Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008727.1 Hibiscus syriacus cultivar Beakdansim tig00111794_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1388410
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:1495 original size:32 final size:32
Alignment explanation
Indices: 1441--1501 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
1431 AAATAGATGG
*
1441 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
***
1473 AGTGGTGAAAGAAGTTTCGGTGTTAAGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGG
1502 GTGATATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.44, T:0.25
Consensus pattern (32 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
Found at i:1737 original size:14 final size:14
Alignment explanation
Indices: 1691--1737 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
1681 AAAATATGAA
1691 GAAGAAAAGAGGGAG
1 GAAGAAAAGA-GGAG
*
1706 GAAGAAGAAGA-GAT
1 GAAGAA-AAGAGGAG
*
1720 GAAGAAATGAGGAG
1 GAAGAAAAGAGGAG
1734 GAAG
1 GAAG
1738 GAGAGGCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 3 0.11
14 14 0.52
15 6 0.22
16 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.43, T:0.04
Consensus pattern (14 bp):
GAAGAAAAGAGGAG
Found at i:3335 original size:19 final size:19
Alignment explanation
Indices: 3272--3334 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
3262 AATGTCGAGT
*
3272 TAATTTTGTATAAGATTTA
1 TAATTTTGTATACGATTTA
3291 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
3310 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
3329 T-ATTTT
1 TAATTTT
3335 TTTATGTGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
18 5 0.12
19 38 0.88
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:3776 original size:197 final size:198
Alignment explanation
Indices: 3418--4810 Score: 2389
Period size: 197 Copynumber: 7.1 Consensus size: 198
3408 GGTCATGTCG
* *** *
3418 ACTAATATAGTTTGTGTCGATATTTTTTTTCTAGAATGAATT-TTTACAAGGTGCATCAATAAAG
1 ACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCA-CCATAAAG
3482 TGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGTAATAT
65 TGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAT
*
3546 GTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTG
129 GTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTG
3611 TCGAC
194 TCGAC
*
3616 ACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCATAAAGT
1 ACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCATAAAGT
*
3681 GTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT-ATATGT
66 GTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
3745 AATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTC
131 AATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTC
3810 GAC
196 GAC
*
3813 ACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACCATAAAGT
1 ACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCATAAAGT
3877 GTCGATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
66 GTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
3941 AATTTTT-AATCTAACC-GTACAATTATACC-GTTTTATGAGAGAATAAGTCTAAATAATGTGTC
131 AATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTC
4003 GAC
196 GAC
*
4006 ACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCCATAAAG
1 ACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCA-CCATAAAG
4071 TGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAT
65 TGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAT
*
4136 GTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTG
129 GTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTG
4201 TCGAC
194 TCGAC
* *
4206 ACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC-CAAAGT
