAATGCAACAAAAGTCAAATGTTAATAACTA
1 TAATGTCAAATAATCCAATTTCATAAACAAACAACAATGTAACAAAAGTCAAATGTTAATAACTA
*
140838 ACATTCAATTAATATATACATATAGGCTTGCATTATTATATAAAAAATATTATAAAACATAAAGT
66 ACATTCAATT-A-A-ATACATATAGGCTTGCATTATTATATAAAAAATATTATAAAACATATAGT
140903 TACAACGTAGGTT
128 TACAACGTAGGTT
140916 GTCAAATGGG
Statistics
Matches: 274, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
139 42 0.15
140 2 0.01
141 1 0.00
142 229 0.84
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (142 bp):
TAATGTCAAATAATCCAATTTCATAAACAAACAACAATGTAACAAAAGTCAAATGTTAATAACTA
ACATTCAATTAAATACATATAGGCTTGCATTATTATATAAAAAATATTATAAAACATATAGTTAC
AACGTAGGTTAC
Found at i:142560 original size:37 final size:37
Alignment explanation
Indices: 142518--142704 Score: 284
Period size: 37 Copynumber: 5.0 Consensus size: 37
142508 ATCAGAGATT
* * *
142518 GATTTGCTTCACTACTCTTCTGCGAAGGCTTAAGATG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATG
* *
142555 GATTTGCTTCACTACTCTTCGGTGAAGTCTTAAAATT
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATG
*
142592 GATTTTACTTCACTACTCTTCGGTGAAGGCTTAAAATG
1 GA-TTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATG
*
142630 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATG
* *
142667 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATG
142704 G
1 G
142705 TCTGGAGGAC
Statistics
Matches: 136, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
37 102 0.75
38 34 0.25
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (37 bp):
GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATG
Found at i:142612 original size:75 final size:74
Alignment explanation
Indices: 142515--142704 Score: 310
Period size: 75 Copynumber: 2.6 Consensus size: 74
142505 GATATCAGAG
*
142515 ATTGATTTGCTTCACTACTCTTCTGCGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTGA
1 ATTGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTGA
*
142580 AGTCTTAAA
66 AGGCTTAAA
* * *
142589 ATTGATTTTACTTCACTACTCTTCGGTGAAGGCTTAAAATGGATTTGCTTCACTACTCTTCGGTG
1 ATTGA-TTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTG
142654 AAGGCTTAAA
65 AAGGCTTAAA
142664 ATTGATTTGCTTCACTACTCTT-TGGTGAAGGCTTAAGATGG
1 ATTGATTTGCTTCACTACTCTTCT-GTGAAGGCTTAAGATGG
142705 TCTGGAGGAC
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
74 37 0.35
75 69 0.65
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (74 bp):
ATTGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTGA
AGGCTTAAA
Found at i:143154 original size:13 final size:13
Alignment explanation
Indices: 143138--143162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
143128 TGCAAATGTA
143138 AAATGCAAATACC
1 AAATGCAAATACC
143151 AAATGCAAATAC
1 AAATGCAAATAC
143163 AAAAGGTGTC
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:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (13 bp):
AAATGCAAATACC
Found at i:151173 original size:13 final size:13
Alignment explanation
Indices: 151156--151291 Score: 56
Period size: 13 Copynumber: 10.6 Consensus size: 13
151146 AAAAAATACA
151156 ATATAT-ATATAT
1 ATATATAATATAT
*
151168 A-ATATAAGTTTAT
1 ATATATAA-TATAT
151181 ATATA-AAT-TAT
1 ATATATAATATAT
151192 ATATATAA-ATTAT
1 ATATATAATA-TAT
* * *
151205 ATTTATATTATAA
1 ATATATAATATAT
151218 ACTATATAAT-TAT
1 A-TATATAATATAT
*
151231 -TATA-AGT-TAT
1 ATATATAATATAT
*
151241 ATATATAAATTATGT
1 ATATAT-AA-TATAT
* *
151256 TTATATAAAATAT
1 ATATATAATATAT
*
151269 ATATGTAAACTATAT
1 ATATAT-AA-TATAT
*
151284 ATGTATAA
1 ATATATAA
151292 ACTATAAAAA
Statistics
Matches: 91, Mismatches: 18, Indels: 28
0.66 0.13 0.20
Matches are distributed among these distances:
10 5 0.05
11 20 0.22
12 5 0.05
13 29 0.32
14 17 0.19
15 15 0.16
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (13 bp):
ATATATAATATAT
Found at i:151191 original size:11 final size:11
Alignment explanation
Indices: 151177--151245 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 11
151167 TAATATAAGT
151177 TTATATATAAA
1 TTATATATAAA
151188 TTATATATATAAA
1 -T-TATATATAAA
* *
151201 TTATATTTATA
1 TTATATATAAA
151212 TTATAAACTATATAA
1 TTAT--A-TATA-AA
*
151227 TTAT-TATAAG
1 TTATATATAAA
151237 TTATATATA
1 TTATATATA
151246 TAAATTATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
10 5 0.11
11 20 0.43
12 2 0.04
13 11 0.24
14 3 0.07
15 5 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (11 bp):
TTATATATAAA
Found at i:151218 original size:18 final size:18
Alignment explanation
Indices: 151188--151247 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
151178 TATATATAAA
151188 TTATATATATAAATTATAT
1 TTATAT-TATAAATTATAT
*
151207 TTATATTATAAACTATA-
1 TTATATTATAAATTATAT
* *
151224 TAATTATTATAAGTTATAT
1 TTA-TATTATAAATTATAT
*
151243 ATATA
1 TTATA
151248 AATTATGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 2 0.06
18 24 0.73
19 7 0.21
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TTATATTATAAATTATAT
Found at i:151440 original size:20 final size:20
Alignment explanation
Indices: 151415--151473 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
151405 TGAAAATTTT
151415 GGAAATTTAGAGGGAAATTG
1 GGAAATTTAGAGGGAAATTG
*
151435 GGAAATTTAGAGGG-AATAG
1 GGAAATTTAGAGGGAAATTG
** *
151454 AAAAATTTGGAGGGAAATTG
1 GGAAATTTAGAGGGAAATTG
151474 AGAATTGAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.42, C:0.00, G:0.34, T:0.24
Consensus pattern (20 bp):
GGAAATTTAGAGGGAAATTG
Found at i:151479 original size:19 final size:19
Alignment explanation
Indices: 151418--151479 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
151408 AAATTTTGGA
*
151418 AATTTAGAGGGAAATTGGG
1 AATTTAGAGGGAAATTGAG
* *
151437 AAATTTAGAGGG-AATAGAAA
1 -AATTTAGAGGGAAATTG-AG
*
151457 AATTTGGAGGGAAATTGAG
1 AATTTAGAGGGAAATTGAG
151476 AATT
1 AATT
151480 GAGATTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.26
Consensus pattern (19 bp):
AATTTAGAGGGAAATTGAG
Found at i:151669 original size:2 final size:2
Alignment explanation
Indices: 151662--151743 Score: 57
Period size: 2 Copynumber: 42.5 Consensus size: 2
151652 TACTTTTAAT
* * * *
151662 TA TA TA TA TA TA TA TG TA TA TA AA CTA TA TA TC TA TA AA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA
* *
151706 TA -A AA TA TA TA -A TT TA TA T- TA -A TA TA -A 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
151743 T
1 T
151744 GTATGTATAA
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
1 5 0.08
2 55 0.89
3 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (2 bp):
TA
Found at i:151692 original size:17 final size:15
Alignment explanation
