Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 7 of 144
Found at i:1828967 original size:14 final size:15
Alignment explanation
Indices: 1828948--1828980 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1828938 TAAGTAAAAA
1828948 ATAATATA-AAATTT
1 ATAATATATAAATTT
*
1828962 ATAATATATAATTTT
1 ATAATATATAAATTT
1828977 ATAA
1 ATAA
1828981 AATTGTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATATATAAATTT
Found at i:1834399 original size:6 final size:6
Alignment explanation
Indices: 1834390--1834490 Score: 86
Period size: 6 Copynumber: 17.0 Consensus size: 6
1834380 ATTTTTAATG
* * * **
1834390 TTTAAA TTTAGTA TTTTAA TTTTAA TTTAAA TTTAAA TTT-AA GGTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
1834438 TTTAAA TAATTAAA TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA --TAAA
1 TTTAAA T--TTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA
1834485 TTTAAA
1 TTTAAA
1834491 ATCAATTTAA
Statistics
Matches: 78, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
4 5 0.06
5 6 0.08
6 56 0.72
7 5 0.06
8 6 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:1834424 original size:11 final size:11
Alignment explanation
Indices: 1834404--1834500 Score: 65
Period size: 11 Copynumber: 8.9 Consensus size: 11
1834394 AATTTAGTAT
*
1834404 TTTAATTTTAA
1 TTTAATTTAAA
1834415 TTTAAATTTAAA
1 TTT-AATTTAAA
**
1834427 TTTAAGGTAAA
1 TTTAATTTAAA
*
1834438 TTTAA-AT-AA
1 TTTAATTTAAA
*
1834447 TTAAATTTAAA
1 TTTAATTTAAA
**
1834458 TTTAAGATAAA
1 TTTAATTTAAA
1834469 TTTAAATTTAAA
1 TTT-AATTTAAA
*
1834481 -TAAATTTAAA
1 TTTAATTTAAA
* *
1834491 ATCAATTTAA
1 TTTAATTTAA
1834501 CTCTAAATTA
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
9 6 0.09
10 10 0.15
11 36 0.53
12 16 0.24
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:1834430 original size:17 final size:16
Alignment explanation
Indices: 1834404--1834490 Score: 97
Period size: 17 Copynumber: 5.4 Consensus size: 16
1834394 AATTTAGTAT
*
1834404 TTTAATTTTAATTTAAA
1 TTTAAATTTAA-TTAAA
*
1834421 TTTAAATTTAAGGTAAA
1 TTTAAATTTAA-TTAAA
1834438 TTTAAA--TAATTAAA
1 TTTAAATTTAATTAAA
*
1834452 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-TTAAA
*
1834469 TTTAAATTTAAATAAA
1 TTTAAATTTAATTAAA
1834485 TTTAAA
1 TTTAAA
1834491 ATCAATTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
14 10 0.16
15 3 0.05
16 14 0.23
17 35 0.56
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TTTAAATTTAATTAAA
Found at i:1834451 original size:31 final size:32
Alignment explanation
Indices: 1834411--1834490 Score: 117
Period size: 31 Copynumber: 2.5 Consensus size: 32
1834401 TATTTTAATT
*
1834411 TTAATTTAAATTTAAATTTAAGGTAAATTTAAA
1 TTAA-TTAAATTTAAATTTAAGATAAATTTAAA
1834444 -TAATTAAATTTAAATTTAAGATAAATTTAAA
1 TTAATTAAATTTAAATTTAAGATAAATTTAAA
*
1834475 TTTAAATAAATTTAAA
1 -TTAATTAAATTTAAA
1834491 ATCAATTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
31 27 0.63
32 3 0.07
33 13 0.30
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (32 bp):
TTAATTAAATTTAAATTTAAGATAAATTTAAA
Found at i:1834492 original size:17 final size:17
Alignment explanation
Indices: 1834417--1834490 Score: 102
Period size: 17 Copynumber: 4.6 Consensus size: 17
1834407 AATTTTAATT
*
1834417 TAAATTTAAATTTAAGG
1 TAAATTTAAATTTAAGA
*
1834434 TAAATTTAAA--TAA-T
1 TAAATTTAAATTTAAGA
1834448 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAGA
1834465 TAAATTTAAATTTAA-A
1 TAAATTTAAATTTAAGA
1834481 TAAATTTAAA
1 TAAATTTAAA
1834491 ATCAATTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 10 0.19
15 3 0.06
16 14 0.27
17 25 0.48
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTAAGA
Found at i:1834507 original size:27 final size:27
Alignment explanation
Indices: 1834454--1834508 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1834444 TAATTAAATT
* *
1834454 TAAATTTAAGATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
* *
1834481 TAAATTTAAAATCAATTTAACTCTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
1834508 T
1 T
1834509 TAAAACAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCTAAA
Found at i:1837741 original size:18 final size:19
Alignment explanation
Indices: 1837704--1837742 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1837694 TTTTTTTGTT
1837704 TTTATTTCATCTTCTATTA
1 TTTATTTCATCTTCTATTA
* *
1837723 TTTATTTTAT-TTTTATTA
1 TTTATTTCATCTTCTATTA
1837741 TT
1 TT
1837743 GTTATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTCATCTTCTATTA
Found at i:1839662 original size:42 final size:42
Alignment explanation
Indices: 1839615--1839698 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
1839605 AAAAGGAATT
**
1839615 GTTTATGATTGTTATTT-AAGAATAAAATTATATTTGGGTTTA
1 GTTTATGAACGTT-TTTGAAGAATAAAATTATATTTGGGTTTA
*
1839657 GTTTATGAACGTTTTTGAAGAATGAAATTATATTTGGGTTTA
1 GTTTATGAACGTTTTTGAAGAATAAAATTATATTTGGGTTTA
1839699 AAAATATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.08
42 35 0.92
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (42 bp):
GTTTATGAACGTTTTTGAAGAATAAAATTATATTTGGGTTTA
Found at i:1842256 original size:49 final size:49
Alignment explanation
Indices: 1842090--1842465 Score: 223
Period size: 49 Copynumber: 7.6 Consensus size: 49
1842080 ACAAGTTTGA
* *** *
1842090 AAGGG-AAGATTGAGGCCGCAACGGCGAATCTAATACCATGAAGATACG
1 AAGGGAAAGGTTGAGGCCGCAACGGCGAATCCGGTACCATGAAGATATG
* * * ** * * * *
1842138 GAGAGAAAGGTTGAGACTACAACGGCAAACCCGGTACCTTAGAAGACATG
1 AAGGGAAAGGTTGAGGCCGCAACGGCGAATCCGGTACCAT-GAAGATATG
* * ** * * *
1842188 ATGGGAAAGATCAAAGCCGCAACGACGAATCCAGTACCATGAAGATATG
1 AAGGGAAAGGTTGAGGCCGCAACGGCGAATCCGGTACCATGAAGATATG
* * *
1842237 AAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCTTAGAAGA-AGTG
1 AAGGGAAAGGTTGAGGCCGCAACGGCGAATCCGGTACCAT-GAAGATA-TG
* * * * * *
1842287 ATGGG-AAGGACTGAGGTCGCAATGGCAAATCTGGTACCATGAAGATATG
1 AAGGGAAAGG-TTGAGGCCGCAACGGCGAATCCGGTACCATGAAGATATG
*
1842336 AAGGGGAAAGGTTGAGGCCGCAACGGCGAA-CCTGGTATCC-TAGAA-ACATG
1 AA-GGGAAAGGTTGAGGCCGCAACGGCGAATCC-GGTA-CCAT-GAAGATATG
* * * * * *
1842386 ATGGG-AAGGATCGAGGCCGCAACGACGAA-CCTTGTACCCTAGAA-ACATG
1 AAGGGAAAGG-TTGAGGCCGCAACGGCGAATCC-GGTACCAT-GAAGATATG
* *
1842435 ATGGG-AAGGATTGAGGTCGCAACGGCGAATC
1 AAGGGAAAGG-TTGAGGCCGCAACGGCGAATC
1842466 TAGAATCATG
Statistics
Matches: 253, Mismatches: 61, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
48 9 0.04
49 140 0.55
50 95 0.38
51 9 0.04
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (49 bp):
AAGGGAAAGGTTGAGGCCGCAACGGCGAATCCGGTACCATGAAGATATG
Found at i:1842268 original size:99 final size:99
Alignment explanation
Indices: 1842092--1842463 Score: 398
Period size: 99 Copynumber: 3.8 Consensus size: 99
1842082 AAGTTTGAAA
* * * * * * * *
1842092 GGGAA-GATTGAGGCCGCAACGGCGAATCTAATACCATGAAGATACGGAGAGAAAGGTTGAGACT
1 GGGAAGGATCGAGGCCGCAACGACGAATCTAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCC
* *
1842156 ACAACGGCAAACCCGGTACCTTAGAAGACATGAT
66 GCAACGGCGAACCCGGTACCTTAGAAGACATGAT
* * * *
1842190 GGGAAAGATCAAAGCCGCAACGACGAATCCAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCC
1 GGGAAGGATCGAGGCCGCAACGACGAATCTAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCC
*
1842255 GCAACGACGAACCCGGTACCTTAGAAGA-AGTGAT
66 GCAACGGCGAACCCGGTACCTTAGAAGACA-TGAT
* * * * *
1842289 GGGAAGGA-CTGAGGTCGCAATGGCAAATCTGGTACCATGAAGATATGAAGGGGAAAGGTTGAGG
1 GGGAAGGATC-GAGGCCGCAACGACGAATCTAGTACCATGAAGATATGAA-GGGAAAGGTTGAGG
*
1842353 CCGCAACGGCGAACCTGGTATCC-TAGAA-ACATGAT
64 CCGCAACGGCGAACCCGGTA-CCTTAGAAGACATGAT
* * * * *
1842388 GGGAAGGATCGAGGCCGCAACGACGAACCTTGTACCCTAGAA-ACATGATGGG-AAGGATTGAGG
1 GGGAAGGATCGAGGCCGCAACGACGAATCTAGTACCAT-GAAGATATGAAGGGAAAGG-TTGAGG
*
1842451 TCGCAACGGCGAA
64 CCGCAACGGCGAA
1842464 TCTAGAATCA
Statistics
Matches: 230, Mismatches: 35, Indels: 18
0.81 0.12 0.06
Matches are distributed among these distances:
97 4 0.02
98 28 0.12
99 154 0.67
100 42 0.18
101 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (99 bp):
GGGAAGGATCGAGGCCGCAACGACGAATCTAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCC
GCAACGGCGAACCCGGTACCTTAGAAGACATGAT
Found at i:1843319 original size:2 final size:2
Alignment explanation
Indices: 1843312--1843391 Score: 124
Period size: 2 Copynumber: 40.0 Consensus size: 2
1843302 TATTTTGCTA
1843312 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
* * * *
1843354 AT AT AT AT AT AT AT TT GT TT TT 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
1843392 TTGTTTTTAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (2 bp):
AT
Found at i:1843392 original size:24 final size:24
Alignment explanation
Indices: 1843327--1843401 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
1843317 TATATATATA
* * * *
1843327 TATATATATATATATATATATATA
1 TATATATATATATATATTTGTTTT
1843351 TATATATATATATATATTTGTTTT
1 TATATATATATATATATTTGTTTT
1843375 TATATATATATATATATTTGTTTT
1 TATATATATATATATATTTGTTTT
1843399 TAT
1 TAT
1843402 TTCATCTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (24 bp):
TATATATATATATATATTTGTTTT
Found at i:1843431 original size:15 final size:15
Alignment explanation
Indices: 1843395--1843448 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
1843385 TATATATTTG
*
1843395 TTTTTATTTCATCTT-
1 TTTTTATTT-ATTTTA
*
1843410 TTATTATTTATTTTA
1 TTTTTATTTATTTTA
1843425 TTTTTA-TTATTGTTA
1 TTTTTATTTATT-TTA
1843440 TTTTTATTT
1 TTTTTATTT
1843449 CTTTCGAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 9 0.27
15 22 0.67
16 2 0.06
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:1843431 original size:18 final size:19
Alignment explanation
Indices: 1843397--1843435 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1843387 TATATTTGTT
1843397 TTTATTTCATCTTTTATTA
1 TTTATTTCATCTTTTATTA
*
1843416 TTTATTTTAT-TTTTATTA
1 TTTATTTCATCTTTTATTA
1843434 TT
1 TT
1843436 GTTATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTTCATCTTTTATTA
Found at i:1852092 original size:89 final size:89
Alignment explanation
Indices: 1851933--1852103 Score: 218
Period size: 89 Copynumber: 1.9 Consensus size: 89
1851923 TTTTAAATAA
* * **
1851933 AAATATAAAATGACAAAAATATCCTCGTAATAATGACTATTACTTTATAAAAAAATTGGTTTTTC
1 AAATATAAAATGACAAAAATATCCTCATAATAAAGACTATTACTTTATAAAAAAATTAATTTTTC
* *
1851998 TATAATTTTTCAACTAAGTTACAT
66 AATAATTTCTCAACTAAGTTACAT
* * * ** *
1852022 AAATATAAAATGACAAAAATATCTTTATAGTAAAGTTTATTACTTTATAAAAGAATTAAATTTTT
1 AAATATAAAATGACAAAAATATCCTCATAATAAAGACTATTACTTTATAAAAAAATT-AATTTTT
1852087 -AATAATTTCTCAACTAA
65 CAATAATTTCTCAACTAA
1852104 ATTGGAACTC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
89 64 0.93
90 5 0.07
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (89 bp):
AAATATAAAATGACAAAAATATCCTCATAATAAAGACTATTACTTTATAAAAAAATTAATTTTTC
AATAATTTCTCAACTAAGTTACAT
Found at i:1858679 original size:30 final size:30
Alignment explanation
Indices: 1858645--1858802 Score: 115
Period size: 29 Copynumber: 5.3 Consensus size: 30
1858635 TTAAAATCCA
* * *
1858645 ATTTTAACCCTCAATCTTCTCCAAAATTAT
