Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 91
Found at i:4181274 original size:15 final size:15
Alignment explanation
Indices: 4181254--4181292 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4181244 ACACTTTATG
*
4181254 GGAAACTTTAAGTTT
1 GGAAACTTTAAGTAT
*
4181269 GGAAACTTTATGTAT
1 GGAAACTTTAAGTAT
*
4181284 GAAAACTTT
1 GGAAACTTT
4181293 GTTGTGGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (15 bp):
GGAAACTTTAAGTAT
Found at i:4181579 original size:25 final size:25
Alignment explanation
Indices: 4181550--4181602 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
4181540 GTACACAAGA
*
4181550 AATTTATATATAACAATGTTCAAAT
1 AATTTATACATAACAATGTTCAAAT
4181575 AATTTATACATAACAATGTTCAAAT
1 AATTTATACATAACAATGTTCAAAT
4181600 AAT
1 AAT
4181603 GTACCCACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (25 bp):
AATTTATACATAACAATGTTCAAAT
Found at i:4182626 original size:6 final size:6
Alignment explanation
Indices: 4182593--4182638 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
4182583 ATAATCATAA
* * * *
4182593 TCATCA TCATCT TCTTCT TCTTCT TCATCG TCATCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
4182639 TGACCTCTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.15, C:0.33, G:0.02, T:0.50
Consensus pattern (6 bp):
TCATCT
Found at i:4184824 original size:200 final size:200
Alignment explanation
Indices: 4184122--4185324 Score: 1597
Period size: 200 Copynumber: 6.0 Consensus size: 200
4184112 ATTTAAAATG
* * * * * * *
4184122 GTATCGACACAAATTTAACAATTGTCGATACTTTATG-ATGACCTATT-TTCTCATAAAACTGGT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTA-GACCTATTCTT-ACATAAAACCGGT
* * ** * *
4184185 ATATTTATACCGGTAACATTGGAAATTTACCTATTACATTATAATTATCA-GTTTCGATGTTATT
64 ATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTAT-ATGTTTCGATGTTTTT
* * * * *
4184249 GGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCA--ACTTTTGG-ATTTCCTTCT
128 GGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCA-TTCATTCT
4184311 GGACAAAAA
192 GGACAAAAA
* * ** * *
4184320 GTATCGACACTAATTCCACAAGTGTTGATACATGT-TGTAGACCTATTCTCT-CATAAAACCGGT
1 GTATCGACACAAAATAAAAAAGTGTCGATACAT-TATGTAGACCTATTCT-TACATAAAACCGGT
* * ** * * * ** *
4184383 AT-TGTTATATCGGTTACATTGTAAATTTACCTATTATATTATATTTATGGGTTTCGATGTTTCT
64 ATAT-TTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATATGTTTCGATGTTTTT
* * *
4184447 GGTATCGACACTTTTTATAAATGTATCTATACTTTATTCGTTCATCATTTTTGGCATTCATTCTG
128 GGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTG
4184512 GACAAAAA
193 GACAAAAA
* *
4184520 GTATCG--ACAAAATAAAAAAGTGTCGATATATTATGTAGACCTATTCTTAAATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
*
4184583 ATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATATGTTTCGATGTTTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATATGTTTCGATGTTTTTGGG
* *
4184648 ATCGACACTTTTTATAAATGTATCGACACTTTATTTGTTCATCCTTTTTGGCATTCATTCTGGAC
131 ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
4184713 AAAAA
196 AAAAA
* * *
4184718 GTATCGACACAAAATAAAAAAGTTTCGATACATTATGTATACCTATTCTTACATAAAACTGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
*
4184783 ATTTATACCGGTTATATTACAAAATTACCAATTACATTATAATTATATGTTTCGATGTTTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATATGTTTCGATGTTTTTGGG
*
4184848 ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAT
131 ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
4184913 AAAAA
196 AAAAA
*
4184918 GTATCGACACAAAATAAAAAAATGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
** * * *
4184983 ATTTATACCATTTATATTACAAAATTACCTATTACATTATAATTATTTGTTTCGATATTTTTGTG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATATGTTTCGATGTTTTTGGG
* *
4185048 ATCGACACTTTTTATAAATATATCGACACTTTATTCGTTTATCATTTTTGGCATTCATTCTGGAC
131 ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
4185113 AAAAA
196 AAAAA
* * * * * *
4185118 GTATCGACATAACATTAAAAAGTGTCGATACATTATGTAGACTTATTCTCACATAAAACCAGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
* * * *
4185183 ATTTATATCGGTTAAATTACAAAATTATCTATTACATTAT-ATT-TATGGATTTCGATGTTTCTG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATAT-G-TTTCGATGTTTTTG
* * *
4185246 GGATCGACACTTTTCA-AAACTGTATCGACATTTTATTCGTTTATCATTTTTGGCATTCATTCTG
129 GGATCGACACTTTTTATAAA-TGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTG
4185310 GACAAAAA
193 GACAAAAA
*
4185318 GTGTCGA
1 GTATCGA
4185325 TACATTATGT
Statistics
Matches: 898, Mismatches: 90, Indels: 32
0.88 0.09 0.03
Matches are distributed among these distances:
197 3 0.00
198 309 0.34
199 11 0.01
200 574 0.64
201 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (200 bp):
GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATATGTTTCGATGTTTTTGGG
ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
AAAAA
Found at i:4185075 original size:400 final size:397
Alignment explanation
Indices: 4184144--4185620 Score: 1732
Period size: 400 Copynumber: 3.8 Consensus size: 397
4184134 ATTTAACAAT
* * * * * **
4184144 TGTCGATACTTTATG-ATGACCTATT-TTCTCATAAAACTGGTATATTTATACCGGTAACATTGG
1 TGTCGATACATTATGTA-GACCTATTCTT-ACATAAAACCGGTATATTTATACCGGTTATATTAC
* * * *
4184207 AAATTTACCTATTACATTATAATTATCAGTTTCGATGTTATTGGGATCGACACTTTTTAAAAATG
64 AAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATG
* * * * * *
4184272 TATCGACACTTTATGCGTGCA--ACTTTTGG-ATTTCCTTCTGGACAAAAAGTATCGACACTAAT
129 TATCGACACTTTATTCGTTCATCATTTTTGGCA-TTCATTCTGGACAAAAAGTATCGACACAAAA
** * *
4184334 TCCACAAGTGTT-GATACATGT-TGTAGACCTATTCTCTCATAAAACCGGTATTGTTATATCGGT
193 TAAAAAAGT-TTCGATACAT-TATGTAGACCTATTCTCACATAAAACCGGTATT-TTATATCGGT
* ** * * * ** *
4184397 TACATTGTAAATTTACCTATTATATTATATTTATGGGTTTCGATGTTTCTGGTATCGACACTTTT
255 TATATTACAAAATTACCTATTACATTATAATTATATGTTTCGATGTTTCTGGGATCGACACTTTT
* * *
4184462 TATAAATGTATCTATACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGA
320 TATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGATAAAAAGTATCGA
4184527 CAAAATAAAAAAG
385 CAAAATAAAAAAG
* *
4184540 TGTCGATATATTATGTAGACCTATTCTTAAATAAAACCGGTATATTTATACCGGTTATATTACAA
1 TGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATATTTATACCGGTTATATTACAA
* *
4184605 AATTACATATTACATTATAATTATATGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTA
66 AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTA
* *
4184670 TCGACACTTTATTTGTTCATCCTTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAA
131 TCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAA
* * * *
4184735 AAAAGTTTCGATACATTATGTATACCTATTCTTACATAAAACTGGTATATTTATACCGGTTATAT
196 AAAAGTTTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT-TTTATATCGGTTATAT
* *
4184800 TACAAAATTACCAATTACATTATAATTATATGTTTCGATGTTTTTGGGATCGACACTTTTTATAA
260 TACAAAATTACCTATTACATTATAATTATATGTTTCGATGTTTCTGGGATCGACACTTTTTATAA
4184865 ATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGATAAAAAGTATCGACACAA
325 ATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGATAAAAAGTATCG--ACAA
*
4184930 AATAAAAAAA
388 AATAAAAAAG
**
4184940 TGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATATTTATACCATTTATATTACAA
1 TGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATATTTATACCGGTTATATTACAA
* * * *
4185005 AATTACCTATTACATTATAATTATTTGTTTCGATATTTTTGTGATCGACACTTTTTATAAATATA
66 AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTA
* * * *
4185070 TCGACACTTTATTCGTTTATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACATAACATTA
131 TCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAA
* * * *
4185135 AAAAGTGTCGATACATTATGTAGACTTATTCTCACATAAAACCAGTATATTTATATCGGTTAAAT
196 AAAAGTTTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT-TTTATATCGGTTATAT
* *
4185200 TACAAAATTATCTATTACATTAT-ATT-TATGGATTTCGATGTTTCTGGGATCGACACTTTTCA-
260 TACAAAATTACCTATTACATTATAATTATAT-G-TTTCGATGTTTCTGGGATCGACACTTTTTAT
* *
4185262 AAACTGTATCGACATTTTATTCGTTTATCATTTTTGGCATTCATTC----T-----G----GAC-
323 AAA-TGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGATAAAAAGTATCGACA
4185313 -----AAAAAG
387 AAATAAAAAAG
* **
4185319 TGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATATTGGTTATATTACAA
1 TGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATATTTATACCGGTTATATTACAA
4185384 AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTT--G---G---------------G-A
66 AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTA
4185428 TCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAA
131 TCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAA
*
4185493 AAAA-TTGTTGATACATTATGTAGACCTATTCTCACATAAAA-C-----------T-GGTTATAT
196 AAAAGTT-TCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATTTTATATCGGTTATAT
* * * *
4185544 TACAAAATTACCTATTACATTTTAATTATCTGTTTCGATGTTTTTGGGATCGACACGTTTTATAA
260 TACAAAATTACCTATTACATTATAATTATATGTTTCGATGTTTCTGGGATCGACACTTTTTATAA
4185609 ATGTATCGACAC
325 ATGTATCGACAC
4185621 ATATGCTTGC
Statistics
Matches: 965, Mismatches: 99, Indels: 86
0.84 0.09 0.07
Matches are distributed among these distances:
344 65 0.07
345 8 0.01
346 2 0.00
357 2 0.00
358 98 0.10
374 1 0.00
377 1 0.00
379 103 0.11
385 2 0.00
387 1 0.00
391 1 0.00
396 127 0.13
397 6 0.01
398 200 0.21
399 9 0.01
400 339 0.35
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (397 bp):
TGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATATTTATACCGGTTATATTACAA
AATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTA
TCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAA
AAAAGTTTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATTTTATATCGGTTATATT
ACAAAATTACCTATTACATTATAATTATATGTTTCGATGTTTCTGGGATCGACACTTTTTATAAA
TGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGATAAAAAGTATCGACAAAAT
AAAAAAG
Found at i:4185907 original size:19 final size:19
Alignment explanation
Indices: 4185882--4185930 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
4185872 TTACATCCAC
4185882 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
* *
4185901 GTACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
4185920 ATACAAAATTA
1 ATACAAAATTA