Indices: 151662--151707 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
151652 TACTTTTAAT
*
151662 TATATATATA-TATA
1 TATATATAAACTATA
*
151676 TGTATATAAACTATA
1 TATATATAAACTATA
*
151691 TATCTATAAACTATA
1 TATATATAAACTATA
151706 TA
1 TA
151708 AAATATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (15 bp):
TATATATAAACTATA
Found at i:151869 original size:7 final size:7
Alignment explanation
Indices: 151859--151905 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
151849 TAAAAAATTA
151859 TAAACCC
1 TAAACCC
151866 TAAACCC
1 TAAACCC
*
151873 TAAACCT
1 TAAACCC
*
151880 TCAACCC
1 TAAACCC
*
151887 TTAACCC
1 TAAACCC
*
151894 TAACCCC
1 TAAACCC
151901 TAAAC
1 TAAAC
151906 TATATATGTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:151962 original size:20 final size:19
Alignment explanation
Indices: 151921--151966 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
151911 ATGTAACTTA
*
151921 ATATATATATAAACCATGT
1 ATATATATATAAACCATAT
*
151940 ATAGTATATATAAACTATAT
1 ATA-TATATATAAACCATAT
151960 ATATATA
1 ATATATA
151967 AACTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (19 bp):
ATATATATATAAACCATAT
Found at i:151964 original size:15 final size:15
Alignment explanation
Indices: 151939--151975 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
151929 ATAAACCATG
151939 TATAGTATATATAAAC
1 TATA-TATATATAAAC
151955 TATATATATATAAAC
1 TATATATATATAAAC
151970 TATATA
1 TATATA
151976 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:152067 original size:7 final size:7
Alignment explanation
Indices: 152051--152128 Score: 50
Period size: 7 Copynumber: 11.3 Consensus size: 7
152041 AGTTTTATAG
*
152051 AAACCTT
1 AAACCCT
152058 AAACCCT
1 AAACCCT
* *
152065 AAATCAT
1 AAACCCT
152072 AAA-CCT
1 AAACCCT
*
152078 TAACCCT
1 AAACCCT
**
152085 AAACTTT
1 AAACCCT
*
152092 AAACCAT
1 AAACCCT
**
152099 AAACATT
1 AAACCCT
*
152106 AAATCCT
1 AAACCCT
*
152113 AAACCTT
1 AAACCCT
152120 AAACCCT
1 AAACCCT
152127 AA
1 AA
152129 TGTAAATAGA
Statistics
Matches: 52, Mismatches: 18, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
6 4 0.08
7 48 0.92
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.24
Consensus pattern (7 bp):
AAACCCT
Found at i:152077 original size:21 final size:21
Alignment explanation
Indices: 152051--152128 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
152041 AGTTTTATAG
152051 AAACCTTAAACCCTAAATCAT
1 AAACCTTAAACCCTAAATCAT
*
152072 AAACCTT-AACCCTAAA-CTTT
1 AAACCTTAAACCCTAAATC-AT
* ** *
152092 AAACCATAAACATTAAATCCT
1 AAACCTTAAACCCTAAATCAT
152113 AAACCTTAAACCCTAA
1 AAACCTTAAACCCTAA
152129 TGTAAATAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.02
20 16 0.35
21 28 0.61
22 1 0.02
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.24
Consensus pattern (21 bp):
AAACCTTAAACCCTAAATCAT
Found at i:152082 original size:27 final size:27
Alignment explanation
Indices: 152052--152124 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
152042 GTTTTATAGA
* * *
152052 AACCTTAAACCCTAAATCATAAACCTT
1 AACCCTAAACCCTAAACCATAAACATT
**
152079 AACCCTAAACTTTAAACCATAAACATT
1 AACCCTAAACCCTAAACCATAAACATT
* *
152106 AAATCCTAAACCTTAAACC
1 -AACCCTAAACCCTAAACC
152125 CTAATGTAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.25
Consensus pattern (27 bp):
AACCCTAAACCCTAAACCATAAACATT
Found at i:152127 original size:14 final size:14
Alignment explanation
Indices: 152051--152128 Score: 77
Period size: 14 Copynumber: 5.6 Consensus size: 14
152041 AGTTTTATAG
* *
152051 AAACCTTAAACCCT
1 AAACCCTAAACCTT
* *
152065 AAATCATAAACCTT
1 AAACCCTAAACCTT
*
152079 -AACCCTAAACTTT
1 AAACCCTAAACCTT
* *
152092 AAACCATAAACATT
1 AAACCCTAAACCTT
*
152106 AAATCCTAAACCTT
1 AAACCCTAAACCTT
152120 AAACCCTAA
1 AAACCCTAA
152129 TGTAAATAGA
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
13 10 0.20
14 41 0.80
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAACCTT
Found at i:152520 original size:20 final size:19
Alignment explanation
Indices: 152486--152524 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
152476 AATATGAATG
*
152486 TATAAACCATGTATAGTATA
1 TATAAACCATATATA-TATA
*
152506 TATAAACTATATATATATA
1 TATAAACCATATATATATA
152525 AAGTATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (19 bp):
TATAAACCATATATATATA
Found at i:152522 original size:15 final size:15
Alignment explanation
Indices: 152497--152533 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
152487 ATAAACCATG
152497 TATAGTATATATAAAC
1 TATA-TATATATAAAC
*
152513 TATATATATATAAAG
1 TATATATATATAAAC
152528 TATATA
1 TATATA
152534 AAGTATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:152618 original size:7 final size:7
Alignment explanation
Indices: 152608--152686 Score: 59
Period size: 7 Copynumber: 11.3 Consensus size: 7
152598 TAGTTTATAG
152608 AAACCCT
1 AAACCCT
152615 AAACCCT
1 AAACCCT
*
152622 AAACCAT
1 AAACCCT
**
152629 AAATACT
1 AAACCCT
152636 AAACCCT
1 AAACCCT
**
152643 AAACTTT
1 AAACCCT
* *
152650 AAAGCAT
1 AAACCCT
*
152657 AAACACT
1 AAACCCT
* *
152664 AAATCAT
1 AAACCCT
*
152671 AAACCAT
1 AAACCCT
152678 AAACCCT
1 AAACCCT
152685 AA
1 AA
152687 TGTAAATAGA
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.52, C:0.28, G:0.01, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:152659 original size:21 final size:21
Alignment explanation
Indices: 152608--152686 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
152598 TAGTTTATAG
* *
152608 AAACCCTAAACCCTAAACCAT
1 AAACCATAAACCCTAAATCAT
* *
152629 AAA-TACTAAACCCTAAA-CTTT
1 AAACCA-TAAACCCTAAATC-AT
* *
152650 AAAGCATAAACACTAAATCAT
1 AAACCATAAACCCTAAATCAT
152671 AAACCATAAACCCTAA
1 AAACCATAAACCCTAA
152687 TGTAAATAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
20 1 0.02
21 43 0.93
22 2 0.04
ACGTcount: A:0.52, C:0.28, G:0.01, T:0.19
Consensus pattern (21 bp):
AAACCATAAACCCTAAATCAT
Found at i:153088 original size:15 final size:13
Alignment explanation
Indices: 153056--153101 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
153046 ATAAACCATG
153056 TATAGTATATAAAC
1 TATA-TATATAAAC
153070 TATATATATAACAC
1 TATATATATAA-AC
*
153084 ATATATATATAAAT
1 -TATATATATAAAC
153098 TATA
1 TATA
153102 AAAAGTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.38
14 7 0.24
15 11 0.38
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:153195 original size:14 final size:14
Alignment explanation
Indices: 153176--153255 Score: 63
Period size: 14 Copynumber: 5.8 Consensus size: 14
153166 TATAGTTTAT
*
153176 ATAAACCCTACACC