1 ATTTTAACCCCCAAACTTCTCCAAAATTAC
* *** * * *
1858675 ATTTTGACCTTGAAA-TTATCTAAAATCAC
1 ATTTTAACCCCCAAACTTCTCCAAAATTAC
*
1858704 ATTTTAACCCCCAAAACTTCTCAAAAATTAC
1 ATTTTAACCCCC-AAACTTCTCCAAAATTAC
* *
1858735 ATTTTGACCCCCTAAACTTC-CCAAAATCAC
1 ATTTTAACCCCC-AAACTTCTCCAAAATTAC
* * * *
1858765 ATTTTGA-CCCCAAAATTTTCCAAAATTAT
1 ATTTTAACCCCCAAACTTCTCCAAAATTAC
*
1858794 GTTTTAACC
1 ATTTTAACC
1858803 TCGAATTCCT
Statistics
Matches: 99, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
28 5 0.05
29 35 0.35
30 30 0.30
31 29 0.29
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (30 bp):
ATTTTAACCCCCAAACTTCTCCAAAATTAC
Found at i:1858731 original size:31 final size:30
Alignment explanation
Indices: 1858696--1858789 Score: 118
Period size: 31 Copynumber: 3.1 Consensus size: 30
1858686 GAAATTATCT
*
1858696 AAAATCACATTTTAACCCCCAAAACTTCTCA
1 AAAATCACATTTTGACCCCCAAAACTTC-CA
* * *
1858727 AAAATTACATTTTGACCCCCTAAACTTCCC
1 AAAATCACATTTTGACCCCCAAAACTTCCA
*
1858757 AAAATCACATTTTGA-CCCCAAAATTTTCCA
1 AAAATCACATTTTGACCCCCAAAA-CTTCCA
1858787 AAA
1 AAA
1858790 TTATGTTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 7 0.13
30 22 0.41
31 25 0.46
ACGTcount: A:0.40, C:0.30, G:0.02, T:0.28
Consensus pattern (30 bp):
AAAATCACATTTTGACCCCCAAAACTTCCA
Found at i:1860335 original size:13 final size:13
Alignment explanation
Indices: 1860317--1860343 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1860307 GGACAACATG
1860317 GTTGTGCATATGT
1 GTTGTGCATATGT
1860330 GTTGTGCATATGT
1 GTTGTGCATATGT
1860343 G
1 G
1860344 GTCAGAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.33, T:0.44
Consensus pattern (13 bp):
GTTGTGCATATGT
Found at i:1862476 original size:15 final size:14
Alignment explanation
Indices: 1862455--1862493 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
1862445 TCTTTTGCAT
1862455 ACATGCATTCATAA
1 ACATGCATTCATAA
*
1862469 ACATTGCATTTCATCA
1 ACA-TGCA-TTCATAA
1862485 ACATGCATT
1 ACATGCATT
1862494 GAAGAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 5 0.23
15 8 0.36
16 9 0.41
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (14 bp):
ACATGCATTCATAA
Found at i:1862487 original size:16 final size:15
Alignment explanation
Indices: 1862455--1862493 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1862445 TCTTTTGCAT
1862455 ACATGCA-TTCATAA
1 ACATGCATTTCATAA
*
1862469 ACATTGCATTTCATCA
1 ACA-TGCATTTCATAA
1862485 ACATGCATT
1 ACATGCATT
1862494 GAAGAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 10 0.45
16 9 0.41
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (15 bp):
ACATGCATTTCATAA
Found at i:1866245 original size:24 final size:24
Alignment explanation
Indices: 1866183--1866236 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
1866173 CTCTGTCCGA
1866183 GCTCGTAAGAGCTAATCATTCTGG
1 GCTCGTAAGAGCTAATCATTCTGG
*
1866207 GCTCGTAAGAGCTAATCATTTTGG
1 GCTCGTAAGAGCTAATCATTCTGG
1866231 GCTCGT
1 GCTCGT
1866237 GTTGGCTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (24 bp):
GCTCGTAAGAGCTAATCATTCTGG
Found at i:1873670 original size:78 final size:77
Alignment explanation
Indices: 1873590--1873872 Score: 350
Period size: 78 Copynumber: 3.6 Consensus size: 77
1873580 CATAACCGTT
* * * * * * *
1873590 CGATCTCTTACCTCGAGCCTAGGGCAGATCACTATTAGTCAATCTCTAACCTCGAGCCTAGGGCA
1 CGATCTCTTACCCCGAGCCT-GGACAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCA
* *
1873655 GATTGTAGCTATT
65 GATTGCAGCTATC
* * *
1873668 CGATCTCTTACCCCGAGCCTGGATAGATCACCATCAACCAATCTCTTACCCCGAGCCTAAGGCAG
1 CGATCTCTTACCCCGAGCCTGGACAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
1873733 ATTGCAGCTATC
66 ATTGCAGCTATC
* *
1873745 CGATCTCTTACCCCGAGCCTGAGACAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCA
1 CGATCTCTTACCCCGAGCCTG-GACAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCA
* *
1873810 GATTACAGCCATC
65 GATTGCAGCTATC
** * * *
1873823 CGATCTCTTACCCCGAGTTTGGGGCAGGTCACCATCAACCAATCTCTTAC
1 CGATCTCTTACCCCGAGCCT-GGACAGATCACCATCAGCCAATCTCTTAC
1873873 TCTGAGCCAG
Statistics
Matches: 179, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
77 67 0.37
78 111 0.62
79 1 0.01
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (77 bp):
CGATCTCTTACCCCGAGCCTGGACAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
ATTGCAGCTATC
Found at i:1873835 original size:155 final size:156
Alignment explanation
Indices: 1873590--1873872 Score: 381
Period size: 155 Copynumber: 1.8 Consensus size: 156
1873580 CATAACCGTT
* * * * * *
1873590 CGATCTCTTACCTCGAGCCTAGGGCAGATCACTATTAGTCAATCTCTAACCTCGAGCCTAGGGCA
1 CGATCTCTTACCCCGAGCCTAGGACAGATCACCATCAGCCAATCTCTAACCCCGAGCCTAGGGCA
** * * *
1873655 GATTGTAGCTATTCGATCTCTTACCCCGAGCCT-GGATAGATCACCATCAACCAATCTCTTACCC
66 GATTACAGCCATCCGATCTCTTACCCCGAGCCTGGGACAGATCACCATCAACCAATCTCTTACCC
1873719 CGAGCCTAAGGCAGATTGCAGCTATC
131 CGAGCCTAAGGCAGATTGCAGCTATC
* * *
1873745 CGATCTCTTACCCCGAGCCT-GAGACAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGC
1 CGATCTCTTACCCCGAGCCTAG-GACAGATCACCATCAGCCAATCTCTAACCCCGAGCCTAGGGC
** * *
1873809 AGATTACAGCCATCCGATCTCTTACCCCGAGTTTGGGGCAGGTCACCATCAACCAATCTCTTAC
65 AGATTACAGCCATCCGATCTCTTACCCCGAGCCTGGGACAGATCACCATCAACCAATCTCTTAC
1873873 TCTGAGCCAG
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
154 1 0.01
155 81 0.75
156 26 0.24
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (156 bp):
CGATCTCTTACCCCGAGCCTAGGACAGATCACCATCAGCCAATCTCTAACCCCGAGCCTAGGGCA
GATTACAGCCATCCGATCTCTTACCCCGAGCCTGGGACAGATCACCATCAACCAATCTCTTACCC
CGAGCCTAAGGCAGATTGCAGCTATC
Found at i:1873849 original size:39 final size:39
Alignment explanation
Indices: 1873551--1873839 Score: 169
Period size: 39 Copynumber: 7.4 Consensus size: 39
1873541 TTAAAGATTT
* * * * * * *
1873551 CGATCTCTTACCCCGATCTTGAGGCAGATCATAACCGTT
1 CGATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCATC
* * **
1873590 CGATCTCTTACCTCGAGCCT-AGGGCAGATCACTA-TTAGT-
1 CGATCTCTTACCCCGAGCCTGA-GGCAGATTAC-AGCCA-TC
* * * ** * *
1873629 CAATCTCTAACCTCGAGCCT-AGGGCAGATTGTAGCTATT
1 CGATCTCTTACCCCGAGCCTGA-GGCAGATTACAGCCATC
** * * *
1873668 CGATCTCTTACCCCGAGCCTG-GATAGATCACCA-TCAAC
1 CGATCTCTTACCCCGAGCCTGAGGCAGATTA-CAGCCATC
* * * *
1873706 CAATCTCTTACCCCGAGCCTAAGGCAGATTGCAGCTATC
1 CGATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCATC
* * * *
1873745 CGATCTCTTACCCCGAGCCTGAGACAGATCACCA-TCAGC
1 CGATCTCTTACCCCGAGCCTGAGGCAGATTA-CAGCCATC
* * *
1873784 CAATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATC
1 CGATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCATC
1873823 CGATCTCTTACCCCGAG
1 CGATCTCTTACCCCGAG
1873840 TTTGGGGCAG
Statistics
Matches: 189, Mismatches: 50, Indels: 22
0.72 0.19 0.08
Matches are distributed among these distances:
38 32 0.17
39 153 0.81
40 4 0.02
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (39 bp):
CGATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCATC
Found at i:1873868 original size:39 final size:39
Alignment explanation
Indices: 1873670--1873872 Score: 189
Period size: 39 Copynumber: 5.2 Consensus size: 39
1873660 TAGCTATTCG
**
1873670 ATCTCTTACCCCGAGCCTG-GATAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAACCA
* * * *
1873708 ATCTCTTACCCCGAGCCTAAGGCAGATTGCAGC-T-ATCCG
1 ATCTCTTACCCCGAGCCTGAGGCAGA-T-CACCATCAACCA
* *
1873747 ATCTCTTACCCCGAGCCTGAGACAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAACCA
* * * * * *
1873786 ATCTCTTACCCCGAGCTTGGGGCAGATTA-CAGCCATCCG
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCA-TCAACCA
** * *
1873825 ATCTCTTACCCCGAGTTTGGGGCAGGTCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAACCA
1873864 ATCTCTTAC
1 ATCTCTTAC
1873873 TCTGAGCCAG
Statistics
Matches: 134, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
37 3 0.02
38 22 0.16
39 102 0.76
40 4 0.03
41 3 0.02
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.23
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAACCA
Found at i:1873901 original size:78 final size:77
Alignment explanation
Indices: 1873590--1873910 Score: 283
Period size: 78 Copynumber: 4.1 Consensus size: 77
1873580 CATAACCGTT
* * * ** * *
1873590 CGATCTCTTACCTCGAGCCTAGGG-CAGATCACTATTAGTCAATCTCTAACCTCGAGCCTA-GGG
1 CGATCTCTTACCCCGAGCCT-GGGACAGATCACCATCAACCAATCTCTTACCCCGAGCC-AGGGG
* * *
1873653 CAGATTGTAGCTATT
64 CAGATTG-AACCATC
* *
1873668 CGATCTCTTACCCCGAGCCT-GGATAGATCACCATCAACCAATCTCTTACCCCGAGCCTA-AGGC
1 CGATCTCTTACCCCGAGCCTGGGACAGATCACCATCAACCAATCTCTTACCCCGAGCC-AGGGGC
* *
1873731 AGATTGCAGCTATC
65 AGATTG-AACCATC
* * **
1873745 CGATCTCTTACCCCGAGCCTGAGACAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCA
1 CGATCTCTTACCCCGAGCCTGGGACAGATCACCATCAACCAATCTCTTACCCCGAGCCAGGGGCA
1873810 GATT-ACAGCCATC
66 GATTGA-A-CCATC
** * * * * *
1873823 CGATCTCTTACCCCGAGTTTGGGGCAGGTCACCATCAACCAATCTCTTACTCTGAGCCAGGGGAA
1 CGATCTCTTACCCCGAGCCTGGGACAGATCACCATCAACCAATCTCTTACCCCGAGCCAGGGGCA
*
1873888 GATTGTAATCATC
66 GATTG-AACCATC
* *
1873901 CAATATCTTA
1 CGATCTCTTA
1873911 AAAAATCTTT
Statistics
Matches: 203, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
76 3 0.01
77 64 0.32
78 134 0.66
79 1 0.00
80 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (77 bp):
CGATCTCTTACCCCGAGCCTGGGACAGATCACCATCAACCAATCTCTTACCCCGAGCCAGGGGCA
GATTGAACCATC
Found at i:1876146 original size:30 final size:29
Alignment explanation
Indices: 1876111--1876317 Score: 166
Period size: 30 Copynumber: 7.0 Consensus size: 29
1876101 TTAAAAATCC
* *
1876111 CATTTTGACACTCAAACTTCTCTAAAATTA
1 CATTTTGAC-CCCAAACTTCTCCAAAATTA
* * * *
1876141 TATTTTAACCCCCAAACTTATCCAAAATCA
1 CATTTTGA-CCCCAAACTTCTCCAAAATTA
* * * *
1876171 CATTTTAACCTCAAAACTTCTCTAAAATTG
1 CATTTTGACC-CCAAACTTCTCCAAAATTA
* *
1876201 TATTTTTGACCCCTAAACTT-TCCAAAATCA
1 CA-TTTTGACCCC-AAACTTCTCCAAAATTA
*
1876231 CATTTTGACCCCAAACTTTTCCAAAATTA
1 CATTTTGACCCCAAACTTCTCCAAAATTA
* *
1876260 CATTTTTGACCCTAAACTT-TCCCAAAATCA
1 CA-TTTTGACCCCAAACTTCT-CCAAAATTA
* * * *
1876290 CATTTTAACCCTAAAATTTTCCAAAATT
1 CATTTTGACCCCAAACTTCTCCAAAATT
1876318 GTGTTTTGAT
Statistics
Matches: 144, Mismatches: 25, Indels: 17
0.77 0.13 0.09
Matches are distributed among these distances:
28 6 0.04
29 45 0.31
30 79 0.55
31 14 0.10
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.35
Consensus pattern (29 bp):
CATTTTGACCCCAAACTTCTCCAAAATTA
Found at i:1876197 original size:60 final size:59
Alignment explanation
Indices: 1876104--1876299 Score: 252
Period size: 60 Copynumber: 3.3 Consensus size: 59
1876094 ATTTTCTTTA
* * * *
1876104 AAAATCCCATTTTGACACTCAAACTTCTCTAAAATTATA-TTTTAACCCCCAAACTTATCC
1 AAAATCACATTTTAAC-CTCAAACTTCTCTAAAATTATATTTTTGACCCCTAAACTT-TCC
*
1876164 AAAATCACATTTTAACCTCAAAACTTCTCTAAAATTGTATTTTTGACCCCTAAACTTTCC
1 AAAATCACATTTTAACCTC-AAACTTCTCTAAAATTATATTTTTGACCCCTAAACTTTCC
* * * * *
1876224 AAAATCACATTTTGACCCCAAACTTTTCCAAAATTACATTTTTGA-CCCTAAACTTTCCC
1 AAAATCACATTTTAACCTCAAACTTCTCTAAAATTATATTTTTGACCCCTAAACTTT-CC
1876283 AAAATCACATTTTAACC
1 AAAATCACATTTTAACC
1876300 CTAAAATTTT
Statistics
