Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_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: 4287485
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 24
Found at i:1823100 original size:21 final size:21
Alignment explanation
Indices: 1823075--1823139 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
1823065 TGAGACAGTT
1823075 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
1823096 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
1823113 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
1823132 TCTCTTGA
1 TCTCTTGA
1823140 GACAGTTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 3 0.09
18 4 0.12
19 3 0.09
20 1 0.03
21 15 0.44
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:1823105 original size:36 final size:36
Alignment explanation
Indices: 1823053--1823158 Score: 194
Period size: 36 Copynumber: 2.9 Consensus size: 36
1823043 AAAAACTAAG
* *
1823053 TTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1823089 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1823125 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1823159 CCAATTTTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:1823621 original size:20 final size:20
Alignment explanation
Indices: 1823584--1823645 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
1823574 TGACCGGGTT
*
1823584 TTAT-ATTTATATTTTTATTA
1 TTATAATTTAT-TTATTATTA
1823604 TTATAATTTATTTATTATTA
1 TTATAATTTATTTATTATTA
*
1823624 TTAATAATTTCTTTATT-TTA
1 TT-ATAATTTATTTATTATTA
1823644 TT
1 TT
1823646 TTTTTGTAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 19 0.50
21 19 0.50
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATAATTTATTTATTATTA
Found at i:1824668 original size:12 final size:12
Alignment explanation
Indices: 1824651--1824677 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1824641 AATCGAATAT
1824651 TTTAAATTTTAA
1 TTTAAATTTTAA
1824663 TTTAAATTTTAA
1 TTTAAATTTTAA
1824675 TTT
1 TTT
1824678 TCGCAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAAATTTTAA
Found at i:1833065 original size:20 final size:20
Alignment explanation
Indices: 1833040--1833077 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1833030 AGTTTCTAGG
1833040 CAAGAGTATCAATACTCTTT
1 CAAGAGTATCAATACTCTTT
*
1833060 CAAGAGTATCGATACTCT
1 CAAGAGTATCAATACTCT
1833078 GTGTCATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (20 bp):
CAAGAGTATCAATACTCTTT
Found at i:1833389 original size:11 final size:11
Alignment explanation
Indices: 1833373--1833409 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1833363 TGGTTGATAC
1833373 TCAGGAAACAA
1 TCAGGAAACAA
*
1833384 TCAGG--ACAC
1 TCAGGAAACAA
1833393 TCAGGAAACAA
1 TCAGGAAACAA
1833404 TCAGGA
1 TCAGGA
1833410 CACTCGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (11 bp):
TCAGGAAACAA
Found at i:1833396 original size:20 final size:20
Alignment explanation
Indices: 1833371--1833414 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
1833361 CTTGGTTGAT
1833371 ACTCAGGAAACAATCAGGAC
1 ACTCAGGAAACAATCAGGAC
1833391 ACTCAGGAAACAATCAGGAC
1 ACTCAGGAAACAATCAGGAC
1833411 ACTC
1 ACTC
1833415 GAGTTCCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.27, G:0.18, T:0.11
Consensus pattern (20 bp):
ACTCAGGAAACAATCAGGAC
Found at i:1835503 original size:2 final size:2
Alignment explanation
Indices: 1835496--1835521 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1835486 TCCTTCAGCA
1835496 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
1835522 GTGCTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1839330 original size:23 final size:23
Alignment explanation
Indices: 1839295--1839353 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
1839285 ATCAAGTACA
*
1839295 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
1839318 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
1839341 ATAATAAAATAGG
1 ATAATATAATAGG
1839354 CATTTAGCCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.34
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:1840076 original size:200 final size:196
Alignment explanation
Indices: 1839447--1840347 Score: 1032
Period size: 200 Copynumber: 4.5 Consensus size: 196
1839437 TTTTATAAGT
* * *
1839447 AAATCGGTATATTTATGCCGGTAACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
1839512 TATTTTTTGGATCGATACAATTTT-AAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATT
66 TATTTTTAGGATCGATAC--TTTTAAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATT
* * *
1839576 CATTCTGGA-AACAAGTATC-ACCATAAACTTAA-AGAGTATCGATACATTAT-TTAGACATATT
129 CATTCTGGACAAAAAGTATCGA-CACAAA-TTAACA-AGTGTCGATACATTATGTT-GACATA-T
1839637 TTTTCATA
189 TTTTCATA
* * * * * * * * *
1839645 AAACCGATATATTTCTATCGGGTACATTGTAAATTTACCTATCACATTGTAATTATTGGTTTAGA
1 AAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * * *
1839710 TATTTTTGGGATCGATAATTTTAATAAATGTATCGACACTTTATGCGTGTACC-CGTTTGACATT
66 TATTTTTAGGATCGATACTTTT-A-AAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATT
* * * *
1839774 CATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTATGATGACATATTTTC
129 CATTCTGGACAAAAAGTATCGACACAAA-TTAACAAGTGTCGATACATTATGTTGACATATTTT-
1839839 TCATA
192 TCATA
* * * * *
1839844 AAACCGGTATATTTATATCAGTTACATTGTAAATTTACATATTACATTATAATTATCGATTTCGA
1 AAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
1839909 TATTTTTAAGATCGATACTTTTTAAACATGTATCGACACTTTATGCGTGCAACC-CTTTTGGCAT
66 TATTTTTAGGATCGATAC-TTTTAAA-ATGTATCGACACTTTATGCGTGC-ACCTCGTTGGGCAT
* * ** *
1839973 TCATTTTGGACAAAAAGTATCGACACAAATATAA-AACGTGTCAATACATTATGTTCCCCTATTT
128 TCATTCTGGACAAAAAGTATCGACACAAAT-TAACAA-GTGTCGATACATTATGTTGACATATTT
*
1840037 TAACATA
191 T-TCATA
* * *
1840044 AAATCAGTATATTTATACCGGTTACATTGTAAATTTACTTATTACATTATAATTATCTGTTTCGA
1 AAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
1840109 T-TTTATTAGGATCGATACTTTTAATAATTGTATCGACACTTTATGCGTGCACCTCGTTTGGGCA
66 TATTT-TTAGGATCGATACTTTTAA-AA-TGTATCGACACTTTATGCGTGCACCTCG-TTGGGCA
* * *
1840173 TTCATTCTGGACGATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTGACAT-GTT
127 TTCATTCTGGACAAAAAGTATCGACACAAATTA-ACAAGTGTCGATACATTATGTTGACATATTT
1840237 TTC-TA
191 TTCATA
* * *
1840242 ATTAATCGGTATATTTATACCGATTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTC
1 A--AATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
* * *
1840307 GATGTTTTTTGGGTCGATACTTTTAGAAAATGTATCGACAC
64 GATATTTTTAGGATCGATACTTTT--AAAATGTATCGACAC
1840348 ATATTTAGGT
Statistics
Matches: 600, Mismatches: 78, Indels: 48
0.83 0.11 0.07
Matches are distributed among these distances:
196 4 0.01
198 95 0.16
199 179 0.30
200 259 0.43
201 59 0.10
202 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (196 bp):
AAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TATTTTTAGGATCGATACTTTTAAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCA
TTCTGGACAAAAAGTATCGACACAAATTAACAAGTGTCGATACATTATGTTGACATATTTTTCAT
A
Found at i:1843741 original size:18 final size:18
Alignment explanation
Indices: 1843718--1843768 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
1843708 ATTTCCTCCA
1843718 TCTTTTCTTCTTCATCCC
1 TCTTTTCTTCTTCATCCC
*
1843736 TCTTTTCTTCTTCCTCCC
1 TCTTTTCTTCTTCATCCC
1843754 TCTTTTCTTCTTCAT
1 TCTTTTCTTCTTCAT
1843769 ATTTTTCAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.04, C:0.37, G:0.00, T:0.59
Consensus pattern (18 bp):
TCTTTTCTTCTTCATCCC
Found at i:1843996 original size:33 final size:33
Alignment explanation
Indices: 1843950--1844015 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1843940 CATCTTAAGC
*
1843950 TCACCCCTCAACACCTCAACTTCTTTCACCACT
1 TCACCCCTAAACACCTCAACTTCTTTCACCACT
*
1843983 TCACCCTTAAACACCTCAACTTCTTTCACCACT
1 TCACCCCTAAACACCTCAACTTCTTTCACCACT
1844016 CCATATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.26, C:0.45, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTAAACACCTCAACTTCTTTCACCACT
Found at i:1844072 original size:21 final size:21
Alignment explanation
Indices: 1844048--1844092 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1844038 CCCCCTTATG
1844048 TCTCTCAAGTGTCTCTTCAAC
1 TCTCTCAAGTGTCTCTTCAAC
* *
1844069 TCTCTCAAGTTTCTCTTCGAC
1 TCTCTCAAGTGTCTCTTCAAC
1844090 TCT
1 TCT
1844093 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.33, G:0.09, T:0.42
Consensus pattern (21 bp):
TCTCTCAAGTGTCTCTTCAAC
Found at i:1845324 original size:22 final size:23
Alignment explanation
Indices: 1845296--1845351 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
1845286 AACATGCATT
1845296 TATAATAAAAT-TTATAATTTTA
1 TATAATAAAATATTATAATTTTA
* *
1845318 TATAATAACTATATTATCATTTTA
1 TATAATAA-AATATTATAATTTTA
*
1845342 TATAAAAAAA
1 TATAATAAAA
1845352 ACAAATATGT
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:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATAAAATATTATAATTTTA
Found at i:1847582 original size:182 final size:182
Alignment explanation
Indices: 1847273--1847946 Score: 922
Period size: 182 Copynumber: 3.7 Consensus size: 182
1847263 TGCGCGTACC
* * ** *
1847273 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCACTTTATC-AGTTTTGTCACTTAGAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGA-TTTTGTCTTTTCGAGACC
* * * *
1847337 -AGTTTTATCATATTTTTACCTTTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACA
65 GA-TTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACA
* * * *
1847401 CTTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCAATACTTA
129 CTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* *
1847455 TATTAAATTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGATTTTGTCTTTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGATTTTGTCTTTTCGAGACCG
*
1847520 ATTTTATCATATTTTAACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
66 ATTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
1847585 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* ** * * * * ** *
1847637 TATTAAAGTATCGACACTTTCAATATATTCGGTTTCTCTTTACTGGTTTTGTCTTCTCCTGATCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGATTTTGTCTTTTCGAGACCG
* *
1847702 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
66 ATTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* *
1847767 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTTACTATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * *
1847819 TATTCAAGTATCGACACTTACAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACTG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGATTTTGTCTTTTCGAGACCG
* * * * * * *
1847884 GTTTTGTCATATTTTTTCCTATTATATTGATGTGGATCGATACAT-TTCTATAAAGTATCGACA
66 ATTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATT-TATAAAGAATCGACA
1847947 TAAACCGACA
Statistics
Matches: 440, Mismatches: 49, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
181 2 0.00
182 436 0.99
183 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGATTTTGTCTTTTCGAGACCG
ATTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
Found at i:1860495 original size:31 final size:29
Alignment explanation
Indices: 1860454--1860545 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 29
1860444 TTAATTCGTA
*
1860454 GTCACTTTCATTTCGTTTTAATTAAGATGTG
1 GTCAATTTCATTT--TTTTAATTAAGATGTG
1860485 GTCAATTTCA---TTTTAATTAAGATGTG
1 GTCAATTTCATTTTTTTAATTAAGATGTG
* *
1860511 GTCAATTTCGTTTTATTTTAATTAAGATTTG
1 GTCAATTTC-ATTT-TTTTAATTAAGATGTG
1860542 GTCA
1 GTCA
1860546 CTTCCCTTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
26 25 0.47
31 28 0.53
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (29 bp):
GTCAATTTCATTTTTTTAATTAAGATGTG
Found at i:1860498 original size:26 final size:26
Alignment explanation
Indices: 1860463--1860525 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
1860453 AGTCACTTTC
1860463 ATTTCGTTTTAATTAAGATGTGGTCA
1 ATTTCGTTTTAATTAAGATGTGGTCA
*
1860489 ATTTCATTTTAATTAAGATGTGGTCA
1 ATTTCGTTTTAATTAAGATGTGGTCA
1860515 ATTTCGTTTTA
1 ATTTCGTTTTA
1860526 TTTTAATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (26 bp):
ATTTCGTTTTAATTAAGATGTGGTCA
Found at i:1860820 original size:19 final size:19
Alignment explanation
Indices: 1860796--1860835 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1860786 GATGCAAAGG
1860796 GGGATTCTGCGCCTTCAGA
1 GGGATTCTGCGCCTTCAGA
1860815 GGGATTCTGCGCCTTCAGA
1 GGGATTCTGCGCCTTCAGA
1860834 GG
1 GG
1860836 CCGAGTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (19 bp):