4185931 ACTCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:4187514 original size:18 final size:18
Alignment explanation
Indices: 4187485--4187595 Score: 143
Period size: 18 Copynumber: 6.2 Consensus size: 18
4187475 TCCTCCTCAT
*
4187485 TTCCTCCATCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
* *
4187503 TCCCTCCCTCTTTTTTTC
1 TTCCTCCCTCTTTTCTTC
* *
4187521 TTTCTCCCTCTTTTTTTC
1 TTCCTCCCTCTTTTCTTC
* *
4187539 TTCATCCATC-TTTCTTTC
1 TTCCTCCCTCTTTTC-TTC
4187557 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
4187575 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
4187593 TTC
1 TTC
4187596 ATATTTTTTC
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
17 3 0.04
18 73 0.91
19 4 0.05
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.58
Consensus pattern (18 bp):
TTCCTCCCTCTTTTCTTC
Found at i:4187548 original size:54 final size:54
Alignment explanation
Indices: 4187489--4187597 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 54
4187479 CCTCATTTCC
* * *
4187489 TCCATCTTT-TCTTCTCCCTCCCTCTTTTTTTCTTTCTCCCTCTTTTTTTCTTCA
1 TCCATCTTTCT-TTCTCCCTCCCTCTTTTCTTCTTCCTCCCTCTTTTCTTCTTCA
*
4187543 TCCATCTTTCTTTCTTCCTCCCTCTTTTCTTCTTCCTCCCTCTTTTCTTCTTCA
1 TCCATCTTTCTTTCTCCCTCCCTCTTTTCTTCTTCCTCCCTCTTTTCTTCTTCA
4187597 T
1 T
4187598 ATTTTTTCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 49 0.98
55 1 0.02
ACGTcount: A:0.04, C:0.39, G:0.00, T:0.58
Consensus pattern (54 bp):
TCCATCTTTCTTTCTCCCTCCCTCTTTTCTTCTTCCTCCCTCTTTTCTTCTTCA
Found at i:4187864 original size:21 final size:20
Alignment explanation
Indices: 4187839--4187903 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
4187829 CCCCATTATG
4187839 TCTCTCAAGTGTCTTTTCGAC
1 TCTCTCAAGT-TCTTTTCGAC
*
4187860 TCTCTCAAGTTCTCTTT-AAC
1 TCTCTCAAGTTCT-TTTCGAC
*
4187880 TCTCTCAAGTTTCTCTTCGAC
1 TCTCTCAAG-TTCTTTTCGAC
4187901 TCT
1 TCT
4187904 TGATTATCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.15, C:0.31, G:0.09, T:0.45
Consensus pattern (20 bp):
TCTCTCAAGTTCTTTTCGAC
Found at i:4188007 original size:15 final size:15
Alignment explanation
Indices: 4187987--4188018 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4187977 ACTTTGTTTT
4187987 CCCTCACCATCATCC
1 CCCTCACCATCATCC
*
4188002 CCCTCACCGTCATCC
1 CCCTCACCATCATCC
4188017 CC
1 CC
4188019 TAATACAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.62, G:0.03, T:0.19
Consensus pattern (15 bp):
CCCTCACCATCATCC
Found at i:4190787 original size:181 final size:182
Alignment explanation
Indices: 4190217--4191066 Score: 1165
Period size: 182 Copynumber: 4.7 Consensus size: 182
4190207 TACGCGTACT
* * * ** * * ***
4190217 TATTAAAGTATCAACACTTTCAATATAT-TCGATAGCGCTTTACTAGTTTTCTCATTTAGAGACC
1 TATTAAAGTATCGACACTTGCAATATATCT-GGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACC
* * * * *
4190281 GGTTTTATCATATTTTTACATGCTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACAC
65 GGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
* *
4190346 TTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
130 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * * * ***
4190399 TATAAAATTATCGACACTTTCAATATATCCGGTAGCGATTTACCGATTTTGTCTTTTTGAGACCG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCG
*
4190464 G-TTTATCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
66 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* *
4190528 TTATA-GCGCTGAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * *
4190579 TATTAAAGTATCGACACTTGCAATATATCTGGTATCTCTTTACCGG-TTTGTCTTTTCCTGATCG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCG
* *
4190643 GTTTTGTCATTTTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACACT
66 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* *
4190708 TTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATATTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* *
4190760 TATTAAAGTATCGACACTTGCAATATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCG
* * * *
4190825 ATTTTGTCATATTTTTACCTGTTATATCATTGTAGATCGATACATATTTATAAAGAATCGACACT
66 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* *
4190890 TTATAGGCGCTAAAATTGCTTCTCCTTTAAAGTCACAATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* *
4190942 TATTAAAGTATCGACACGTGCAA-ATATCTGGTAGCGCTTTA-CGGTTTTGTCTTTTCGTGACCG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCG
* * * * * * *
4191005 GTTTTGTCATATTTTTTCCTG-TATATTGATGTGGATCGATATATTTTTATAAAGTATCGACA
66 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACA
4191067 TAAACCGACA
Statistics
Matches: 605, Mismatches: 59, Indels: 11
0.90 0.09 0.02
Matches are distributed among these distances:
179 49 0.08
180 185 0.31
181 170 0.28
182 201 0.33
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTGCAATATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCG
GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
Found at i:4191044 original size:361 final size:361
Alignment explanation
Indices: 4190217--4191066 Score: 1179
Period size: 361 Copynumber: 2.4 Consensus size: 361
4190207 TACGCGTACT
* * * * * * * *
4190217 TATTAAAGTATCAACACTTTCAATATAT-TCGATAGCGCTTTACTAGTTTTCTCATTTAGAGACC
1 TATTAAAGTATCGACACTTGCAATATATCT-GGTAGCGCTTTAC-GGTTTTGTCTTTTCGTGACC
* * *
4190281 GGTTTTATCATATTTTTACATGCTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACAC
64 GGTTTTGTCATATTTTTTCATGCTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACAC
* *
4190346 TTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATAAAATTATC
129 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAAAGTGTCGATACTTATATAAAAGTATC
* **
4190411 GACACTTTCAATATATCCGGTAGCGATTTACCGATTTTGTCTTTTTGAGACCGGTTTATCATATT
194 GACACTTGCAATATATCCGGTAGCGATTTACCGATTTTGTCTTTTCCAGACCGGTTTATCATATT
* * *
4190476 TTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGCGCTGAA
259 TTTACATGTTATATCATTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGCGCTAAA
* *
4190541 ACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTA
324 ACTGCTTCTCCTTTAAAGTCACAATGTGTCGATACTTA
* * * *
4190579 TATTAAAGTATCGACACTTGCAATATATCTGGTATCTCTTTACCGG-TTTGTCTTTTCCTGATCG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTAGCGCTTTA-CGGTTTTGTCTTTTCGTGACCG
* * * *
4190643 GTTTTGTCAT-TTTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACAC
65 GTTTTGTCATATTTTTT-CATGCTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACAC
* * * *
4190707 TTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATATTTATATTAAAGTATC
129 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAAAGTGTCGATACTTATATAAAAGTATC
* * ** * * * *
4190772 GACACTTGCAATATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGATTTTGTCATAT
194 GACACTTGCAATATATCCGGTAGCGATTTACCGATTTTGTCTTTTCCAGACCG-GTTTATCATAT
*
4190837 TTTTACCTGTTATATCATTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCTA
258 TTTTACATGTTATATCATTGTAGATCGATACATATTTATAAAGAATCGACACTTTATA-GCGCTA
*
4190902 AAATTGCTTCTCCTTTAAAGTCACAATGTGTCGATACTTA
322 AAACTGCTTCTCCTTTAAAGTCACAATGTGTCGATACTTA
*
4190942 TATTAAAGTATCGACACGTGCAA-ATATCTGGTAGCGCTTTACGGTTTTGTCTTTTCGTGACCGG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTAGCGCTTTACGGTTTTGTCTTTTCGTGACCGG
* * * *
4191006 TTTTGTCATATTTTTTCCTG-TATATTGATGTGGATCGATATATTTTTATAAAGTATCGACA
66 TTTTGTCATATTTTTTCATGCTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACA
4191067 TAAACCGACA
Statistics
Matches: 426, Mismatches: 55, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
360 5 0.01
361 204 0.48
362 145 0.34
363 72 0.17
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (361 bp):
TATTAAAGTATCGACACTTGCAATATATCTGGTAGCGCTTTACGGTTTTGTCTTTTCGTGACCGG
TTTTGTCATATTTTTTCATGCTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTT
TATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAAAGTGTCGATACTTATATAAAAGTATCGA
CACTTGCAATATATCCGGTAGCGATTTACCGATTTTGTCTTTTCCAGACCGGTTTATCATATTTT
TACATGTTATATCATTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGCGCTAAAAC
TGCTTCTCCTTTAAAGTCACAATGTGTCGATACTTA
Found at i:4198589 original size:182 final size:182
Alignment explanation
Indices: 4198283--4198879 Score: 973
Period size: 182 Copynumber: 3.3 Consensus size: 182
4198273 ACGAGGGAAA
*
4198283 TTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATA-GCGCT
1 TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
*
4198347 GAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
66 AAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
*
4198412 ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGATCGGTTTTGTCATT
131 ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATT
4198464 TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
1 TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
*
4198529 AAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATATTTATATTAAAGTATCGACACTTGCAAT
66 AAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
* *
4198594 ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGATTTTGTCATA
131 ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATT
* *
4198646 TTTTTACCTGTTATATCATTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
1 TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
* * * *
4198711 AAAATTGCTTCTCCTTTAAAGTCACAATGTGTCGATACTTATATTAAAGTATCGACACGTGCAAT
66 AAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
* * *
4198776 ATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACCGGTTTTGTCATAT
131 ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCAT-T
* * * * * * *
4198829 TTTTT-CCTGTTATATTGATGTGGATCGATATATTTTTATAAAGTATCGACA
1 TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACA
4198880 TAAACCGACA
Statistics
Matches: 389, Mismatches: 25, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
181 58 0.15
182 326 0.84
183 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (182 bp):
TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
AAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATT
Found at i:4199108 original size:5 final size:6
Alignment explanation
Indices: 4199094--4199118 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4199084 TGTTCTCTAC