Matches: 121, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
58 11 0.09
59 43 0.36
60 52 0.43
61 15 0.12
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (59 bp):
AAAATCACATTTTAACCTCAAACTTCTCTAAAATTATATTTTTGACCCCTAAACTTTCC
Found at i:1876266 original size:59 final size:59
Alignment explanation
Indices: 1876104--1876317 Score: 243
Period size: 59 Copynumber: 3.6 Consensus size: 59
1876094 ATTTTCTTTA
* * * * * *
1876104 AAAATCCCATTTTGACACTCAAACTTCTCTAAAATTATA-TTTTAACCCCCAAACTTATCC
1 AAAATCACATTTTAAC-CCCAAACTTCTCCAAAATTATATTTTTGACCCCTAAACTT-TCC
* * *
1876164 AAAATCACATTTTAACCTCAAAACTTCTCTAAAATTGTATTTTTGACCCCTAAACTTTCC
1 AAAATCACATTTTAACC-CCAAACTTCTCCAAAATTATATTTTTGACCCCTAAACTTTCC
* * *
1876224 AAAATCACATTTTGACCCCAAACTTTTCCAAAATTACATTTTTGA-CCCTAAACTTTCCC
1 AAAATCACATTTTAACCCCAAACTTCTCCAAAATTATATTTTTGACCCCTAAACTTT-CC
* * *
1876283 AAAATCACATTTTAACCCTAAAATTTTCCAAAATT
1 AAAATCACATTTTAACCCCAAACTTCTCCAAAATT
1876318 GTGTTTTGAT
Statistics
Matches: 135, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
58 11 0.08
59 58 0.43
60 51 0.38
61 15 0.11
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (59 bp):
AAAATCACATTTTAACCCCAAACTTCTCCAAAATTATATTTTTGACCCCTAAACTTTCC
Found at i:1882978 original size:22 final size:22
Alignment explanation
Indices: 1882953--1883016 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
1882943 AAAATCTTTT
1882953 TTATTTTATAAAATAAATTATA
1 TTATTTTATAAAATAAATTATA
1882975 TTATTTTA-AAAAT--ATTATTA
1 TTATTTTATAAAATAAATTA-TA
*
1882995 TTGTTTTATATAAA-AAATTATA
1 TTATTTTATA-AAATAAATTATA
1883017 ATTAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 4 0.11
20 9 0.25
21 6 0.17
22 13 0.36
23 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTATTTTATAAAATAAATTATA
Found at i:1885950 original size:15 final size:15
Alignment explanation
Indices: 1885930--1885962 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1885920 ATATATTATA
1885930 AAATA-TAAAAATATT
1 AAATATTAAAAAT-TT
1885945 AAATATTAAAAATTT
1 AAATATTAAAAATTT
1885960 AAA
1 AAA
1885963 ATTGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATATTAAAAATTT
Found at i:1885957 original size:9 final size:9
Alignment explanation
Indices: 1885917--1886069 Score: 56
Period size: 9 Copynumber: 17.1 Consensus size: 9
1885907 AAAATCAGAA
1885917 AAAATATATT
1 AAAA-ATATT
1885927 ATAAAATA-T
1 A-AAAATATT
1885936 AAAAATATT
1 AAAAATATT
1885945 --AAATATT
1 AAAAATATT
1885952 AAAAAT-TT
1 AAAAATATT
*
1885960 AAAATTGA-T
1 AAAAAT-ATT
*
1885969 AAAAACTTATG
1 AAAAA--TATT
*
1885980 AAAATTATT
1 AAAAATATT
1885989 AAAAATA--
1 AAAAATATT
* *
1885996 ATAAATCTT
1 AAAAATATT
**
1886005 GTAAATATT
1 AAAAATATT
1886014 GAAAAATA-T
1 -AAAAATATT
1886023 -AAAAT-TT
1 AAAAATATT
*
1886030 ATAAAATTAAT
1 A-AAAA-TATT
*
1886041 AAAACATGTT
1 AAAA-ATATT
*
1886051 TAAAATATT
1 AAAAATATT
*
1886060 TAAAATATT
1 AAAAATATT
1886069 A
1 A
1886070 TATAATTGTA
Statistics
Matches: 107, Mismatches: 18, Indels: 37
0.66 0.11 0.23
Matches are distributed among these distances:
7 18 0.17
8 13 0.12
9 46 0.43
10 19 0.18
11 11 0.10
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAAATATT
Found at i:1885964 original size:16 final size:16
Alignment explanation
Indices: 1885928--1885964 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1885918 AAATATATTA
1885928 TAAAATATAAAAATAT
1 TAAAATATAAAAATAT
1885944 T-AAATATTAAAAAT-T
1 TAAAATA-TAAAAATAT
1885959 TAAAAT
1 TAAAAT
1885965 TGATAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATATAAAAATAT
Found at i:1885991 original size:20 final size:17
Alignment explanation
Indices: 1885935--1885994 Score: 54
Period size: 20 Copynumber: 3.4 Consensus size: 17
1885925 TTATAAAATA
1885935 TAAAAATATT-AAA-TAT
1 TAAAAAT-TTAAAATTAT
1885951 TAAAAATTTAAAATTGA-
1 TAAAAATTTAAAATT-AT
1885968 TAAAAACTTATGAAAATTAT
1 TAAAAA-TT-T-AAAATTAT
1885988 TAAAAAT
1 TAAAAAT
1885995 AATAAATCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.05
16 10 0.27
17 7 0.19
18 3 0.08
19 3 0.08
20 12 0.32
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (17 bp):
TAAAAATTTAAAATTAT
Found at i:1886034 original size:25 final size:25
Alignment explanation
Indices: 1885925--1886039 Score: 69
Period size: 25 Copynumber: 4.5 Consensus size: 25
1885915 AAAAAATATA
* *
1885925 TTATAAA-ATATAAAAATATTAAATA
1 TTATAAATAT-TAAAAATAATAAATC
* * * *
1885950 TTAAAAAT-TTAAAATTGATAAAAAC
1 TTATAAATATTAAAAATAAT-AAATC
1885975 TTATGAAAATTATTAAAAATAATAAATC
1 TTAT--AAA-TATTAAAAATAATAAATC
*
1886003 TTGTAAATATTGAAAAAT-ATAAAAT-
1 TTATAAATATT-AAAAATAAT-AAATC
1886028 TTATAAA-ATTAA
1 TTATAAATATTAA
1886040 TAAAACATGT
Statistics
Matches: 70, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
23 2 0.03
24 10 0.14
25 25 0.36
26 13 0.19
27 3 0.04
28 8 0.11
29 9 0.13
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (25 bp):
TTATAAATATTAAAAATAATAAATC
Found at i:1886101 original size:20 final size:17
Alignment explanation
Indices: 1886078--1886122 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
1886068 TATATAATTG
*
1886078 TATAAAAATTCTTAAAAA
1 TATAAAAA-TCATAAAAA
1886096 CCTATAAAAATCATAAAAA
1 --TATAAAAATCATAAAAA
1886115 TATAAAAA
1 TATAAAAA
1886123 AAATTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (17 bp):
TATAAAAATCATAAAAA
Found at i:1886123 original size:19 final size:19
Alignment explanation
Indices: 1886101--1886171 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
1886091 AAAAACCTAT
1886101 AAAAATCATAAAAATATAAA
1 AAAAATCATAAAAATAT-AA
* *
1886121 AAAAATTATTAAAAT-TAA
1 AAAAATCATAAAAATATAA
* * *
1886139 TATAAACTTATAAAATTATAA
1 -A-AAAATCATAAAAATATAA
1886160 AAAAATCATAAA
1 AAAAATCATAAA
1886172 TAGCATTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
18 2 0.05
19 11 0.27
20 25 0.61
21 3 0.07
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAATCATAAAAATATAA
Found at i:1889533 original size:18 final size:18
Alignment explanation
Indices: 1889492--1889537 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1889482 GGCAGACGAG
*
1889492 AGGTCTCGGGCAGAGGAA
1 AGGTCTCGAGCAGAGGAA
*
1889510 ATGTCTCGAGCAGA-GAA
1 AGGTCTCGAGCAGAGGAA
1889527 AGGGTCTCGAG
1 A-GGTCTCGAG
1889538 AGCATACGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.28, C:0.17, G:0.39, T:0.15
Consensus pattern (18 bp):
AGGTCTCGAGCAGAGGAA
Found at i:1893509 original size:98 final size:98
Alignment explanation
Indices: 1893327--1893677 Score: 359
Period size: 98 Copynumber: 3.5 Consensus size: 98
1893317 AAACAGATTC
* * * *
1893327 CATTGATTCAT-AAGGGGTGTGATTGGGCCAAAGGTAAGTATAGTACCATTCAGTTCATTGCCAA
1 CATTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTACC--TC-GTTCATTG-AAA
**
1893391 TGTGGACTCCATTATTAATCCACCATTACAAGCATTT
62 TGTGGACTCCATTACGAATCCACCATTACAAGCATTT
*
1893428 CATTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGCAAGAATAGTACC-CGTTCATTGAATATGT
1 CATTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTACCTCGTTCATTGAA-ATGT
*
1893492 GGACTCCATTACGAATCCACCATAACAAGCATTT
65 GGACTCCATTACGAATCCACCATTACAAGCATTT
* * * * * *
1893526 CATTGATTCATTAA-GGG-GTGTTTGAGCAAAAGGTAATAATATTACCAATTGGTTTCATTATCA
1 CATTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTACC---TCG-TTCA-T-TGA
** *
1893589 AATGGTGGACTCCATTACGAATCCACCATTATGAGCACTT
60 AAT-GTGGACTCCATTACGAATCCACCATTACAAGCATTT
* * * * *
1893629 GATTTGATTCACAAAGGAGTGTGTTTGAGCCAAGGGTAAGAACAGTACC
1 CA-TTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTACC
1893678 ATCACACGCA
Statistics
Matches: 209, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
96 25 0.12
97 4 0.02
98 56 0.27
99 1 0.00
100 1 0.00
101 15 0.07
102 35 0.17
103 36 0.17
104 10 0.05
105 2 0.01
106 24 0.11
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (98 bp):
CATTGATTCATAAAGGGGTGTGTTTGAGCCAAAGGTAAGAATAGTACCTCGTTCATTGAAATGTG
GACTCCATTACGAATCCACCATTACAAGCATTT
Found at i:1895564 original size:21 final size:21
Alignment explanation
Indices: 1895540--1895580 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1895530 ACTTTTTCTC
1895540 AAGTTAAAAG-TCAAAACTATT
1 AAGTTAAAAGAT-AAAACTATT
1895561 AAGTTAAAAGATAAAACTAT
1 AAGTTAAAAGATAAAACTAT
1895581 GTCACTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (21 bp):
AAGTTAAAAGATAAAACTATT
Found at i:1896918 original size:50 final size:50
Alignment explanation
Indices: 1896843--1896971 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 50
1896833 CCATGTGTGC
* * *
1896843 CACACGAGCATGTGCTA-ACCCGTGTGTGGCTACTATTTTTTGATTTAAGG
1 CACACGGGCGTGTGCTAGA-CCGTGTGTGGCTACTATTTTCTGATTTAAGG
* *
1896893 CACACGGGCGTGTGCTAGACCGTGTGTGGCTATTATTTTCTGATTTGAGG
1 CACACGGGCGTGTGCTAGACCGTGTGTGGCTACTATTTTCTGATTTAAGG
** * *
1896943 CACATTGGTGTGTGCTAGACCTTGTGTGG
1 CACACGGGCGTGTGCTAGACCGTGTGTGG
1896972 AAAAATTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 68 0.99
51 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (50 bp):
CACACGGGCGTGTGCTAGACCGTGTGTGGCTACTATTTTCTGATTTAAGG
Found at i:1897660 original size:8 final size:7
Alignment explanation
Indices: 1897622--1897658 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
1897612 GATTCAATTG
1897622 AATAAAA
1 AATAAAA
* *
1897629 TATTAAA
1 AATAAAA
1897636 AATAAAA
1 AATAAAA
1897643 AATAAAA
1 AATAAAA
1897650 AATAAAA
1 AATAAAA
1897657 AA
1 AA
1897659 ATCGATTCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
AATAAAA
Found at i:1897943 original size:37 final size:37
Alignment explanation
Indices: 1897893--1897972 Score: 160
Period size: 37 Copynumber: 2.2 Consensus size: 37
1897883 TTTATAAAAT
1897893 ATTAAATTTCTGATAATTTTGCAACTTACCTAACTCA
1 ATTAAATTTCTGATAATTTTGCAACTTACCTAACTCA
1897930 ATTAAATTTCTGATAATTTTGCAACTTACCTAACTCA
1 ATTAAATTTCTGATAATTTTGCAACTTACCTAACTCA
1897967 ATTAAA
1 ATTAAA
1897973 AAGCTTTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (37 bp):
ATTAAATTTCTGATAATTTTGCAACTTACCTAACTCA
Found at i:1899773 original size:53 final size:54
Alignment explanation
Indices: 1899676--1899784 Score: 123
Period size: 53 Copynumber: 2.0 Consensus size: 54
1899666 CATCATAATA
* ** *
1899676 AAAAAATAAAATATACATTTAAGTATTTAATATTTCTATAAAAAA-ATACTTTT
1 AAAAAATAAAATATACATTTAAGTATATAATATTTAAATAAAAAATATACATTT
** * *
1899729 AAAAAATAAAATATTTATTTTAG-ATATAATATTATAAATTAAAAATATACATTT
1 AAAAAATAAAATATACATTTAAGTATATAATATT-TAAATAAAAAATATACATTT
1899783 AA
1 AA
1899785 GTAATGTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
52 9 0.20
53 28 0.61
54 9 0.20
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (54 bp):
AAAAAATAAAATATACATTTAAGTATATAATATTTAAATAAAAAATATACATTT
Found at i:1900650 original size:22 final size:23
Alignment explanation
Indices: 1900605--1900650 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1900595 TTTAATCCTT
* * *
1900605 TAAAATTTACATTTTTACTATCG
1 TAAAAATTACAATTTAACTATCG
1900628 TAAAAATTACAATTTAACT-TCG
1 TAAAAATTACAATTTAACTATCG
1900650 T
1 T
1900651 CCCCTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (23 bp):
TAAAAATTACAATTTAACTATCG
Found at i:1904513 original size:15 final size:15