GGGATTCTGCGCCTTCAGA
Found at i:1861204 original size:21 final size:20
Alignment explanation
Indices: 1861178--1861275 Score: 79
Period size: 21 Copynumber: 4.8 Consensus size: 20
1861168 ATCAGTTTCC
1861178 AAAATCGCAACGCGATTCTTA
1 AAAATCGCAACGCGATT-TTA
* **
1861199 AAAATCGCAATGCGATAGTA
1 AAAATCGCAACGCGATTTTA
* ** *
1861219 CAAATTCGCATTGCGATTTTCC
1 -AAAATCGCAACGCGATTTT-A
* * *
1861241 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTA
1861261 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
1861276 ACACATAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
20 17 0.28
21 44 0.72
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTA
Found at i:1861304 original size:20 final size:20
Alignment explanation
Indices: 1861242--1861471 Score: 223
Period size: 20 Copynumber: 11.5 Consensus size: 20
1861232 CGATTTTCCA
* ** *
1861242 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1861262 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1861282 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1861302 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1861322 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
1861342 AAATCGCAATGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1861362 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1861382 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1861402 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1861422 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1861442 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1861462 AAATCACAAC
1 AAATCGCAAC
1861472 ACTGAAATTT
Statistics
Matches: 174, Mismatches: 30, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 170 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1862189 original size:24 final size:24
Alignment explanation
Indices: 1862150--1862196 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1862140 AAATTTGGTC
1862150 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1862174 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1862197 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1862388 original size:12 final size:12
Alignment explanation
Indices: 1862371--1862395 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1862361 ATATAATCCT
1862371 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1862383 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1862395 G
1 G
1862396 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1864724 original size:33 final size:33
Alignment explanation
Indices: 1864673--1864812 Score: 230
Period size: 33 Copynumber: 4.2 Consensus size: 33
1864663 CGGAAATTAC
1864673 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
1864706 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
1864740 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1864773 AATCGCAACGAGAGAATCGCAATGCGAAATG-A
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1864805 AATCGCAA
1 AATCGCAA
1864813 TGCGAAATGA
Statistics
Matches: 100, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
32 10 0.10
33 60 0.60
34 29 0.29
35 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:1864762 original size:67 final size:67
Alignment explanation
Indices: 1864654--1864812 Score: 234
Period size: 67 Copynumber: 2.4 Consensus size: 67
1864644 GCATTTGACT
** * *
1864654 ATCGCAACACGGAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-ATG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGA-G
1864718 AAA
65 AAA
*
1864721 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGAGA
*
1864786 GA
66 AA
1864788 ATCGCAATGC-GAAATG-AAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA
1864813 TGCGAAATGA
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
65 9 0.11
66 6 0.07
67 69 0.81
68 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.13
Consensus pattern (67 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGAGA
AA
Found at i:1864817 original size:51 final size:51
Alignment explanation
Indices: 1864673--1864850 Score: 203
Period size: 51 Copynumber: 3.5 Consensus size: 51
1864663 CGGAAATTAC
*
1864673 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
* *
1864720 AATCGCAATGCGGAAATGAAAATCGCAA--CGAGA-G-AATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAA
1864773 AATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAA
1864824 AATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAACGAGAGAATCGCAATGCGA
1864851 TTTTAATTTC
Statistics
Matches: 111, Mismatches: 5, Indels: 26
0.78 0.04 0.18
Matches are distributed among these distances:
47 18 0.16
48 8 0.07
49 5 0.05
50 5 0.05
51 51 0.46
52 1 0.01
53 23 0.21
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (51 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAA
Found at i:1864913 original size:53 final size:52
Alignment explanation
Indices: 1864840--1864956 Score: 207
Period size: 53 Copynumber: 2.2 Consensus size: 52
1864830 AACGAGAGAA
*
1864840 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
1864892 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1864945 TCGCATTGCGAT
1 TCGCATTGCGAT
1864957 AGTCATTTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 12 0.19
53 50 0.81
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:1864964 original size:19 final size:19
Alignment explanation
Indices: 1864840--1864956 Score: 119
Period size: 19 Copynumber: 6.6 Consensus size: 19
1864830 AACGAGAGAA
* *
1864840 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
1864859 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1864875 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1864892 TCCGCATTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATT
*
1864912 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1864928 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1864945 TCGCATTGCGAT
1 TCGCATTGCGAT
1864957 AGTCATTTTG
Statistics
Matches: 81, Mismatches: 6, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
14 12 0.15
16 14 0.17
17 11 0.14
18 2 0.02
19 27 0.33
20 15 0.19
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1865087 original size:14 final size:14
Alignment explanation
Indices: 1865064--1865097 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
1865054 TCAATTACAC
1865064 AATCAACTTTTAGA
1 AATCAACTTTTAGA
*
1865078 AATCATCTTTTAGA
1 AATCAACTTTTAGA
1865092 AATCAA
1 AATCAA
1865098 TTAAACAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (14 bp):
AATCAACTTTTAGA
Found at i:1865180 original size:12 final size:12
Alignment explanation
Indices: 1865163--1865198 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1865153 AACTTTTACA
1865163 AATCAATTAAAC
1 AATCAATTAAAC
**
1865175 AATCAAAAAAAC
1 AATCAATTAAAC
1865187 AATCAATTAAAC
1 AATCAATTAAAC
1865199 TATTGAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:1867052 original size:19 final size:19
Alignment explanation
Indices: 1867010--1867182 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
1867000 TAGTTTACTT
* *
1867010 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
1867030 TCGCAACGCGAAATGATAA
1 TCGCAACGCGAAATGAAAA
* **
1867049 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
* **
1867068 TCGCAACGTGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1867087 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1867106 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1867120 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1867139 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1867153 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1867172 TCGCAATGCGA
1 TCGCAACGCGA
1867183 TTTTGGTTTC
Statistics
Matches: 129, Mismatches: 14, Indels: 21
0.79 0.09 0.13
Matches are distributed among these distances:
14 16 0.12
16 11 0.09
17 11 0.09
19 79 0.61
20 12 0.09
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1867123 original size:14 final size:14
Alignment explanation
Indices: 1867104--1867160 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1867094 GCGAAATGAA
*
1867104 AATCGCAACGACAG
1 AATCGCAACGAAAG
1867118 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1867135 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1867151 AATCGCAACG
1 AATCGCAACG
1867161 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1867131 original size:33 final size:33
Alignment explanation
Indices: 1867085--1867177 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1867075 GTGAAACCAA
*
1867085 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1867118 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1867151 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1867178 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1867200 original size:19 final size:19
Alignment explanation
Indices: 1867178--1867305 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
1867168 AAAATCGCAA
1867178 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1867197 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1867211 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1867229 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1867243 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1867262 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1867281 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1867301 TGCGA
1 TGCGA
1867306 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.02
14 20 0.23
16 3 0.03
17 1 0.01
18 10 0.11
19 39 0.44
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1867263 original size:33 final size:34
Alignment explanation
Indices: 1867178--1867268 Score: 143
Period size: 32 Copynumber: 2.8 Consensus size: 34
1867168 AAAATCGCAA
1867178 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
1867211 TGCGA-TTTGGTTTCGCGTTGCGATTC-TGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
**
1867243 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1867269 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (34 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
Found at i:1867469 original size:93 final size:93
Alignment explanation
Indices: 1867353--1868097 Score: 1444
Period size: 93 Copynumber: 8.1 Consensus size: 93
1867343 ATGGATTGCA
1867353 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1867417 TAGCAGAATTGGCAGTAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1867445 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1867510 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1867538 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1867602 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1867630 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1867695 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1867723 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT-AAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1867787 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1867815 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1867879 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1867907 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1867972 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1868000 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1868065 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1868093 TTACT
1 TTACT
1868098 AAGCAATCTA
Statistics
Matches: 647, Mismatches: 2, Indels: 7
0.99 0.00 0.01
Matches are distributed among these distances:
91 30 0.05
92 218 0.34
93 399 0.62
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1867684 original size:185 final size:186
Alignment explanation
Indices: 1867353--1868097 Score: 1444
Period size: 185 Copynumber: 4.0 Consensus size: 186
1867343 ATGGATTGCA
1867353 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1867417 TAGCAGAATTGGCAGTAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1867482 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
1867538 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1867602 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1867667 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
1867723 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT-AAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1867787 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1867851 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