1 ACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCATAAAGT
4270 GTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
66 GTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
*
4335 AATTTTTTAATCTAACCGGTACAATTATACCGGTTTTTATGAGAGAAT-AGTCTAAATAATGTGT
131 AATTTTTCAATCTAACCGGTACAATTATACCGG-TTTTATGAGAGAATAAGTCTAAATAATGTGT
4399 CGAC
195 CGAC
*** *
4403 ACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATT-TTTACAAGGTGCATCAATAAAG
1 ACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCA-CCATAAAG
4466 TGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATG
65 TGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATG
4530 TAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGT
130 TAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGT
4595 CG--
195 CGAC
4597 AC-AA-ATAGTTTGTGTCGATA--TTTTTTCCA-AATGAATTAAAAACAAGGTGCACCCATAAAG
1 ACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCA-CCATAAAG
4657 TGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATG
65 TGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATG
*
4721 TAATTTTTCAATCTAACCGGTACAA-TATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGT
130 TAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGT
4785 CGAC
195 CGAC
*
4789 ACTAATATATTTTGTGTCGATA
1 ACTAATATAGTTTGTGTCGATA
4811 CTAATTTAAA
Statistics
Matches: 1150, Mismatches: 26, Indels: 42
0.94 0.02 0.03
Matches are distributed among these distances:
190 48 0.04
191 115 0.10
192 18 0.02
193 82 0.07
194 43 0.04
195 98 0.09
196 166 0.14
197 347 0.30
198 116 0.10
199 25 0.02
200 92 0.08
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (198 bp):
ACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCATAAAGT
GTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
AATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTC
GAC
Found at i:4193 original size:393 final size:395
Alignment explanation
Indices: 3418--4810 Score: 2396
Period size: 393 Copynumber: 3.6 Consensus size: 395
3408 GGTCATGTCG
* * *** * *
3418 ACTAATATAGTTTGTGTCGATATTTTTTTTCTAGAATGAATT-TTTACAAGGTGCATCAATAAAG
1 ACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCCATAAAG
3482 TGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGTAATAT
66 TGTCGATCC--ATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAT
3546 GTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTG
129 GTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTG
*
3611 TCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAT
194 TCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCAT
*
3676 AAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT-A
258 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
3740 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAAT
323 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAAT
3805 GTGTCGAC
388 GTGTCGAC
3813 ACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCA-CCATAAAG
1 ACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCCATAAAG
3876 TGTCGATCCATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
66 TGTCGATCCATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
3941 AA-TTTTTAATCTAACC-GTACAATTATACC-GTTTTATGAGAGAATAAGTCTAAATAATGTGTC
131 AATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTC
4003 GACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCCATA
196 GACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGCA-CCATA
4068 AAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
259 AAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
*
4133 TATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAAT
323 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAAT
4198 GTGTCGAC
388 GTGTCGAC