Alignment explanation
Indices: 1904469--1904514 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
1904459 AAAGTCAAAT
1904469 AAATATTTAAACATA
1 AAATATTTAAACATA
1904484 AAAT-TTT---CA-A
1 AAATATTTAAACATA
1904494 AAATATTTAAACATA
1 AAATATTTAAACATA
1904509 AAATAT
1 AAATAT
1904515 ATGGATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
10 5 0.19
11 5 0.19
14 5 0.19
15 11 0.42
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATATTTAAACATA
Found at i:1909986 original size:7 final size:7
Alignment explanation
Indices: 1909974--1910002 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
1909964 AATTATATAA
1909974 TAATTAT
1 TAATTAT
1909981 TAATTAT
1 TAATTAT
1909988 TAATTAT
1 TAATTAT
1909995 TAATTAT
1 TAATTAT
1910002 T
1 T
1910003 GATAGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TAATTAT
Found at i:1914662 original size:18 final size:19
Alignment explanation
Indices: 1914639--1914675 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1914629 ATCCCTAGGC
1914639 ACACTT-TACATATACAAA
1 ACACTTATACATATACAAA
*
1914657 ACACTTATATATATACAAA
1 ACACTTATACATATACAAA
1914676 TTAATCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (19 bp):
ACACTTATACATATACAAA
Found at i:1915959 original size:32 final size:31
Alignment explanation
Indices: 1915913--1915983 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
1915903 TTATTATATC
* *
1915913 ATTATATTATATTATCTAAATATTCATGTATT
1 ATTATATTATATTATCTAAA-AATAATGTATT
* *
1915945 ATTATATTCA-ATTATTTAAAAATAATTTATT
1 ATTATATT-ATATTATCTAAAAATAATGTATT
1915976 ATTATATT
1 ATTATATT
1915984 TAATATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 16 0.47
32 17 0.50
33 1 0.03
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (31 bp):
ATTATATTATATTATCTAAAAATAATGTATT
Found at i:1915999 original size:47 final size:47
Alignment explanation
Indices: 1915958--1916047 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
1915948 ATATTCAATT
** *
1915958 ATTTAAAAATAATTTATTATTATATTT-AATATTTTATATATTATTAA
1 ATTTAAAAATAATTTATTAAAACATTTAAATATTTTATATATTATT-A
* *
1916005 ATTTATAAATAATTTATTAAAACATTTAAATATTTTAAATATT
1 ATTTAAAAATAATTTATTAAAACATTTAAATATTTTATATATT
1916048 TTCTAAAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 23 0.62
48 14 0.38
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (47 bp):
ATTTAAAAATAATTTATTAAAACATTTAAATATTTTATATATTATTA
Found at i:1916048 original size:29 final size:29
Alignment explanation
Indices: 1916001--1916057 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
1915991 TTATATATTA
1916001 TTAAATTTATAAATAATTTAT-TAAAACAT
1 TTAAATTTATAAATAATTT-TCTAAAACAT
*
1916030 TTAAATATTTTAAAT-ATTTTCTAAAACA
1 TTAAAT-TTATAAATAATTTTCTAAAACA
1916058 ATATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 1 0.04
29 17 0.68
30 7 0.28
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAAATTTATAAATAATTTTCTAAAACAT
Found at i:1921911 original size:7 final size:7
Alignment explanation
Indices: 1921899--1921931 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
1921889 GTGCAATGTC
*
1921899 TTTGAGA
1 TTTGAGG
1921906 TTTGAGG
1 TTTGAGG
1921913 TTTGAGG
1 TTTGAGG
1921920 TTTGAGG
1 TTTGAGG
1921927 TTTGA
1 TTTGA
1921932 AGTTATCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
TTTGAGG
Found at i:1925570 original size:78 final size:80
Alignment explanation
Indices: 1925454--1925640 Score: 283
Period size: 78 Copynumber: 2.4 Consensus size: 80
1925444 GGCACACATC
*
1925454 GCGGTTTAATCCGCTAGGCATTGGGTGCCAGGATTTGACGGACACTGTTGATTAATCCAACTAGA
1 GCGGTTTAATCCGCTAGGCACTGGGTGCCAGGATTTGACGGACACTGTTGATTAATCCAACTAGA
1925519 GCTGGC-TCAC-GATT
66 GCTGGCTTCACAG-TT
* * *
1925533 GCGGTTTAAT-CGCTAGGCACTGGGTGCTAGGATTTGACGGACATTGTTGGTTAATCCAACTAGA
1 GCGGTTTAATCCGCTAGGCACTGGGTGCCAGGATTTGACGGACACTGTTGATTAATCCAACTAGA
*
1925597 GTTGGCTTCACAGTT
66 GCTGGCTTCACAGTT
*
1925612 GCGGTTT-ATCCACTAGGCACTGGGTGCCA
1 GCGGTTTAATCCGCTAGGCACTGGGTGCCA
1925641 TGACCGTCGG
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
78 57 0.58
79 40 0.41
80 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (80 bp):
GCGGTTTAATCCGCTAGGCACTGGGTGCCAGGATTTGACGGACACTGTTGATTAATCCAACTAGA
GCTGGCTTCACAGTT
Found at i:1926408 original size:15 final size:14
Alignment explanation
Indices: 1926384--1926414 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1926374 ATCATTATTA
1926384 TATAATAAATTAAT
1 TATAATAAATTAAT
1926398 TATAATAAAATTAAT
1 TATAAT-AAATTAAT
1926413 TA
1 TA
1926415 AAATTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TATAATAAATTAAT
Found at i:1926413 original size:19 final size:18
Alignment explanation
Indices: 1926377--1926434 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
1926367 AAACTTGATC
* *
1926377 ATTATTATATAATAAATTA
1 ATTA-TATAAAATTAATTA
1926396 ATTATAATAAAATTAATTAAA
1 ATTAT-ATAAAATTAATT--A
1926417 ATT-TATAAAATTAATTA
1 ATTATATAAAATTAATTA
1926434 A
1 A
1926435 ATTTCTCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 26 0.76
20 1 0.03
21 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTATATAAAATTAATTA
Found at i:1926418 original size:10 final size:10
Alignment explanation
Indices: 1926403--1926435 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1926393 TTAATTATAA
1926403 TAAAATTAAT
1 TAAAATTAAT
*
1926413 TAAAATTTA-
1 TAAAATTAAT
1926422 TAAAATTAAT
1 TAAAATTAAT
1926432 TAAA
1 TAAA
1926436 TTTCTCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAAATTAAT
Found at i:1928729 original size:22 final size:22
Alignment explanation
Indices: 1928701--1928750 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
1928691 CTTATTTTGA
*
1928701 TTGTTTAATCGATGTTGTTGTT
1 TTGTTTAATCGATATTGTTGTT
*
1928723 TTGTTTAATCGATATTTTTGTT
1 TTGTTTAATCGATATTGTTGTT
1928745 TTGTTT
1 TTGTTT
1928751 TTTATTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.14, C:0.04, G:0.18, T:0.64
Consensus pattern (22 bp):
TTGTTTAATCGATATTGTTGTT
Found at i:1928754 original size:25 final size:24
Alignment explanation
Indices: 1928695--1928752 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 24
1928685 TTTTTGCTTA
*
1928695 TTTTGATTGTTTAATCGATGTTGTTG
1 TTTTG-TT-TTTAATCGATATTGTTG
*
1928721 TTTTG--TTTAATCGATATTTTTG
1 TTTTGTTTTTAATCGATATTGTTG
1928743 TTTTGTTTTT
1 TTTTGTTTTT
1928753 TATTCCCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 20 0.71
24 3 0.11
26 5 0.18
ACGTcount: A:0.14, C:0.03, G:0.17, T:0.66
Consensus pattern (24 bp):
TTTTGTTTTTAATCGATATTGTTG
Found at i:1930274 original size:9 final size:9
Alignment explanation
Indices: 1930248--1930277 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1930238 GAAAGTTATC
*
1930248 ATTTCAACC
1 ATTTCAACA
1930257 ATTTCAACA
1 ATTTCAACA
1930266 ATTTCAACA
1 ATTTCAACA
1930275 ATT
1 ATT
1930278 AGCAGTTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (9 bp):
ATTTCAACA
Found at i:1930937 original size:157 final size:157
Alignment explanation
Indices: 1930493--1930943 Score: 557
Period size: 161 Copynumber: 2.8 Consensus size: 157
1930483 TGAAATGCCA
* * * * * * ** *
1930493 TTCTTTTTTGGCTTCTAGTTCTCATACTCGTACCAAACTGAGAGCAACAATCAGAACCC-AAATT
1 TTCTTTTTTGGGTTGTAGTTCTCGTACTCGTACTAGACTAAGA-C-ACAAAAAAAACCCGAAATT
* * * *
1930557 AGATT-TAAATAATTTGGAACTGATAATGAGAAAGTGTTTACGATATACCTGTGATCCAGTTGTG
64 AGATTAT-TATAATTTGGAATTGACAATGAGAAAGTGTTTACGATATACCTGTGTTCCAGTTGTG
* * * *
1930621 TTAAGCTAAATGCATGGTGGTGTTCTATTG
128 TTAGGCTAAATGCAAGGTCGTGTTCTATCG
* ***
1930651 TTCTTTTTTTGGGTTGTAGTTCTCGTACTCGTACTAGACTAAGACATAAAAAATAAAGATAGAAA
1 TTC-TTTTTTGGGTTGTAGTTCTCGTACTCGTACTAGACTAAGACA-CAAAAA-AAA-CCCGAAA
*
1930716 TTAGATTATTATAATTTAGAATTGACAATGAGAAAGTGTTTACGATATACCTGTGATT-CAGTTG
62 TTAGATTATTATAATTTGGAATTGACAATGAGAAAGTGTTTACGATATACCTGTG-TTCCAGTTG
* *
1930780 TGTTAGGCTGAATGCAAGGTCGTGTTCTGTCG
126 TGTTAGGCTAAATGCAAGGTCGTGTTCTATCG
*
1930812 TTCTTTTTTGGGTTGTAGTTCTCGTACTCGAACTAGACTAAGACACAAAAAAAACCCGAAATTAG
1 TTCTTTTTTGGGTTGTAGTTCTCGTACTCGTACTAGACTAAGACACAAAAAAAACCCGAAATTAG
* * *
1930877 ATTATTATAATTTGGAATTGACAATGACAAAGTGTTTACAATATACCTGTGTTCCCGTTGTGTTA
66 ATTATTATAATTTGGAATTGACAATGAGAAAGTGTTTACGATATACCTGTGTTCCAGTTGTGTTA
1930942 GG
131 GG
1930944 ATATTGTTTG
Statistics
Matches: 252, Mismatches: 33, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
156 2 0.01
157 69 0.27
158 10 0.04
159 41 0.16
160 41 0.16
161 87 0.35
162 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (157 bp):
TTCTTTTTTGGGTTGTAGTTCTCGTACTCGTACTAGACTAAGACACAAAAAAAACCCGAAATTAG
ATTATTATAATTTGGAATTGACAATGAGAAAGTGTTTACGATATACCTGTGTTCCAGTTGTGTTA
GGCTAAATGCAAGGTCGTGTTCTATCG
Found at i:1931905 original size:36 final size:36
Alignment explanation
Indices: 1931865--1931955 Score: 155
Period size: 36 Copynumber: 2.5 Consensus size: 36
1931855 GAGACCCTGC
1931865 AATTTAAATTAAAAAACATAAGTAAGTCTACTATCA
1 AATTTAAATTAAAAAACATAAGTAAGTCTACTATCA
**
1931901 AATTTAAATTAAAAAGTATAAGTAAGTCTACTATCA
1 AATTTAAATTAAAAAACATAAGTAAGTCTACTATCA
*
1931937 AATTTAAATTTAAAAACAT
1 AATTTAAATTAAAAAACAT
1931956 CTCACATGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (36 bp):
AATTTAAATTAAAAAACATAAGTAAGTCTACTATCA
Found at i:1934589 original size:18 final size:18
Alignment explanation
Indices: 1934549--1934598 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
1934539 CCCTTACTCG
* * *
1934549 AACCCTCACAACCTCTCT
1 AACCCTCACCACCTCCCA
*
1934567 CACCCTCACCACCTCCCA
1 AACCCTCACCACCTCCCA
*
1934585 AACCCTTACCACCT
1 AACCCTCACCACCT
1934599 TTACTGTCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.56, G:0.00, T:0.18
Consensus pattern (18 bp):
AACCCTCACCACCTCCCA
Found at i:1934641 original size:6 final size:6
Alignment explanation
Indices: 1934630--1934669 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
1934620 TTATCCTCAC
*
1934630 CACCCT CACCCT CACCCT CACCAC- CACCAT CACCCT CACC
1 CACCCT CACCCT CACCCT CACC-CT CACCCT CACCCT CACC
1934670 ACCTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 29 0.97
7 1 0.03
ACGTcount: A:0.23, C:0.65, G:0.00, T:0.12
Consensus pattern (6 bp):
CACCCT
Found at i:1934657 original size:18 final size:18
Alignment explanation
Indices: 1934636--1934672 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1934626 TCACCACCCT
*
1934636 CACCCTCACCCTCACCAC
1 CACCATCACCCTCACCAC
1934654 CACCATCACCCTCACCAC
1 CACCATCACCCTCACCAC
1934672 C
1 C
1934673 TTTATTACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.65, G:0.00, T:0.11
Consensus pattern (18 bp):
CACCATCACCCTCACCAC
Found at i:1936483 original size:6 final size:6
Alignment explanation
Indices: 1936458--1936514 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
1936448 ACAATTCATA
* * *
1936458 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCACTT
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT
1936506 TCACTT TCA
1 TCACTT TCA
1936515 ATTTTGATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:1936778 original size:14 final size:14
Alignment explanation
Indices: 1936759--1936786 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1936749 TTGACTTATC