1867907 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1867972 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
1868037 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
1868093 TTACT
1 TTACT
1868098 AAGCAATCTA
Statistics
Matches: 554, Mismatches: 2, Indels: 7
0.98 0.00 0.01
Matches are distributed among these distances:
184 123 0.22
185 310 0.56
186 121 0.22
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1867911 original size:277 final size:278
Alignment explanation
Indices: 1867353--1868097 Score: 1458
Period size: 277 Copynumber: 2.7 Consensus size: 278
1867343 ATGGATTGCA
1867353 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1867417 TAGCAGAATTGGCAGTAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1867482 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
1867547 ACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATT
196 ACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATT
1867612 GGCAGCAACCGAACAAAT
261 GGCAGCAACCGAACAAAT
1867630 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1867695 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1867760 ATTTCACAGTGTT-AAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
1867824 ACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATT
196 ACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATT
1867889 GGCAGCAACCGAACAAAT
261 GGCAGCAACCGAACAAAT
1867907 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1867972 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
1868037 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
1868098 AAGCAATCTA
Statistics
Matches: 464, Mismatches: 2, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
277 281 0.61
278 183 0.39
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (278 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
ACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATT
GGCAGCAACCGAACAAAT
Found at i:1869905 original size:14 final size:14
Alignment explanation
Indices: 1869886--1869942 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1869876 TTTGGTTTCG
1869886 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1869900 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1869919 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1869933 CGTTGCGATT
1 CGTTGCGATT
1869943 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1869918 original size:33 final size:33
Alignment explanation
Indices: 1869870--1869950 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
1869860 AAAATCGCAA
**
1869870 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1869903 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1869936 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
1869951 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1869953 original size:21 final size:21
Alignment explanation
Indices: 1869927--1870002 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1869917 CGCGTTGCGA
1869927 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
1869948 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1869968 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
1869989 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
1870003 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1869983 original size:41 final size:41
Alignment explanation
Indices: 1869926--1870003 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
1869916 TCGCGTTGCG
*
1869926 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
1869967 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1870004 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:1870124 original size:33 final size:33
Alignment explanation
Indices: 1870082--1870152 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
1870072 AATACTAACT
*
1870082 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* * *
1870115 TGAAAATCGCAACGACAGAATCGTAACGCTAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1870148 TGAAA
1 TGAAA
1870153 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1870386 original size:22 final size:22
Alignment explanation
Indices: 1870334--1870388 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1870324 TGGTTGTGAG
**
1870334 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1870356 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1870378 GGATTTCTTCG
1 GGATTTCTTCG
1870389 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1870560 original size:20 final size:20
Alignment explanation
Indices: 1870535--1870728 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
1870525 CTTTAAATAT
1870535 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1870555 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1870577 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1870596 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1870616 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
*
1870636 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
**
1870656 TACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1870676 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1870696 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1870716 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1870729 TGGAAAATCG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1870704 original size:60 final size:60
Alignment explanation
Indices: 1870537--1870708 Score: 227
Period size: 60 Copynumber: 2.9 Consensus size: 60
1870527 TTAAATATCG
** *
1870537 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACA
* * *** * * *
1870598 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCATTGCGATTTACGGATATA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
*
1870658 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTT
1870709 TCATATTCGC
Statistics
Matches: 92, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 66 0.72
61 26 0.28
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
Found at i:1870745 original size:21 final size:21
Alignment explanation
Indices: 1870715--1870797 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1870705 ATTTTCATAT
*
1870715 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1870736 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1870757 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1870778 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1870798 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1870788 original size:42 final size:43
Alignment explanation
Indices: 1870695--1870793 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1870685 ATTTATGTGT
* *
1870695 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
1870736 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
1870778 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1870794 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:1871320 original size:25 final size:24
Alignment explanation
Indices: 1871225--1871323 Score: 83
Period size: 25 Copynumber: 3.8 Consensus size: 24
1871215 TTTATTAAAA
1871225 AAAATTCATCAAATTGTATATATTTTTT
1 AAAATTCATCAAA---TATATA-TTTTT
* * *
1871253 AAAATTCTTCCATATATATATTTTA
1 AAAATTCAT-CAAATATATATTTTT
*
1871278 AAAATT-ATGTAAAGTATATATTTTT
1 AAAATTCAT-CAAA-TATATATTTTT
1871303 AAAATTTCATCAAATATATAT
1 AAAA-TTCATCAAATATATAT
1871324 ATATATATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
24 3 0.05
25 31 0.53
26 11 0.19
27 2 0.03
28 8 0.14
29 3 0.05
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (24 bp):
AAAATTCATCAAATATATATTTTT
Found at i:1871322 original size:27 final size:27
Alignment explanation
Indices: 1871224--1871325 Score: 95
Period size: 26 Copynumber: 3.9 Consensus size: 27
1871214 ATTTATTAAA
*
1871224 AAAAATTCATCAAATTGTATATATTTTT
1 AAAAATTCATCAAA-TATATATATTTTT
* * *
1871252 TAAAATTCTTC-CATATATATA-TTTT
1 AAAAATTCATCAAATATATATATTTTT
* *
1871277 AAAAATT-ATGTAAA-GTATATATTTTT
1 AAAAATTCAT-CAAATATATATATTTTT
*
1871303 AAAATTTCATCAAATATATATAT
1 AAAAATTCATCAAATATATATAT
1871326 ATATATATAT
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
24 1 0.02
25 16 0.28
26 21 0.37
27 10 0.18
28 9 0.16
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (27 bp):
AAAAATTCATCAAATATATATATTTTT
Found at i:1871323 original size:2 final size:2
Alignment explanation
Indices: 1871316--1871349 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1871306 ATTTCATCAA
1871316 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1871350 AAATTTCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1871843 original size:28 final size:28
Alignment explanation
Indices: 1871811--1871877 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
1871801 ATCGGATCGG
*
1871811 CTGGTTCAATCGGGAATCGTTATCTAGT
1 CTGGTTCAATCGGGAATCGTTATATAGT
*
1871839 CTGGTTCAATCGGGAATCGTTGTATAGT
1 CTGGTTCAATCGGGAATCGTTATATAGT
* *
1871867 CCGATTCAATC
1 CTGGTTCAATC
1871878 TACACCGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (28 bp):
CTGGTTCAATCGGGAATCGTTATATAGT
Found at i:1872349 original size:36 final size:36
Alignment explanation
Indices: 1872309--1872415 Score: 84
Period size: 36 Copynumber: 3.0 Consensus size: 36
1872299 TTAGTTAGGA
1872309 TGTTCTTCTATGTTTCTTAGCCATGTGAGATTGTTT
1 TGTTCTTCTATGTTTCTTAGCCATGTGAGATTGTTT
* * *
1872345 TGTTC-TC-ATATTT-TTA-CTC-T-TTAGACTT-TTGGGA
1 TGTTCTTCTATGTTTCTTAGC-CATGTGAGA-TTGTT---T
*
1872379 TGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTT
1 TGTTCTTCTATGTTTCTTAGCCATGTGAGATTGTTT
1872415 T
1 T
1872416 TTTTTAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 24
0.63 0.08 0.29
Matches are distributed among these distances:
31 6 0.12
32 4 0.08
33 4 0.08
34 9 0.17
35 4 0.08
36 11 0.21
37 4 0.08
38 4 0.08
39 6 0.12
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.52
Consensus pattern (36 bp):
TGTTCTTCTATGTTTCTTAGCCATGTGAGATTGTTT
Found at i:1872665 original size:22 final size:21
Alignment explanation
Indices: 1872640--1872680 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1872630 ATAAAAAAAA
1872640 TATTTTTATTAAATATTTTTGG
1 TATTTTTATTAAAT-TTTTTGG
*
1872662 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
1872681 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTGG
Found at i:1875742 original size:25 final size:27
Alignment explanation
Indices: 1875701--1875773 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 27
1875691 CAATAGATTT
* * *
1875701 TTTTTTATTATATTTGTATT-TAGTAC
1 TTTTTTATTGTAATTGTATTATAGGAC
*
1875727 -TTTTTATTGTAATTGT-TTATTGGAC
1 TTTTTTATTGTAATTGTATTATAGGAC
*
1875752 TTTTTTATTGTAATTTTATTAT
1 TTTTTTATTGTAATTGTATTAT
1875774 TATTTATCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 2 0.05
25 18 0.46
26 15 0.38
27 4 0.10
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.66
Consensus pattern (27 bp):
TTTTTTATTGTAATTGTATTATAGGAC
Found at i:1875768 original size:13 final size:13
Alignment explanation
Indices: 1875727--1875774 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
1875717 TATTTAGTAC
1875727 TTTTTATTGTAAT
1 TTTTTATTGTAAT
* * *
1875740 TGTTTATTGGACT
1 TTTTTATTGTAAT
1875753 TTTTTATTGTAAT
1 TTTTTATTGTAAT
1875766 TTTATTATT
1 TTT-TTATT
1875775 ATTTATCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 23 0.82
14 5 0.18
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:1877473 original size:23 final size:23
Alignment explanation
Indices: 1877422--1877473 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
1877412 TTTTATATGC
*
1877422 TCACCTTCTTAATATAAAATTGT
1 TCACCTTCTTAATATAAAATTAT
*
1877445 TTACCTTCTTAATATAAAATTAT
1 TCACCTTCTTAATATAAAATTAT
1877468 TCACCT
1 TCACCT
1877474 ATCCATAGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (23 bp):
TCACCTTCTTAATATAAAATTAT
Found at i:1878348 original size:21 final size:21
Alignment explanation
Indices: 1878314--1878372 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
1878304 GACTATTTGT
* *
1878314 TATTAATATAATAATTTAC-A
1 TATTGATATGATAATTTACTA
* *
1878334 TTGTTGATATGATAAATTACTA
1 -TATTGATATGATAATTTACTA
*
1878356 TATTGATGTGATAATTT
1 TATTGATATGATAATTT
1878373 GTACGTAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.47
Consensus pattern (21 bp):
TATTGATATGATAATTTACTA
Found at i:1880974 original size:20 final size:19