4199094 TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT T
4199119 GATTTGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:4206427 original size:182 final size:182
Alignment explanation
Indices: 4206121--4206717 Score: 973
Period size: 182 Copynumber: 3.3 Consensus size: 182
4206111 ACGAGGGAAA
*
4206121 TTTTTACATGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATA-GCGCT
1 TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
*
4206185 GAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
66 AAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
*
4206250 ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGATCGGTTTTGTCATT
131 ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATT
4206302 TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
1 TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
*
4206367 AAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATATTTATATTAAAGTATCGACACTTGCAAT
66 AAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
* *
4206432 ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGATTTTGTCATA
131 ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATT
* *
4206484 TTTTTACCTGTTATATCATTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
1 TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
* * * *
4206549 AAAATTGCTTCTCCTTTAAAGTCACAATGTGTCGATACTTATATTAAAGTATCGACACGTGCAAT
66 AAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
* * *
4206614 ATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACCGGTTTTGTCATAT
131 ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCAT-T
* * * * * * *
4206667 TTTTT-CCTGTTATATTGATGTGGATCGATATATTTTTATAAAGTATCGACA
1 TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACA
4206718 TAAACCGACA
Statistics
Matches: 389, Mismatches: 25, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
181 58 0.15
182 326 0.84
183 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (182 bp):
TTTTTACATGTTATATCGTTGTAGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
AAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
ATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATT
Found at i:4206946 original size:5 final size:6
Alignment explanation
Indices: 4206932--4206956 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4206922 TGTTCTCTAC
4206932 TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT T
4206957 GATTTGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:4215987 original size:20 final size:23
Alignment explanation
Indices: 4215962--4216004 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4215952 ACCCCCAACA
4215962 ATTAAA-A-ACAAAAA-AAAAGG
1 ATTAAATAGACAAAAACAAAAGG
4215982 ATTAAATAGACAAAAACAAAAGG
1 ATTAAATAGACAAAAACAAAAGG
4216005 GTGAGGCGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 7 0.35
23 6 0.30
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.12
Consensus pattern (23 bp):
ATTAAATAGACAAAAACAAAAGG
Found at i:4216914 original size:23 final size:22
Alignment explanation
Indices: 4216879--4216934 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
4216869 ATTTGATTTT
* *
4216879 TTAAA-ATAAAATATTTAAAAT
1 TTAAATATAAAATATTAAAAAG
4216900 TTAAAATATAAAATATTAAAAAG
1 TT-AAATATAAAATATTAAAAAG
4216923 TTAAATATAAAA
1 TTAAATATAAAA
4216935 ATAACATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 2 0.06
22 13 0.42
23 16 0.52
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
TTAAATATAAAATATTAAAAAG
Found at i:4217113 original size:29 final size:30
Alignment explanation
Indices: 4217081--4217138 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
4217071 CATCTAAAAG
4217081 TAAGAGTAAAATTTAC-TAATAGTATGTAA
1 TAAGAGTAAAATTTACGTAATAGTATGTAA
4217110 TAAGAGTAAAATTTACGTAATAGTATGTA
1 TAAGAGTAAAATTTACGTAATAGTATGTA
4217139 TAAAATGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.34
Consensus pattern (30 bp):
TAAGAGTAAAATTTACGTAATAGTATGTAA
Found at i:4230824 original size:29 final size:29
Alignment explanation
Indices: 4230788--4230876 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 29
4230778 TCATTAAGTC
4230788 CCTC-AACTATTAAAAATTACAAAATGGT
1 CCTCTAACTATTAAAAATTACAAAATGGT
* ** *
4230816 CCTCTAACTA-TAAAATATTGCTTTATTGGGT
1 CCTCTAACTATTAAAA-ATTAC-AAAAT-GGT
*
4230847 CC-CTCAACTATTAAAAGTTACAAAATGGT
1 CCTCT-AACTATTAAAAATTACAAAATGGT
4230876 C
1 C
4230877 ACCTGACTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 11
0.70 0.14 0.17
Matches are distributed among these distances:
28 9 0.20
29 13 0.28
30 6 0.13
31 13 0.28
32 5 0.11
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (29 bp):
CCTCTAACTATTAAAAATTACAAAATGGT
Found at i:4231427 original size:18 final size:20
Alignment explanation
Indices: 4231390--4231430 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4231380 AAGTTTAAAT
4231390 TTTTATTGATTGATTGTCTA
1 TTTTATTGATTGATTGTCTA
4231410 TTTTATTGATT-A-TGTCTA
1 TTTTATTGATTGATTGTCTA
4231428 TTT
1 TTT
4231431 GTATAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.43
19 1 0.05
20 11 0.52
ACGTcount: A:0.20, C:0.05, G:0.12, T:0.63
Consensus pattern (20 bp):
TTTTATTGATTGATTGTCTA
Found at i:4231458 original size:2 final size:2
Alignment explanation
Indices: 4231451--4231478 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4231441 TATAATATTA
4231451 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
4231479 GTTGAACCAT
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:4233890 original size:23 final size:23
Alignment explanation
Indices: 4233864--4233920 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
4233854 ATCAAGTAAA
4233864 ATAA-CAAATTAGGTAACGCTTAT
1 ATAATCAAA-TAGGTAACGCTTAT
** *
4233887 ATAATGTAATAGGTAGCGCTTAT
1 ATAATCAAATAGGTAACGCTTAT
*
4233910 ATAATAAAATA
1 ATAATCAAATA
4233921 AGTTAATTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 26 0.93
24 2 0.07
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.32
Consensus pattern (23 bp):
ATAATCAAATAGGTAACGCTTAT
Found at i:4233977 original size:23 final size:23
Alignment explanation
Indices: 4233951--4234010 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
4233941 ATCAAGCACA
* *
4233951 ATAACATATTAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
4233974 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
4233997 ATAATAAAATAGGT
1 ATAACATAATAGGT
4234011 TCATTACTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:4233997 original size:87 final size:87
Alignment explanation
Indices: 4233851--4234085 Score: 362
Period size: 87 Copynumber: 2.7 Consensus size: 87
4233841 AACCAGAAAT
* * *
4233851 ATTATCAAGTAAAATAACAAATTAGGTAACGCTTATATAATGTAATAGGTAGCGCTTATATAATA
1 ATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATA
4233916 AAATAAGTTAATTACTAAAAAC
66 AAATAAGTTAATTACTAAAAAC
* *
4233938 ATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATA
1 ATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATA
* * ** *
4234003 AAATAGGTTCATTACTGGAAAT
66 AAATAAGTTAATTACTAAAAAC
* *
4234025 ATTATCAAGTACAATAACATTTTAGGTAGCGCTTATATAATATAATAGGTAGCGCTTATAT
1 ATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATAT
4234086 TGACCTATTC
Statistics
Matches: 134, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 134 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (87 bp):
ATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATA
AAATAAGTTAATTACTAAAAAC
Found at i:4234538 original size:197 final size:198
Alignment explanation
Indices: 4234087--4234761 Score: 936
Period size: 198 Copynumber: 3.4 Consensus size: 198
4234077 CGCTTATATT
* * *
4234087 GACCTATTCTATCATAAAACTGATATATTTATACTGA-TAACATTGTAAATTTACCTATTACATT
1 GACCTATTCTCTCATAAAACCGATATATTTATACCGAGT-ACATTGTAAATTTACCTATTACATT
*
4234151 ATAATTATCGGTTTCGATGTTTTTGAGATCGATA-TAATTT--TAAATGTATCGACAATTTATGC
65 ATAATTATCGGTTTCGATGTTTTTGAGATCGATACT--TTTAATAAATGTATCGACACTTTATGC
* *
4234213 GTGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACATAAACTTAAAACGTGTCGATACA
128 GTGCACCTCGTT-GGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACA
*
4234278 TTATGAA
192 TTATGTA
* * * * * *
4234285 GAACTATTTTCTCATAAAACCGGTATATTTCTACCGGGTACATTGTAAATTTACCTATTACATTG
1 GACCTATTCTCTCATAAAACCGATATATTTATACCGAGTACATTGTAAATTTACCTATTACATTA
* * * *
4234350 TAATTATCAGTTTGGAT-TTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTG
66 TAATTATCGGTTTCGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTG
*
4234414 CACCTCGTTGGACATTCATTCTAGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTA
131 CACCTCGTTGG-CATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTA
4234479 TGTA
195 TGTA
* *
4234483 GACCTATT-TCTCATAAAACCGATATATTTCTACCGAGTACATTGTAAATTTACCTATTACATTG
1 GACCTATTCTCTCATAAAACCGATATATTTATACCGAGTACATTGTAAATTTACCTATTACATTA
* *
4234547 TAATTATCGGTTTCGATGTTTTTGTGATCGATACTTTTAATAAATGTATCAACACTTTATGCGTG
66 TAATTATCGGTTTCGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTG
** *
4234612 CACCTCGTTTGGCATTCATTCTGGACAAAATA-TATCGACAC-ATTTTAAATTTGTGTCGATACA
131 CACCTCG-TTGGCATTCATTCTGGA-AAAA-AGTATCGACACAAACTTAAA-ATGTGTCGATACA
4234675 TTATGTA
192 TTATGTA
* * * *
4234682 GATCTATTCTTTCATAAAACCGGTATATTTATACTG-GTTACATTGTAAATTTACCTATTACATT
1 GACCTATTCTCTCATAAAACCGATATATTTATACCGAG-TACATTGTAAATTTACCTATTACATT
4234746 ATAATTATCGGTTTCG
65 ATAATTATCGGTTTCG
4234762 TTGTAACATA
Statistics
Matches: 429, Mismatches: 36, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
196 3 0.01
197 85 0.20
198 231 0.54
199 45 0.10
200 65 0.15
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (198 bp):
GACCTATTCTCTCATAAAACCGATATATTTATACCGAGTACATTGTAAATTTACCTATTACATTA
TAATTATCGGTTTCGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTG
CACCTCGTTGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTAT
GTA
Found at i:4234943 original size:29 final size:32
Alignment explanation
Indices: 4234829--4234943 Score: 82
Period size: 32 Copynumber: 3.7 Consensus size: 32
4234819 CTCTCATTAT
* * * *
4234829 AATATAATTAATGATATTATTCTTATTATAATA
1 AATATAA-TAATCATAATATTTTTATTTTAATA
* *
4234862 AATAATAA-ATAT-TTAATAATTTTATTTTAATA