1936759 CATTTCATTCTCAT
1 CATTTCATTCTCAT
1936773 CATTTCATTCTCAT
1 CATTTCATTCTCAT
1936787 TTCTCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (14 bp):
CATTTCATTCTCAT
Found at i:1940195 original size:63 final size:63
Alignment explanation
Indices: 1940083--1940237 Score: 161
Period size: 63 Copynumber: 2.4 Consensus size: 63
1940073 AGAACACAAC
* * *
1940083 AATCTTCAAATTTTTCAAAACCTAAGTCCCGAAAATCCCCAAATCCAAGAACCCTAAAAATAC-C
1 AATCCTCAAATTTTT-AAAACCTAA--ACC-AAAATCCCCAAATCCAAGAACACTAAAAAT-CTC
1940147 GAA
61 GAA
* * * * *
1940150 AATTCTCAAATTTTTTAAACCTAAACCAAAATCCTCAAA-CTCAAGAACATTGAAAATCTCGAA
1 AATCCTCAAATTTTTAAAACCTAAACCAAAATCCCCAAATC-CAAGAACACTAAAAATCTCGAA
*
1940213 AATCCTCAAATTTTTAAAATCTAAA
1 AATCCTCAAATTTTTAAAACCTAAA
1940238 TCCCCAAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
62 2 0.03
63 50 0.67
64 2 0.03
66 8 0.11
67 13 0.17
ACGTcount: A:0.46, C:0.24, G:0.05, T:0.26
Consensus pattern (63 bp):
AATCCTCAAATTTTTAAAACCTAAACCAAAATCCCCAAATCCAAGAACACTAAAAATCTCGAA
Found at i:1940245 original size:23 final size:23
Alignment explanation
Indices: 1940212--1940270 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
1940202 AAAATCTCGA
* * *
1940212 AAATCCTCAAATTTTTAAAATCT
1 AAATCCCCAAAATTTTAAAACCT
1940235 AAATCCCCAAAATTTTAAAACCT
1 AAATCCCCAAAATTTTAAAACCT
* *
1940258 AAAACCCAAAAAT
1 AAATCCCCAAAAT
1940271 CCCTAAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (23 bp):
AAATCCCCAAAATTTTAAAACCT
Found at i:1940294 original size:31 final size:31
Alignment explanation
Indices: 1940235--1940298 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 31
1940225 TTTAAAATCT
1940235 AAATCCCCAAAATTTTAAAACCTAAAACCCAA
1 AAATCCCCAAAATTTTAAAACCTAAAA-CCAA
* * * *
1940267 AAATCCCTAAATTTTTTAATCCT-AAACCAA
1 AAATCCCCAAAATTTTAAAACCTAAAACCAA
1940297 AA
1 AA
1940299 TTTCCAAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 6 0.21
31 3 0.11
32 19 0.68
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (31 bp):
AAATCCCCAAAATTTTAAAACCTAAAACCAA
Found at i:1943022 original size:7 final size:7
Alignment explanation
Indices: 1943006--1943052 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
1942996 CATTTACTTT
1943006 ATTT-AA
1 ATTTAAA
1943012 ATTTAAA
1 ATTTAAA
1943019 ATTTAAA
1 ATTTAAA
*
1943026 ATTTATA
1 ATTTAAA
*
1943033 ATTTAAT
1 ATTTAAA
*
1943040 ATTTATA
1 ATTTAAA
1943047 ATTTAA
1 ATTTAA
1943053 TTTTGAGACA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
6 4 0.12
7 30 0.88
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
ATTTAAA
Found at i:1943036 original size:21 final size:20
Alignment explanation
Indices: 1943006--1943052 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
1942996 CATTTACTTT
1943006 ATTTAAATTTAAAATTTAAA
1 ATTTAAATTTAAAATTTAAA
* *
1943026 ATTTATAATTTAATATTTATA
1 ATTTA-AATTTAAAATTTAAA
1943047 ATTTAA
1 ATTTAA
1943053 TTTTGAGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTAAATTTAAAATTTAAA
Found at i:1943053 original size:14 final size:14
Alignment explanation
Indices: 1943006--1943053 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
1942996 CATTTACTTT
*
1943006 ATTTAA-ATTTAAA
1 ATTTAATATTTATA
*
1943019 ATTTAAAATTTATA
1 ATTTAATATTTATA
1943033 ATTTAATATTTATA
1 ATTTAATATTTATA
1943047 ATTTAAT
1 ATTTAAT
1943054 TTTGAGACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 6 0.19
14 26 0.81
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTAATATTTATA
Found at i:1944662 original size:20 final size:20
Alignment explanation
Indices: 1944637--1944674 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1944627 AAATGCTAAT
1944637 AGAGGCACCAAAGTGCAAGC
1 AGAGGCACCAAAGTGCAAGC
* *
1944657 AGAGGCATCGAAGTGCAA
1 AGAGGCACCAAAGTGCAA
1944675 ACCCGTACAA
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:0.39, C:0.21, G:0.32, T:0.08
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAGC
Found at i:1945084 original size:7 final size:7
Alignment explanation
Indices: 1945074--1945158 Score: 59
Period size: 7 Copynumber: 12.4 Consensus size: 7
1945064 CTTAAGTCTT
1945074 AACCTTA
1 AACCTTA
*
1945081 AACCATA
1 AACCTTA
*
1945088 AGCCTTA
1 AACCTTA
* *
1945095 AATCATA
1 AACCTTA
*
1945102 AATCTT-
1 AACCTTA
1945108 AACCTTA
1 AACCTTA
1945115 AACCTTA
1 AACCTTA
*
1945122 AATCTT-
1 AACCTTA
1945128 AACCTCTA
1 AACCT-TA
*
1945136 AGCCTT-
1 AACCTTA
*
1945142 AACATTA
1 AACCTTA
*
1945149 AGCCTTA
1 AACCTTA
1945156 AAC
1 AAC
1945159 TCTAAACCAT
Statistics
Matches: 58, Mismatches: 16, Indels: 8
0.71 0.20 0.10
Matches are distributed among these distances:
6 13 0.22
7 41 0.71
8 4 0.07
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.29
Consensus pattern (7 bp):
AACCTTA
Found at i:1945089 original size:20 final size:20
Alignment explanation
Indices: 1945059--1945132 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
1945049 TCTTATACCC
* *
1945059 TAAATCTTAAGTCTT-AACCT
1 TAAATCTTAA-CCTTAAACCA
* * *
1945079 TAAACCATAAGCCTTAAATCA
1 TAAATCTTAA-CCTTAAACCA
*
1945100 TAAATCTTAACCTTAAACCT
1 TAAATCTTAACCTTAAACCA
1945120 TAAATCTTAACCT
1 TAAATCTTAACCT
1945133 CTAAGCCTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 33 0.75
21 11 0.25
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.34
Consensus pattern (20 bp):
TAAATCTTAACCTTAAACCA
Found at i:1945094 original size:27 final size:27
Alignment explanation
Indices: 1945064--1945170 Score: 83
Period size: 27 Copynumber: 4.0 Consensus size: 27
1945054 TACCCTAAAT
*
1945064 CTTAAGTCTTAACCT-TAAACCATAAGC
1 CTTAAATCTTAACCTCTAAACCATAA-C
* * * *
1945091 CTTAAATCATAA-ATCTTAACCTTAAAC
1 CTTAAATCTTAACCTCTAAACCAT-AAC
* *
1945118 CTTAAATCTTAACCTCTAAGCCTTAAC
1 CTTAAATCTTAACCTCTAAACCATAAC
* ** *
1945145 ATTAAGCCTTAAACTCTAAACCATAA
1 CTTAAATCTTAACCTCTAAACCATAA
1945171 TGTATAAGTC
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
26 1 0.02
27 51 0.82
28 10 0.16
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.31
Consensus pattern (27 bp):
CTTAAATCTTAACCTCTAAACCATAAC
Found at i:1945129 original size:34 final size:34
Alignment explanation
Indices: 1945059--1945129 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
1945049 TCTTATACCC
* * *
1945059 TAAATCTTAAGTCTTAACCTTAAACCATAAGCCT
1 TAAATCATAAATCTTAACCTTAAACCATAAACCT
* *
1945093 TAAATCATAAATCTTAACCTTAAACCTTAAATCT
1 TAAATCATAAATCTTAACCTTAAACCATAAACCT
1945127 TAA
1 TAA
1945130 CCTCTAAGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (34 bp):
TAAATCATAAATCTTAACCTTAAACCATAAACCT
Found at i:1945142 original size:14 final size:14
Alignment explanation
Indices: 1945125--1945163 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
1945115 AACCTTAAAT
1945125 CTTAACCTCTAAGC
1 CTTAACCTCTAAGC
*
1945139 CTTAACAT-TAAGC
1 CTTAACCTCTAAGC
*
1945152 CTTAAACTCTAA
1 CTTAACCTCTAA
1945164 ACCATAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.31
Consensus pattern (14 bp):
CTTAACCTCTAAGC
Found at i:1945219 original size:21 final size:21
Alignment explanation
Indices: 1945194--1945242 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1945184 AACCGTAAGA
1945194 CTTAAACCCAAAACAC-TAAAC
1 CTTAAACCCAAAAC-CTTAAAC
* * *
1945215 TTTAAGCCCTAAACCTTAAAC
1 CTTAAACCCAAAACCTTAAAC
1945236 CTTAAAC
1 CTTAAAC
1945243 TTTAAGTCCT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (21 bp):
CTTAAACCCAAAACCTTAAAC
Found at i:1945226 original size:14 final size:14
Alignment explanation
Indices: 1945209--1945262 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
1945199 ACCCAAAACA
1945209 CTAAACTTTAAGCC
1 CTAAACTTTAAGCC
* *
1945223 CTAAACCTTAAACC
1 CTAAACTTTAAGCC
* *
1945237 TTAAACTTTAAGTC
1 CTAAACTTTAAGCC
1945251 CTAAATCTTTAA
1 CTAAA-CTTTAA
1945263 TTTTAACTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 26 0.81
15 6 0.19
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (14 bp):
CTAAACTTTAAGCC
Found at i:1945229 original size:28 final size:28
Alignment explanation
Indices: 1945196--1945255 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
1945186 CCGTAAGACT
1945196 TAAACCCAAAACAC-TAAACTTTAAGCCC
1 TAAACCCAAAAC-CTTAAACTTTAAGCCC
** *
1945224 TAAACCTTAAACCTTAAACTTTAAGTCC
1 TAAACCCAAAACCTTAAACTTTAAGCCC
1945252 TAAA
1 TAAA
1945256 TCTTTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.45, C:0.27, G:0.03, T:0.25
Consensus pattern (28 bp):
TAAACCCAAAACCTTAAACTTTAAGCCC
Found at i:1950488 original size:97 final size:97
Alignment explanation
Indices: 1950322--1950511 Score: 380
Period size: 97 Copynumber: 2.0 Consensus size: 97
1950312 TCATTTGGCG
1950322 AAATTTAATTTGTCGAAGGTGGAATTGTATATGAAGAATGGGGGCTTTTTGGAGGTTAAATGGGA
1 AAATTTAATTTGTCGAAGGTGGAATTGTATATGAAGAATGGGGGCTTTTTGGAGGTTAAATGGGA
1950387 GGATTTGTTTGTTAGAAAATTACTGGATTGCC
66 GGATTTGTTTGTTAGAAAATTACTGGATTGCC
1950419 AAATTTAATTTGTCGAAGGTGGAATTGTATATGAAGAATGGGGGCTTTTTGGAGGTTAAATGGGA
1 AAATTTAATTTGTCGAAGGTGGAATTGTATATGAAGAATGGGGGCTTTTTGGAGGTTAAATGGGA
1950484 GGATTTGTTTGTTAGAAAATTACTGGAT
66 GGATTTGTTTGTTAGAAAATTACTGGAT
1950512 AGGGAAGAGG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.36
Consensus pattern (97 bp):
AAATTTAATTTGTCGAAGGTGGAATTGTATATGAAGAATGGGGGCTTTTTGGAGGTTAAATGGGA
GGATTTGTTTGTTAGAAAATTACTGGATTGCC
Found at i:1952124 original size:8 final size:9
Alignment explanation
Indices: 1952088--1952121 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 9
1952078 TCAAAGCTTG
1952088 ATTTTTAGA
1 ATTTTTAGA
1952097 ATTTTTATGA
1 ATTTTTA-GA
1952107 ATTTTTA-A
1 ATTTTTAGA
1952115 ATTTTTA
1 ATTTTTA
1952122 AATAATTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 7 0.29
10 9 0.38
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (9 bp):
ATTTTTAGA
Found at i:1952262 original size:11 final size:12
Alignment explanation
Indices: 1952227--1952265 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
1952217 ATTTTATATT
*
1952227 TATTTTTAAAAA
1 TATTGTTAAAAA
1952239 TTATTGTTAAAAA
1 -TATTGTTAAAAA
1952252 TATTG-TAAAAA
1 TATTGTTAAAAA
1952263 TAT
1 TAT
1952266 CAAATTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 9 0.36
12 5 0.20
13 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (12 bp):
TATTGTTAAAAA
Found at i:1955069 original size:3 final size:3
Alignment explanation
Indices: 1955061--1955090 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1955051 CATGTGATAC
1955061 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1955091 ATTCTTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1957262 original size:26 final size:25
Alignment explanation
Indices: 1957217--1957268 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
1957207 TAAATAGAAT
*
1957217 AATTAAGCAGATAAGTAAATGCAAAA
1 AATTAAGCA-ATAAGTAAATACAAAA
1957243 AATTAAGC-ATAAGATAAAATACAAAA
1 AATTAAGCAATAAG-T-AAATACAAAA
1957269 TATGATAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.22
25 1 0.04
26 17 0.74
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.19
Consensus pattern (25 bp):
AATTAAGCAATAAGTAAATACAAAA
Found at i:1957430 original size:29 final size:29