Alignment explanation
Indices: 1880951--1880997 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1880941 CGATATACTA
1880951 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
1880971 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
1880991 GGTAAAA
1 GGTAAAA
1880998 CGTTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1881093 original size:181 final size:182
Alignment explanation
Indices: 1880739--1881155 Score: 624
Period size: 181 Copynumber: 2.3 Consensus size: 182
1880729 GATCCAAATT
* * * * **
1880739 AAAAATGTGTCTATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
1880804 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
1880869 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTAA
1880921 AAAAATGTATCGATCCAAAACGATAT-ACTAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAAC-AGGTAAAAATATGATAAAACCGGTATCAAAATGAT
* *
1880985 AAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTT
65 AAAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * ** *
1881049 TGTGATTTTAAAAGAGAAGCAGTTTTAGCGT-CTATAATGTGTCGATACTTTAA
130 CGTGAATTTAAAAGAGAAGCAGTTTTA-AATCCTATAAAGTGTCGATACTTTAA
* *
1881102 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA
1881156 AAACGATACC
Statistics
Matches: 213, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
181 114 0.54
182 99 0.46
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTAA
Found at i:1883417 original size:21 final size:21
Alignment explanation
Indices: 1883391--1883455 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
1883381 AAGACAATCA
*
1883391 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
1883412 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* * *
1883433 AGAGACGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1883454 AG
1 AG
1883456 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.43, C:0.11, G:0.31, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1883531 original size:33 final size:33
Alignment explanation
Indices: 1883489--1883554 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1883479 AAATAGATGG
*
1883489 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1883522 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1883555 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1885370 original size:19 final size:19
Alignment explanation
Indices: 1885346--1885394 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1885336 AATGTAGGGT
1885346 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1885365 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1885384 TAATTTTGTAT
1 TAATTTTGTAT
1885395 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1885979 original size:200 final size:200
Alignment explanation
Indices: 1885628--1888201 Score: 4446
Period size: 200 Copynumber: 12.8 Consensus size: 200
1885618 AATTTACAAT
1885628 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
1885693 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
* * *
1885758 ATGAGAGATTAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGATCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1885823 AATGA
196 AATGA
*
1885828 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
1885893 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCAGTACAAGTATACCAGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
* * *
1885958 ATGAGAGAATATGTATAAATAATGTATCAACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1886023 AATGA
196 AATGA
* *
1886028 ATGGAAAACAGGGTACAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
1886093 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGTTACAAGTATACCAGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
* * *
1886158 ATGAGAGAATAGGTCTAAATAATGTGTCGCCACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAT
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1886223 AATGA
196 AATGA
*
1886228 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * *
1886293 CGAAACCCAAAAGTATAATGTAATGGGTAATTTTTCAATCTAATCGATATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
* *
1886358 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTTGTCCAT
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1886423 AATGA
196 AATGA
* *
1886428 ATGGCAAACATGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
1886493 AGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
*
1886558 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTTTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1886623 AATGA
196 AATGA
* *
1886628 ATGACAAACAAGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1886693 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
*
1886758 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGATCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1886823 AATGA
196 AATGA
1886828 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
1886893 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCAGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
* * * *
1886958 ATGAGAGAATATGTATAAATAATGTATCAACACTTTTGTAGTTTGTGTCGATATTTTTAGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1887023 AATGA
196 AATGA
* *
1887028 ATGGAAAACAGGGTACAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* ** *
1887093 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTTTAAGTATACCAGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
* * * *
1887158 ATGAGAGAATATGTCTAAATAATGTGTCGCCACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAT
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1887223 AATGA
196 AATGA
* * *
1887228 ATGGCAAACAGGGTACAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACTT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
1887293 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGATATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
*
1887358 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTTTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1887423 AATGA
196 AATGA
*
1887428 ATGGCAAACAAGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1887493 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
*
1887558 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATAATTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1887623 AATGA
196 AATGA
*
1887628 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
1887693 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
*
1887758 ATGAGAGAATAGGTTTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1887823 AATGA
196 AATGA
1887828 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
1887893 CGAAACTCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
* *
1887958 ATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1888023 AATGA
196 AATGA
1888028 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
1888093 CGAAACCCATAAGTATAATGTAATAGGTAATTTTATAGGTAATTTTTCAATCTAACCGGTACAAG
66 CGAAACCCATAAG--T-A--TAAT--GT-A----ATAGGTAATTTTTCAATCTAATCGGTACAAG
*
1888158 TATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACA
119 TATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACA
1888202 TTGTTTAATG
Statistics
Matches: 2256, Mismatches: 106, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
200 2173 0.96
202 1 0.00
203 1 0.00
205 4 0.00
207 2 0.00
208 1 0.00
212 74 0.03
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:1889166 original size:9 final size:9
Alignment explanation
Indices: 1889152--1889176 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1889142 TCTTCAGAAC
1889152 ATGTTGTAG
1 ATGTTGTAG
1889161 ATGTTGTAG
1 ATGTTGTAG
1889170 ATGTTGT
1 ATGTTGT
1889177 CCTCAGAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (9 bp):
ATGTTGTAG
Found at i:1890551 original size:183 final size:183
Alignment explanation
Indices: 1890204--1891157 Score: 1680
Period size: 183 Copynumber: 5.2 Consensus size: 183
1890194 CAAAGTTTTC
*
1890204 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
1890269 CAAAAAGTGTCG--ATTTAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATTT---ACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
* *
1890332 TATAATCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* * *
1890388 ACACTTTTTAATATTATGTTGGTACTTTACGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
1890453 CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATTTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
1890518 AACCGATATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1890571 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
1890636 CAAAAAGTGTCGAAATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
1890701 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1890754 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1890819 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
1890884 AACCGGTATAAATA-ACCGGTTTTATGAGCGAATAGGTCTACAACCTATGTCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
1890936 ATACTTTTTAATATTGTGTCGGTACTTTATGTCCATAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
1891001 CAAAAAGTGTCGACATTTACACATTGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
1891066 AACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1891119 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
1891158 TATAATGTAC
Statistics
Matches: 737, Mismatches: 30, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
182 177 0.24
183 483 0.66
184 73 0.10
186 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:1891083 original size:365 final size:365
Alignment explanation
Indices: 1890204--1891157 Score: 1678
Period size: 365 Copynumber: 2.6 Consensus size: 365
1890194 CAAAGTTTTC
*
1890204 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
1890269 CAAAAAGTGTCG-ATTTAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAAT
66 CAAAAAGTGTCGAATTT---ACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
* *
1890333 ATAATCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTA
128 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTA
* * * *
1890398 ATATTATGTTGGTACTTTACGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGT
193 ATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTGT
* *
1890463 CGACATTTACACATCGGAACCCATAATTATAATTTAATAGATAATTTTGTAATATAACCGATATA
258 CGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATA
1890528 AATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
323 AATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
1890571 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1890636 CAAAAAGTGTCGAAATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCG-AATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
1890701 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
1890766 ATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTGTCG
195 ATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTGTCG
*
1890831 ACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
260 ACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAA
* *
1890896 TA-ACCGGTTTTATGAGCGAATAGGTCTACAACCTATGTCG
325 TATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
1890936 ATACTTTTTAATATTGTGTCGGTACTTTATGTCCATAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
1891001 CAAAAAGTGTCGACATTTACACATTGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
1891066 AACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
*
1891131 TTTGTGTCGGTACTTTATGTCCAGAAT
195 ATTGTGTCGGTACTTTATGTCCAGAAT
1891158 TATAATGTAC
Statistics
Matches: 565, Mismatches: 19, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
364 1 0.00
365 251 0.44
366 233 0.41
367 76 0.13
369 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (365 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGAATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
TTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGA
CATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAAT
ATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:1891244 original size:120 final size:120
Alignment explanation
Indices: 1891031--1891277 Score: 440
Period size: 120 Copynumber: 2.1 Consensus size: 120
1891021 ACATTGGAAC
*
1891031 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCAGTTTTATGAGC
* *
1891096 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGATCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * *
1891151 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGATATAAGTATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCAGTTTTATGAGC
1891216 GAATAGATCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGATCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
1891271 CCAGAAT
1 CCAGAAT
1891278 GGAAGAAAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCAGTTTTATGAGC
GAATAGATCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:1891395 original size:303 final size:302
Alignment explanation
Indices: 1890849--1891442 Score: 1071
Period size: 303 Copynumber: 2.0 Consensus size: 302
1890839 ACATCGGAAC
*
1890849 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATAACCGGTTTTATGAGCG
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATAACCGGTTTTATGAGCG
* * * *
1890914 AATAGGTCTACAACCTATGTCGATACTTTTTAATATTGTGTCGGTACTTTATGTCCATAATGGAA
66 AATAGATCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAA
* * *
1890979 GAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATTGGAACCCAGAATTATAAT
131 GAAAAATGTATCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAAT
1891044 GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACA
196 GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACA
*
1891109 ACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 ACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* *
1891151 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGATATAAGTATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATA-ACCGGTTTTATGAGC
1891216 GAATAGATCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
65 GAATAGATCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
1891281 AGAAAAATGTATCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCATAATTATAA
130 AGAAAAATGTATCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAA
1891346 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTAC
195 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTAC
1891411 AACCTATATCGACACTTTTTAATATTGTGTCG
260 AACCTATATCGACACTTTTTAATATTGTGTCG
1891443 CTAATTTTAA
Statistics
Matches: 279, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
302 46 0.16
303 233 0.84
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (302 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATAACCGGTTTTATGAGCG
AATAGATCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAA
GAAAAATGTATCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAAT
GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACA
ACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:1894407 original size:23 final size:23
Alignment explanation
Indices: 1894376--1894448 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1894366 ATAGGTAAAA
*
1894376 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1894399 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1894422 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1894445 ATAT
1 ATAT
1894449 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1894896 original size:23 final size:23
Alignment explanation
Indices: 1894865--1894937 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1894855 ATAGGTAAAA
* *
1894865 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
1894888 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1894911 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1894934 ATAT
1 ATAT
1894938 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1895375 original size:23 final size:23
Alignment explanation
Indices: 1895344--1895416 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1895334 ATAGGTAAAA
* *
1895344 ATATGATGTAATAGGTAGTACTT
1 ATATAATGTAATAGGTAGTGCTT
* *
1895367 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGTGCTT
*
1895390 ATATAATGTAATAAGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
1895413 ATAT
1 ATAT
1895417 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1895441 original size:479 final size:479
Alignment explanation
Indices: 1893933--1897746 Score: 6745
Period size: 479 Copynumber: 7.9 Consensus size: 479
1893923 AACCAATAAT
* *
1893933 TATAATGTAATAGGTAGTGTTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1893998 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
1894063 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
1894128 TAAACATATATATTAAATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
196 TAAAC------A-T--ATA--TATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
* * *
1894193 ATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTAAATTAATAT
250 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
*
1894258 TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAAAACATAAATTACATAACTTTAAAAAA
315 TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
1894323 AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
380 AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
*
1894388 AGGTAGCGCTTATATAATGTAATAGGTAGCGTTTA
445 AGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
* *
1894423 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACGT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1894488 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
1894553 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
1894618 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
196 TAAAC------A-T--ATA--TATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
*
1894683 TTATTTTATAAAATATCAAAAGAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
250 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
1894748 TGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
315 TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
1894812 AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
380 AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
1894877 AGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
445 AGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
1894912 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
* *
1894977 TTTTCAATGTGGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
1895042 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
*
1895107 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTGTAA
196 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
1895172 AATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAA
261 AATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAA
*
1895237 AACATGAAACATTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
326 AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
* * *
1895302 TTTTTATAAAAAATATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGTACTT
391 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTT
1895367 ATATAATGTAATAGGTAGCGTTTA
456 ATATAATGTAATAGGTAGCGTTTA
*
1895391 TATAATGTAATAAGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1895456 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
1895521 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
1895586 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
196 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
* *
1895651 AATATCAAAACAATTAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTAGAA
261 AATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAA
*
1895716 AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCA
326 AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
*
1895781 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAAGTAGCACTT
391 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTT
1895846 ATATAATGTAATAGGTAGCGTTTA
456 ATATAATGTAATAGGTAGCGTTTA
* *
1895870 TATAATGTAATAGGTAGTGCTTTTATTGAAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
* *
1895935 TTTTCACTGTAGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
* *
1896000 AATTATAGGTGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAGCAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATT------AA
*
1896065 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
190 -AAACA-ATA-A--ACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
*
1896130 TTATTTTATAAAATATCAAAAGAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
250 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
1896195 TGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
315 TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
1896259 AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
380 AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
1896324 AGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
445 AGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
*
1896359 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAATGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
* *
1896424 TTTTCACTGTGAAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
1896489 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
1896554 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
196 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
1896619 AATATCAAAACAATCAAATAATTTTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGG
261 AATATCAAAACAATCAAATAA--TTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGG
*
1896684 AAAACATGAAACATTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGAT
324 AAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGAT
* * *
1896749 CCTTTTTATAAAAAATATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGTAC
389 CCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCAC
1896814 TTATATAATGTAATAGGTAGCGTTTA
454 TTATATAATGTAATAGGTAGCGTTTA
*
1896840 TATAATGTAATAAGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
*
1896905 TTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
1896970 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
1897035 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
196 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
*
1897100 AATATCAAAACAATTAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAA
261 AATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAA
1897165 AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
326 AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
1897230 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTT
391 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTT
1897295 ATATAATGTAATAGGTAGCGTTTA
456 ATATAATGTAATAGGTAGCGTTTA
*
1897319 TATAATGTAATAGGTAGTGCTTATATTGAAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
* *
1897384 TTTTCACTGTAGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
* *
1897449 AATTATAGGTGTCTAATGATTTATTTTTTACGTTACGTTATATATTATTATTAAATTAAAAGCAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATT------AA
*
1897514 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
190 -AAACA-ATA-A--ACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
1897579 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
250 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
1897644 TGTAGGTGGAAAACATGAAACACTATT--AAAAAATTGAAACATAAATTACATAACTTTAAAAAA
315 TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
**
1897707 AGTATCGATAATTTTTATAAAAAAGTATGGACACTTTCAA
380 AGTATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAA
1897747 CATATTATAA
Statistics
Matches: 3221, Mismatches: 76, Indels: 55
0.96 0.02 0.02
Matches are distributed among these distances:
478 214 0.07
479 1155 0.36
480 63 0.02
481 414 0.13
482 6 0.00
483 3 0.00
485 4 0.00
486 10 0.00
487 6 0.00
488 54 0.02
489 667 0.21
490 625 0.19
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.40
Consensus pattern (479 bp):
TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
AATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAA
AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTT
ATATAATGTAATAGGTAGCGTTTA
Found at i:1895895 original size:25 final size:23
Alignment explanation
Indices: 1895823--1895886 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1895813 ATAGGTAAAA
* * **
1895823 ATATGATGTAATAAGTAGCACTT
1 ATATAATGTAATAGGTAGCGTTT
1895846 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
1895869 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1895887 TGCTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:1896228 original size:968 final size:957
Alignment explanation
Indices: 1893933--1897746 Score: 6741
Period size: 968 Copynumber: 3.9 Consensus size: 957