1 AAT-ATAATA-ATCATAATATTTTTATTTTAATA
4234894 AATATAATAATCATAAT-TTTTTA-TTT-ATA
1 AATATAATAATCATAATATTTTTATTTTAATA
*
4234923 AA-ATTATAGAT-ATAATATTTT
1 AATATAATA-ATCATAATATTTT
4234944 AATAATAATT
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
28 10 0.15
29 11 0.16
30 3 0.04
31 11 0.16
32 24 0.35
33 5 0.07
34 4 0.06
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (32 bp):
AATATAATAATCATAATATTTTTATTTTAATA
Found at i:4234951 original size:28 final size:29
Alignment explanation
Indices: 4234889--4234951 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
4234879 AATTTTATTT
* *
4234889 TAATAAATATAATAATCATAATTTTTTAT
1 TAATAAATATAATAATCATAATATTTTAA
* *
4234918 TTATAAA-ATTATAGAT-ATAATATTTTAA
1 TAATAAATATAATA-ATCATAATATTTTAA
4234946 TAATAA
1 TAATAA
4234952 TTGACATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
TAATAAATATAATAATCATAATATTTTAA
Found at i:4235108 original size:2 final size:2
Alignment explanation
Indices: 4235103--4235135 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4235093 TTTTTAAAAT
4235103 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 T
4235136 TATTATTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4235666 original size:31 final size:31
Alignment explanation
Indices: 4235629--4235722 Score: 86
Period size: 31 Copynumber: 3.0 Consensus size: 31
4235619 TAAAAAATAA
*
4235629 AAAATATAATTTATAATAATTTTATT-TTAAT
1 AAAATATAA-TAATAATAATTTTATTATTAAT
* * *
4235660 AAAATATAATAATCATAATTTTTTTATTTAT
1 AAAATATAATAATAATAATTTTATTATTAAT
* *
4235691 AAAATTATAGAT-ATAAT-ATTTTAATAATAAT
1 AAAA-TATA-ATAATAATAATTTTATTATTAAT
4235722 A
1 A
4235723 TTTACATAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
30 13 0.25
31 28 0.55
32 8 0.16
33 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
AAAATATAATAATAATAATTTTATTATTAAT
Found at i:4235712 original size:29 final size:32
Alignment explanation
Indices: 4235629--4235712 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 32
4235619 TAAAAAATAA
* *
4235629 AAAATATAAT-TTATAATAATTTTATTTTAAT
1 AAAATATAATAATATAATATTTTTATTTTAAT
*
4235660 AAAATATAATAATCATAATTTTTTTA-TTT-AT
1 AAAATATAATAAT-ATAATATTTTTATTTTAAT
4235691 AAAAT-T-ATAGATATAATATTTT
1 AAAATATAATA-ATATAATATTTT
4235713 AATAATAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
29 12 0.26
30 3 0.07
31 17 0.37
32 4 0.09
33 10 0.22
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (32 bp):
AAAATATAATAATATAATATTTTTATTTTAAT
Found at i:4235720 original size:14 final size:14
Alignment explanation
Indices: 4235637--4235739 Score: 50
Period size: 14 Copynumber: 7.2 Consensus size: 14
4235627 AAAAAATATA
**
4235637 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
4235652 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
4235665 ATAATAATCATAATT
1 ATTTTAATAATAA-T
* * * *
4235680 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
4235694 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
4235708 ATTTTAATAATAAT
1 ATTTTAATAATAAT
4235722 A-TTTACATAACTAAT
1 ATTTTA-ATAA-TAAT
4235737 ATT
1 ATT
4235740 AAATAAATTA
Statistics
Matches: 65, Mismatches: 16, Indels: 13
0.69 0.17 0.14
Matches are distributed among these distances:
13 14 0.22
14 31 0.48
15 19 0.29
16 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.50
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:4235745 original size:14 final size:14
Alignment explanation
Indices: 4235703--4235745 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4235693 AATTATAGAT
*
4235703 ATAATATTTTAATA
1 ATAATATTTAAATA
*
4235717 ATAATATTTACATA
1 ATAATATTTAAATA
4235731 ACTAATA-TTAAATA
1 A-TAATATTTAAATA
4235745 A
1 A
4235746 ATTATTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAATATTTAAATA
Found at i:4235807 original size:24 final size:24
Alignment explanation
Indices: 4235756--4235807 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
4235746 ATTATTCTAA
4235756 TATT-TTAAAAATAATATTATTAT
1 TATTGTTAAAAATAATATTATTAT
*
4235779 T-TTGTTAATAAATAATATTGTT-T
1 TATTGTTAA-AAATAATATTATTAT
4235802 TATTGT
1 TATTGT
4235808 ATTTGATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 16 0.64
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
TATTGTTAAAAATAATATTATTAT
Found at i:4236107 original size:23 final size:23
Alignment explanation
Indices: 4236059--4236108 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
4236049 ACCTATTTTA
* *
4236059 TTATATAAGCGCTATCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
4236082 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
4236105 TTAT
1 TTAT
4236109 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:4236189 original size:87 final size:87
Alignment explanation
Indices: 4236043--4236360 Score: 537
Period size: 87 Copynumber: 3.7 Consensus size: 87
4236033 ACAAATTAAA
* *
4236043 TAATTAACCTATTTTATTATATAAGCGCTATCTATTACGTTATATAAGCGCTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
*
4236108 TTGTGCTTGATAATGTTTCCAG
66 TTGTGCTTGATAATGTTTTCAG
*
4236130 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
* *
4236195 TTATGCTTGATAATGTTTTCAC
66 TTGTGCTTGATAATGTTTTCAG
4236217 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
* * *
4236282 TTGTGTTTGATAAAGTTTTAAG
66 TTGTGCTTGATAATGTTTTCAG
**
4236304 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAAAGCTACCTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTA
4236361 TTACATTATA
Statistics
Matches: 217, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 217 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (87 bp):
TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
TTGTGCTTGATAATGTTTTCAG
Found at i:4236197 original size:26 final size:23
Alignment explanation
Indices: 4236136--4236186 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
4236126 CCAGTAATTA
4236136 ACCTATTTTATTATATAAGCGCT
1 ACCTATTTTATTATATAAGCGCT
** *
4236159 ACCTATTACATTATATAAGCGGT
1 ACCTATTTTATTATATAAGCGCT
4236182 ACCTA
1 ACCTA
4236187 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (23 bp):
ACCTATTTTATTATATAAGCGCT
Found at i:4236258 original size:23 final size:23
Alignment explanation
Indices: 4236223--4236273 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
4236213 TCACTAATTA
**
4236223 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
4236246 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
4236269 ACCTA
1 ACCTA
4236274 ATATGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:4236336 original size:23 final size:23
Alignment explanation
Indices: 4236310--4236394 Score: 125
Period size: 23 Copynumber: 3.7 Consensus size: 23
4236300 TAAGTAATTA
**
4236310 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
**
4236333 ACCTATTACATTATATAAAAGCT
1 ACCTATTACATTATATAAGCGCT
4236356 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
4236379 ACCTATTACATCATAT
1 ACCTATTACATTATAT
4236395 TTTTACATGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:4236919 original size:17 final size:17
Alignment explanation
Indices: 4236897--4236932 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4236887 GTATCGATAC
4236897 TTACCGATAACCAAAGT
1 TTACCGATAACCAAAGT
* *
4236914 TTACCGGTTACCAAAGT
1 TTACCGATAACCAAAGT
4236931 TT
1 TT
4236933 TTAATAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (17 bp):
TTACCGATAACCAAAGT
Found at i:4238098 original size:12 final size:12
Alignment explanation
Indices: 4238081--4238163 Score: 78
Period size: 12 Copynumber: 6.9 Consensus size: 12
4238071 CAAAAATCAA
4238081 AACAGAATTCAG
1 AACAGAATTCAG
*
4238093 AACAGAAATCAG
1 AACAGAATTCAG
* *
4238105 AACAAAATCCAG
1 AACAGAATTCAG
* *
4238117 ATCAGAAATCAG
1 AACAGAATTCAG
4238129 AACAGAATTCAG
1 AACAGAATTCAG
** *
4238141 GTCATGTA-TCAG
1 AACA-GAATTCAG
4238153 AACAGAATTCA
1 AACAGAATTCA
4238164 AGTCGGAAAT
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
11 2 0.04
12 49 0.92
13 2 0.04
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.17
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:4238175 original size:24 final size:25
Alignment explanation
Indices: 4238069--4238177 Score: 102
Period size: 24 Copynumber: 4.5 Consensus size: 25
4238059 AAATGGAGAT
* *
4238069 ATCAAAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * *
4238093 AACAGAAATCAGAACA-AAATCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
4238117 ATCAGAAATCAGAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* *
4238141 GTCATG-TATCAGAACAGAATTCAAG
1 ATCA-GAAATCAGAACAGAATTCAAG
*
4238166 -TCGGAAATCAGA
1 ATCAGAAATCAGA
4238178 TAAAATATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
23 5 0.07
24 58 0.83
25 7 0.10
ACGTcount: A:0.50, C:0.17, G:0.16, T:0.17
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:4239993 original size:36 final size:36
Alignment explanation
Indices: 4239946--4240014 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
4239936 AATTATAATT
4239946 TACATATCCATGGCTGATTCTTTTATCACTTAAATC
1 TACATATCCATGGCTGATTCTTTTATCACTTAAATC
4239982 TACATATCCATGGCTGATTCTTTTATCACTTAA
1 TACATATCCATGGCTGATTCTTTTATCACTTAA
4240015 TTCCAGAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.42
Consensus pattern (36 bp):
TACATATCCATGGCTGATTCTTTTATCACTTAAATC
Found at i:4243239 original size:13 final size:15
Alignment explanation
Indices: 4243221--4243279 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
4243211 ATCATATTTT
4243221 TATTATTA-AAT-TA
1 TATTATTATAATATA
4243234 TATTATTATAATATA
1 TATTATTATAATATA
* * *
4243249 TATTGTCATACT-TA
1 TATTATTATAATATA
4243263 TATT-TTAATAATATA
1 TATTATT-ATAATATA
4243278 TA
1 TA
4243280 ATAAATTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 9 0.24
14 13 0.35
15 15 0.41
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (15 bp):
TATTATTATAATATA
Found at i:4243305 original size:18 final size:19
Alignment explanation
Indices: 4243262--4243307 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
4243252 TGTCATACTT
*
4243262 ATATT-TTAATAATATATA
1 ATATTATTAATAAAATATA
4243280 ATAAATTATTAATAAAAT-TA
1 AT--ATTATTAATAAAATATA
4243300 ATATTATT
1 ATATTATT