1 ATAAACCCTAAACC
153190 ATAAACCCTAAACC
1 ATAAACCCTAAACC
* ** *
153204 TTAAACTTTAAATC
1 ATAAACCCTAAACC
**
153218 ATAAACATTAAA-C
1 ATAAACCCTAAACC
* * *
153231 ATAAAACATGAACC
1 ATAAACCCTAAACC
153245 ATAAACCCTAA
1 ATAAACCCTAA
153256 TATAAATGGA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
13 9 0.18
14 42 0.82
ACGTcount: A:0.51, C:0.26, G:0.01, T:0.21
Consensus pattern (14 bp):
ATAAACCCTAAACC
Found at i:153215 original size:21 final size:21
Alignment explanation
Indices: 153191--153230 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
153181 CCCTACACCA
* *
153191 TAAACCCTAAACCTTAAACTT
1 TAAACCATAAACATTAAACTT
*
153212 TAAATCATAAACATTAAAC
1 TAAACCATAAACATTAAAC
153231 ATAAAACATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAACCATAAACATTAAACTT
Found at i:153481 original size:569 final size:569
Alignment explanation
Indices: 151944--153967 Score: 3006
Period size: 569 Copynumber: 3.6 Consensus size: 569
151934 CCATGTATAG
*
151944 TATATATAA-ACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAATAC
1 TATATATAACACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
* *
152008 TATGCATAAACTATATAAAGTAATAAAATATATAGTTTTATAGAAACCTTAAACCCTAAATCATA
66 TATGCATAAACTATATAAAGTAATAAAATATATAG-TTTATAGAAACCCTAAACCCTAAACCATA
* * * *
152073 AACCTTAACCCTAAACTTTAAACCATAAACATTAAATCCTAAACCTTAAACCCTAATGTAAATAG
130 AACCTTAACCCTAAACTTTAAACCATAAACACTAAAACATAAACCATAAACCCTAATGTAAATAG
* *
152138 ACTAGCACTAATGCATATATATTTGTAATAAAATAGTGGGCTTATGTATTGAGCCTATGTAAACT
195 ACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACT
* *
152203 AATA-TAAATGGACTAGCACTAATGCAAATGAACTTATTTTTGGGTTTTATTATTACTTATTCAT
260 AA-AGTAAATGGACTAGCACTAATGCAAATGGACTTATTTTTTGGTTTTATTATTACTTATTCAT
*
152267 AACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATATTAATTATGC
324 AACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGC
*
152332 AAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAA
389 AAATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAA
* * *
152397 TTATTTAACACATAATTAATCATGTTTTATAAAATTTACATTTAAATGATTTTATTAATTTTATT
454 TTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATT
*
152462 AAATAATTTTATATAATATGAATGTATAAACCATGTATAG-----------
519 AAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATAAACTA
* * *
152502 TATATATAA-ACTATATATATATAAAGTATATAAAGTATATTACTTATATAGCTTATAGAAACAC
1 TATATATAACACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
*
152566 TATGCATAAACTAAATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAACCCTAAACCATAA
66 TATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAACCCTAAACCATAA
* * * *
152631 ATACTAAACCCTAAACTTTAAAGCATAAACACTAAATCATAAACCATAAACCCTAATGTAAATAG
131 A-CCTTAACCCTAAACTTTAAACCATAAACACTAAAACATAAACCATAAACCCTAATGTAAATAG
*
152696 ACTAACACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGGCCTATGTAAAC
195 ACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTATGTATT-GGGCCTATGTAAAC
* * * *
152761 TAATGTAAATGGACTAGCACTATTGCAAATTGACTTATTTTTTAGTTTTATTATTACTTATTCAT
259 TAAAGTAAATGGACTAGCACTAATGCAAATGGACTTATTTTTTGGTTTTATTATTACTTATTCAT
* * *
152826 AACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAAAATACAACTAAAATACTAATTATGG
324 AACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGC
152891 AAATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAA
389 AAATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAA
152956 TTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATT
454 TTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATT
153021 AAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATAAACTA
519 AAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATAAACTA
* * * *
153072 TATATATAACAC-ATATATATATAAATTATAAAAAGTAAATTACTTATATAATTTATAGAAATAC
1 TATATATAACACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
* * * * *
153136 TATGCATAAACTATATAAAGTAATAAAGTATATAGTTTATATAAACCCTACACCATAAACCCTAA
66 TATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAACCCTAAACCATAA
** * * *
153201 ACCTTAAACTTTAAA-TCATAAA-CATTAAACA-TAAAACATGAACCATAAACCCTAATATAAAT
131 ACCTT-AACCCTAAACT-TTAAACCA-TAAACACTAAAACATAAACCATAAACCCTAATGTAAAT
* * *
153263 GGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGTGTTTATGTATTGGGCCTATGTAAA
193 AGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAA
153328 CTAAAGTAAATGGACTAGCACTAATGCAAATGGACTTATTTTTTTGGTTTTATTATTACTTATTC
258 CTAAAGTAAATGGACTAGCACTAATGCAAATGGACTTA-TTTTTTGGTTTTATTATTACTTATTC
*
153393 ATAACAACAAAATAAATGAGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTAT
322 ATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTAT
* * *
153458 GCAAATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTAATATATT
387 GCAAATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACT
* *
153523 AATTATTTAACACCAAATTAACCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTA
452 AATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTA
153588 TTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATA
517 TTAAATAATTTTATATAATATGTATGTATAAACCATGTATAG--TATATAAAC----TA
* * *
153647 TATATATATATAACCTATATATATATAAACTATATAAGGTAAATTATTTATATAGTTTATAGAAA
1 TATATATA-A-CA-CTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAA
*
153712 CACTATGCATAAACTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAA--C----CC-
63 CACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAACCCTAAACCA
153770 TAAA---T-----T--A---TAAACCAT-AA-AC----AC-TAAACCATAAACCCTAATGTAAAT
128 TAAACCTTAACCCTAAACTTTAAACCATAAACACTAAAACATAAACCATAAACCCTAATGTAAAT
*
153815 GGACTAGCACTAATGCATATATA-TTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAA
193 AGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAA
* *
153879 CTAATGTAAATGGACTAGCACTAATACAAATGGACTTATTTTTTGGTTTTATTATTACTTATTCA
258 CTAAAGTAAATGGACTAGCACTAATGCAAATGGACTTATTTTTTGGTTTTATTATTACTTATTCA
153944 TAACAACAAAATAAATGGGCTATT
323 TAACAACAAAATAAATGGGCTATT
153968 GTTGAGTTAA
Statistics
Matches: 1350, Mismatches: 85, Indels: 70
0.90 0.06 0.05
Matches are distributed among these distances:
550 50 0.04
551 75 0.06
552 45 0.03
553 2 0.00
556 1 0.00
557 31 0.02
558 204 0.15
559 299 0.22
561 1 0.00
563 1 0.00
568 48 0.04
569 335 0.25
570 132 0.10
571 11 0.01
572 4 0.00
573 2 0.00
575 10 0.01
576 1 0.00
577 1 0.00
578 1 0.00
579 96 0.07
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (569 bp):
TATATATAACACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
TATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAACCCTAAACCATAA
ACCTTAACCCTAAACTTTAAACCATAAACACTAAAACATAAACCATAAACCCTAATGTAAATAGA
CTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTA
AAGTAAATGGACTAGCACTAATGCAAATGGACTTATTTTTTGGTTTTATTATTACTTATTCATAA
CAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAA
ATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATT
ATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAA
ATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATAAACTA
Found at i:153650 original size:15 final size:15
Alignment explanation
Indices: 153647--153682 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
153637 AAACTATATA
*
153647 TATATATATATAACC
1 TATATATATATAAAC
153662 TATATATATATAAAC
1 TATATATATATAAAC
153677 TATATA
1 TATATA
153683 AGGTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:153782 original size:21 final size:21
Alignment explanation
Indices: 153757--153807 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
153747 TAGTTTATAG
* **
153757 AAACCCTAAACCCTAAATTAT
1 AAACCCTAAACACTAAACCAT
*
153778 AAACCATAAACACTAAACCAT
1 AAACCCTAAACACTAAACCAT
153799 AAACCCTAA
1 AAACCCTAA
153808 TGTAAATGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (21 bp):
AAACCCTAAACACTAAACCAT
Found at i:153794 original size:14 final size:14
Alignment explanation
Indices: 153777--153807 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
153767 CCCTAAATTA
153777 TAAACCATAAACAC
1 TAAACCATAAACAC
*
153791 TAAACCATAAACCC
1 TAAACCATAAACAC
153805 TAA
1 TAA
153808 TGTAAATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (14 bp):
TAAACCATAAACAC
Found at i:156910 original size:452 final size:450
Alignment explanation
Indices: 156067--156914 Score: 1425
Period size: 452 Copynumber: 1.9 Consensus size: 450
156057 TGAAGGAAAC
* * * *
156067 TGTTGGGTTATGGGGTCTAGTGATCACCCTTAGGGATTCTATCGTATATGGGCGCGATATCAGGT
1 TGTTGGGTTATGGGGTCCAATGATCA-CCTTAGGGATTCTATCGTATATCGACGCGATATCAGGT
*
156132 GCTTGACAGTCCAACCTGCCAAGGCCCACGTGTGCCTTGCGAAGCCCCTAGGCCCGCCCGCAACA
65 GCTTGACAGTCCAACCTGCCAAGGCCCACGTGTGCCTTGCAAAGCCCCTAGGCCCGCCCGCAACA
156197 CGCTATAGATGCGGGGCTCTGCAATACCGTGGTGAATTATGGGGGTGCCCCACAAGAATCCACCT
130 CGCTATAGATGCGGGGCTCTGCAATACCGTGGTGAATTATGGGGGTGCCCCACAAGAATCCACCT
*
156262 TGGCTTGGGAGAAACCAGTGATCACCCGCTACATAGATATGAGGTTAAAATGACCCACCTACTTA
195 TGGCTTGGGAGAAACCAGTGATCACCCGCTACAAAGATATGAGGTTAAAATGACCCACCTACTTA
* *
156327 TCACGAATTGGTTTTAAGAAGAAATGGTGACCATTCGCTTCAGAACTTTGTAGTTAAGCGTGCTT
260 TCACCAATTGGTTTTAAGAAGAAATGATGACCATTCGCTTCAGAACTTTGTAGTTAAGCGTGCTT
*
156392 GAACCAGAGTAATTCAAGGATGGGTGACCCATTGGGAAGTTTTTCGAAAATTGAATGACTCGATC
325 GAACCAGAGTAATTCAAGGATGGGTGACCCATTGGGAAGTTGTTCGAAAATTGAATGACTCGATC
156457 CTAACAAGTGGTATCAGAGCAGGTTGTAGGTTCGAATACCCCAGGTATCGCTGGGGGTGAT
390 CTAACAAGTGGTATCAGAGCAGGTTGTAGGTTCGAATACCCCAGGTATCGCTGGGGGTGAT
*
156518 TGTTGGGTTATGGGGTCCAATGATCA-CTTAGGGATTCTATCGTGTATCGACGCGATATCAGGTG
1 TGTTGGGTTATGGGGTCCAATGATCACCTTAGGGATTCTATCGTATATCGACGCGATATCAGGTG
* *
156582 CTTGACAG-CTCAACCTGCCAAGGCCCACGTGTGCCTTGCAAAGCCCCTAGGCCTGCCC-CTAGC
66 CTTGACAGTC-CAACCTGCCAAGGCCCACGTGTGCCTTGCAAAGCCCCTAGGCCCGCCCGC-AAC
*
156645 ACGCTATATAGATGCGGGGCTCTGCAATGCCGTGGTGAATTATGGGGGGTGCCCCACAAGAATCC
129 ACGC--TATAGATGCGGGGCTCTGCAATACCGTGGTGAATTAT-GGGGGTGCCCCACAAGAATCC
* * * *
156710 ACCTTGGCTTGGGGGAAACCAGTGTTCATCCGCTACAAAGATATGAGGTTAAAATGGCCCACCTA
191 ACCTTGGCTTGGGAGAAACCAGTGATCACCCGCTACAAAGATATGAGGTTAAAATGACCCACCTA
* *
156775 CTTATCACCAATTGGTTTTAAGAAGGAATGATGACCATTCGCTTCATAACTCTT-TAGTTAAGCG
256 CTTATCACCAATTGGTTTTAAGAAGAAATGATGACCATTCGCTTCAGAACT-TTGTAGTTAAGCG
*
156839 TGCTTTAACCAGAGTAATTCAAGGATGGGTGACCCATTGGGAAGTTGTTCGAAAATTGAATGACT
320 TGCTTGAACCAGAGTAATTCAAGGATGGGTGACCCATTGGGAAGTTGTTCGAAAATTGAATGACT
156904 CGATCCTAACA
385 CGATCCTAACA
156915 CAAACGATCA
Statistics
Matches: 371, Mismatches: 20, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
448 2 0.01
449 95 0.26
451 60 0.16
452 212 0.57
453 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (450 bp):
TGTTGGGTTATGGGGTCCAATGATCACCTTAGGGATTCTATCGTATATCGACGCGATATCAGGTG
CTTGACAGTCCAACCTGCCAAGGCCCACGTGTGCCTTGCAAAGCCCCTAGGCCCGCCCGCAACAC
GCTATAGATGCGGGGCTCTGCAATACCGTGGTGAATTATGGGGGTGCCCCACAAGAATCCACCTT
GGCTTGGGAGAAACCAGTGATCACCCGCTACAAAGATATGAGGTTAAAATGACCCACCTACTTAT
CACCAATTGGTTTTAAGAAGAAATGATGACCATTCGCTTCAGAACTTTGTAGTTAAGCGTGCTTG
AACCAGAGTAATTCAAGGATGGGTGACCCATTGGGAAGTTGTTCGAAAATTGAATGACTCGATCC
TAACAAGTGGTATCAGAGCAGGTTGTAGGTTCGAATACCCCAGGTATCGCTGGGGGTGAT
Found at i:158151 original size:22 final size:21
Alignment explanation
Indices: 158094--158151 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
158084 AGACCTCGTG
*
158094 GGGGGTTATCGATT-CCCTCCA
1 GGGGG-TATCGATTCCCCTCAA
* * *
158115 GGGGGAATTGGTTCCCCATCAA
1 GGGGGTATCGATTCCCC-TCAA
158137 GGGGGTATCGATTCC
1 GGGGGTATCGATTCC
158152 TCCTTCACTA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 5 0.18
21 8 0.29
22 15 0.54
ACGTcount: A:0.17, C:0.24, G:0.33, T:0.26
Consensus pattern (21 bp):
GGGGGTATCGATTCCCCTCAA
Found at i:164499 original size:15 final size:15
Alignment explanation
Indices: 164481--164514 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
164471 AATATGTATG
164481 TATAAACTATATATA
1 TATAAACTATATATA
*
164496 TATAACCTATATATA
1 TATAAACTATATATA
164511 TATA
1 TATA
164515 TAAAGTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (15 bp):
TATAAACTATATATA
Found at i:164601 original size:7 final size:7
Alignment explanation
Indices: 164591--164647 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
164581 TATTTTATAG
164591 AAACCCT
1 AAACCCT
164598 AAACCCT
1 AAACCCT
***
164605 AAATAAT
1 AAACCCT
164612 -AACCCT
1 AAACCCT
164618 AAACCCT
1 AAACCCT
**
164625 AAACTTT
1 AAACCCT
*
164632 AAACCAT
1 AAACCCT
164639 AAACCCT
1 AAACCCT
164646 AA
1 AA
164648 TATAAATAGA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
6 3 0.08
7 35 0.92
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:165028 original size:20 final size:20
Alignment explanation
Indices: 164996--165045 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
164986 ATTTTATATA
*
164996 ATAT-GTATGTATAAACCAT
1 ATATAGTATATATAAACCAT
* *
165015 GTATAGTATATATAAACTAT
1 ATATAGTATATATAAACCAT
165035 ATATA-TATATA
1 ATATAGTATATA
165046 AAGTATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (20 bp):
ATATAGTATATATAAACCAT
Found at i:165043 original size:17 final size:18
Alignment explanation
Indices: 165016--165053 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
165006 ATAAACCATG
165016 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