1893923 AACCAATAAT
* *
1893933 TATAATGTAATAGGTAGTGTTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1893998 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
1894063 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
1894128 TAAACATATATATTAAATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
196 TAAAC------A-T--ATA--TATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
* * *
1894193 ATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTAAATTAATAT
250 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
*
1894258 TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAAAACATAAATTACATAACTTTAAAAAA
315 TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
1894323 AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
380 AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
*
1894388 AGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTA
445 AGGTAGCACTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTA
* *
1894453 AAGTATCTATCATTTTTATAAAAGTGTCCATACGTTTTTCACTGTGGAAAACATTAATTTAAGGT
510 AAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGT
1894518 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
575 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
1894583 CGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
640 CGTTACGATATATATTATTATTAAATTAAAAACAATAAAC------A-T--ATA--TATTATTAT
*
1894648 CTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAAGAATCAAAT
694 CTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAAT
1894713 AATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
759 AATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
*
1894778 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
824 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGAC
1894843 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCG
889 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCG
1894908 TTTA
954 TTTA
1894912 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
* *
1894977 TTTTCAATGTGGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
1895042 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
*
1895107 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTGTAA
196 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
1895172 AATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAA
261 AATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAA
*
1895237 AACATGAAACATTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
326 AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
* * *
1895302 TTTTTATAAAAAATATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGTACTT
391 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTT
*
1895367 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAAGTAGTGCTTATATTGTAAAGTATCTATC
456 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC
1895432 CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
521 CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
1895497 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
586 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
1895562 ATATTATTATTAAATTAAAAACAATAAACATATATATTATTATCTTTGGTTAATATTGTTAAATT
651 ATATTATTATTAAATTAAAAACAATAAACATATATATTATTATCTTTGGTTAATATTGTTAAATT
*
1895627 TAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGCAAATGAAATT
716 TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATT
*
1895692 ATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACA
781 ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACA
1895757 TAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAA
845 TAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAA
*
1895822 AATATGATGTAATAAGTAGCACTTATATAATGTAATAGGTAGCGTTTA
910 AATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
* *
1895870 TATAATGTAATAGGTAGTGCTTTTATTGAAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
* *
1895935 TTTTCACTGTAGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
* *
1896000 AATTATAGGTGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAGCAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATT------AA
*
1896065 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
190 -AAACA-ATA-A--ACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
*
1896130 TTATTTTATAAAATATCAAAAGAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
250 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
1896195 TGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
315 TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
1896259 AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
380 AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
1896324 AGGTAGCACTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTA
445 AGGTAGCACTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTA
* * *
1896389 AAGTATCTATCCTTTTTATAAAAATGTCCATACTTTTTTCACTGTGAAAAACGTTAATTTAAGGT
510 AAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGT
1896454 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
575 TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
1896519 CGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTATTATCTTTGGTTAAT
640 CGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTATTATCTTTGGTTAAT
1896584 ATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTTTG
705 ATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA--TTTTTTG
*
1896649 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATTATTAAAAAAAATTGA
768 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGA
* * *
1896714 AACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAATATAGACACTTTCAA
832 AACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAA
*
1896779 TATAATAGGTAAAAATATGATGTAATAGGTAGTACTTATATAATGTAATAGGTAGCGTTTA
897 TATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
*
1896840 TATAATGTAATAAGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
*
1896905 TTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
1896970 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
1897035 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
196 TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
*
1897100 AATATCAAAACAATTAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAA
261 AATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAA
1897165 AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
326 AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
1897230 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTT
391 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTT
*
1897295 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGAAAAGTATCTATC
456 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC
* *
1897360 CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACGTTAATTTAAGGTTATCTTTTGAG
521 CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
* *
1897425 TGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGTTAT
586 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
*
1897490 ATATTATTATTAAATTAAAAGCAATAAACATATATATTACATATTTATTATTATCTTTGGTTAAT
651 ATATTATTATTAAATT------AA-AAACA-ATA-A--ACATATATATTATTATCTTTGGTTAAT
1897555 ATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTG
705 ATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTG
1897620 CAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAAC
770 CAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
*
1897684 ATAAATTACATAACTTTAAAAAAAGTATCGATAATTTTTATAAAAAAGTATGGACACTTTCAA
835 ATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTAT-AAAAAGTATGGACACTTTCAA
1897747 CATATTATAA
Statistics
Matches: 2738, Mismatches: 70, Indels: 65
0.95 0.02 0.02
Matches are distributed among these distances:
957 133 0.05
958 316 0.12
959 143 0.05
960 318 0.12
961 2 0.00
962 4 0.00
963 5 0.00
964 4 0.00
965 5 0.00
966 5 0.00
967 58 0.02
968 893 0.33
969 199 0.07
970 373 0.14
971 82 0.03
972 1 0.00
973 1 0.00
979 196 0.07
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.40
Consensus pattern (957 bp):
TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
TAAACATATATATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
AATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAA
AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTT
ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC
CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
ATATTATTATTAAATTAAAAACAATAAACATATATATTATTATCTTTGGTTAATATTGTTAAATT
TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATT
ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACAT
AACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAA
ATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
Found at i:1896343 original size:23 final size:23
Alignment explanation
Indices: 1896312--1896384 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1896302 ATAGGTAAAA
* *
1896312 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
1896335 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1896358 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1896381 ATAT
1 ATAT
1896385 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1896824 original size:23 final size:23
Alignment explanation
Indices: 1896793--1896865 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1896783 ATAGGTAAAA
* *
1896793 ATATGATGTAATAGGTAGTACTT
1 ATATAATGTAATAGGTAGTGCTT
* *
1896816 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGTGCTT
*
1896839 ATATAATGTAATAAGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
1896862 ATAT
1 ATAT
1896866 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1897303 original size:23 final size:23
Alignment explanation
Indices: 1897272--1897344 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1897262 ATAGGTAAAA
* *
1897272 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
1897295 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1897318 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1897341 ATAT
1 ATAT
1897345 TGAAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1897909 original size:22 final size:23
Alignment explanation
Indices: 1897875--1897917 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1897865 TATTGTACTT
* *
1897875 TATAATATTACCGGT-TAAATAA
1 TATAACATAACCGGTCTAAATAA
1897897 TATAACATAACCGGTCTAAAT
1 TATAACATAACCGGTCTAAAT
1897918 TTTAACCGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (23 bp):
TATAACATAACCGGTCTAAATAA
Found at i:1905909 original size:29 final size:29
Alignment explanation
Indices: 1905867--1905948 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1905857 AAACTAAATT
1905867 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
1905896 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
1905925 GATGGCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1905949 GTTAAGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:1910678 original size:29 final size:29
Alignment explanation
Indices: 1910636--1910717 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
1910626 AAACTAAATT
1910636 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
1910665 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
1910694 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1910718 GTTAGGTGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 46 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:1916235 original size:18 final size:19
Alignment explanation
Indices: 1916214--1916255 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
1916204 TTTTATTCGA
* *
1916214 TATTTTTATAATAATC-GT
1 TATTTTAATAATAAACTGT
*
1916232 TATTCTAATAATAAACTGT
1 TATTTTAATAATAAACTGT
1916251 TATTT
1 TATTT
1916256 AAGTCTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (19 bp):
TATTTTAATAATAAACTGT
Found at i:1935441 original size:75 final size:76
Alignment explanation
Indices: 1935289--1935498 Score: 260
Period size: 75 Copynumber: 2.8 Consensus size: 76
1935279 CAAAGCCAAA
* * * * **
1935289 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
1935354 TTTGGCTCCGAG
65 TTTGGCTCCGAG
* *
1935366 ATTTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCTAAACATT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
* * *
1935430 TTTGTTTCGAG
66 TTGGCTCCGAG
* ** * *
1935441 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCCCAGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