4206 ACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCC--AAAG
1 ACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCCATAAAG
4269 TGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATG
66 TGTCGATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATG
4334 TAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTTATGAGAGAAT-AGTCTAAATAATGTG
130 TAATTTTTTAATCTAACCGGTACAATTATACCGG-TTTTATGAGAGAATAAGTCTAAATAATGTG
*** *
4398 TCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATT-TTTACAAGGTGCATCAAT
194 TCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCA-CCAT
4462 AAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
258 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
4526 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAAT
323 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAAT
4591 GTGTCG--
388 GTGTCGAC
4597 AC-AA-ATAGTTTGTGTCGATA-TTTTTT-CCA-AATGAATTAAAAACAAGGTGCACCCATAAAG
1 ACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCCATAAAG
*
4657 TGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
66 TGTCGATCCATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
* *
4722 AATTTTTCAATCTAACCGGTACAA-TATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTC
131 AATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTC
*
4786 GACACTAATATATTTTGTGTCGATA
196 GACACTAATATAGTTTGTGTCGATA
4811 CTAATTTAAA
Statistics
Matches: 964, Mismatches: 19, Indels: 39
0.94 0.02 0.04
Matches are distributed among these distances:
385 14 0.01
386 73 0.08
387 76 0.08
388 24 0.02
389 23 0.02
390 86 0.09
391 37 0.04
392 93 0.10
393 269 0.28
394 82 0.09
395 98 0.10
396 25 0.03
397 50 0.05
398 14 0.01
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (395 bp):
ACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCCATAAAG
TGTCGATCCATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGT
AATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTC
GACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCATAAA
GTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAT
GTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTG
TCGAC
Found at i:6285 original size:18 final size:18
Alignment explanation
Indices: 6262--6323 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
6252 ATCGGTCGCA
* * *
6262 GAAGATGAAGCTGACGAT
1 GAAGATGACGATGATGAT
6280 GAAGATGACGATGATGAT
1 GAAGATGACGATGATGAT
*
6298 GATGATGACGATGATGAT
1 GAAGATGACGATGATGAT
6316 GAAGATGA
1 GAAGATGA
6324 TGATCCAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (18 bp):
GAAGATGACGATGATGAT
Found at i:6286 original size:6 final size:6
Alignment explanation
Indices: 6262--6323 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
6252 ATCGGTCGCA
* * * * * *
6262 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
*
6310 GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA
6324 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:6297 original size:3 final size:3
Alignment explanation
Indices: 6277--6327 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
6267 TGAAGCTGAC
* * * *
6277 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAT GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
6325 GAT
1 GAT
6328 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:6324 original size:12 final size:12
Alignment explanation
Indices: 6265--6327 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
6255 GGTCGCAGAA
* *
6265 GATGAAGCTGAC
1 GATGAAGATGAT
*
6277 GATGAAGATGAC
1 GATGAAGATGAT
*
6289 GATGATGATGAT
1 GATGAAGATGAT
*
6301 GATGACGATGAT
1 GATGAAGATGAT
6313 GATGAAGATGAT
1 GATGAAGATGAT
6325 GAT
1 GAT
6328 CCAAACAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:7552 original size:23 final size:23