*
165034 TATA-TATATATAAAGTA
1 TATAGTATATATAAACTA
165051 TAT
1 TAT
165054 TACTTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:165146 original size:14 final size:14
Alignment explanation
Indices: 165121--165156 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
165111 TAGTTTATAG
*
165121 AAACCCTAAACCCT
1 AAACCATAAACCCT
*
165135 AAATCATAAACCCT
1 AAACCATAAACCCT
165149 AAACCATA
1 AAACCATA
165157 TTTTAGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:165501 original size:2 final size:2
Alignment explanation
Indices: 165410--165485 Score: 134
Period size: 2 Copynumber: 37.5 Consensus size: 2
165400 TGTATAAACC
165410 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
*
165452 AT AT AT AT AT AT AT AT AT AT AT AA ACT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT A
165486 GTAAATTACT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 70 0.99
3 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:165771 original size:23 final size:24
Alignment explanation
Indices: 165744--165793 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
165734 TTATTTTTTC
*
165744 TTTATATAAATTAAACTATA-TAA
1 TTTATAAAAATTAAACTATATTAA
165767 TTTATAAAAATTAAACTATATTAA
1 TTTATAAAAATTAAACTATATTAA
165791 TTT
1 TTT
165794 TCCTTTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTATAAAAATTAAACTATATTAA
Found at i:166344 original size:18 final size:18
Alignment explanation
Indices: 166321--166366 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
166311 AGTCGGTTTC
*
166321 AGTCAGTTTTATAGGTCG
1 AGTCAGTTTTACAGGTCG
*
166339 AGTCAGTTTTGCAGGTCG
1 AGTCAGTTTTACAGGTCG
*
166357 GGTCAGTTTT
1 AGTCAGTTTT
166367 TTACACCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.13, G:0.30, T:0.39
Consensus pattern (18 bp):
AGTCAGTTTTACAGGTCG
Found at i:174874 original size:12 final size:12
Alignment explanation
Indices: 174856--174908 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
174846 AAAATATGAT
174856 ATGAACAGTACC
1 ATGAACAGTACC
* *
174868 GTGAACAATA--
1 ATGAACAGTACC
*
174878 ATGAACAGTAAC
1 ATGAACAGTACC
174890 ATGAACAGTACC
1 ATGAACAGTACC
174902 ATGAACA
1 ATGAACA
174909 ATTCGTTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 8 0.24
12 26 0.76
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:175684 original size:30 final size:30
Alignment explanation
Indices: 175648--175731 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 30
175638 CCCGAAGGAC
* * *
175648 CTATCCAGAGGTCACAAGGAACCTCAGTAA
1 CTATCCAAAGGTCACAAAGAACCTCAGCAA
*
175678 CTATCCAAAGGTCATAAAGAACCTCAGCAA
1 CTATCCAAAGGTCACAAAGAACCTCAGCAA
* * * *
175708 CTGTCCATAGGTCCCGAAGAACCT
1 CTATCCAAAGGTCACAAAGAACCT
175732 AGGTAAACTG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.18
Consensus pattern (30 bp):
CTATCCAAAGGTCACAAAGAACCTCAGCAA
Found at i:175744 original size:31 final size:31
Alignment explanation
Indices: 175706--175833 Score: 116
Period size: 31 Copynumber: 4.1 Consensus size: 31
175696 GAACCTCAGC
* *
175706 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* ***
175737 AACTGTCCATATGTTCTTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* *
175768 TATTGTCCATATGTCCCGAA-AGACATAGGTA
1 AACTGTCCATATGTCCCGAAGA-ACATAGGTA
* * *
175799 ATTCTGTCCATATGTTCC-ATAAAACATAGGTA
1 A-ACTGTCCATATGTCCCGA-AGAACATAGGTA
175831 AAC
1 AAC
175834 CCTCGACTCT
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
30 1 0.01
31 50 0.66
32 24 0.32
33 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:175829 original size:63 final size:62
Alignment explanation
Indices: 175709--175830 Score: 165
Period size: 63 Copynumber: 2.0 Consensus size: 62
175699 CCTCAGCAAC
* ** *
175709 TGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATGTTCTTTAGAACATAGGTATAT
1 TGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCATAAAACATAGGTATAT
* *
175771 TGTCCATATGTCCCGAA-AGACATAGGTAATTCTGTCCATATGTTCCATAAAACATAGGTA
1 TGTCCATAGGTCCCGAAGA-ACATAGGTAA-ACTGTCCATATGTTCCATAAAACATAGGTA
175831 AACCCTCGAC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 1 0.02
62 25 0.48
63 26 0.50
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (62 bp):
TGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCATAAAACATAGGTATAT
Found at i:176388 original size:16 final size:16
Alignment explanation
Indices: 176367--176397 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
176357 CTCTTATGTC
176367 TTCTCATATACATATA
1 TTCTCATATACATATA
176383 TTCTCATATACATAT
1 TTCTCATATACATAT
176398 CAATAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCTCATATACATATA
Found at i:183394 original size:2 final size:2
Alignment explanation
Indices: 183387--183421 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
183377 ACTTCCCAGT
183387 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
183422 CTTCACAAAG
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:189230 original size:34 final size:35
Alignment explanation
Indices: 189192--189274 Score: 114
Period size: 36 Copynumber: 2.4 Consensus size: 35
189182 TAAAATTTAG
*
189192 TTTCAAAGTTTGGCAACCA-ACTTTGAAAAATGTT
1 TTTCAAAGTTTGGCAAACATACTTTGAAAAATGTT
* * *
189226 TTTCAAAGTTTGGTAAATATTTCTTTGAAAAATGTT
1 TTTCAAAGTTTGGCAAACA-TACTTTGAAAAATGTT
189262 TTTCAAAGTTTGG
1 TTTCAAAGTTTGG
189275 TAAAGTTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 16 0.37
36 27 0.63
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.42
Consensus pattern (35 bp):
TTTCAAAGTTTGGCAAACATACTTTGAAAAATGTT
Found at i:189237 original size:21 final size:21
Alignment explanation
Indices: 189213--189273 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
189203 GGCAACCAAC
189213 TTTGAAAAATGTTTTTCAAAG
1 TTTGAAAAATGTTTTTCAAAG
** *
189234 TTTGGTAAA--TATTTC----
1 TTTGAAAAATGTTTTTCAAAG
189249 TTTGAAAAATGTTTTTCAAAG
1 TTTGAAAAATGTTTTTCAAAG
189270 TTTG
1 TTTG
189274 GTAAAGTTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
15 7 0.25
17 5 0.18
19 5 0.18
21 11 0.39
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.48
Consensus pattern (21 bp):
TTTGAAAAATGTTTTTCAAAG
Found at i:189488 original size:30 final size:30
Alignment explanation
Indices: 189417--189476 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
189407 ACAATTTAAG
189417 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
189447 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
189477 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:189628 original size:20 final size:20
Alignment explanation
Indices: 189603--189734 Score: 80