Alignment explanation
Indices: 1957398--1957670 Score: 210
Period size: 30 Copynumber: 9.3 Consensus size: 29
1957388 TTTCAGAGAA
* * *
1957398 TTTAGGGTAAAAATGCAATTTTTGAAAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
1957427 TTTAGGGTTAAAATGTGATTTT-GAGAAAG
1 TTTAGGGTCAAAATGTAATTTTGGA-AAAG
* * *
1957456 TTTAGGATAAAAAATGGAATTTTGG-AAA-
1 TTTAGGGT-CAAAATGTAATTTTGGAAAAG
* * *
1957484 TTTTGGGCTCAAAATGTGATTTTGGGAAAG
1 TTTAGGG-TCAAAATGTAATTTTGGAAAAG
* *
1957514 TTTGAGGTTCAAAATGTGATTTTGGAAAAG
1 TTT-AGGGTCAAAATGTAATTTTGGAAAAG
* * *
1957544 TTTAGGGGTCAAAATATAATTTTGGAGATG
1 TTTA-GGGTCAAAATGTAATTTTGGAAAAG
* * *
1957574 TTTAGAGGTAAAAATGTAATTTTAGAGAAG
1 TTTAG-GGTCAAAATGTAATTTTGGAAAAG
* * * *
1957604 TTTGGGGCCAAAATATAATTTTAGAAAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
* * * *
1957633 TTTATGAGTCAAAATATGATTTTGGGAAAG
1 TTTA-GGGTCAAAATGTAATTTTGGAAAAG
*
1957663 TTTGGGGT
1 TTTAGGGT
1957671 TGCCTGGGCA
Statistics
Matches: 197, Mismatches: 37, Indels: 20
0.78 0.15 0.08
Matches are distributed among these distances:
28 20 0.10
29 65 0.33
30 109 0.55
31 3 0.02
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
TTTAGGGTCAAAATGTAATTTTGGAAAAG
Found at i:1957460 original size:58 final size:57
Alignment explanation
Indices: 1957398--1957636 Score: 203
Period size: 59 Copynumber: 4.1 Consensus size: 57
1957388 TTTCAGAGAA
* *
1957398 TTTAGGGTAAAAATGCAATTTTTGAAAAGTTTAGGGTTAAAATGTGATTTTGAGAAAG
1 TTTAGGGTAAAAATGTAATTTTTGAAAAGTTTAGGGTCAAAATGTGATTTTG-GAAAG
* * * *
1957456 TTTAGGATAAAAAATGGAA-TTTTGGAAA-TTTTGGGCTCAAAATGTGATTTTGGGAAAG
1 TTTAGGGT-AAAAATGTAATTTTTGAAAAGTTTAGGG-TCAAAATGTGATTTT-GGAAAG
* * * * * * *
1957514 TTTGAGGTTCAAAATGTGATTTTGGAAAAGTTTAGGGGTCAAAATATAATTTTGGAGATG
1 TTT-AGGGTAAAAATGTAATTTTTGAAAAGTTTA-GGGTCAAAATGTGATTTTGGA-AAG
* * * * * * *
1957574 TTTAGAGGTAAAAATGTAATTTTAGAGAAGTTTGGGGCCAAAATATAATTTTAGAAAAG
1 TTTAG-GGTAAAAATGTAATTTTTGAAAAGTTTAGGGTCAAAATGTGATTTT-GGAAAG
1957633 TTTA
1 TTTA
1957637 TGAGTCAAAA
Statistics
Matches: 147, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
57 6 0.04
58 44 0.30
59 49 0.33
60 45 0.31
61 3 0.02
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (57 bp):
TTTAGGGTAAAAATGTAATTTTTGAAAAGTTTAGGGTCAAAATGTGATTTTGGAAAG
Found at i:1957636 original size:59 final size:57
Alignment explanation
Indices: 1957398--1957669 Score: 197
Period size: 59 Copynumber: 4.6 Consensus size: 57
1957388 TTTCAGAGAA
* * ** * *
1957398 TTTAGGGTAAAAATGCAATTTTTGAAAAGTTTAGGGTTAAAATGTGATTTT-GAGAAAG
1 TTTAGGGTAAAAATGTAA-TTTTGAAAAGTTTGGGGCCAAAATATAATTTTGGA-AAAG
* * * * * * *
1957456 TTTAGGATAAAAAATGGAATTTTGGAAA-TTTTGGGCTCAAAATGTGATTTTGGGAAAG
1 TTTAGGGT-AAAAATGTAATTTTGAAAAGTTTGGGGC-CAAAATATAATTTTGGAAAAG
* * * * * *
1957514 TTTGAGGTTCAAAATGTGATTTTGGAAAAGTTTAGGGGTCAAAATATAATTTTGGAGATG
1 TTT-AGGGTAAAAATGTAATTTT-GAAAAGTTT-GGGGCCAAAATATAATTTTGGAAAAG
* *
1957574 TTTAGAGGTAAAAATGTAATTTTAGAGAAGTTTGGGGCCAAAATATAATTTTAGAAAAG
1 TTTAG-GGTAAAAATGTAATTTT-GAAAAGTTTGGGGCCAAAATATAATTTTGGAAAAG
* * * * *
1957633 TTTATGAGTCAAAATATGATTTTGGGAAAGTTTGGGG
1 TTTA-GGGTAAAAATGTAATTTT-GAAAAGTTTGGGG
1957670 TTGCCTGGGC
Statistics
Matches: 170, Mismatches: 35, Indels: 17
0.77 0.16 0.08
Matches are distributed among these distances:
57 6 0.04
58 46 0.27
59 70 0.41
60 45 0.26
61 3 0.02
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.35
Consensus pattern (57 bp):
TTTAGGGTAAAAATGTAATTTTGAAAAGTTTGGGGCCAAAATATAATTTTGGAAAAG
Found at i:1959398 original size:16 final size:17
Alignment explanation
Indices: 1959377--1959411 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1959367 ATGAGTGTAA
1959377 TTTGGGCT-TAAATGGG
1 TTTGGGCTGTAAATGGG
*
1959393 TTTGGGTTGTAAATGGG
1 TTTGGGCTGTAAATGGG
1959410 TT
1 TT
1959412 ATGTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.17, C:0.03, G:0.37, T:0.43
Consensus pattern (17 bp):
TTTGGGCTGTAAATGGG
Found at i:1959446 original size:15 final size:16
Alignment explanation
Indices: 1959418--1959451 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1959408 GGTTATGTAA
1959418 TTTTGTAAAATGGACT
1 TTTTGTAAAATGGACT
*
1959434 TTTTGT-AAGTGGACT
1 TTTTGTAAAATGGACT
1959449 TTT
1 TTT
1959452 AAACTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.50
Consensus pattern (16 bp):
TTTTGTAAAATGGACT
Found at i:1960144 original size:78 final size:78
Alignment explanation
Indices: 1960014--1960632 Score: 675
Period size: 78 Copynumber: 7.9 Consensus size: 78
1960004 TGGTTTTTTT
* * * * * * *
1960014 TCATGATTGGGGTAAGAGAT-TAGATGGTTGCAATCTGCCCCTGTCGCAGGGTAAAAGATTAGCT
1 TCATGATCGGGGTAAAAGATCGA-ATGGTTGCAATCTGCCCCTATCGCGGGGTAAGAGATTGGCT
1960078 GACGGTGATCTGCC
65 GACGGTGATCTGCC
* * * *
1960092 TCATGATCGGGGTAAAAGATTGGATGGTTGCAATCTACCTCTATCGCGGGGTAAGAGATTGGCTG
1 TCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTATCGCGGGGTAAGAGATTGGCTG
1960157 ACGGTGATCTGCC
66 ACGGTGATCTGCC
* * ** * * * *
1960170 TCATGATCGGGGTAAAAGATCGAATGGTTGTAATTTATCCTTGTCACGGGGTAAGAGATTGACTG
1 TCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTATCGCGGGGTAAGAGATTGGCTG
*
1960235 ACGGTAATCTGCC
66 ACGGTGATCTGCC
* * * * * *
1960248 -CAATGATCGGGGTAAAAGATCGGATGGTTGTAATCTGCCCTTGTCGTGGGGTAAAAGATTGGCT
1 TC-ATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTATCGCGGGGTAAGAGATTGGCT
*
1960312 AACGGTGATCTGCC
65 GACGGTGATCTGCC
* * * ** * **
1960326 TTATGATGGGGGTAAAAGATCAAATAATTACAATCTGCCCCTATCATGGGGTAAGAGATTGGCTG
1 TCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTATCGCGGGGTAAGAGATTGGCTG
*
1960391 ATGGTGATCTGCC
66 ACGGTGATCTGCC
* * * * * *
1960404 CCATGATTGGGGTAAAAGATCGAACGGTTGTAATCTGGCCCTATCTCGGGGTAAGAGATTGGCTG
1 TCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTATCGCGGGGTAAGAGATTGGCTG
*
1960469 ATGGTGATCTGCC
66 ACGGTGATCTGCC
* ** *
1960482 CCATGATCGGGGTAAAAGATCGAACAGTTGCAATCTGCCCCTATCGCGGGGTAAGAGATTGCCTG
1 TCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTATCGCGGGGTAAGAGATTGGCTG
*
1960547 ACTGTGATCTGCC
66 ACGGTGATCTGCC
* * * ** * * * * *
1960560 TTATGATCAGGATAAATTATCGGATGGTTGCAATCTACTCCTGTCCCGGGGTAAGAGATTGGCTG
1 TCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTATCGCGGGGTAAGAGATTGGCTG
*
1960625 ATGGTGAT
66 ACGGTGAT
1960633 GTAGCTTTAC
Statistics
Matches: 457, Mismatches: 81, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
77 1 0.00
78 456 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (78 bp):
TCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTATCGCGGGGTAAGAGATTGGCTG
ACGGTGATCTGCC
Found at i:1960259 original size:39 final size:38
Alignment explanation
Indices: 1960045--1960501 Score: 180
Period size: 39 Copynumber: 11.7 Consensus size: 38
1960035 AGATGGTTGC
* *
1960045 AATCTGCCCCTG-TCGCAGGGTAAAAGATT-AGCTGACGGT
1 AATCTGCCCATGATCG--GGGTAAAAGATTGA-CTGATGGT
* * * *
1960084 GATCTGCCTCATGATCGGGGTAAAAGATTGGA-TGGTTGC
1 AATCTGCC-CATGATCGGGGTAAAAGATT-GACTGATGGT
* * * *
1960123 AATCTACCTC-T-ATCGCGGGGTAAGAGATTGGCTGACGGT
1 AATCTGCC-CATGAT--CGGGGTAAAAGATTGACTGATGGT
* * * * *
1960162 GATCTGCCTCATGATCGGGGTAAAAGATCGAATGGTTGT
1 AATCTGCC-CATGATCGGGGTAAAAGATTGACTGATGGT
* ** * * *
1960201 AATTTATCCTTG-TCACGGGGTAAGAGATTGACTGACGGT
1 AATCTGCCCATGAT--CGGGGTAAAAGATTGACTGATGGT
* * *
1960240 AATCTGCCCAATGATCGGGGTAAAAGATCGGA-TGGTTGT
1 AATCTGCCC-ATGATCGGGGTAAAAGAT-TGACTGATGGT
* * * *
1960279 AATCTGCCCTTG-TCGTGGGGTAAAAGATTGGCTAACGGT
1 AATCTGCCCATGATC--GGGGTAAAAGATTGACTGATGGT
* * * ** * * ***
1960318 GATCTGCCTTATGATGGGGGTAAAAGATCAAATAATTAC
1 AATCTGCC-CATGATCGGGGTAAAAGATTGACTGATGGT
* * *
1960357 AATCTGCCCCT-ATCATGGGGTAAGAGATTGGCTGATGGT
1 AATCTGCCCATGATC--GGGGTAAAAGATTGACTGATGGT
* * * * *
1960396 GATCTGCCCCATGATTGGGGTAAAAGATCGAAC-GGTTGT
1 AATCTG-CCCATGATCGGGGTAAAAGATTG-ACTGATGGT
* * *
1960435 AATCTGGCCCTAT-CTCGGGGTAAGAGATTGGCTGATGGT
1 AATCT-GCCC-ATGATCGGGGTAAAAGATTGACTGATGGT
*
1960474 GATCTGCCCCATGATCGGGGTAAAAGAT
1 AATCTG-CCCATGATCGGGGTAAAAGAT
1960502 CGAACAGTTG
Statistics
Matches: 295, Mismatches: 94, Indels: 58
0.66 0.21 0.13
Matches are distributed among these distances:
37 7 0.02
38 13 0.04
39 247 0.84
40 18 0.06
41 10 0.03
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (38 bp):
AATCTGCCCATGATCGGGGTAAAAGATTGACTGATGGT
Found at i:1960557 original size:39 final size:38
Alignment explanation
Indices: 1960358--1960559 Score: 124
Period size: 39 Copynumber: 5.2 Consensus size: 38
1960348 AATAATTACA
** *
1960358 ATCTGCCCCTATCATGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCTATCGCGGGGTAAGAGATTGACTGAT-GTG
* * * * * *
1960397 ATCTGCCCC-AT-GATTGGGGTAAAAGATCGAACGGTTGTA
1 ATCTGCCCCTATCG--CGGGGTAAGAGATTG-ACTGATGTG
* * *
1960436 ATCTGGCCCTATCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCTATCGCGGGGTAAGAGATTGACTGAT-GTG
* * * * **
1960475 ATCTGCCCC-AT-GATCGGGGTAAAAGATCGAACAGTTGCA
1 ATCTGCCCCTATCG--CGGGGTAAGAGATTG-ACTGATGTG
*
1960514 ATCTGCCCCTATCGCGGGGTAAGAGATTGCCTGACTGTG
1 ATCTGCCCCTATCGCGGGGTAAGAGATTGACTGA-TGTG
1960553 ATCTGCC
1 ATCTGCC
1960560 TTATGATCAG
Statistics
Matches: 119, Mismatches: 32, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
38 9 0.08
39 99 0.83
40 10 0.08
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (38 bp):
ATCTGCCCCTATCGCGGGGTAAGAGATTGACTGATGTG
Found at i:1972736 original size:60 final size:59
Alignment explanation
Indices: 1972667--1973089 Score: 369
Period size: 60 Copynumber: 7.1 Consensus size: 59
1972657 CAGAGAATTC
*
1972667 GAGGT-AAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATATGATTTTAGGAAAGTTTA
1 GAGGTCAAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATATAATTTTAGGAAAGTTTA
* * * * * * * *
1972725 GGGGTTAAAAATGTAATTTTGGAAAA-TTTTGGGATTAAAATATGATTTTGGGAATGTTTG
1 GAGG-TCAAAATGTAATTTTGGAAAAGTTTAGGG-TCAAAATATAATTTTAGGAAAGTTTA
* * * *
1972785 GGGGTCAAAATGTAATTTTAGAAAAGTTTAGAGGTTAAAATGTAATTTTA-GAGAAGTTTA
1 GAGGTCAAAATGTAATTTTGGAAAAGTTTAG-GGTCAAAATATAATTTTAGGA-AAGTTTA
* *
1972845 AAGGTCAAAATGTAATTTTGGAAAAGTTTAAGGGTCAAAATATAATTTTAGGAAATTTTA
1 GAGGTCAAAATGTAATTTTGGAAAAGTTT-AGGGTCAAAATATAATTTTAGGAAAGTTTA
* * * * **
1972905 GAGGTCATAATGTAATTTTTAGG-AAAGTTTTAGGGTCGAAATGTAATTTT-GAAAAAAATTA
1 GAGGTCAAAATGTAA-TTTT-GGAAAAG-TTTAGGGTCAAAATATAATTTTAG-GAAAGTTTA
* * * *
1972966 GAGGTTAAAATGTAATTTT-AAAGAAGATTAGAGG-CTAAAATATAATTTTAGAAAAGTTTA
1 GAGGTCAAAATGTAATTTTGGAA-AAGTTTAG-GGTC-AAAATATAATTTTAGGAAAGTTTA
* * * * * * *
1973026 -AGGGTAAAAATGTAATATTAGAAAAGTTTTGGGGTTAAAATATGATTTTGGGAAAGTTT-
1 GA-GGTCAAAATGTAATTTTGGAAAAG-TTTAGGGTCAAAATATAATTTTAGGAAAGTTTA
1973085 GAGGT
1 GAGGT
1973090 TACTTGAGCA
Statistics
Matches: 299, Mismatches: 44, Indels: 43
0.77 0.11 0.11
Matches are distributed among these distances:
58 3 0.01
59 38 0.13
60 197 0.66
61 56 0.19
62 5 0.02
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (59 bp):
GAGGTCAAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATATAATTTTAGGAAAGTTTA
Found at i:1973066 original size:30 final size:30
Alignment explanation
Indices: 1972671--1973084 Score: 325
Period size: 30 Copynumber: 13.8 Consensus size: 30