Alignment explanation
Indices: 7497--7557 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
7487 ATAGGTAAAC
*
7497 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
7520 ATATAA--TAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
7541 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
7558 ATGGTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 18 0.56
23 14 0.44
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:7565 original size:23 final size:21
Alignment explanation
Indices: 7518--7567 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
7508 TAGGTAGCCC
*
7518 TTATATAATAATAGGTATCGT
1 TTATATAATAATAGGTATCGG
7539 TTATATAATGTAATAGGTAAT-GG
1 TTATATAA--TAATAGGT-ATCGG
7562 TTATAT
1 TTATAT
7568 TGTAAAGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 8 0.32
23 15 0.60
24 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (21 bp):
TTATATAATAATAGGTATCGG
Found at i:26401 original size:48 final size:48
Alignment explanation
Indices: 26332--26434 Score: 152
Period size: 48 Copynumber: 2.1 Consensus size: 48
26322 TTCAAATCAT
* * *
26332 CCCCTGTGATTATAATGTCATCTACATACACTAATAAGGCAATAACTC
1 CCCCTGTGACTATAATGTCATCTACATAAACCAATAAGGCAATAACTC
* *
26380 CCCCTTTGACTATAATGTCATCTACATAAACCAATAAGGCAGTAACTC
1 CCCCTGTGACTATAATGTCATCTACATAAACCAATAAGGCAATAACTC
*
26428 CCACTGT
1 CCCCTGT
26435 AGCAGGATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (48 bp):
CCCCTGTGACTATAATGTCATCTACATAAACCAATAAGGCAATAACTC
Found at i:32572 original size:21 final size:19
Alignment explanation
Indices: 32531--32574 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
32521 TAACCAAAGC
*
32531 AAAAGAAATATTATAAAAA
1 AAAAGAAATATTACAAAAA
32550 AAAAGCAAATTATTACAACAAA
1 AAAAG-AAA-TATTACAA-AAA
32572 AAA
1 AAA
32575 TATTTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 3 0.14
21 7 0.33
22 6 0.29
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAAGAAATATTACAAAAA
Found at i:51970 original size:53 final size:53
Alignment explanation
Indices: 51910--52020 Score: 222
Period size: 53 Copynumber: 2.1 Consensus size: 53
51900 CGAAATAATA
51910 ATATAATTGACCCTTATATATTTAGGGATGATTTTTATAATATCATTTTATCT
1 ATATAATTGACCCTTATATATTTAGGGATGATTTTTATAATATCATTTTATCT
51963 ATATAATTGACCCTTATATATTTAGGGATGATTTTTATAATATCATTTTATCT
1 ATATAATTGACCCTTATATATTTAGGGATGATTTTTATAATATCATTTTATCT
52016 ATATA
1 ATATA
52021 TATTTTAATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (53 bp):
ATATAATTGACCCTTATATATTTAGGGATGATTTTTATAATATCATTTTATCT
Found at i:53925 original size:40 final size:41
Alignment explanation
Indices: 53862--53941 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
53852 TTTAGGATCT
*
53862 TTCTTAAGACTATCACAAATGCTAGTGGTTTAGTAATTTAA
1 TTCTTAAGACTATCACAAATGCTAGTGGTTTAGAAATTTAA
*
53903 TTCTTAAGATTATC-CAAATGCTAGTGGTTTAGAAATTTA
1 TTCTTAAGACTATCACAAATGCTAGTGGTTTAGAAATTTA
53942 GGATCTTTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 24 0.65
41 13 0.35
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (41 bp):
TTCTTAAGACTATCACAAATGCTAGTGGTTTAGAAATTTAA
Found at i:54743 original size:34 final size:35
Alignment explanation
Indices: 54687--54752 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
54677 AAAATAAAGG
*
54687 TAAAATATAGAAAATAAGTAAAG-GGAAAAAAGAA
1 TAAAATATAGAAAATAAATAAAGAGGAAAAAAGAA
* *
54721 TAAAATA-ATAAAATAAAATAAAGATGAAAAAA
1 TAAAATATAGAAAAT-AAATAAAGAGGAAAAAA
54753 TATGTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 6 0.22
34 14 0.52
35 7 0.26
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (35 bp):
TAAAATATAGAAAATAAATAAAGAGGAAAAAAGAA
Found at i:54804 original size:17 final size:17
Alignment explanation