4243308 TATTATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 8 0.33
20 7 0.29
21 9 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATTATTAATAAAATATA
Found at i:4243395 original size:16 final size:16
Alignment explanation
Indices: 4243371--4243452 Score: 67
Period size: 16 Copynumber: 4.9 Consensus size: 16
4243361 TTCTAAAATG
4243371 TAATATAATATTTTAA
1 TAATATAATATTTTAA
* *
4243387 TATTATAAT-CTTTAA
1 TAATATAATATTTTAA
*
4243402 TAATATTAATATTTTAT
1 TAATA-TAATATTTTAA
*
4243419 TAAGTAATTAATATAATTAA
1 TAA-T-A-TAATAT-TTTAA
*
4243439 TAATATATTATTTT
1 TAATATAATATTTT
4243453 TATTTTAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
15 9 0.17
16 14 0.27
17 12 0.23
18 2 0.04
19 9 0.17
20 6 0.12
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (16 bp):
TAATATAATATTTTAA
Found at i:4243469 original size:42 final size:43
Alignment explanation
Indices: 4243411--4243495 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 43
4243401 ATAATATTAA
* * *
4243411 TATTTTATTAAGTAATTAATATAATTAATAAT-ATATTATTTT
1 TATTTTAATAAATAATTAAAATAATTAATAATAATATTATTTT
* *
4243453 TATTTTAATAAATAATTAAAATAATTTATAATAATTTTATTTT
1 TATTTTAATAAATAATTAAAATAATTAATAATAATATTATTTT
4243496 AATAAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 28 0.76
43 9 0.24
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (43 bp):
TATTTTAATAAATAATTAAAATAATTAATAATAATATTATTTT
Found at i:4243569 original size:14 final size:13
Alignment explanation
Indices: 4243541--4243589 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 13
4243531 GTTTGTAGAT
4243541 ATAATATT-TTA-
1 ATAATATTATTAC
4243552 ATAATATTATTATC
1 ATAATATTATTA-C
*
4243566 ATAAATAATATTAC
1 AT-AATATTATTAC
4243580 ATAA-ATTATT
1 ATAATATTATT
4243590 CTAACATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 8 0.25
12 8 0.25
13 2 0.06
14 5 0.16
15 9 0.28
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAATATTATTAC
Found at i:4248481 original size:44 final size:43
Alignment explanation
Indices: 4248361--4248482 Score: 199
Period size: 43 Copynumber: 2.8 Consensus size: 43
4248351 ATTTATCTAA
4248361 GTAGTTTCACTGATATTGAAACTCAAGCCTGCTAGTTACCTAT
1 GTAGTTTCACTGATATTGAAACTCAAGCCTGCTAGTTACCTAT
4248404 GTAGTTTCACTGATATTGAAACTCAAGCCTGCTAGTTACCTAT
1 GTAGTTTCACTGATATTGAAACTCAAGCCTGCTAGTTACCTAT
* * **
4248447 GTAGTTTCACTAATGATTGAGACTCAAATCTGCTAG
1 GTAGTTTCACTGAT-ATTGAAACTCAAGCCTGCTAG
4248483 ACTTAGGTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
43 56 0.76
44 18 0.24
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (43 bp):
GTAGTTTCACTGATATTGAAACTCAAGCCTGCTAGTTACCTAT
Found at i:4252028 original size:24 final size:24
Alignment explanation
Indices: 4252001--4252050 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
4251991 GCTTTGTTCT
4252001 TCTTCAGGGAGGTTGGTTTGCTCC
1 TCTTCAGGGAGGTTGGTTTGCTCC
4252025 TCTTCAGGGAGGTTGGTTTGCTCC
1 TCTTCAGGGAGGTTGGTTTGCTCC
4252049 TC
1 TC
4252051 ATTGACTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.08, C:0.22, G:0.32, T:0.38
Consensus pattern (24 bp):
TCTTCAGGGAGGTTGGTTTGCTCC
Found at i:4254474 original size:21 final size:21
Alignment explanation
Indices: 4254417--4254475 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
4254407 AAAACAGAGA
*
4254417 AGGGATCGAT-CTTTTCTTTC
1 AGGGATCGATACTTTTCTTCC
4254437 ATGGGATCGATTA-TTTT-TTCC
1 A-GGGATCGA-TACTTTTCTTCC
4254458 GAGGGATCGATACTTTTC
1 -AGGGATCGATACTTTTC
4254476 AAAATAGATC
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
20 3 0.09
21 23 0.72
22 6 0.19
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (21 bp):
AGGGATCGATACTTTTCTTCC
Found at i:4255004 original size:19 final size:19
Alignment explanation
Indices: 4254980--4255047 Score: 84
Period size: 19 Copynumber: 3.4 Consensus size: 19
4254970 ATAGTGCTAG
4254980 GGAGAAGGAAAGAAAGAAA
1 GGAGAAGGAAAGAAAGAAA
*
4254999 GGAGAATGAAAGAAAGAAA
1 GGAGAAGGAAAGAAAGAAA
4255018 GGAGAATGGAATA-AAATTGAAA
1 GGAGAA-GGAA-AGAAA--GAAA
4255040 GGAGAAGG
1 GGAGAAGG
4255048 TGAAATAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 24 0.56
20 6 0.14
21 3 0.07
22 10 0.23
ACGTcount: A:0.57, C:0.00, G:0.35, T:0.07
Consensus pattern (19 bp):
GGAGAAGGAAAGAAAGAAA
Found at i:4259361 original size:39 final size:39
Alignment explanation
Indices: 4259297--4259375 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
4259287 ATATCCGGAT
4259297 ATCCAATGCACATAAGACGACTGTCCTACTGCTAAAGTA
1 ATCCAATGCACATAAGACGACTGTCCTACTGCTAAAGTA
* *
4259336 ATCCTATGCACATAAGACGATTGTCCTACTGCTAAAGTA
1 ATCCAATGCACATAAGACGACTGTCCTACTGCTAAAGTA
4259375 A
1 A
4259376 CTCGGGTGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (39 bp):
ATCCAATGCACATAAGACGACTGTCCTACTGCTAAAGTA
Found at i:4266254 original size:23 final size:23
Alignment explanation
Indices: 4266204--4266256 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
4266194 TCCCAAAGGA
4266204 CCACATAGGTTTACACCAAAGTT
1 CCACATAGGTTTACACCAAAGTT
* *
4266227 CCACATAGGTTTTCACCGAAGTGT
1 CCACATAGGTTTACACCAAAGT-T
4266251 -CACATA
1 CCACATA
4266257 ATTGTCCTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (23 bp):
CCACATAGGTTTACACCAAAGTT
Found at i:4266704 original size:2 final size:2
Alignment explanation
Indices: 4266697--4266762 Score: 82
Period size: 2 Copynumber: 33.0 Consensus size: 2
4266687 ATTTGCTACC
*
4266697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TGG T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA TA TA TA
*
4266740 AA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
4266763 CAACTAATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
1 2 0.04
2 52 0.91
3 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4268281 original size:13 final size:13
Alignment explanation
Indices: 4268263--4268287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4268253 CCCACGGTGG
4268263 AGATGAAGAAGAA
1 AGATGAAGAAGAA
4268276 AGATGAAGAAGA
1 AGATGAAGAAGA
4268288 CTCTGGATAT
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:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (13 bp):
AGATGAAGAAGAA
Found at i:4270747 original size:44 final size:44
Alignment explanation
Indices: 4270694--4270779 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
4270684 CAGCTCATAA
4270694 TTTGCACCGAAGTGCCACATAATTATCCCAAATGACCACATAGG
1 TTTGCACCGAAGTGCCACATAATTATCCCAAATGACCACATAGG
* **
4270738 TTTGCACCGAAGTGCCACATAATTGTCCTGAATGACCACATA
1 TTTGCACCGAAGTGCCACATAATTATCCCAAATGACCACATA
4270780 AAACCCTCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (44 bp):
TTTGCACCGAAGTGCCACATAATTATCCCAAATGACCACATAGG
Found at i:4274230 original size:19 final size:20
Alignment explanation
Indices: 4274197--4274236 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4274187 TTCTTTCCTC
4274197 TTCAAATCTTTTTTTTCTTT
1 TTCAAATCTTTTTTTTCTTT
4274217 TTCAAATCTTTTTTTTCTTT
1 TTCAAATCTTTTTTTTCTTT
4274237 CCACATCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (20 bp):
TTCAAATCTTTTTTTTCTTT
Found at i:4274381 original size:32 final size:32
Alignment explanation
Indices: 4274345--4274427 Score: 130
Period size: 32 Copynumber: 2.6 Consensus size: 32
4274335 AACAAAACAA
*
4274345 GCAACATATTTTATGGTTGTCCATTTTAAGTT
1 GCAACATATTTTATGGTTGTCCATTTCAAGTT
*
4274377 GCAACTTATTTTATGGTTGTCCATTTCAAGTT
1 GCAACATATTTTATGGTTGTCCATTTCAAGTT
* *
4274409 GCAATATTTTTTATGGTTG
1 GCAACATATTTTATGGTTG
4274428 CACCCCATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (32 bp):
GCAACATATTTTATGGTTGTCCATTTCAAGTT
Found at i:4274443 original size:35 final size:33
Alignment explanation
Indices: 4274353--4274473 Score: 99
Period size: 32 Copynumber: 3.6 Consensus size: 33
4274343 AAGCAACATA
* *
4274353 TTTTATGGTTG--TCCATTTTAAGTTGCAACTTA
1 TTTTATGGTTGCACCCATTTTAAGTTGCAA-TTT
* *
4274385 TTTTATGGTTG--TCCATTTCAAGTTGCAATATT
1 TTTTATGGTTGCACCCATTTTAAGTTGCAAT-TT
*
4274417 TTTTATGGTTGCACCCCATTTTAAGTTACAATCTAT
1 TTTTATGGTTGCA-CCCATTTTAAGTTGCAAT-T-T
*
4274453 TTTTA-AGTTGCAACCCATTTT
1 TTTTATGGTTGC-ACCCATTTT
4274474 TAAGGTGATG
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
31 1 0.01
32 39 0.51
35 29 0.38
36 7 0.09
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (33 bp):
TTTTATGGTTGCACCCATTTTAAGTTGCAATTT
Found at i:4274456 original size:18 final size:18
Alignment explanation
Indices: 4274431--4274477 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
4274421 ATGGTTGCAC
4274431 CCCA-TTTTAAGTTACAA
1 CCCATTTTTAAGTTACAA
* * *
4274448 TCTATTTTTAAGTTGCAA
1 CCCATTTTTAAGTTACAA
4274466 CCCATTTTTAAG
1 CCCATTTTTAAG
4274478 GTGATGGTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (18 bp):
CCCATTTTTAAGTTACAA
Found at i:4274473 original size:17 final size:17
Alignment explanation
Indices: 4274424--4274473 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
4274414 ATTTTTTATG
*
4274424 GTTGCACCCCATTTTAA
1 GTTGCAACCCATTTTAA
* * *
4274441 GTTACAATCTATTTTTAA
1 GTTGCAACCCA-TTTTAA
4274459 GTTGCAACCCATTTT
1 GTTGCAACCCATTTT
4274474 TAAGGTGATG
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (17 bp):
GTTGCAACCCATTTTAA
Found at i:4284507 original size:14 final size:14
Alignment explanation
Indices: 4284490--4284535 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
4284480 TGGTCTGACG
4284490 AAACCAGTCTAACT
1 AAACCAGTCTAACT
* * *
4284504 AAACTAATCTGACT
1 AAACCAGTCTAACT
*
4284518 GAACCAGTCTAACT
1 AAACCAGTCTAACT
4284532 AAAC
1 AAAC
4284536 TAAACTAATC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (14 bp):
AAACCAGTCTAACT
Found at i:4284523 original size:28 final size:28
Alignment explanation
Indices: 4284483--4284570 Score: 106
Period size: 33 Copynumber: 3.0 Consensus size: 28
4284473 GTTGATTTGG
4284483 TCTGAC-GAAACCAGTCTAACTAAACTAA
1 TCTGACTG-AACCAGTCTAACTAAACTAA
4284511 TCTGACTGAACCAGTCTAACTAAACTAAACTAA
1 TCTGACTGAACCAG--T--CT-AACTAAACTAA
*
4284544 TCTGACTGAACCAGTTTAACTAAACTA
1 TCTGACTGAACCAGTCTAACTAAACTA
4284571 GTATGATTGT
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
28 22 0.42
29 2 0.04
30 1 0.02
31 1 0.02
32 2 0.04
33 25 0.47
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (28 bp):
TCTGACTGAACCAGTCTAACTAAACTAA