1972661 GAATTCGAGG
*
1972671 TAAAATGTAATTTTGGAAAAGTTTA-GGGT
1 TAAAATGTAATTTTAGAAAAGTTTAGGGGT
* * * *
1972700 CAAAATATGATTTTAGGAAAGTTTAGGGGT
1 TAAAATGTAATTTTAGAAAAGTTTAGGGGT
* * *
1972730 TAAAAATGTAATTTTGGAAAA-TTTTGGGAT
1 T-AAAATGTAATTTTAGAAAAGTTTAGGGGT
* * * * * *
1972760 TAAAATATGATTTTGGGAATGTTTGGGGGT
1 TAAAATGTAATTTTAGAAAAGTTTAGGGGT
* *
1972790 CAAAATGTAATTTTAGAAAAGTTTAGAGGT
1 TAAAATGTAATTTTAGAAAAGTTTAGGGGT
* **
1972820 TAAAATGTAATTTTAGAGAAGTTTAAAGGT
1 TAAAATGTAATTTTAGAAAAGTTTAGGGGT
* * *
1972850 CAAAATGTAATTTTGGAAAAGTTTAAGGGT
1 TAAAATGTAATTTTAGAAAAGTTTAGGGGT
* * * * *
1972880 CAAAATATAATTTTAGGAAATTTTAGAGGT
1 TAAAATGTAATTTTAGAAAAGTTTAGGGGT
* * *
1972910 CATAATGTAATTTTTAGGAAAGTTTTA-GGGT
1 TAAAATGTAA-TTTTAGAAAAG-TTTAGGGGT
** ** *
1972941 CGAAATGTAATTTT-GAAAAAAATTAGAGGT
1 TAAAATGTAATTTTAG-AAAAGTTTAGGGGT
* * *
1972971 TAAAATGTAATTTTA-AAGAAGATTAGAGGC
1 TAAAATGTAATTTTAGAA-AAGTTTAGGGGT
* *
1973001 TAAAATATAATTTTAGAAAAGTTTAAGGGT
1 TAAAATGTAATTTTAGAAAAGTTTAGGGGT
* * *
1973031 AAAAATGTAATATTAGAAAAGTTTTGGGGT
1 TAAAATGTAATTTTAGAAAAGTTTAGGGGT
* * * *
1973061 TAAAATATGATTTTGGGAAAGTTT
1 TAAAATGTAATTTTAGAAAAGTTT
1973085 GAGGTTACTT
Statistics
Matches: 306, Mismatches: 69, Indels: 19
0.78 0.18 0.05
Matches are distributed among these distances:
29 41 0.13
30 223 0.73
31 38 0.12
32 4 0.01
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (30 bp):
TAAAATGTAATTTTAGAAAAGTTTAGGGGT
Found at i:1974850 original size:15 final size:16
Alignment explanation
Indices: 1974822--1974855 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1974812 TGGGTTGTAA
1974822 TTTTGTAAAATGGACT
1 TTTTGTAAAATGGACT
*
1974838 TTTTGT-AAGTGGACT
1 TTTTGTAAAATGGACT
1974853 TTT
1 TTT
1974856 AAATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.50
Consensus pattern (16 bp):
TTTTGTAAAATGGACT
Found at i:1976723 original size:10 final size:10
Alignment explanation
Indices: 1976708--1976740 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1976698 AAGAATATTA
1976708 AAAAATTCTT
1 AAAAATTCTT
1976718 AAAAA-TCTT
1 AAAAATTCTT
*
1976727 AAAAATTCTG
1 AAAAATTCTT
1976737 AAAA
1 AAAA
1976741 TTTATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAAATTCTT
Found at i:1977132 original size:34 final size:35
Alignment explanation
Indices: 1977062--1977133 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 35
1977052 CAATTAAATT
* * *
1977062 AAATATTTACTTTATATATAACATCAGATTTTAAA
1 AAATATTTACTTTATATAAAACATCAGATCTGAAA
* * *
1977097 AAATATTTA-TTTATTTAAAATATCATATCTGAAA
1 AAATATTTACTTTATATAAAACATCAGATCTGAAA
1977131 AAA
1 AAA
1977134 AAATTAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
34 22 0.71
35 9 0.29
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.42
Consensus pattern (35 bp):
AAATATTTACTTTATATAAAACATCAGATCTGAAA
Found at i:1984263 original size:42 final size:41
Alignment explanation
Indices: 1984186--1984286 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
1984176 TTATCCTTTC
1984186 ATAAAATTTTAAAAATTTATCTGTTTAAATATTAAGGATAA
1 ATAAAATTTTAAAAATTTATCTGTTTAAATATTAAGGATAA
* * * * *
1984227 ATAATATTTTAAATATTTTTACTGTTTTAATTTTAAGGATAA
1 ATAAAATTTTAAAAATTTAT-CTGTTTAAATATTAAGGATAA
*
1984269 CATATCAAAATTTAAAAA
1 -ATA--AAATTTTAAAAA
1984287 CTATTATTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 17 0.35
42 19 0.40
43 3 0.06
45 9 0.19
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (41 bp):
ATAAAATTTTAAAAATTTATCTGTTTAAATATTAAGGATAA
Found at i:1986188 original size:31 final size:28
Alignment explanation
Indices: 1986153--1986222 Score: 70
Period size: 31 Copynumber: 2.4 Consensus size: 28
1986143 CCAATGAAAT
1986153 TTAAAACA-AAAATATTCAAAATCCATCAAAA
1 TTAAAA-ATAAAATA-TCAAAATCC-T-AAAA
*
1986184 TTAAAAATTAAATATCAAAATCCTAAAA
1 TTAAAAATAAAATATCAAAATCCTAAAA
*
1986212 TTTCAAAATAA
1 -TTAAAAATAA
1986223 CCAAAGATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 4 0.12
29 9 0.26
30 10 0.29
31 11 0.32
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (28 bp):
TTAAAAATAAAATATCAAAATCCTAAAA
Found at i:1989007 original size:14 final size:14
Alignment explanation
Indices: 1988991--1989071 Score: 76
Period size: 14 Copynumber: 5.7 Consensus size: 14
1988981 AGGTTTCGAG
1988991 TTTATGATTTAATGT
1 TTTA-GATTTAATGT
*
1989006 TTTGGATTT-ATGGT
1 TTTAGATTTAAT-GT
*
1989020 TTTAGTTTTAATGT
1 TTTAGATTTAATGT
*
1989034 TTTGGATTT-ATGGT
1 TTTAGATTTAAT-GT
*
1989048 TTTAGTTTTAATGT
1 TTTAGATTTAATGT
*
1989062 TTTTGATTTA
1 TTTAGATTTA
1989072 GGGTTTAAGG
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
13 4 0.08
14 42 0.79
15 7 0.13
ACGTcount: A:0.20, C:0.00, G:0.19, T:0.62
Consensus pattern (14 bp):
TTTAGATTTAATGT
Found at i:1989021 original size:28 final size:28
Alignment explanation
Indices: 1988998--1989077 Score: 142
Period size: 28 Copynumber: 2.9 Consensus size: 28
1988988 GAGTTTATGA
1988998 TTTAATGTTTTGGATTTATGGTTTTAGT
1 TTTAATGTTTTGGATTTATGGTTTTAGT
1989026 TTTAATGTTTTGGATTTATGGTTTTAGT
1 TTTAATGTTTTGGATTTATGGTTTTAGT
* *
1989054 TTTAATGTTTTTGATTTAGGGTTT
1 TTTAATGTTTTGGATTTATGGTTT
1989078 AAGGCTTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.61
Consensus pattern (28 bp):
TTTAATGTTTTGGATTTATGGTTTTAGT
Found at i:1989157 original size:21 final size:21
Alignment explanation
Indices: 1989087--1989157 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
1989077 TAAGGCTTAT
*
1989087 AATTTCAAATTTAGGGTTTTA-
1 AATTTAAAATTTAGGG-TTTAG
* * * *
1989108 AGTTTCAATTTTATGGTTTAG
1 AATTTAAAATTTAGGGTTTAG
* *
1989129 GATATAAAATTTAGGGTTTAG
1 AATTTAAAATTTAGGGTTTAG
1989150 AATTTAAA
1 AATTTAAA
1989158 GTTAGAATTA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 4 0.11
21 34 0.89
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (21 bp):
AATTTAAAATTTAGGGTTTAG
Found at i:2001629 original size:2 final size:2
Alignment explanation
Indices: 2001622--2001649 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2001612 CTACAATGCA
2001622 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
2001650 TTGCTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2002514 original size:16 final size:16
Alignment explanation
Indices: 2002490--2002527 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
2002480 TAAATTACTT
2002490 ATTACAACTCGATTCC
1 ATTACAACTCGATTCC
*
2002506 ATTATAACTCGATTCC
1 ATTACAACTCGATTCC
2002522 ATTACA
1 ATTACA
2002528 GCTCTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (16 bp):
ATTACAACTCGATTCC
Found at i:2005165 original size:28 final size:29
Alignment explanation
Indices: 2005133--2005196 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
2005123 AGAAAATTTT
2005133 ATAATT-AG-AAAGTATGTTTTATTTAACA
1 ATAATTCAGTAAAGT-TGTTTTATTTAACA
* **
2005161 ATAATTCGGTGGAGTTGTTTTATTTAACA
1 ATAATTCAGTAAAGTTGTTTTATTTAACA
2005190 ATAATTC
1 ATAATTC
2005197 GGTGGAGCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 6 0.19
29 22 0.71
30 3 0.10
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (29 bp):
ATAATTCAGTAAAGTTGTTTTATTTAACA
Found at i:2005181 original size:29 final size:29
Alignment explanation
Indices: 2005147--2005203 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
2005137 TTAGAAAGTA
2005147 TGTTTTATTTAACAATAATTCGGTGGAGT
1 TGTTTTATTTAACAATAATTCGGTGGAGT
2005176 TGTTTTATTTAACAATAATTCGGTGGAG
1 TGTTTTATTTAACAATAATTCGGTGGAG
2005204 CTTCGACATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (29 bp):
TGTTTTATTTAACAATAATTCGGTGGAGT
Found at i:2007017 original size:97 final size:97
Alignment explanation
Indices: 2006878--2007071 Score: 246
Period size: 97 Copynumber: 2.0 Consensus size: 97
2006868 AACCTTGAAA
* * *
2006878 AAGGATATTCTATTATCTCGATTTGAAGAAAAGTCGCACCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGATATTCGATTATCTCGATTTAAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCA
* *
2006943 GAA-TCAGAGATAAAGAAACATTACCTCGATTT
66 AAACTC-GAAATAAAGAAACATTACCTCGATTT
* * * * * *
2006975 AAGGGTATTCGATTATTTTGATTTAAAGAAAAATTGCGCCTAGTGAGTTAAGGCACAAATTTTCA
1 AAGGATATTCGATTATCTCGATTTAAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCA
* * *
2007040 AAACTCGAAATAAAGGAATATTGCCTCGATTT
66 AAACTCGAAATAAAGAAACATTACCTCGATTT
2007072 CAAATGTTTA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
97 80 0.98
98 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (97 bp):
AAGGATATTCGATTATCTCGATTTAAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCA
AAACTCGAAATAAAGAAACATTACCTCGATTT
Found at i:2007337 original size:29 final size:28
Alignment explanation
Indices: 2007305--2007646 Score: 179
Period size: 30 Copynumber: 11.6 Consensus size: 28
2007295 GCTCAAGAGT
2007305 AAAATGATAA-TTTTGGACACTTCGGGGGC
1 AAAATG-TAATTTTTGGACA-TTCGGGGGC
*
2007334 AAAACGGTAATTTTTGGACATT-GAGGGGC
1 AAAA-TGTAATTTTTGGACATTCG-GGGGC
* *
2007363 AAAAATGTAATTTTTGGATACTT-GGGGGT
1 -AAAATGTAATTTTTGGACA-TTCGGGGGC
* * * **
2007392 AAAGGTGTAAGTTTTGGAAAATTCGGGACC
1 AAA-ATGTAATTTTTGG-ACATTCGGGGGC
* *
2007422 AAAAATGTAATTTTTAGACATTCGGGGGT
1 -AAAATGTAATTTTTGGACATTCGGGGGC
* * ***
2007451 AAAATGGTAATTTTTGGAAAGTTTGAGGTTA
1 AAAAT-GTAATTTTTGGACA-TTCG-GGGGC
** *
2007482 AAAATGGT-ATTTTTGGACATTCGAAGGT
1 AAAAT-GTAATTTTTGGACATTCGGGGGC
** *
2007510 AAAATGATAATTTTTGGATGTTTGGGGGGC
1 AAAATG-TAATTTTTGGA-CATTCGGGGGC
* * *
2007540 AAAATGTAATTTTTAGAAAGTTTGGGGGTC
1 AAAATGTAATTTTTGGACA-TTCGGGGG-C
* * * * *
2007570 AAAATGTAATTTTTAGAAAGTTTGATGGCC
1 AAAATGTAATTTTTGGACA-TTCG-GGGGC
* * *
2007600 AAAATGTAATTTTTGGAAAGTTTGAGGGTC
1 AAAATGTAATTTTTGGACA-TTCG-GGGGC
2007630 AAAATGTAATTTTTGGA
1 AAAATGTAATTTTTGGA
2007647 AAGTTTAAGG
Statistics
Matches: 250, Mismatches: 45, Indels: 35
0.76 0.14 0.11
Matches are distributed among these distances:
27 1 0.00
28 15 0.06
29 93 0.37
30 126 0.50
31 15 0.06
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.35
Consensus pattern (28 bp):
AAAATGTAATTTTTGGACATTCGGGGGC
Found at i:2007494 original size:30 final size:30
Alignment explanation
Indices: 2007340--2007681 Score: 256
Period size: 30 Copynumber: 11.6 Consensus size: 30
2007330 GGGCAAAACG
* *
2007340 GTAATTTTTGGACA--TTGAGGGGCAAAAAT
1 GTAATTTTTGGAAAGTTTGAGGGTC-AAAAT
* * * *
2007369 GTAATTTTTGGATA-CTTGGGGGT-AAAGGT
1 GTAATTTTTGGAAAGTTTGAGGGTCAAA-AT
* * * **
2007398 GTAAGTTTTGGAAAATTCG-GGACCAAAAAT
1 GTAATTTTTGGAAAGTTTGAGGGTC-AAAAT
* * * *
2007428 GTAATTTTTAGACA-TTCGGGGGT-AAAAT
1 GTAATTTTTGGAAAGTTTGAGGGTCAAAAT
* *
2007456 GGTAATTTTTGGAAAGTTTGAGGTTAAAAAT
1 -GTAATTTTTGGAAAGTTTGAGGGTCAAAAT
* * *
2007487 GGT-ATTTTTGGACA-TTCGAAGGT-AAAAT
1 -GTAATTTTTGGAAAGTTTGAGGGTCAAAAT
* * *
2007515 GATAATTTTTGG-ATGTTTGGGGGGCAAAAT
1 G-TAATTTTTGGAAAGTTTGAGGGTCAAAAT
* *
2007545 GTAATTTTTAGAAAGTTTGGGGGTCAAAAT
1 GTAATTTTTGGAAAGTTTGAGGGTCAAAAT
* * *
2007575 GTAATTTTTAGAAAGTTTGATGGCCAAAAT
1 GTAATTTTTGGAAAGTTTGAGGGTCAAAAT
2007605 GTAATTTTTGGAAAGTTTGAGGGTCAAAAT
1 GTAATTTTTGGAAAGTTTGAGGGTCAAAAT
* *
2007635 GTAATTTTTGGAAAGTTTAAGGGTTAAAAT
1 GTAATTTTTGGAAAGTTTGAGGGTCAAAAT
* * *
2007665 ATGATTTTTGGATAGTT
1 GTAATTTTTGGAAAGTT
2007682 CAAGGACCTT