Indices: 54784--54818 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
54774 GTAAAAAACC
*
54784 AAAAATAAAGAAATATA
1 AAAAATAAAAAAATATA
*
54801 AAAAGTAAAAAAATATA
1 AAAAATAAAAAAATATA
54818 A
1 A
54819 TTAAATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAAATAAAAAAATATA
Found at i:56667 original size:36 final size:35
Alignment explanation
Indices: 56616--56751 Score: 136
Period size: 36 Copynumber: 3.9 Consensus size: 35
56606 AGCTCGAAGG
56616 TTTG-GTGTTTCAAGAGAAACATTTTCAAAGGTTTT
1 TTTGTGTGTTTCAAGAGAAACA-TTTCAAAGGTTTT
*
56651 TTTGTGTGTTTCAAGAGAAATCATTCCAAAGG--TT
1 TTTGTGTGTTTCAAGAGAAA-CATTTCAAAGGTTTT
* **
56685 TTT-TGTGTTTCAAGAGAAACACTTTAAAATATCTTT
1 TTTGTGTGTTTCAAGAGAAACA-TTTCAAAGGT-TTT
* * *
56721 TTTTTGGGTTTCAAGGGAAACAATTTCAAAG
1 TTTGTGTGTTTCAAGAGAAAC-ATTTCAAAG
56752 ATTGGTGCTT
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
32 2 0.02
33 21 0.25
34 5 0.06
35 4 0.05
36 28 0.33
37 23 0.27
38 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (35 bp):
TTTGTGTGTTTCAAGAGAAACATTTCAAAGGTTTT
Found at i:56851 original size:36 final size:36
Alignment explanation
Indices: 56774--57005 Score: 123
Period size: 36 Copynumber: 6.7 Consensus size: 36
56764 AGATAAATAG
* * * ** * *
56774 TCTCAAGAAAGCCAAAACTTTGTTTCAAGGGAAATTG
1 TCTCAAGAGAGACAAAA-TTTGTTTTAAAAGAAACTA
56811 TCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTA
1 TCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTA
* * *
56847 TCTCAAGGGAGACGAAATTTGTTTT-AAGGAAAACATA
1 TCTCAAGAGAGACAAAATTTGTTTTAAAAG-AAAC-TA
* * * *
56884 T-TC-A-A-AG----ATTTTG-TTTCAAGGAAAACTG
1 TCTCAAGAGAGACAAAATTTGTTTTAAAAG-AAACTA
* *
56912 TCTCAAGAGAGACAAAATTTGTTTTAAGAG-AA-TG
1 TCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTA
* * **
56946 TCTCAAGAGAGAC-AATTTTTTTTTGAGTA-AAACTA
1 TCTCAAGAGAGACAAAATTTGTTTT-AAAAGAAACTA
*
56981 TATCAAGAGAGACAAAACTTTGTTT
1 TCTCAAGAGAGACAAAA-TTTGTTT
57006 CAAGGAAAAC
Statistics
Matches: 153, Mismatches: 25, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
28 5 0.03
29 16 0.10
30 1 0.01
31 1 0.01
32 2 0.01
33 11 0.07
34 19 0.12
35 19 0.12
36 50 0.33
37 29 0.19
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.31
Consensus pattern (36 bp):
TCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTA
Found at i:56932 original size:65 final size:65
Alignment explanation
Indices: 56841--57080 Score: 227
Period size: 65 Copynumber: 3.6 Consensus size: 65
56831 GTTTTAAAAG
* *
56841 AAACTATCTCAAGGGAGACGAAATTTGTTTTAAGGAAAACATATTCAAAGATTTTGTTTCAAGGA
1 AAACTATCTCAAGAGAGACAAAATTTGTTTTAAGGAAAACATATTCAAAGATTTTGTTTCAAGGA
* * * *
56906 AAACTGTCTCAAGAGAGACAAAATTTGTTTTAA-G-AGA-ATGTCTCAAGAGAGACAATTTTTTT
1 AAACTATCTCAAGAGAGACAAAATTTGTTTTAAGGAAAACATAT-TC-A-A-AG---ATTTTGTT
** *
56968 TTGAGTA
59 TCAAGGA
* * * *
56975 AAACTATATCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGTTTTTGTTTCAAGG
1 AAACTATCTCAAGAGAGACAAAA-TTTGTTTTAAGGAAAACATATTCAAAGATTTTGTTTCAAGG
*
57040 G
65 A
*
57041 AAAC-AGACTCAAGAGAGACAAAATTTGTTTTAAGAGAAAA
1 AAACTA-TCTCAAGAGAGACAAAATTTGTTTTAAG-GAAAA
57081 TATCTCAAGG
Statistics
Matches: 138, Mismatches: 24, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
62 3 0.02
63 4 0.03
64 2 0.01
65 42 0.30
66 35 0.25
69 34 0.25
70 10 0.07
71 2 0.01
72 4 0.03
73 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (65 bp):
AAACTATCTCAAGAGAGACAAAATTTGTTTTAAGGAAAACATATTCAAAGATTTTGTTTCAAGGA
Found at i:56950 original size:34 final size:36
Alignment explanation
Indices: 56893--57015 Score: 126
Period size: 34 Copynumber: 3.5 Consensus size: 36
56883 ATTCAAAGAT
* *
56893 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGTAAAACTGTCTCAAGAGAGACAAAA
* *