Found at i:4284542 original size:33 final size:33
Alignment explanation
Indices: 4284500--4284570 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
4284490 AAACCAGTCT
4284500 AACTAAACTAATCTGACTGAACCAGTCTAACTA
1 AACTAAACTAATCTGACTGAACCAGTCTAACTA
*
4284533 AACTAAACTAATCTGACTGAACCAGTTTAACTA
1 AACTAAACTAATCTGACTGAACCAGTCTAACTA
4284566 AACTA
1 AACTA
4284571 GTATGATTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (33 bp):
AACTAAACTAATCTGACTGAACCAGTCTAACTA
Found at i:4287465 original size:44 final size:44
Alignment explanation
Indices: 4287328--4287485 Score: 158
Period size: 44 Copynumber: 3.6 Consensus size: 44
4287318 GCGAGATGAC
* * * * *
4287328 ACTGATCCAACTCTTTATGTGATGAAATTGAGCAAGATGGTGAT
1 ACTGATCCAACTCCTTATGTGATGGAATCGAACAAAATGGTGAT
* * *
4287372 ACTGATCCAACTCCTTATGTGATGGAATCTAGA-AACATGATGAT
1 ACTGATCCAACTCCTTATGTGATGGAATCGA-ACAAAATGGTGAT
* *
4287416 GCTGATCCAACTCCTTATGT-ATTGGAATCGAACAAAAGGGTGAT
1 ACTGATCCAACTCCTTATGTGA-TGGAATCGAACAAAATGGTGAT
** * *
4287460 ACTGATATAATTCCTTATGTTATGGA
1 ACTGATCCAACTCCTTATGTGATGGA
4287486 TAAGCCGAGG
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
43 2 0.02
44 91 0.97
45 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (44 bp):
ACTGATCCAACTCCTTATGTGATGGAATCGAACAAAATGGTGAT
Found at i:4292474 original size:17 final size:19
Alignment explanation
Indices: 4292441--4292479 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4292431 TTATATAACT
4292441 TATAGAACATTAAATA-TAA
1 TATAGAACA-TAAATATTAA
4292460 TATAGAACA-AAATATTAA
1 TATAGAACATAAATATTAA
4292478 TA
1 TA
4292480 ATACAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAGAACATAAATATTAA
Found at i:4293027 original size:24 final size:24
Alignment explanation
Indices: 4292989--4293058 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
4292979 CAAATCAGAG
* *
4292989 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
* * * *
4293013 TTCAGGTCAAATATCATTTCAGAA
1 TCCAGGTCAAATATCATATAAAAA
* *
4293037 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
4293059 CTATTTATAT
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.27
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:4293827 original size:29 final size:29
Alignment explanation
Indices: 4293787--4293870 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
4293777 TAGCACCTTT
*
4293787 TCGAATTAAATTCCCAAAATAGCACCAAAA
1 TCGAATT-AATTCCCAAAATATCACCAAAA
* * *
4293817 TTGAATTAATTCACAGAATATCACCAAAA
1 TCGAATTAATTCCCAAAATATCACCAAAA
4293846 TCGAATTAATTCCCAAAATATCACC
1 TCGAATTAATTCCCAAAATATCACC
4293871 GGTCAACGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 41 0.87
30 6 0.13
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.25
Consensus pattern (29 bp):
TCGAATTAATTCCCAAAATATCACCAAAA
Found at i:4293898 original size:12 final size:12
Alignment explanation
Indices: 4293883--4293926 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
4293873 TCAACGGTCG
4293883 GGTCGGGTCAAC
1 GGTCGGGTCAAC
*
4293895 GGTCGGGTC--G
1 GGTCGGGTCAAC
4293905 GGTCGGGTCAAC
1 GGTCGGGTCAAC
4293917 GGTCGGGTCA
1 GGTCGGGTCA
4293927 GGTCAAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.32
12 19 0.68
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (12 bp):
GGTCGGGTCAAC
Found at i:4293904 original size:22 final size:22
Alignment explanation
Indices: 4293878--4293930 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
4293868 ACCGGTCAAC
4293878 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCAACGGTCG
4293900 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCAACGGTCG
*
4293922 GGTCAGGTC
1 GGTCGGGTC
4293931 AAAACCGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCGGGTCGGGTCAACGGTCG
Found at i:4293932 original size:17 final size:17
Alignment explanation
Indices: 4293871--4293908 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
4293861 AAATATCACC
4293871 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
4293888 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
4293905 GGTC
1 GGTC
4293909 GGGTCAACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:4300276 original size:24 final size:24
Alignment explanation
Indices: 4300238--4300307 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
4300228 CAAATCAGAG
* *
4300238 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
* * *
4300262 TTCAGGTCAAATATCATATCAGAA
1 TCCAGGTCAAATATCATATAAAAA
* *
4300286 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
4300308 CTATTTATAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:4300307 original size:48 final size:47
Alignment explanation
Indices: 4300213--4300307 Score: 109
Period size: 48 Copynumber: 2.0 Consensus size: 47
4300203 ATTAAAATAT
* * * * ** *
4300213 AATTTAGGTCAAGTACAAATCAGAGTCCATGTCAAGTATCATATAAA
1 AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
*
4300260 AATTCAGGTCAAATATCATATCAGAATCCAGGTCAAAAATCAGATAAA
1 AATTCAGGTCAAATA-CAAATCAGAATCCAGGTCAAAAATCAGATAAA
4300308 CTATTTATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
47 13 0.33
48 26 0.67
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (47 bp):
AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
Found at i:4301078 original size:29 final size:29
Alignment explanation
Indices: 4301038--4301121 Score: 132
Period size: 29 Copynumber: 2.9 Consensus size: 29
4301028 TAGCACCTTT
* *
4301038 TCGAATTAAATTCCCAAAATAGCACCAAAA
1 TCGAATT-AATTCCCAGAATATCACCAAAA
*
4301068 TTGAATTAATTCCCAGAATATCACCAAAA
1 TCGAATTAATTCCCAGAATATCACCAAAA
4301097 TCGAATTAATTCCCAGAATATCACC
1 TCGAATTAATTCCCAGAATATCACC
4301122 GGTCAACGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 44 0.88
30 6 0.12
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (29 bp):
TCGAATTAATTCCCAGAATATCACCAAAA
Found at i:4301160 original size:17 final size:16
Alignment explanation
Indices: 4301134--4301165 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
4301124 TCAACGGTCG
4301134 GGTCGGTCGGGTCAAC
1 GGTCGGTCGGGTCAAC
4301150 GGTCAGGTCGGGTCAA
1 GGTC-GGTCGGGTCAA
4301166 AACCGGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.22, G:0.44, T:0.19
Consensus pattern (16 bp):
GGTCGGTCGGGTCAAC
Found at i:4305171 original size:24 final size:24
Alignment explanation
Indices: 4305133--4305202 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
4305123 CAAATCAGAG
* *
4305133 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
* * *
4305157 TTCAGGTCAAATATCATATCAGAA
1 TCCAGGTCAAATATCATATAAAAA
* *
4305181 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
4305203 CTATTTATAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:4305202 original size:48 final size:47
Alignment explanation
Indices: 4305108--4305202 Score: 109
Period size: 48 Copynumber: 2.0 Consensus size: 47
4305098 ATTAAAACAT
* * * * ** *
4305108 AATTTAGGTCAAGTACAAATCAGAGTCCATGTCAAGTATCATATAAA
1 AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
*
4305155 AATTCAGGTCAAATATCATATCAGAATCCAGGTCAAAAATCAGATAAA
1 AATTCAGGTCAAATA-CAAATCAGAATCCAGGTCAAAAATCAGATAAA
4305203 CTATTTATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
47 13 0.33
48 26 0.67
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (47 bp):
AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
Found at i:4305952 original size:29 final size:29
Alignment explanation
Indices: 4305914--4305995 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
4305904 GAACCTTTTC
* *
4305914 GAATTAAATTCCCAAAATAGCACCTAAATT
1 GAATT-AATTCCCAGAATAGCACCAAAATT
4305944 GAATTAATTCCCAGAATAGCACCAAAATT
1 GAATTAATTCCCAGAATAGCACCAAAATT
*
4305973 GAATTAATTCCCAGAATATCACC
1 GAATTAATTCCCAGAATAGCACC
4305996 GGTCAACAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.26
Consensus pattern (29 bp):
GAATTAATTCCCAGAATAGCACCAAAATT
Found at i:4306026 original size:17 final size:17
Alignment explanation
Indices: 4306004--4306042 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4305994 CCGGTCAACA
* *
4306004 GTCAACGGTTGGGTCGG
1 GTCAACGGTCGGGTCAG
4306021 GTCAACGGTCGGGTCAG
1 GTCAACGGTCGGGTCAG
4306038 GTCAA
1 GTCAA
4306043 AACCGGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.21, G:0.41, T:0.21
Consensus pattern (17 bp):
GTCAACGGTCGGGTCAG
Found at i:4312241 original size:24 final size:24
Alignment explanation
Indices: 4312203--4312272 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
4312193 CAAATCAGAG
* *
4312203 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
* * *
4312227 TTCAGGTCAAATATCATATCAGAA
1 TCCAGGTCAAATATCATATAAAAA
* *
4312251 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
4312273 CTATTTATAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:4312272 original size:48 final size:47
Alignment explanation
Indices: 4312178--4312272 Score: 109
Period size: 48 Copynumber: 2.0 Consensus size: 47
4312168 ATTAAAATAT
* * * * ** *
4312178 AATTTAGGTCAAGTACAAATCAGAGTCCATGTCAAGTATCATATAAA
1 AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
*
4312225 AATTCAGGTCAAATATCATATCAGAATCCAGGTCAAAAATCAGATAAA
1 AATTCAGGTCAAATA-CAAATCAGAATCCAGGTCAAAAATCAGATAAA
4312273 CTATTTATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
47 13 0.33
48 26 0.67
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (47 bp):
AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
Found at i:4313044 original size:29 final size:29
Alignment explanation
Indices: 4313004--4313087 Score: 132
Period size: 29 Copynumber: 2.9 Consensus size: 29
4312994 TAGCACCTTT
* *
4313004 TCGAATTAAATTCCCAAAATAGCACCAAAA
1 TCGAATT-AATTCCCAGAATATCACCAAAA
*
4313034 TTGAATTAATTCCCAGAATATCACCAAAA
1 TCGAATTAATTCCCAGAATATCACCAAAA
4313063 TCGAATTAATTCCCAGAATATCACC
1 TCGAATTAATTCCCAGAATATCACC
4313088 GGTCAACGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 44 0.88
30 6 0.12
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (29 bp):
TCGAATTAATTCCCAGAATATCACCAAAA
Found at i:4313126 original size:17 final size:16
Alignment explanation
Indices: 4313100--4313131 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
4313090 TCAACGGTCG