Period size: 20 Copynumber: 6.8 Consensus size: 20
189593 CATCTGCACT
189603 AATGCATCGATGCATCATGC
1 AATGCATCGATGCATCATGC
*
189623 AATGCATCCATGCATC---C
1 AATGCATCGATGCATCATGC
* *
189640 AA-ACATCGAATGCA--AT-T
1 AATGCATCG-ATGCATCATGC
* * *
189657 AGTGCATCGATGCATCCTTTC
1 AATGCATCGATGCAT-CATGC
* * *
189678 TATGCATCAATGCATCCTGC
1 AATGCATCGATGCATCATGC
* *
189698 TATGCATCGATGCATCCTGC
1 AATGCATCGATGCATCATGC
* *
189718 CATGCATCCATGCATCA
1 AATGCATCGATGCATCA
189735 AGGATGCAAC
Statistics
Matches: 87, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
16 4 0.05
17 14 0.16
18 5 0.06
20 52 0.60
21 12 0.14
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (20 bp):
AATGCATCGATGCATCATGC
Found at i:195275 original size:3 final size:3
Alignment explanation
Indices: 195267--195314 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
195257 TTTTATTAAC
*
195267 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA CTAA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA
195313 TT
1 TT
195315 TTACAGGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:202124 original size:15 final size:16
Alignment explanation
Indices: 202094--202125 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
202084 GTCTTTAATC
202094 GAATCAATTCAATCTA
1 GAATCAATTCAATCTA
202110 GAATCAATT-AATCTA
1 GAATCAATTCAATCTA
202125 G
1 G
202126 TGGTTGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (16 bp):
GAATCAATTCAATCTA
Found at i:202771 original size:15 final size:15
Alignment explanation
Indices: 202751--202781 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
202741 CAACAAATAG
202751 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
202766 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
202781 A
1 A
202782 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:202967 original size:20 final size:20
Alignment explanation
Indices: 202942--202999 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
202932 ATCTTATTCT
202942 CTGGTAATCTTTCATTCCCA
1 CTGGTAATCTTTCATTCCCA
* *
202962 CTGGTAATCTTTTATTCTCA
1 CTGGTAATCTTTCATTCCCA
*
202982 CTGGTAATCTTACATTCC
1 CTGGTAATCTTTCATTCC
203000 GTGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.43
Consensus pattern (20 bp):
CTGGTAATCTTTCATTCCCA
Found at i:208592 original size:2 final size:2
Alignment explanation
Indices: 208585--208645 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
208575 TTATTACACC
208585 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
208627 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
208646 ATTTAATTTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:208809 original size:2 final size:2
Alignment explanation
Indices: 208802--208833 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
208792 TTTTTAGGAT
208802 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
208834 TTAAATTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:208910 original size:21 final size:21
Alignment explanation
Indices: 208886--208949 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
208876 CTTTTTAAAC
208886 TATTATTTTTCTTAAATTAGA
1 TATTATTTTTCTTAAATTAGA
** * *
208907 TATTTAAGTAT-TTAACTTAGA
1 TA-TTATTTTTCTTAAATTAGA
208928 TA-T-TTTTTCTTAAATTA-A
1 TATTATTTTTCTTAAATTAGA
208946 TATT
1 TATT
208950 TATAAAAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 5 0.16
19 9 0.28
21 13 0.41
22 5 0.16
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TATTATTTTTCTTAAATTAGA
Found at i:208955 original size:14 final size:14
Alignment explanation
Indices: 208938--208975 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
208928 TATTTTTTCT
208938 TAAATTAATATTTA
1 TAAATTAATATTTA
*
208952 TAAA--AATATTTT
1 TAAATTAATATTTA
208964 TAAATTAATATT
1 TAAATTAATATT
208976 ATTAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.52
14 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTAATATTTA
Found at i:209902 original size:21 final size:21
Alignment explanation
Indices: 209873--209925 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
209863 ATTCTGACTA
209873 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
209894 TCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
*
209915 TCGCAATGCGA
1 TCGCATTGCGA
209926 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:209940 original size:20 final size:20
Alignment explanation
Indices: 209915--210025 Score: 195
Period size: 20 Copynumber: 5.5 Consensus size: 20
209905 TTTTCCGAAT
*
209915 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
209935 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
209955 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
209975 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
209995 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
*
210015 TCGCAACGCGA
1 TCGCAATGCGA
210026 TTCTGACTAT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:210037 original size:20 final size:20
Alignment explanation
Indices: 210014--210124 Score: 143
Period size: 20 Copynumber: 5.5 Consensus size: 20
210004 GAATATGTAA
210014 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
210034 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
210054 ATCGCAACGAGATTCTGACAAA
1 ATCGCAACGCGATTCTGAC--T
***
210076 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGATTCTGACT
210096 ATCGCAACGCGAATT-TGACT
1 ATCGCAACGCG-ATTCTGACT
210116 ATCGCAACG
1 ATCGCAACG
210125 AAAGAATCGC
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
20 63 0.80
21 1 0.01
22 15 0.19
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:210038 original size:40 final size:40
Alignment explanation
Indices: 209853--210122 Score: 142
Period size: 40 Copynumber: 6.7 Consensus size: 40
209843 GTTTCTAGAT
* * * **
209853 TCGCAACGCGATTCTGACTATCGCATTGCGATTTTCCAAA
1 TCGCAACGCGATTCTGACTATCGCAATGCGAATATGTAAA
*** * *
209893 TTCGCGTTGCGATTTTCCGAAT-TCGCAATGCGAATATGTAAA
1 -TCGCAACGCGA--TTCTGACTATCGCAATGCGAATATGTAAA
* * * *
209935 TCGCAATGCGAATAC-GTA-AATCGCAATGCGAATACGTAAA
1 TCGCAACGCG-ATTCTG-ACTATCGCAATGCGAATATGTAAA
* * *
209975 TCGCAATGCGAATAC-GTA-AATCGCAATGCGAATATGTAAA
1 TCGCAACGCG-ATTCTG-ACTATCGCAATGCGAATATGTAAA
* * * *
210015 TCGCAACGCGATTCTGACTATCGCAACGCGATTCTG-ACTA
1 TCGCAACGCGATTCTGACTATCGCAATGCGAATATGTA-AA
* * * * *
210055 TCGCAACGAGATTCTGACAAAATCGCAACGCGAAAATG-ACTA
1 TCGCAACGCGATTCTGAC--TATCGCAATGCGAATATGTA-AA
210097 TCGCAACGCGAATT-TGACTATCGCAA
1 TCGCAACGCG-ATTCTGACTATCGCAA
210123 CGAAAGAATC
Statistics