56929 TTTGTTTTAAG-AGAA-TGTCTCAAGAGAGAC-AAT
1 TTTGTTTTAAGTAAAACTGTCTCAAGAGAGACAAAA
* * * *
56962 TTTTTTTTGAGTAAAACTATATCAAGAGAGACAAAA
1 TTTGTTTTAAGTAAAACTGTCTCAAGAGAGACAAAA
* *
56998 CTTTGTTTCAAGGAAAAC
1 -TTTGTTTTAAGTAAAAC
57016 AAATTCAAAG
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
33 11 0.16
34 18 0.26
35 16 0.23
36 12 0.17
37 13 0.19
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (36 bp):
TTTGTTTTAAGTAAAACTGTCTCAAGAGAGACAAAA
Found at i:57012 original size:135 final size:135
Alignment explanation
Indices: 56728--57109 Score: 423
Period size: 135 Copynumber: 2.8 Consensus size: 135
56718 TTTTTTTTGG
* * * * *
56728 GTTTCAAGGGAAACAATTTCAAAGATTGGTGCTTCAA-GATAAA-TAGTCTCAAGAAAGCCAAAA
1 GTTTCAAGGAAAACAA-TTCAAAGATT-TTGTTTCAAGGA-AAACT-GTCTCAAGAGAGACAAAA
* * * *
56791 CTTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTATCTCAAGGG
62 -TTTGTTTTAAGAG-AATTGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTATATCAAGAG
*
56856 AGACGAAATTT
125 AGACAAAATTT
*
56867 GTTTTAAGGAAAACATATTCAAAGATTTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTT
1 GTTTCAAGGAAAACA-ATTCAAAGATTTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTT
* * **
56932 GTTTTAAGAGAA-TGTCTCAAGAGAGAC-AATTTTTTTTTGAGTA-AAACTATATCAAGAGAGAC
65 GTTTTAAGAGAATTGTCTCAAGAGAGACAAAATTTGTTTT-AAAAGAAACTATATCAAGAGAGAC
56994 AAAACTTT
129 AAAA-TTT
* * * *
57002 GTTTCAAGGAAAACAAATTCAAAGTTTTTGTTTCAAGGGAAACAGACTCAAGAGAGACAAAATTT
1 GTTTCAAGGAAAAC-AATTCAAAGATTTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTT
* * * *
57067 GTTTTAAGAGAAAATATCTCAAGGGAGACGAAATTTGTTTTAA
65 GTTTTAAGAG-AATTGTCTCAAGAGAGACAAAATTTGTTTTAA
57110 GGAAAACAGA
Statistics
Matches: 209, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
134 29 0.14
135 88 0.42
136 5 0.02
137 25 0.12
138 35 0.17
139 26 0.12
140 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (135 bp):
GTTTCAAGGAAAACAATTCAAAGATTTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTTG
TTTTAAGAGAATTGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTATATCAAGAGAGACAA
AATTT
Found at i:57015 original size:37 final size:36
Alignment explanation
Indices: 56893--57116 Score: 148
Period size: 36 Copynumber: 6.5 Consensus size: 36
56883 ATTCAAAGAT
56893 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAA
* * *
56929 TTTGTTTTAA-GAGAA-TGTCTCAAGAGAGAC-AAT
1 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAA
* ** * * *
56962 TTTTTTTTGAGTAAAACTATATCAAGAGAGACAAAA
1 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAA
** **
56998 CTTTGTTTCAAGGAAAACAAAT-TC-A-A-AG----TT
1 -TTTGTTTCAAGGAAAAC-TGTCTCAAGAGAGACAAAA
* * *
57028 TTTGTTTCAAGGGAAACAGACTCAAGAGAGACAAAA
1 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAA
* * * *
57064 TTTGTTTTAAGAGAAAA-TATCTCAAGGGAGACGAAA
1 TTTGTTTCAAG-GAAAACTGTCTCAAGAGAGACAAAA
*
57100 TTTGTTTTAAGGAAAAC
1 TTTGTTTCAAGGAAAAC
57117 AGATTCAAAG
Statistics
Matches: 144, Mismatches: 29, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
28 1 0.01
29 18 0.12
30 1 0.01
31 1 0.01
32 2 0.01
33 10 0.07
34 20 0.14
35 23 0.16
36 47 0.33
37 19 0.13
38 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAA
Found at i:57104 original size:101 final size:101
Alignment explanation
Indices: 56947--57153 Score: 258
Period size: 101 Copynumber: 2.0 Consensus size: 101
56937 AAGAGAATGT
**
56947 CTCAAGAGAGACAATTTTTTTTTGAGTAAAACTATATCAAGAGAGACAAAACTTTGTTTCAAGGA
1 CTCAAGAGAGACAATTTTTTTAAGAGTAAAACTATATCAAGAGAGACAAAACTTTGTTTCAAGGA
** *
57012 AAACAAATTCAAAGTTTTTGTTTCAAGGGAAACAGA
66 AAACAAATTCAAAGACTTTGTTTCAAGGAAAACAGA
* * * *
57048 CTCAAGAGAGACAAAATTTGTTTTAAGAG-AAAA-TATCTCAAGGGAGACGAAA-TTTGTTTTAA