1935499 GTTCAACGGT
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
75 66 0.57
76 24 0.21
77 25 0.22
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.22
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
TTGGCTCCGAG
Found at i:1943996 original size:23 final size:23
Alignment explanation
Indices: 1943968--1944029 Score: 124
Period size: 23 Copynumber: 2.7 Consensus size: 23
1943958 TTGCTCAGAG
1943968 GGAACCGATTCCCCCCCATAGGA
1 GGAACCGATTCCCCCCCATAGGA
1943991 GGAACCGATTCCCCCCCATAGGA
1 GGAACCGATTCCCCCCCATAGGA
1944014 GGAACCGATTCCCCCC
1 GGAACCGATTCCCCCC
1944030 TGAATGGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.24, C:0.42, G:0.21, T:0.13
Consensus pattern (23 bp):
GGAACCGATTCCCCCCCATAGGA
Found at i:1944122 original size:75 final size:76
Alignment explanation
Indices: 1943991--1944181 Score: 258
Period size: 75 Copynumber: 2.5 Consensus size: 76
1943981 CCCCATAGGA
* ** *
1943991 GGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGGTTTGGCTCCGAGATTTCCA
1 GGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCA
1944056 GAATGCTCGGAG
65 GAATGCTCGGAG
* * *
1944068 GGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCTAAACATTTTTGTTCCGAGAATTCCAG
1 GGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAG
*
1944132 TATGCTCGGAG
66 AATGCTCGGAG
** * *
1944143 GGAACCGATTCCCCCCCCAGGGGGTACCGATTCCCCCCT
1 GGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
1944182 GTTCAACGGT
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 67 0.66
76 24 0.24
77 10 0.10
ACGTcount: A:0.22, C:0.34, G:0.24, T:0.21
Consensus pattern (76 bp):
GGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAG
AATGCTCGGAG
Found at i:1956447 original size:2 final size:2
Alignment explanation
Indices: 1956440--1956497 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
1956430 TGAAAGTGTA
1956440 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
1956482 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
1956498 CTTGTCACAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1958874 original size:22 final size:22
Alignment explanation
Indices: 1958827--1958874 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1958817 TAAGTCAAAT
* *
1958827 TTTAAATTTTTTTTTATGCTTT
1 TTTAAATTTTTTTTTATGATTA
1958849 TTTAAATTTATTTTTTAT-ATTA
1 TTTAAATTT-TTTTTTATGATTA
1958871 TTTA
1 TTTA
1958875 GATCACGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTAAATTTTTTTTTATGATTA
Found at i:1964888 original size:21 final size:20
Alignment explanation
Indices: 1964802--1964959 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1964792 AAATGACCAA
**
1964802 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1964821 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1964841 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1964861 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1964882 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1964903 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1964923 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1964944 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1964960 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1964988 original size:20 final size:20
Alignment explanation
Indices: 1964926--1965119 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
1964916 CGATTTTCCA
* ** *
1964926 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1964946 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1964966 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1964986 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1965006 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1965026 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1965046 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
1965066 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
1965086 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
1965107 AAATCGCAACGCG
1 AAATCGCAACGCG
1965120 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1965010 original size:60 final size:60
Alignment explanation
Indices: 1964926--1965119 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
1964916 CGATTTTCCA
* ** * *
1964926 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
1964986 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
1965046 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
1965107 AAATCGCAACGCG
1 AAATCGCAACGCG
1965120 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:1965540 original size:33 final size:33
Alignment explanation
Indices: 1965501--1965571 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
1965491 TTCACTTAGA
* *
1965501 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
1965534 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
1965567 TTTCA
1 TTTCA
1965572 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:1965695 original size:20 final size:20
Alignment explanation
Indices: 1965651--1965760 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
1965641 TGCAGAAGAG
*
1965651 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
1965672 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
1965692 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
1965713 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
1965727 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
1965746 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
1965761 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:1965708 original size:41 final size:38
Alignment explanation
Indices: 1965644--1965760 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
1965634 TTCAATTTGC
* *
1965644 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1965682 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
1965723 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1965756 AGAAT
1 AGAAT
1965761 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:1965730 original size:14 final size:14
Alignment explanation
Indices: 1965711--1965767 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1965701 GAGAAATGAA
1965711 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1965725 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1965744 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1965758 AATCGCAACG
1 AATCGCAACG
1965768 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1965743 original size:33 final size:33
Alignment explanation
Indices: 1965703--1965783 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
1965693 CGCAACGAGA
1965703 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1965736 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
1965769 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
1965784 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1965801 original size:19 final size:19
Alignment explanation
Indices: 1965779--1965876 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
1965769 GAAACCAAAA
*
1965779 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1965798 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1965812 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1965831 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
1965845 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
1965864 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1965877 CTCTCGTTGT
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1965820 original size:14 final size:14
Alignment explanation
Indices: 1965801--1965890 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
1965791 TTTCATTTCG
1965801 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1965815 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1965834 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1965848 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
1965865 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
*
1965881 CGTTGTGATT
1 CGTTGCGATT
1965891 TTCATTTCAA
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
14 27 0.43
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1965826 original size:33 final size:33
Alignment explanation
Indices: 1965784--1965898 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
1965774 CAAAATCGCA
1965784 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1965817 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
1965850 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
1965883 TTGTGATTTTCATTTC
1 TTGCGATTTTCATTTC
1965899 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1967755 original size:93 final size:93
Alignment explanation
Indices: 1967596--1968069 Score: 921
Period size: 93 Copynumber: 5.1 Consensus size: 93
1967586 TAGATTGCTT
*
1967596 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1967661 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1967689 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1967754 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1967782 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1967847 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1967875 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1967940 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1967968 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1968033 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1968061 AGTAAATTT
1 AGTAAATTT
1968070 ATCCATTCAA
Statistics
Matches: 378, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 378 1.00
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1968153 original size:19 final size:19
Alignment explanation
Indices: 1968113--1968241 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1968103 TAGTTTACTT
* *
1968113 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1968133 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1968152 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1968171 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1968185 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
1968204 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
1968218 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1968237 TCGCA
1 TCGCA
1968242 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1968192 original size:33 final size:32
Alignment explanation
Indices: 1968149--1968241 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
1968139 CGCGAAACCA
**
1968149 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1968181 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1968214 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1968242 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1968239 original size:52 final size:52
Alignment explanation
Indices: 1968113--1968241 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
1968103 TAGTTTACTT
**
1968113 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
1968165 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
1968218 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
1968242 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:1968259 original size:19 final size:19
Alignment explanation
Indices: 1968237--1968371 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1968227 GAAACCAAAA
*
1968237 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1968256 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1968272 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1968289 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1968305 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1968322 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1968341 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1968361 TCGTGTTGCGA
1 TCGCGTTGCGA
1968372 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1968278 original size:14 final size:14
Alignment explanation
Indices: 1968259--1968315 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1968249 TTTCATTTCG
1968259 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1968273 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1968290 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1968306 CGTTGCGATT
1 CGTTGCGATT
1968316 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1968284 original size:33 final size:33
Alignment explanation