Matches: 188, Mismatches: 30, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
39 6 0.03
40 110 0.59
41 16 0.09
42 47 0.25
43 9 0.05
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (40 bp):
TCGCAACGCGATTCTGACTATCGCAATGCGAATATGTAAA
Found at i:210094 original size:22 final size:20
Alignment explanation
Indices: 209993--210124 Score: 68
Period size: 20 Copynumber: 6.5 Consensus size: 20
209983 CGAATACGTA
* *
209993 AATCGCAATGCGAATATGTA-
1 AATCGCAACGCGAAAATG-AC
***
210013 AATCGCAACGCGATTCTGAC
1 AATCGCAACGCGAAAATGAC
* ***
210033 TATCGCAACGCGATTCTGAC
1 AATCGCAACGCGAAAATGAC
* * ***
210053 TATCGCAACGAGATTCTGAC
1 AATCGCAACGCGAAAATGAC
210073 AAAATCGCAACGCGAAAATGAC
1 --AATCGCAACGCGAAAATGAC
* **
210095 TATCGCAACGCGAATTTGAC
1 AATCGCAACGCGAAAATGAC
*
210115 TATCGCAACG
1 AATCGCAACG
210125 AAAGAATCGC
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
19 1 0.01
20 80 0.83
22 15 0.16
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGAAAATGAC
Found at i:210192 original size:20 final size:18
Alignment explanation
Indices: 210167--210244 Score: 74
Period size: 20 Copynumber: 4.3 Consensus size: 18
210157 GCGATTCTCT
210167 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTC--ATTCG
*
210187 CGTTGCGAT--TC--TCT
1 CGTTGCGATAGTCATTCG
210201 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA--TTCG
210221 CGTTGCGATAGTCATTCG
1 CGTTGCGATAGTCATTCG
*
210239 TGTTGC
1 CGTTGC
210245 AATTTTAAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
14 11 0.22
16 2 0.04
18 11 0.22
20 25 0.51
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (18 bp):
CGTTGCGATAGTCATTCG
Found at i:210193 original size:34 final size:34
Alignment explanation
Indices: 210150--210229 Score: 133
Period size: 34 Copynumber: 2.4 Consensus size: 34
210140 GAAATGAAAA
*
210150 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGTCAAAT
**
210184 TCGCGTTGCGATTCTCTCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGTCAAAT
210218 TCGCGTTGCGAT
1 TCGCGTTGCGAT
210230 AGTCATTCGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.38
Consensus pattern (34 bp):
TCGCGTTGCGATTCTCTCGTTGCGATAGTCAAAT
Found at i:210829 original size:21 final size:21
Alignment explanation
Indices: 210738--210836 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
210728 GACTCATCTG
*
210738 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
210760 T-ATCATTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
210780 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
210801 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
*
210822 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
210837 TCTCTCCCAC
Statistics
Matches: 59, Mismatches: 17, Indels: 3
0.75 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 55 0.93
22 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:210835 original size:42 final size:42
Alignment explanation
Indices: 210763--210856 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
210753 CCTCCCCTAT
*
210763 CATTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CATTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAC
* * ** * *
210805 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCTCTCCCAC
1 CATTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
210847 CATTCAAGAG
1 CATTCAAGAG
210857 CCCGCTTCAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 41 0.95
43 2 0.05
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.21
Consensus pattern (42 bp):
CATTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:212244 original size:14 final size:14
Alignment explanation
Indices: 212225--212260 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
212215 ATTGTTTAAT
212225 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
212239 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
212253 TGATTTGT
1 TGATTTGT
212261 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:212405 original size:14 final size:14
Alignment explanation
Indices: 212386--212439 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
212376 GGAAATGACT
212386 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
212400 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
212419 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
212433 ATCGCAA
1 ATCGCAA
212440 TACGAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:212416 original size:33 final size:33
Alignment explanation
Indices: 212366--212460 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
212356 AAAATAGACT
* **
212366 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
212400 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
212433 ATCGCAATACGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
212461 CGAAACTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 48 0.84
34 9 0.16
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:212423 original size:19 final size:19
Alignment explanation
Indices: 212399--212465 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
212389 GCAACGAGAG
212399 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
212418 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
212432 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
*
212451 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
212466 CTAAATTCGC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 23 0.59
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.12
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:212538 original size:33 final size:33
Alignment explanation
Indices: 212475--212583 Score: 155
Period size: 33 Copynumber: 3.3 Consensus size: 33
212465 ACTAAATTCG
*
212475 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-ATTCGCATTGCGATTCTCT
* *
212509 CGTTGCGAATTTCAATTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCAATTCGCATTGCGATTCTCT
* *
212542 CGTTGCGATTTTCAATTCACATTGCAATTCTCT
1 CGTTGCGATTTTCAATTCGCATTGCGATTCTCT
*
212575 CATTGCGAT
1 CGTTGCGAT
212584 AGTTATTTCC
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 54 0.81
34 13 0.19
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCAATTCGCATTGCGATTCTCT
Found at i:212602 original size:20 final size:20
Alignment explanation
Indices: 212577--212663 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
212567 AATTCTCTCA
*
212577 TTGCGATAGTTATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
212597 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTCCGCG
**
212617 TTGCGATAGTCATTTCCATG
1 TTGCGATAGTCATTTCCGCG
212637 TTGCGATAGTCATATT-CGCG