1 CTCAAGAGAGAC--AATTT-TTTTAAGAGTAAAACTATATCAAGAGAGACAAAACTTTGTTTCAA
* *
57110 GGAAAACAGATTCAAAGACTTTGTTTTAAGGAAAACAGA
63 GGAAAACAAATTCAAAGACTTTGTTTCAAGGAAAACAGA
*
57149 TTCAA
1 CTCAA
57154 AGACTTTGTT
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
101 59 0.65
102 16 0.18
103 9 0.10
104 7 0.08
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.29
Consensus pattern (101 bp):
CTCAAGAGAGACAATTTTTTTAAGAGTAAAACTATATCAAGAGAGACAAAACTTTGTTTCAAGGA
AAACAAATTCAAAGACTTTGTTTCAAGGAAAACAGA
Found at i:57142 original size:29 final size:29
Alignment explanation
Indices: 57100--57198 Score: 144
Period size: 29 Copynumber: 3.4 Consensus size: 29
57090 GGAGACGAAA
57100 TTTGTTTTAAGGAAAACAGATTCAAAGAC
1 TTTGTTTTAAGGAAAACAGATTCAAAGAC
57129 TTTGTTTTAAGGAAAACAGATTCAAAGAC
1 TTTGTTTTAAGGAAAACAGATTCAAAGAC
** * **
57158 TTTGTTTCGAGGAAAACAAATTCAAAGTT
1 TTTGTTTTAAGGAAAACAGATTCAAAGAC
*
57187 TTTGTTTAAAGG
1 TTTGTTTTAAGG
57199 GAAATCGTCT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.34
Consensus pattern (29 bp):
TTTGTTTTAAGGAAAACAGATTCAAAGAC
Found at i:57245 original size:36 final size:36
Alignment explanation
Indices: 57187--57303 Score: 155
Period size: 36 Copynumber: 3.2 Consensus size: 36
57177 ATTCAAAGTT
* *
57187 TTTGTTTAAAG-GGAAATCGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAAT-GTCTCAAGAGAGACAAAA
* *
57223 TTTATTTTAAGAGAAAATGTCTCAAGAGAGATAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
* *
57259 TTTGTTTTAAGAGAAATTGTCTCAAGAGATACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
57295 CTTTGTTTT
1 -TTTGTTTT
57304 GAGTAAATTA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
36 58 0.82
37 13 0.18
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (36 bp):
TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
Found at i:57312 original size:36 final size:35
Alignment explanation
Indices: 57199--57317 Score: 141
Period size: 36 Copynumber: 3.3 Consensus size: 35
57189 TGTTTAAAGG
* *
57199 GAAATCGTCTCAAGAGAGACAAAATTTATTTTAAGA
1 GAAATTGTCTCAAGAGAGACAAAATTTGTTTT-AGA
* *
57235 GAAAATGTCTCAAGAGAGATAAAATTTGTTTTAAGA
1 GAAATTGTCTCAAGAGAGACAAAATTTGTTTT-AGA
*
57271 GAAATTGTCTCAAGAGATACAAAACTTTGTTTT-GA
1 GAAATTGTCTCAAGAGAGACAAAA-TTTGTTTTAGA
57306 GTAAATTAGTCT
1 G-AAATT-GTCT
57318 TGAGCGAGGC
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
35 3 0.04
36 58 0.79
37 12 0.16
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (35 bp):
GAAATTGTCTCAAGAGAGACAAAATTTGTTTTAGA
Found at i:66074 original size:2 final size:2
Alignment explanation
Indices: 66067--66091 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
66057 ACCAACTTAC
66067 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
66092 ATTATGGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67023 original size:41 final size:41
Alignment explanation
Indices: 66978--67060 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
66968 ATTATAGTCT
66978 GCATAATCATGTTTATTTTAATATCATTTATTCTATTTAGA
1 GCATAATCATGTTTATTTTAATATCATTTATTCTATTTAGA
67019 GCATAATCATGTTTATTTTAATATCATTTATTCTATTTAGA
1 GCATAATCATGTTTATTTTAATATCATTTATTCTATTTAGA
67060 G
1 G
67061 TTTATTTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (41 bp):
GCATAATCATGTTTATTTTAATATCATTTATTCTATTTAGA
Found at i:69951 original size:83 final size:86
Alignment explanation
Indices: 69808--70011 Score: 238
Period size: 83 Copynumber: 2.4 Consensus size: 86
69798 ATCTATCGCG
* * * * * *
69808 GCAAAAGGTCGATATCTATAAC-AGCATTTTCGAAACAAACG-TCGCAAAAGGCCGATATCTATA
1 GCAAAAGGTCGAGATCTATAGCGA-CGTTTTCGGAACAAACGCT-GTAAAAGGCCGAGATCTATA
* *
69871 GCGACGTTTTTTGAA-AAACGAC
64 GCGACATTTTTGGAACAAACGAC
* * *
69893 GCAAAATGTC-AGATCTATAGCGGCGTTTT-GGAACAAACGCTGTAAAAGGTCGAGATCTATAGC