Indices: 1968242--1968334 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1968232 CAAAATCGCA
*
1968242 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1968275 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1968308 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1968335 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1970316 original size:14 final size:14
Alignment explanation
Indices: 1970297--1970332 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1970287 ATTGTTTAAT
1970297 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1970311 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1970325 TGATTTGT
1 TGATTTGT
1970333 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1970463 original size:19 final size:19
Alignment explanation
Indices: 1970439--1970536 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1970429 AAAATTGACT
1970439 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1970458 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1970477 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1970491 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1970510 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1970530 ATCGCAA
1 ATCGCAA
1970537 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1970568 original size:53 final size:53
Alignment explanation
Indices: 1970439--1970555 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
1970429 AAAATTGACT
1970439 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1970491 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1970544 ATCGCAATGCGA
1 ATCGCAATGCGA
1970556 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:1973104 original size:24 final size:24
Alignment explanation
Indices: 1973070--1973116 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1973060 CTGAAACATC
1973070 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1973094 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1973117 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1973827 original size:20 final size:20
Alignment explanation
Indices: 1973799--1974127 Score: 396
Period size: 20 Copynumber: 16.4 Consensus size: 20
1973789 AAATTTAAGT
* * * *
1973799 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1973819 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
1973839 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1973859 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1973879 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1973899 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1973919 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1973939 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1973959 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1973979 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1973999 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
1974019 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
1974039 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
1974059 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
1974079 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
1974099 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
1974119 GTTGCGATT
1 GTTGCGATT
1974128 ATGGAAAATC
Statistics
Matches: 273, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.02
20 263 0.96
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:1976227 original size:20 final size:20
Alignment explanation
Indices: 1976194--1976231 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1976184 ACTCTGTGAC
1976194 AAAATCATTATTTCGTGAAT
1 AAAATCATTATTTCGTGAAT
* *
1976214 AAAATTATTTTTTCGTGA
1 AAAATCATTATTTCGTGA
1976232 TTTAAAACGT
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:0.37, C:0.08, G:0.11, T:0.45
Consensus pattern (20 bp):
AAAATCATTATTTCGTGAAT
Found at i:1982497 original size:23 final size:22
Alignment explanation
Indices: 1982452--1982498 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1982442 TAATCGTGAG
*
1982452 TTTAGAAGATACGATTTTGGGC
1 TTTAGAAGATACGATTTTAGGC
*
1982474 TTTAGCAGATACGATTTTTAGGC
1 TTTAGAAGATACGA-TTTTAGGC
1982497 TT
1 TT
1982499 GTTTAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (22 bp):
TTTAGAAGATACGATTTTAGGC
Found at i:1985105 original size:17 final size:17
Alignment explanation
Indices: 1985083--1985125 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1985073 TTATGAGGTG
*
1985083 AAAATATTATTATTTTA
1 AAAATATTATTATTTAA
*
1985100 AAAATATAATTATTTAA
1 AAAATATTATTATTTAA
1985117 AATAATATT
1 AA-AATATT
1985126 TAATTTTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATATTATTATTTAA
Found at i:1988681 original size:22 final size:22
Alignment explanation
Indices: 1988656--1988712 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
1988646 GGGGTATCTA
*
1988656 TTCCCCTACAGGGGGGAATCAG
1 TTCCCCTTCAGGGGGGAATCAG
* *
1988678 TTCCCCTTCAAAGGGGGAATCGG
1 TTCCCCTTC-AGGGGGGAATCAG
1988701 TTCCCCTTCAGG
1 TTCCCCTTCAGG
1988713 AGGGTATCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 10 0.33
23 20 0.67
ACGTcount: A:0.19, C:0.30, G:0.28, T:0.23
Consensus pattern (22 bp):
TTCCCCTTCAGGGGGGAATCAG
Found at i:1988716 original size:24 final size:23
Alignment explanation
Indices: 1988667--1988710 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1988657 TCCCCTACAG
1988667 GGGGGAATCAGTTCCCCTTCAAA
1 GGGGGAATCAGTTCCCCTTCAAA
*
1988690 GGGGGAATCGGTTCCCCTTCA
1 GGGGGAATCAGTTCCCCTTCA
1988711 GGAGGGTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (23 bp):
GGGGGAATCAGTTCCCCTTCAAA
Found at i:1988726 original size:22 final size:21
Alignment explanation
Indices: 1988643--1988727 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 21
1988633 CCAGAACCCC
* * *
1988643 CAGGGGGTATCTATTCCCCTA
1 CAGGGGGAATCGATTCCCCTT
1988664 CAGGGGGGAATC-AGTTCCCCTT
1 CA-GGGGGAATCGA-TTCCCCTT
*
1988686 CAAAGGGGGAATCGGTTCCCCTT
1 C--AGGGGGAATCGATTCCCCTT
*
1988709 CAGGAGGGTATCGATTCCC
1 CAGG-GGGAATCGATTCCC
1988728 TCTGCACCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
21 6 0.11
22 28 0.53
23 18 0.34
24 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (21 bp):
CAGGGGGAATCGATTCCCCTT
Found at i:1994300 original size:20 final size:23
Alignment explanation
Indices: 1994250--1994307 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 23
1994240 GCATGGGTAG
1994250 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTTAAAGAA
1994274 TGCATCGATGCACTG-T-AA-AA
1 TGCATCGATGCACTGTTAAAGAA
*
1994294 TGTATCGATGCACT
1 TGCATCGATGCACT
1994308 TCAAGGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 15 0.45
21 2 0.06
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (23 bp):
TGCATCGATGCACTGTTAAAGAA
Found at i:1997948 original size:13 final size:14
Alignment explanation
Indices: 1997931--1997967 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
1997921 AATATGACAC
1997931 AAAAATATTAAGA-T
1 AAAAA-ATTAAGATT
1997945 AAAAAATT-AGATT
1 AAAAAATTAAGATT
1997958 AAAAAATTAA
1 AAAAAATTAA
1997968 ACAGTAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 3 0.14
13 12 0.57
14 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AAAAAATTAAGATT
Found at i:1998814 original size:212 final size:213
Alignment explanation
Indices: 1998429--1998991 Score: 853
Period size: 212 Copynumber: 2.6 Consensus size: 213
1998419 TTAAATAATT
* * *
1998429 TTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGATCAGGTCGGGTGAAACT
1 TTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGATCGGGTCGGATGAAACT
* * *
1998494 TTATTTTAGTCGGGTCGGATCGGGTTTTTTTAAGTATGATATTCGGGTCGGGTCGGGTCGAGTTC
66 TTATTTT-GT----TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGT----TCGGGTTC
*
1998559 GGGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAATATATATAATTTGGGTCGGGTCAGATTAA
122 GGGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAATATATATAATTCGGGTCGGGTCAGATTAA
1998624 GTCACTGTTTTTATTAAATAAAAATAA
187 GTCACTGTTTTTATTAAATAAAAATAA
*
1998651 TTTTTTATTATTTCGGGTCGGGTC-GATTTCTAATTCATATATTCGGTTCGGGTCGGATGAAACT
1 TTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGATCGGGTCGGATGAAACT
1998715 TTATTTTGTTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTCGGGTTTAGG
66 TTATTTTGTTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTCGGGTTTAGG
* * *
1998780 GTGAAAAAGACCGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTT
131 GTGAAAAAAACCAGACCGACCCGAAAATATATATAATTCGGGTCGGGTCAGATTAAGTCACTGTT
1998845 TTTATTAAATAAAAATAA
196 TTTATTAAATAAAAATAA
* *
1998863 TTTTTTATTATTTCGGGTCGGGTCGGATTTTTAATTCATATATTCGGGTCGGGTCGGATGAAACT
1 TTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGATCGGGTCGGATGAAACT
* *
1998928 TTATTTTGTTTGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG-TCGGG-TCGGGTT
66 TTATTTTGTTCGGGTCGGGT----TTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTCGGGTT
1998991 T
127 T
1998992 TTTTAAGTGT
Statistics
Matches: 321, Mismatches: 15, Indels: 17
0.91 0.04 0.05
Matches are distributed among these distances:
212 119 0.37
213 57 0.18
215 8 0.02
216 42 0.13
217 26 0.08
220 2 0.01
221 43 0.13
222 24 0.07
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (213 bp):
TTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGATCGGGTCGGATGAAACT
TTATTTTGTTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTCGGGTTTAGG
GTGAAAAAAACCAGACCGACCCGAAAATATATATAATTCGGGTCGGGTCAGATTAAGTCACTGTT
TTTATTAAATAAAAATAA
Found at i:1998988 original size:37 final size:38
Alignment explanation
Indices: 1998941--1999014 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
1998931 TTTTGTTTGG
1998941 GTCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGA
1 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGA
*
1998978 GTCGGGTCGGGTTTTTTTAAGTGTGATATTTGGGTCG
1 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCG
1999015 GGTCAGGTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 11 0.31
38 24 0.69
ACGTcount: A:0.12, C:0.09, G:0.38, T:0.41
Consensus pattern (38 bp):
GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGA
Found at i:1999066 original size:254 final size:239
Alignment explanation
Indices: 1998723--1999315 Score: 864
Period size: 254 Copynumber: 2.4 Consensus size: 239
1998713 CTTTATTTTG
*
1998723 TTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTCGGGTTTAGGGTGAAAAA
1 TTCGGGTCGGGTTTTTTTAAGTGTGATATTTGGGTCGGG-TCGGGTTCGGGTTTAGGGTGAAAAA
* *
1998788 GACCGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAA
65 AACCGGACCGACCCGAAAATATATATAATTCGGGTCGAGTCGGATTAAGTCACTGTTTTTATTAA
*
1998853 ATAAAAATAATTTT-TTATTATTTCGGGTCGGGTCGGATTTTTAATTCATATATTCGGGTCGGGT
130 ATAAAAAT-ATTTTATTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGT
*
1998917 CGGATGAAACTTTATTTTGTTTGGGTCGGGTCGGGTTTTTTAAGTGTGATA
194 CGAATGAAACTTTATTTTG--T---TCGGGTCGGGTTTTTTAAGTGTGATA
* *
1998968 TTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTTGGGTCGGGTCAGGTTCGAGTTTAG
1 ------T----TCGGGTCGGGTTTTTTTAAGTGTGATATTTGGGTCGGGTCGGGTTCGGGTTTAG
*
1999033 GGTGAAAAAAACCGGACCGATCCGAAAATATATATAATTCGGGTCGAGTCGGATTAAGTCACTGT
56 GGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCGGGTCGAGTCGGATTAAGTCACTGT
*
1999098 TTTTATTAAATAAAAATATTTTATTATTATTTTGGGTCGGGTCGGATTTCTAATTCATATATTCG
121 TTTTATTAAATAAAAATATTTTATTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCG
1999163 GGTCGGGTCGAATGAAACTTTATTTTGTTCGGGTCGGGTTTTTTAAGTGTGATA
186 GGTCGGGTCGAATGAAACTTTATTTTGTTCGGGTCGGGTTTTTTAAGTGTGATA
*
1999217 TTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGGTCGGGTCGGGTTCGGGTTTAGGGTGA
1 TTCGGGTCGGGTTTTTTTAAGTGTGATATT----T-GGGTCGGGTCGGGTTCGGGTTTAGGGTGA
* * *
1999282 AAAAAACCGGACTGACCCAAAAAAATATATAATT
61 AAAAAACCGGACCGACCCGAAAATATATATAATT
1999316 TTACCTTATA
Statistics
Matches: 316, Mismatches: 16, Indels: 27
0.88 0.04 0.08
Matches are distributed among these distances:
239 29 0.09
243 2 0.01
244 56 0.18
249 26 0.08
251 1 0.00
252 1 0.00
253 5 0.02
254 159 0.50
255 37 0.12
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.37
Consensus pattern (239 bp):
TTCGGGTCGGGTTTTTTTAAGTGTGATATTTGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAA
ACCGGACCGACCCGAAAATATATATAATTCGGGTCGAGTCGGATTAAGTCACTGTTTTTATTAAA
TAAAAATATTTTATTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCG
AATGAAACTTTATTTTGTTCGGGTCGGGTTTTTTAAGTGTGATA
Done.