Statistics
Matches: 254, Mismatches: 45, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.00
28 14 0.06
29 72 0.28
30 156 0.61
31 11 0.04
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (30 bp):
GTAATTTTTGGAAAGTTTGAGGGTCAAAAT
Found at i:2007664 original size:60 final size:59
Alignment explanation
Indices: 2007305--2007682 Score: 261
Period size: 59 Copynumber: 6.4 Consensus size: 59
2007295 GCTCAAGAGT
* * * * * * *
2007305 AAAATGATAA-TTTTGGACACTTCGGGGGCAAAACGGTAATTTTTGGACA--TTGAGGGGC
1 AAAATG-TAATTTTTGGAAAGTTCGAGGGTAAAA-TGTAATTTTTGGAAAGTTTGAGGGTC
* * * * * * * **
2007363 AAAAATGTAATTTTTGGATACTT-GGGGGTAAAGGTGTAAGTTTTGGAAAATTCG-GGACC
1 -AAAATGTAATTTTTGGAAAGTTCGAGGGTAAA-ATGTAATTTTTGGAAAGTTTGAGGGTC
* * * * *
2007422 AAAAATGTAATTTTTAGACA-TTCGGGGGTAAAATGGTAATTTTTGGAAAGTTTGAGGTTA
1 -AAAATGTAATTTTTGGAAAGTTCGAGGGTAAAAT-GTAATTTTTGGAAAGTTTGAGGGTC
* * * * *
2007482 AAAATGGT-ATTTTTGGACA-TTCGAAGGTAAAATGATAATTTTTGG-ATGTTTGGGGGGC
1 AAAAT-GTAATTTTTGGAAAGTTCGAGGGTAAAATG-TAATTTTTGGAAAGTTTGAGGGTC
* * * * * *
2007540 AAAATGTAATTTTTAGAAAGTTTGGGGGTCAAAATGTAATTTTTAGAAAGTTTGATGGCC
1 AAAATGTAATTTTTGGAAAGTTCGAGGGT-AAAATGTAATTTTTGGAAAGTTTGAGGGTC
* * *
2007600 AAAATGTAATTTTTGGAAAGTTTGAGGGTCAAAATGTAATTTTTGGAAAGTTTAAGGGTT
1 AAAATGTAATTTTTGGAAAGTTCGAGGGT-AAAATGTAATTTTTGGAAAGTTTGAGGGTC
* * *
2007660 AAAATATGATTTTTGGATAGTTC
1 AAAATGTAATTTTTGGAAAGTTC
2007683 AAGGACCTTT
Statistics
Matches: 259, Mismatches: 47, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
57 2 0.01
58 49 0.19
59 115 0.44
60 93 0.36
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (59 bp):
AAAATGTAATTTTTGGAAAGTTCGAGGGTAAAATGTAATTTTTGGAAAGTTTGAGGGTC
Found at i:2009532 original size:6 final size:6
Alignment explanation
Indices: 2009505--2009597 Score: 65
Period size: 6 Copynumber: 16.2 Consensus size: 6
2009495 TTATTTATTT
* * *
2009505 ATTTAA ATTT-- ATTATAA TTTTAA ATTTAT ATTTAA ATTTAA AATTATA
1 ATTTAA ATTTAA ATT-TAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTA-A
* *
2009553 A--TAA ATTTAA ATTTAA A-ATAA ATTTAA TTTTAGA A--TAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTA-A ATTTAA ATTTAA
2009597 A
1 A
2009598 ATGGGTTTAG
Statistics
Matches: 68, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
4 7 0.10
5 9 0.13
6 47 0.69
7 5 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:2009572 original size:17 final size:17
Alignment explanation
Indices: 2009505--2009597 Score: 96
Period size: 17 Copynumber: 5.4 Consensus size: 17
2009495 TTATTTATTT
**
2009505 ATTTAAATTTATTATAA
1 ATTTAAATTTAAAATAA
* **
2009522 TTTTAAATTTATATTTAA
1 ATTTAAATTTA-AAATAA
* *
2009540 ATTTAAAATTATAATAA
1 ATTTAAATTTAAAATAA
2009557 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
* *
2009574 ATTTAATTTTAGAATAA
1 ATTTAAATTTAAAATAA
2009591 ATTTAAA
1 ATTTAAA
2009598 ATGGGTTTAG
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
17 49 0.79
18 13 0.21
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:2009584 original size:23 final size:24
Alignment explanation
Indices: 2009524--2009584 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
2009514 TATTATAATT
2009524 TTAAATTT-ATATTTAAATTTAAAA
1 TTAAATTTAAT-TTTAAATTTAAAA
*
2009548 TTATAA--TAAATTTAAATTTAAAA
1 TTA-AATTTAATTTTAAATTTAAAA
2009571 -TAAATTTAATTTTA
1 TTAAATTTAATTTTA
2009585 GAATAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 2 0.06
22 2 0.06
23 21 0.68
24 4 0.13
25 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTAAATTTAATTTTAAATTTAAAA
Found at i:2010183 original size:39 final size:38
Alignment explanation
Indices: 2010137--2010251 Score: 108
Period size: 39 Copynumber: 3.0 Consensus size: 38
2010127 CCCCATGATT
* *
2010137 GGGTAAGAGATTGGCTGATGATGATCTGCCTCAGGCTC
1 GGGTAAGAGATTGGATGATGATGATCTGCCTCAAGCTC
* * *
2010175 GAGGTAAGAGATCGAATGACTGCA--ATCTGCCCCAAGCTC
1 G-GGTAAGAGATTGGATGA-TG-ATGATCTGCCTCAAGCTC
* * *
2010214 GGAGTAAGAGATTGGTTGACGATGATTTGCCTCAAGCT
1 GG-GTAAGAGATTGGATGATGATGATCTGCCTCAAGCT
2010252 TGGGGTAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
37 1 0.02
38 3 0.05
39 53 0.88
40 2 0.03
41 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (38 bp):
GGGTAAGAGATTGGATGATGATGATCTGCCTCAAGCTC
Found at i:2010239 original size:78 final size:78
Alignment explanation
Indices: 2010139--2010473 Score: 361
Period size: 78 Copynumber: 4.3 Consensus size: 78
2010129 CCATGATTGG
* * * * *
2010139 GTAAGAGATTGGCTGATGATGATCTGCCTCAGGCTCGAGGTAAGAGATCGAATGACTGCAATCTG
1 GTAAGAGATTGGCTGATGATGATCTGCCTCAAGCTCGGGGTAAAAGATCGAATGGCTGCAATCTA
2010204 CCCCAAGCTCGGA
66 CCCCAAGCTCGGA
* * * * *
2010217 GTAAGAGATTGGTTGACGATGATTTGCCTCAAGCTTGGGGTAAAAGATCGAATGGCTGTAATCTA
1 GTAAGAGATTGGCTGATGATGATCTGCCTCAAGCTCGGGGTAAAAGATCGAATGGCTGCAATCTA
* * *
2010282 TCCCGAGCTC-AA
66 CCCCAAGCTCGGA
* * * * *
2010294 GGTAAAAGATTGGCTGATGGTGATCTGTCC-CAAGCTTGGGGTAAAAGATC-AATTGGTTGTAAT
1 -GTAAGAGATTGGCTGATGATGATCTG-CCTCAAGCTCGGGGTAAAAGATCGAA-TGGCTGCAAT
* * *
2010357 CTAACCAAAGCTCGGG
63 CTACCCCAAGCTCGGA
* * * * *
2010373 GTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGAACGGCTGCAATCTA
1 GTAAGAGATTGGCTGATGATGATCTGCCTCAAGCTCGGGGTAAAAGATCGAATGGCTGCAATCTA
*
2010438 CCCCAAGCTCGGG
66 CCCCAAGCTCGGA
* *
2010451 GTAAGAGATTGGTTGATGGTGAT
1 GTAAGAGATTGGCTGATGATGAT
2010474 GTAACTTCAC
Statistics
Matches: 213, Mismatches: 38, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
77 5 0.02
78 204 0.96
79 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (78 bp):
GTAAGAGATTGGCTGATGATGATCTGCCTCAAGCTCGGGGTAAAAGATCGAATGGCTGCAATCTA
CCCCAAGCTCGGA
Found at i:2010850 original size:98 final size:99
Alignment explanation
Indices: 2010688--2011463 Score: 777
Period size: 98 Copynumber: 7.9 Consensus size: 99
2010678 CGTGGGTTCG
* * * *** * * * *
2010688 ATCTTTCTCGTCATG-TTTCTAAGGTACAAGGTTCGTTGTTGCG-GTTGTAACCTTTCTCTCTAT
1 ATCTTTCCCTTCATGCTTTCTGAGGTACAAGGTTCGCCATTGCGACTT-AAACCTTTCCCTTTAT
* * *
2010751 AT-CTTCGTGGTACTGGATTTGCCGTTACAGCTTAA
65 ATCCTT-GTGGTACTGGATTCGCCGTTGCGGCTTAA
* * * * *
2010786 ATCTTTCCCTTCAAGCTTTC-GAGGTACAACGTTCGCCGTTACGACTTAAACCTTTCCTTTTATA
1 ATCTTTCCCTTCATGCTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTATA
* *
2010850 TCCTTGTGGTACTAGATTCGTCGTTGCGGCTTAA
66 TCCTTGTGGTACTGGATTCGCCGTTGCGGCTTAA
* * * *
2010884 ATCTTTCCCTTCATGC-TTCTAAGGTACAAGGTTCACCGTTGCGATTTAAACCTTTCCCTTTATA
1 ATCTTTCCCTTCATGCTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTATA
*
2010948 TCCTTGTGGTACTGGATTCGCCATTGCGGCTTAA
66 TCCTTGTGGTACTGGATTCGCCGTTGCGGCTTAA
* * * ** * *
2010982 ATTTTTCCCTTCATG-TCTCTGAGGTATAAGGTTCGCCATTATGACTTAAACCTTTCCCTTTGTG
1 ATCTTTCCCTTCATGCTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTATA
* * ** * *
2011046 T-CTTCGTGGAATTATAATCGCCGTTGCGGATTAA
66 TCCTT-GTGGTACTGGATTCGCCGTTGCGGCTTAA
* * * *
2011080 ATCTTTCTCTTCATG-TCTCTGAGGTATAAGGTTCGCCATTGTGACTTAAACCTTTCCCTTT-TA
1 ATCTTTCCCTTCATGCTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTATA
* * * ** *
2011143 TGTCTTCGTGGTATTGAATTTACCATTGCGGCTTAA
66 T-CCTT-GTGGTACTGGATTCGCCGTTGCGGCTTAA
* * * **
2011179 ATTTTTCCCTTCATGC-TTCCGAGGTATAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATA
1 ATCTTTCCCTTCATGCTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTATA
* *
2011243 TCCTTGTGGTACTGGATTCGCTGTTGTGGCTTAA
66 TCCTTGTGGTACTGGATTCGCCGTTGCGGCTTAA
* * * * *
2011277 ATCTTTCCCTTTATGC-TTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTCAAA
1 ATCTTTCCCTTCATGCTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTATA
* * *
2011341 T-CTTCGTGGTATTGGATTTGTCGTTGCGGCTTAA
66 TCCTT-GTGGTACTGGATTCGCCGTTGCGGCTTAA
* * **
2011375 ATCTTTCCCTTCATGC-TTCAGAGGTACAAGGTTTGCCATTGCGACTTAAACCTTTCCCTCCATA
1 ATCTTTCCCTTCATGCTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTATA
* * *
2011439 TCCTTGTGGCACTAGATTTGCCGTT
66 TCCTTGTGGTACTGGATTCGCCGTT
2011464 CTGAGGTACA
Statistics
Matches: 569, Mismatches: 97, Indels: 24
0.82 0.14 0.03
Matches are distributed among these distances:
97 11 0.02
98 462 0.81
99 93 0.16
100 3 0.01
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (99 bp):
ATCTTTCCCTTCATGCTTTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTATA
TCCTTGTGGTACTGGATTCGCCGTTGCGGCTTAA
Found at i:2011030 original size:196 final size:195
Alignment explanation
Indices: 2010688--2011456 Score: 866
Period size: 196 Copynumber: 3.9 Consensus size: 195
2010678 CGTGGGTTCG
* * * ** * * * *
2010688 ATCTTTCTCGTCATGTTTCTAAGGTACAAGGTTCGTTGTTGCG-GTTGTAACCTTTCTCTCTATA
1 ATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCGCCGTTGCGACTT-AAACCTTTCCCTTTATA
* * * * *
2010752 TCTTCGTGGTACTGGATTTGCCGTTACAGCTTAAATCTTTCCCTTCAAGCTT-TCGAGGTACAAC
65 TCTTCGTGGTACTGGATTTGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCT-GAGGTACAAG
* * **
2010816 GTTCGCCGTTACGACTTAAACCTTTCCTTTTATATCCTTGTGGTACTAGATTCGTCGTTGCGGCT
129 GTTCGCCATTACGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTAGATTCG-CGTTGCGGCT
2010881 TAA
193 TAA
* *
2010884 ATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCACCGTTGCGATTTAAACCTTTCCCTTTATAT
1 ATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATAT
* * *
2010949 CCTT-GTGGTACTGGATTCGCCATTGCGGCTTAAATTTTTCCCTTCATG-TCTCTGAGGTATAAG
66 -CTTCGTGGTACTGGATTTGCCATTGCGGCTTAAATCTTTCCCTTCATGCT-TCTGAGGTACAAG
* *** * * * * * *
2011012 GTTCGCCATTATGACTTAAACCTTTCCCTTTGTGT-CTTCGTGGAATTATAATCGCCGTTGCGGA
129 GTTCGCCATTACGACTTAAACCTTTCCCTCCATATCCTT-GTGGTACTAGATTCG-CGTTGCGGC
2011076 TTAA
192 TTAA
* * * * *
2011080 ATCTTTCTCTTCATG-TCTCTGAGGTATAAGGTTCGCCATTGTGACTTAAACCTTTCCCTTTTAT
1 ATCTTTCCCTTCATGCT-TCTAAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCC-TTTAT
* * * * * * *
2011144 GTCTTCGTGGTATTGAATTTACCATTGCGGCTTAAATTTTTCCCTTCATGCTTCCGAGGTATAAG
64 ATCTTCGTGGTACTGGATTTGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAG
* * *
2011209 GTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTGGATTCGCTGTTGTGGCT
129 GTTCGCCATTACGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTAGATTCGC-GTTGCGGCT
2011274 TAA
193 TAA
* * * * *
2011277 ATCTTTCCCTTTATGCTTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTCAAAT
1 ATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATAT
* * * *
2011342 CTTCGTGGTATTGGATTTGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCAGAGGTACAAGGT
66 CTTCGTGGTACTGGATTTGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGT
* * *
2011407 TTGCCATTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGCACTAGATT
131 TCGCCATTACGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTAGATT
2011457 TGCCGTTCTG
Statistics
Matches: 487, Mismatches: 74, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
195 5 0.01
196 314 0.64
197 163 0.33
198 5 0.01
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (195 bp):
ATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATAT
CTTCGTGGTACTGGATTTGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGT
TCGCCATTACGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTAGATTCGCGTTGCGGCTTAA
Done.