4313100 GGTCGGTCGGGTCAAC
1 GGTCGGTCGGGTCAAC
4313116 GGTCAGGTCGGGTCAA
1 GGTC-GGTCGGGTCAA
4313132 AACCGGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.22, G:0.44, T:0.19
Consensus pattern (16 bp):
GGTCGGTCGGGTCAAC
Found at i:4317126 original size:24 final size:24
Alignment explanation
Indices: 4317088--4317157 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
4317078 CAAATCAGAG
* *
4317088 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
* * *
4317112 TTCAGGTCAAATATCATATCAGAA
1 TCCAGGTCAAATATCATATAAAAA
* *
4317136 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
4317158 CTATTTATAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:4317157 original size:48 final size:47
Alignment explanation
Indices: 4317063--4317157 Score: 109
Period size: 48 Copynumber: 2.0 Consensus size: 47
4317053 ATTAAAACAT
* * * * ** *
4317063 AATTTAGGTCAAGTACAAATCAGAGTCCATGTCAAGTATCATATAAA
1 AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
*
4317110 AATTCAGGTCAAATATCATATCAGAATCCAGGTCAAAAATCAGATAAA
1 AATTCAGGTCAAATA-CAAATCAGAATCCAGGTCAAAAATCAGATAAA
4317158 CTATTTATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
47 13 0.33
48 26 0.67
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (47 bp):
AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
Found at i:4317905 original size:29 final size:29
Alignment explanation
Indices: 4317867--4317948 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
4317857 GAACCTTTTC
* *
4317867 GAATTAAATTCCCAAAATAGCACCTAAATT
1 GAATT-AATTCCCAGAATAGCACCAAAATT
4317897 GAATTAATTCCCAGAATAGCACCAAAATT
1 GAATTAATTCCCAGAATAGCACCAAAATT
*
4317926 GAATTAATTCCCAGAATATCACC
1 GAATTAATTCCCAGAATAGCACC
4317949 GGTCAACAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.26
Consensus pattern (29 bp):
GAATTAATTCCCAGAATAGCACCAAAATT
Found at i:4317979 original size:17 final size:17
Alignment explanation
Indices: 4317957--4317995 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4317947 CCGGTCAACA
* *
4317957 GTCAACGGTTGGGTCGG
1 GTCAACGGTCGGGTCAG
4317974 GTCAACGGTCGGGTCAG
1 GTCAACGGTCGGGTCAG
4317991 GTCAA
1 GTCAA
4317996 AACCGGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.21, G:0.41, T:0.21
Consensus pattern (17 bp):
GTCAACGGTCGGGTCAG
Found at i:4323636 original size:17 final size:19
Alignment explanation
Indices: 4323603--4323641 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4323593 TTATATAACT
4323603 TATAGAACATTAAATA-TAA
1 TATAGAACA-TAAATATTAA
4323622 TATAGAACA-AAATATTAA
1 TATAGAACATAAATATTAA
4323640 TA
1 TA
4323642 ATACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAGAACATAAATATTAA
Found at i:4324185 original size:24 final size:24
Alignment explanation
Indices: 4324147--4324216 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
4324137 TACAAATCAG
* *
4324147 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
* * *
4324171 TTCAGGTCAAATATCATATCAGAA
1 TCCAGGTCAAATATCATATAAAAA
* *
4324195 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
4324217 CTATTTATAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:4324972 original size:29 final size:29
Alignment explanation
Indices: 4324923--4325020 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
4324913 AAATAATTAA
** *
4324923 CAAAATAGCACC-TTTTCGAATTAAATTTC
1 CAAAATAGCACCAAATT-GAATTAAATTCC
4324952 CAAAATAGCACCAAATTGAATT-AATTCC
1 CAAAATAGCACCAAATTGAATTAAATTCC
* * *
4324980 CAGAATATCACCAAAATCGAATT-AATTCC
1 CAAAATAGCACC-AAATTGAATTAAATTCC
* *
4325009 CAGAATATCACC
1 CAAAATAGCACC
4325021 GGTCAACGGT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 15 0.25
29 44 0.72
30 2 0.03
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (29 bp):
CAAAATAGCACCAAATTGAATTAAATTCC
Found at i:4324991 original size:28 final size:29
Alignment explanation
Indices: 4324938--4325020 Score: 114
Period size: 29 Copynumber: 2.9 Consensus size: 29
4324928 TAGCACCTTT
* * *
4324938 TCGAATTAAATTTCCAAAATAGCACC-AAA
1 TCGAATT-AATTCCCAGAATATCACCAAAA
*
4324967 TTGAATTAATTCCCAGAATATCACCAAAA
1 TCGAATTAATTCCCAGAATATCACCAAAA
4324996 TCGAATTAATTCCCAGAATATCACC
1 TCGAATTAATTCCCAGAATATCACC
4325021 GGTCAACGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 15 0.31
29 33 0.69
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (29 bp):
TCGAATTAATTCCCAGAATATCACCAAAA
Found at i:4325059 original size:17 final size:16
Alignment explanation
Indices: 4325033--4325064 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
4325023 TCAACGGTCG
4325033 GGTCGGTCGGGTCAAC
1 GGTCGGTCGGGTCAAC
4325049 GGTCAGGTCGGGTCAA
1 GGTC-GGTCGGGTCAA
4325065 AACCGGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.22, G:0.44, T:0.19
Consensus pattern (16 bp):
GGTCGGTCGGGTCAAC
Found at i:4329032 original size:24 final size:24
Alignment explanation
Indices: 4328994--4329063 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
4328984 ACAATCAGAG
* *
4328994 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
* * *
4329018 TTCAGGTCAAATATCATATCAGAA
1 TCCAGGTCAAATATCATATAAAAA
* *
4329042 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
4329064 CTATTTATAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:4329815 original size:28 final size:29
Alignment explanation
Indices: 4329769--4329849 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
4329759 GAACCTTTTC
* *
4329769 GAATTAAATTCCCAAAATAGCACCTAAA-T
1 GAATT-AATTCCCAGAATAGCACCAAAATT
4329798 GAATTAATTCCCAGAATAGCACCAAAATT
1 GAATTAATTCCCAGAATAGCACCAAAATT
*
4329827 GAATTAATTCCCAGAATATCACC
1 GAATTAATTCCCAGAATAGCACC
4329850 GGTCAACAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
28 20 0.42
29 28 0.58
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (29 bp):
GAATTAATTCCCAGAATAGCACCAAAATT
Found at i:4334211 original size:38 final size:38
Alignment explanation
Indices: 4334169--4334246 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
4334159 ATTATCATAT
4334169 ATTTAAAATTGGAAATTTTGAGCTTGAGGTTTTATTTA
1 ATTTAAAATTGGAAATTTTGAGCTTGAGGTTTTATTTA
4334207 ATTTAAAATTGGAAATTTTGAGCTTGAGGTTTTATTTA
1 ATTTAAAATTGGAAATTTTGAGCTTGAGGTTTTATTTA
4334245 AT
1 AT
4334247 GACCACCCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (38 bp):
ATTTAAAATTGGAAATTTTGAGCTTGAGGTTTTATTTA
Found at i:4334587 original size:30 final size:30
Alignment explanation
Indices: 4334553--4334613 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
4334543 TAAAGAACCT
4334553 AGAGGACTAAACCTAAAAATTAC-AGCTATA
1 AGAGGACTAAACCTAAAAATTACGA-CTATA
4334583 AGAGGACTAAACCTAAAAATTACGACTATA
1 AGAGGACTAAACCTAAAAATTACGACTATA
4334613 A
1 A
4334614 TATTAACCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.51, C:0.16, G:0.13, T:0.20
Consensus pattern (30 bp):
AGAGGACTAAACCTAAAAATTACGACTATA
Found at i:4335734 original size:72 final size:72
Alignment explanation
Indices: 4335649--4335806 Score: 298
Period size: 72 Copynumber: 2.2 Consensus size: 72
4335639 CATACACAAG
*
4335649 GTGCATCAATGCATCAAGTGTAAAATTCAAATATTTTGACCGTTAGACCCTTAGTGCATCGGTGC
1 GTGCATCAGTGCATCAAGTGTAAAATTCAAATATTTTGACCGTTAGACCCTTAGTGCATCGGTGC
4335714 ACTAAGA
66 ACTAAGA
4335721 GTGCATCAGTGCATCAAGTGTAAAATTCAAATATTTTGACCGTTAGACCCTTAGTGCATCGGTGC
1 GTGCATCAGTGCATCAAGTGTAAAATTCAAATATTTTGACCGTTAGACCCTTAGTGCATCGGTGC
4335786 ACTAAGA
66 ACTAAGA
*
4335793 GTGCATCGGTGCAT
1 GTGCATCAGTGCAT
4335807 TCGATGTTTC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 84 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (72 bp):
GTGCATCAGTGCATCAAGTGTAAAATTCAAATATTTTGACCGTTAGACCCTTAGTGCATCGGTGC
ACTAAGA
Found at i:4336300 original size:22 final size:19
Alignment explanation
Indices: 4336265--4336314 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 19
4336255 TTGAAATTAC
4336265 TCTCCCC-TTACTCTAACACT
1 TCTCCCCTTTACTCT-A-ACT
4336285 TCTCCCCTATTACTCTAACT
1 TCTCCCCT-TTACTCTAACT
4336305 TCTCCCCTTT
1 TCTCCCCTTT
4336315 TTACACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.07
20 18 0.64
21 1 0.04
22 7 0.25
ACGTcount: A:0.16, C:0.44, G:0.00, T:0.40
Consensus pattern (19 bp):
TCTCCCCTTTACTCTAACT
Found at i:4344545 original size:19 final size:19
Alignment explanation
Indices: 4344507--4344545 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4344497 AATAGCCTGA
**
4344507 GTGCATCGATGCATGGACT
1 GTGCATCGATGCATAAACT
4344526 GTGCATCGATGCATAAACT
1 GTGCATCGATGCATAAACT
4344545 G
1 G
4344546 CATTCGATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (19 bp):
GTGCATCGATGCATAAACT
Found at i:4345619 original size:12 final size:13
Alignment explanation
Indices: 4345590--4345635 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
4345580 ATTAATTATT
*
4345590 TAAAAAAT-TAAA
1 TAAAAAATATTAA
4345602 TAAAAAATATTAA
1 TAAAAAATATTAA
4345615 -AAAAACAT-TTAA
1 TAAAAA-ATATTAA
4345627 TAAAAAATA
1 TAAAAAATA
4345636 ATTTTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAAATATTAA
Found at i:4352325 original size:22 final size:22
Alignment explanation
Indices: 4352295--4352336 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
4352285 AAGAACTACC
4352295 ATCTTTCATG-AATAACAAGAT
1 ATCTTTCATGTAATAACAAGAT
*
4352316 ATCTCTTCATGTCATAACAAG
1 ATCT-TTCATGTAATAACAAG
4352337 TTCACCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 6 0.33
23 8 0.44
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (22 bp):
ATCTTTCATGTAATAACAAGAT
Found at i:4366768 original size:91 final size:91
Alignment explanation
Indices: 4366594--4366775 Score: 256
Period size: 91 Copynumber: 2.0 Consensus size: 91
4366584 TGGGTTTTCT
* *
4366594 TGTGAATCTTTAAATTTGATCTAGGTATATTGTATGACATCAATTTGATCATCCATTTGGAACTG
1 TGTGAATCTTTAAATTTGATCTAGGTACATTGTATGACAACAATTTGATCATCCATTTGGAACTG
** *
4366659 AACCTTAGATGCGTTTGTTTCATTGG
66 AAAATTAGATGCGCTTGTTTCATTGG
* * * *
4366685 TGTGTATCTTTAAATTTGATCTCGGTACATTGTATGACAACAATTTGGTCATCCTTTTGGAACTG
1 TGTGAATCTTTAAATTTGATCTAGGTACATTGTATGACAACAATTTGATCATCCATTTGGAACTG
* * *
4366750 AAAATTGGATGTGCTTGTTTCCTTGG
66 AAAATTAGATGCGCTTGTTTCATTGG
4366776 GATGCAATGA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.42
Consensus pattern (91 bp):