1 TTGCGATAGTCAT-TTCCGCG
212657 TTGCGAT
1 TTGCGAT
212664 TTCCGCGTTG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 57 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:212632 original size:40 final size:40
Alignment explanation
Indices: 212577--212663 Score: 138
Period size: 40 Copynumber: 2.2 Consensus size: 40
212567 AATTCTCTCA
* * *
212577 TTGCGATAGTTATTTCCGCGTTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTCCACGTTGCGATAGTCATATTCGCG
*
212617 TTGCGATAGTCATTTCCATGTTGCGATAGTCATATTCGCG
1 TTGCGATAGTCATTTCCACGTTGCGATAGTCATATTCGCG
212657 TTGCGAT
1 TTGCGAT
212664 TTCCGCGTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (40 bp):
TTGCGATAGTCATTTCCACGTTGCGATAGTCATATTCGCG
Found at i:214709 original size:14 final size:14
Alignment explanation
Indices: 214690--214726 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
214680 TCTCGTGGCA
214690 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
214704 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
214718 TTCTTCTTC
1 TT-TTCTTC
214727 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:214983 original size:24 final size:24
Alignment explanation
Indices: 214932--214983 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
214922 ATCTGAGTAT
** *
214932 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
214956 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
214980 TGAC
1 TGAC
214984 TAGTACTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:215838 original size:38 final size:39
Alignment explanation
Indices: 215793--215874 Score: 130
Period size: 38 Copynumber: 2.1 Consensus size: 39
215783 GAAATTCAGT
*
215793 GTTGCGATAGTCAGAATCGCGTT-GATAGTCAGCATCGC
1 GTTGCGATAGTCAGAATCGCGTTCGATAGTCAGAATCGC
*
215831 GTTGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGCGTT-CGATAGTCAGAATCGC
215871 GTTG
1 GTTG
215875 TAATTTACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
38 22 0.55
40 18 0.45
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
GTTGCGATAGTCAGAATCGCGTTCGATAGTCAGAATCGC
Found at i:215841 original size:20 final size:20
Alignment explanation
Indices: 215793--215874 Score: 132
Period size: 20 Copynumber: 4.2 Consensus size: 20
215783 GAAATTCAGT
215793 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
215813 GTT--GATAGTCAGCATCGC
1 GTTGCGATAGTCAGAATCGC
*
215831 GTTGCGATAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGC
215851 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
215871 GTTG
1 GTTG
215875 TAATTTACAT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
18 17 0.30
20 39 0.70
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:215890 original size:20 final size:20
Alignment explanation
Indices: 215877--215937 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
215867 TCGCGTTGTA
215877 ATTTACATATTCGCATTGCG
1 ATTTACATATTCGCATTGCG
215897 ATTTACATATTCGCATTGCG
1 ATTTACATATTCGCATTGCG
* *
215917 ATTTACATATCCACATTGCG
1 ATTTACATATTCGCATTGCG
215937 A
1 A
215938 ATTCGGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (20 bp):
ATTTACATATTCGCATTGCG
Found at i:215960 original size:21 final size:21
Alignment explanation
Indices: 215934--215979 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
215924 TATCCACATT
215934 GCGAATTCGGAAAATCGCAAC
1 GCGAATTCGGAAAATCGCAAC
* *
215955 GCGAATTTGGAAAATCGCAAT
1 GCGAATTCGGAAAATCGCAAC
215976 GCGA
1 GCGA
215980 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTCGGAAAATCGCAAC
Found at i:234558 original size:28 final size:26
Alignment explanation
Indices: 234504--234559 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 26
234494 TCGTACACCA
234504 ATATTATATTATATAATATATTTTTT
1 ATATTATATTATATAATATATTTTTT
234530 ATATTATAATGTATATAAT-TATTTATTT
1 ATATTAT-AT-TATATAATATATTT-TTT
234558 AT
1 AT
234560 TTGGGTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 7 0.26
27 7 0.26
28 13 0.48
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
ATATTATATTATATAATATATTTTTT
Found at i:234560 original size:26 final size:26
Alignment explanation
Indices: 234504--234560 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
234494 TCGTACACCA
*
234504 ATATTATATTATATAATATATTTTTT
1 ATATTATATTATATAATATATTTATT
234530 ATATTATAATGTATATAAT-TATTTATT
1 ATATTAT-AT-TATATAATATATTTATT
234557 -TATT
1 ATATT
234561 TGGGTTACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 11 0.39
27 9 0.32
28 8 0.29
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATTATATTATATAATATATTTATT
Found at i:235794 original size:3 final size:3
Alignment explanation
Indices: 235788--235843 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
235778 TTTAATTCTT
*
235788 TTA TTA TTA TTA TTA TTA TT- TTA TT- TGT- TTA TT- TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
235830 TT- TTA TTA CTTA TT
1 TTA TTA TTA -TTA TT
235844 TTTTTTGTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
2 8 0.18
3 34 0.76
4 3 0.07
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:235821 original size:13 final size:12
Alignment explanation
Indices: 235803--235855 Score: 54
Period size: 13 Copynumber: 4.3 Consensus size: 12
235793 ATTATTATTA
235803 TTATTTTATTTGT
1 TTATTTTA-TTGT
235816 TTATTTTATT-T
1 TTATTTTATTGT
**
235827 TTATTTTATTAC
1 TTATTTTATTGT
*
235839 TTATTTTTTTTGT
1 TTA-TTTTATTGT
235852 TTAT
1 TTAT
235856 ACGCTATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
11 11 0.32
12 6 0.18
13 17 0.50
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (12 bp):
TTATTTTATTGT
Found at i:235846 original size:24 final size:24
Alignment explanation
Indices: 235791--235855 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
235781 AATTCTTTTA
* * **
235791 TTATTATTATTATTATTTTATTTG
1 TTATTTTTATTTTTATTTTATTAC
235815 TT-TATTTTATTTTTATTTTATTAC
1 TTAT-TTTTATTTTTATTTTATTAC
*
235839 TTATTTTTTTTGTTTAT
1 TTATTTTTATT-TTTAT
235856 ACGCTATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 26 0.79
25 6 0.18
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (24 bp):
TTATTTTTATTTTTATTTTATTAC
Found at i:236317 original size:2 final size:2
Alignment explanation
Indices: 236236--236297 Score: 76
Period size: 2 Copynumber: 32.0 Consensus size: 2
236226 ATTATTATTA
* *
236236 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
236276 CAT -T AT AT AT AT AT AT AT AT AT
1 -AT AT AT AT AT AT AT AT AT AT AT
236298 GTTTTTTACT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
1 3 0.06
2 48 0.92
3 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Done.