TGTGAATCTTTAAATTTGATCTAGGTACATTGTATGACAACAATTTGATCATCCATTTGGAACTG
AAAATTAGATGCGCTTGTTTCATTGG
Found at i:4367038 original size:20 final size:20
Alignment explanation
Indices: 4367013--4367105 Score: 78
Period size: 20 Copynumber: 5.0 Consensus size: 20
4367003 AGCAACAAAA
4367013 TAAAAATGATTCTATCTAAT
1 TAAAAATGATTCTATCTAAT
*
4367033 TAAAAATGATCCTATCTAA-
1 TAAAAATGATTCTATCTAAT
*
4367052 TAACTAATAGA----A--TAA-
1 TAA-AAAT-GATTCTATCTAAT
*
4367067 -AAAACTGATTCTATCTAAT
1 TAAAAATGATTCTATCTAAT
4367086 TAAAAATGATTCTATCTAAT
1 TAAAAATGATTCTATCTAAT
4367106 AACTAATAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
12 2 0.03
13 2 0.03
14 2 0.03
15 3 0.05
16 1 0.02
17 1 0.02
18 3 0.05
19 3 0.05
20 39 0.67
21 2 0.03
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (20 bp):
TAAAAATGATTCTATCTAAT
Found at i:4367144 original size:20 final size:20
Alignment explanation
Indices: 4367119--4367157 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4367109 TAATAGAATA
*
4367119 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
4367139 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
4367158 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:4367153 original size:52 final size:52
Alignment explanation
Indices: 4367011--4367158 Score: 262
Period size: 53 Copynumber: 2.8 Consensus size: 52
4367001 TTAGCAACAA
4367011 AATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
4367062 AATAAAAAACTGATTCTATCTAATTAAAAATGATTCTATCTAATAACTAATAG
1 AAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
4367115 AATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
4367159 TTTAATTTAT
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 3 0.03
52 44 0.48
53 45 0.49
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (52 bp):
AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:4371721 original size:20 final size:20
Alignment explanation
Indices: 4371696--4371735 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4371686 AGCAACAAAA
4371696 TAAAAATGATTC-TATCTAAT
1 TAAAAATGA-TCATATCTAAT
4371716 TAAAAATGATCATATCTAAT
1 TAAAAATGATCATATCTAAT
4371736 AACTAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCATATCTAAT
Found at i:4371778 original size:20 final size:21
Alignment explanation
Indices: 4371749--4371788 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4371739 TAATAGAATA
*
4371749 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
4371770 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
4371789 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:4371827 original size:20 final size:20
Alignment explanation
Indices: 4371802--4371840 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4371792 TAATAGAATA
*
4371802 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
4371822 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
4371841 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:4371831 original size:52 final size:52
Alignment explanation
Indices: 4371694--4371841 Score: 262
Period size: 52 Copynumber: 2.8 Consensus size: 52
4371684 TTAGCAACAA
*
4371694 AATAAAAA-TGATTCTATCTAATTAAAAATGATCATATCTAATAACTAATAG
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
4371745 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
4371798 AATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
4371842 TTTAATTTAG
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 3 0.03
52 45 0.48
53 45 0.48
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (52 bp):
AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:4378968 original size:24 final size:24
Alignment explanation
Indices: 4378910--4378971 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
4378900 ACAATCCTAA
4378910 CATTAGATGCAAATTTTAGATATC
1 CATTAGATGCAAATTTTAGATATC
* *
4378934 CATTTGGTGCAAATTTTAGATATC
1 CATTAGATGCAAATTTTAGATATC
* *
4378958 CGTTAGCTGCAAAT
1 CATTAGATGCAAAT
4378972 CTTAAACTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (24 bp):
CATTAGATGCAAATTTTAGATATC
Found at i:4380765 original size:90 final size:89
Alignment explanation
Indices: 4380623--4380787 Score: 285
Period size: 90 Copynumber: 1.8 Consensus size: 89
4380613 TTTTATAGGT
*
4380623 AAGTTACCCTAATCATATTACGGTTTTATTATTTTAAATTAATTAAATCTATATTTAATTAATTG
1 AAGTTACCCTAATCATATTACGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATTG
* *
4380688 GAATTTAATAATCATTTTATATCC
66 AAATTAAATAATCATTTTATATCC
*
4380712 AAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
1 AAGTTACCCTAATCATATTACGG-TTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
4380777 GAAATTAAATA
65 GAAATTAAATA
4380788 TTCGGGATTA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
89 22 0.31
90 49 0.69
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.45
Consensus pattern (89 bp):
AAGTTACCCTAATCATATTACGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATTG
AAATTAAATAATCATTTTATATCC
Found at i:4381707 original size:21 final size:21
Alignment explanation
Indices: 4381682--4381726 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
4381672 ACGAGAACAA
4381682 AGTGTTTGTTGCTCGAACATG
1 AGTGTTTGTTGCTCGAACATG
4381703 AGTGTTTGTTGCTCGAACATG
1 AGTGTTTGTTGCTCGAACATG
4381724 AGT
1 AGT
4381727 TTTTTTCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.38
Consensus pattern (21 bp):
AGTGTTTGTTGCTCGAACATG
Found at i:4382930 original size:23 final size:22
Alignment explanation
Indices: 4382900--4382983 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 22
4382890 GAGTCGAGGG
4382900 TTCTATGTGGTCCTTCAGGAAAA
1 TTCTATGTGGTCCTTCAGG-AAA
* *
4382923 TTCTATGTGGTCATTTGC-GGCAA
1 TTCTATGTGGTC-CTT-CAGGAAA
* *
4382946 TTCTATGTGGTCTTTCAGGACA
1 TTCTATGTGGTCCTTCAGGAAA
*
4382968 TTCTATGTGGTACTTC
1 TTCTATGTGGTCCTTC
4382984 GGTGCTAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.02
22 20 0.38
23 26 0.50
24 4 0.08
25 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (22 bp):
TTCTATGTGGTCCTTCAGGAAA
Found at i:4388069 original size:21 final size:20
Alignment explanation
Indices: 4388045--4388089 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4388035 AACAATATTA
4388045 ATACTGAT-TGAAGTAGTATCG
1 ATACTGATGTGAAG--GTATCG
*
4388066 ATACTGATGTGGAGGTATCG
1 ATACTGATGTGAAGGTATCG
4388086 ATAC
1 ATAC
4388090 CAAGAGTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (20 bp):
ATACTGATGTGAAGGTATCG
Found at i:4388905 original size:44 final size:44
Alignment explanation
Indices: 4388827--4388910 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
4388817 TGAAAAATAA
* *
4388827 TCTATGTGAATATAATATATGTAAATGTATTCTATATGAAAATG
1 TCTATGTGAATATAATATATGTAAATGAAGTCTATATGAAAATG
* *
4388871 TCTATGTGAACATATAATA-A-GTAACTGAAGTCTATGTGAA
1 TCTATGTG-A-ATATAATATATGTAAATGAAGTCTATATGAA
4388911 TAAAAAACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
44 24 0.71
45 2 0.06
46 8 0.24
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.37
Consensus pattern (44 bp):
TCTATGTGAATATAATATATGTAAATGAAGTCTATATGAAAATG
Found at i:4395389 original size:20 final size:20
Alignment explanation
Indices: 4395364--4395401 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4395354 AACCCGATCA
* *
4395364 GGAGTATTGGTACTTCAATG
1 GGAGTATCGATACTTCAATG
4395384 GGAGTATCGATACTTCAA
1 GGAGTATCGATACTTCAA
4395402 AGAAAAAATC
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:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (20 bp):
GGAGTATCGATACTTCAATG
Found at i:4399970 original size:264 final size:262
Alignment explanation
Indices: 4399502--4399983 Score: 752
Period size: 264 Copynumber: 1.8 Consensus size: 262
4399492 CTCATCATCC
* *
4399502 CTCCATGCAACTACATGTGGCTTGTGTTTCTTATTGGATGATCATTTCTTCTTTAATTATGGGCA
1 CTCCATGCAACTACATGTGCCTTGTGTTTCTTATTGGAGGATCATTTCTTCTTTAATTATGGGCA
* * * *
4399567 TGTATTTTACATGCCCCGACTTTTTGTACTCATAGCAAATTATGGAGTAATTCTCCTTGGATTCA
66 TGTATTTAACATGCCCCGACTTTTTGCACTCATAGAAAATTATGGAGTAATTCACCTTGGATTCA
*
4399632 TTCTTGAAGCCTTCTTTTCTTTGGAATCTTATTCCTTTGTTGGACTTCATGAATCTTTTGAATCT
131 TTCTTGAAGCCTTATTTTCTTTGGAATCTTATTCCTTTGTTGGACTTCATGAATCTTTTGAATCT
*
4399697 TTGGGAAAACAATGCCATTTCTTTATCCTCATCATTTGAGTCACTCTCTTCTTTTTTATGAGTCA
196 TTGGGAAAACAATACCATTTCTTTATCCTCATCATTTGAGTCACTCTCTTCTTTTTTATGAGTCA
4399762 CT
261 CT
* * * * *
4399764 CTCCATGTAGCTACATGTTCCTTGTGTTTCTTCTTGGAGGATC-TATTCTTCTTTAATTATGGGT
1 CTCCATGCAACTACATGTGCCTTGTGTTTCTTATTGGAGGATCAT-TTCTTCTTTAATTATGGGC
* * *
4399828 AT-TCAAATTTAACATGCCCCGTCTTTTTGCACTCATAGAAAATTATGGGGTCATTCACCTTGGA
65 ATGT---ATTTAACATGCCCCGACTTTTTGCACTCATAGAAAATTATGGAGTAATTCACCTTGGA
*
4399892 TTCATTCTTGAAGCCTTATTTTCTTTGGAATCTTCTTCCTTTGTTGGACTTCATGAATCTTTTGA
127 TTCATTCTTGAAGCCTTATTTTCTTTGGAATCTTATTCCTTTGTTGGACTTCATGAATCTTTTGA
*
4399957 ATCTTTGGGAAAACATTACCATTTCTT
192 ATCTTTGGGAAAACAATACCATTTCTT
4399984 CTTTTCCATT
Statistics
Matches: 198, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
261 2 0.01
262 57 0.29
264 139 0.70
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (262 bp):
CTCCATGCAACTACATGTGCCTTGTGTTTCTTATTGGAGGATCATTTCTTCTTTAATTATGGGCA
TGTATTTAACATGCCCCGACTTTTTGCACTCATAGAAAATTATGGAGTAATTCACCTTGGATTCA
TTCTTGAAGCCTTATTTTCTTTGGAATCTTATTCCTTTGTTGGACTTCATGAATCTTTTGAATCT
TTGGGAAAACAATACCATTTCTTTATCCTCATCATTTGAGTCACTCTCTTCTTTTTTATGAGTCA
CT
Found at i:4399994 original size:14 final size:15
Alignment explanation
Indices: 4399975--4400004 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4399965 GAAAACATTA
4399975 CCATTT-CTTCTTTT
1 CCATTTCCTTCTTTT
4399989 CCATTTCCTTCTTTT
1 CCATTTCCTTCTTTT
4400004 C
1 C
4400005 TTCATCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (15 bp):
CCATTTCCTTCTTTT
Found at i:4402453 original size:21 final size:21
Alignment explanation
Indices: 4402407--4402463 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
4402397 GACCTGACCG
*
4402407 TTGACTTTGACCAAAGTTGACT
1 TTGACTTTGACC-AAGATGACT
* *
4402429 TTGACTTTGACCATGATGGCT
1 TTGACTTTGACCAAGATGACT
4402450 TTGACTTTGACCAA
1 TTGACTTTGACCAA
4402464 AAAGTCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (21 bp):
TTGACTTTGACCAAGATGACT
Done.