1 GCAAAAGGTCGAGATCTATAGCGACGTTTTCGGAACAAACGCTGTAAAAGGCCGAGATCTATAGC
* *
69956 GGCATTTTTGGAACAAACGCC
66 GACATTTTTGGAACAAACGAC
69977 GCAAAAGGTCGAGATCTATAGCGACGTTTTCGGAA
1 GCAAAAGGTCGAGATCTATAGCGACGTTTTCGGAA
70012 TAATGCCGCA
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
83 38 0.38
84 30 0.30
85 27 0.27
86 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (86 bp):
GCAAAAGGTCGAGATCTATAGCGACGTTTTCGGAACAAACGCTGTAAAAGGCCGAGATCTATAGC
GACATTTTTGGAACAAACGAC
Found at i:70035 original size:126 final size:128
Alignment explanation
Indices: 69810--70206 Score: 333
Period size: 126 Copynumber: 3.1 Consensus size: 128
69800 CTATCGCGGC
* * *
69810 AAAAGGTCGATATCTATAACAGCATTTTCGAAACAAACGTCGCAAAAGGCCGATATCTATAGCGA
1 AAAAGGTCGAGATCTATAACAGCATTTTCGAAACAAACGCCGCAAAAGGCCGAGATCTATAGCGA
**
69875 CGTTTTTTGAAAAACGACGCAAAATGTCAGATCTATAGCGGCG-TTTTGGA-ACAAACGCTGT
66 CGTTTTCGGAAAAACGACGCAAAATGTCAGATCTATAGCGGCGTTTTTGGATACAAACGCTGT
* * * * *
69936 AAAAGGTCGAGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGA
1 AAAAGGTCGAGATCTATAACAGCATTTTCGAAACAAACGCCGCAAAAGGCCGAGATCTATAGCGA
* * * * * * * *
70001 CGTTTTCGGAATAATGCCGCAAAA-GATTAGATCTATAGCGGTGTTTTTGGATACAAACACCGC
66 CGTTTTCGGAAAAACGACGCAAAATG-TCAGATCTATAGCGGCGTTTTTGGATACAAACGCTGT
* * * ** * * * * *** *
70064 AAAAGG-CCAGACCAATTGCAACGTTTTCGGAA-TAACGCCGCAAAA-GATTAGATCTATAGCGG
1 AAAAGGTCGAGATCTATAACAGCATTTTCGAAACAAACGCCGCAAAAGGCCGAGATCTATAGCGA
* * * * * * * * *
70126 TGTTTTTGGATAAAAACGTCGCAAAAGGTCAAATCTACAACGGTGTTTTTGGA-ATCAAACGCCG
66 CGTTTTCGG--AAAAACGACGCAAAATGTCAGATCTATAGCGGCGTTTTTGGATA-CAAACGCTG
*
70190 C
128 T
70191 AAAAGGTC-AGATCTAT
1 AAAAGGTCGAGATCTAT
70207 TGCGACGCTT
Statistics
Matches: 220, Mismatches: 43, Indels: 15
0.79 0.15 0.05
Matches are distributed among these distances:
125 21 0.10
126 104 0.47
127 79 0.36
128 16 0.07
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (128 bp):
AAAAGGTCGAGATCTATAACAGCATTTTCGAAACAAACGCCGCAAAAGGCCGAGATCTATAGCGA
CGTTTTCGGAAAAACGACGCAAAATGTCAGATCTATAGCGGCGTTTTTGGATACAAACGCTGT
Found at i:70039 original size:84 final size:84
Alignment explanation
Indices: 69864--70233 Score: 370
Period size: 84 Copynumber: 4.4 Consensus size: 84
69854 AAAGGCCGAT
* * * * *
69864 ATCTATAGCGACGTTTTTTGA-A-AAACGACGCAAAATGTCAGATCTATAGCGGCGTTTT-GGAA
1 ATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTATAGCGACGTTTTCGGAA
* * * * *
69926 CAAACGCTGTAAAAGGTCGAG
66 -TAACGCCGCAAAAGAT-TAG
*
69947 ATCTATAGCGGCATTTTTGGA-ACAAACGCCGCAAAAGGTCGAGATCTATAGCGACGTTTTCGGA
1 ATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTC-AGATCTATAGCGACGTTTTCGGA
*
70011 ATAATGCCGCAAAAGATTAG
65 ATAACGCCGCAAAAGATTAG
* * * * * * *
70031 ATCTATAGCGGTGTTTTTGGATACAAACACCGCAAAAGGCCAGACCAATTGCAACGTTTTCGGAA
1 ATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTATAGCGACGTTTTCGGAA
70096 TAACGCCGCAAAAGATTAG
66 TAACGCCGCAAAAGATTAG
* * * * * * ** *
70115 ATCTATAGCGGTGTTTTTGGATAAAAACGTCGCAAAAGGTCAAATCTACAACGGTGTTTTTGGAA
1 ATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTATAGCGACGTTTTCGGAA
* *
70180 TCAAACGCCGCAAAAGGTCAG
66 T--AACGCCGCAAAAGATTAG
* * *
70201 ATCTATTGCGACGCTTTTGGATACAAACGCCGC
1 ATCTATAGCGGCGTTTTTGGATACAAACGCCGC
70234 TAATCACCTT
Statistics
Matches: 238, Mismatches: 43, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
83 19 0.08
84 126 0.53
85 46 0.19
86 47 0.20
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (84 bp):
ATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTATAGCGACGTTTTCGGAA
TAACGCCGCAAAAGATTAG
Found at i:70231 original size:43 final size:42
Alignment explanation
Indices: 69808--70233 Score: 356
Period size: 43 Copynumber: 10.0 Consensus size: 42
69798 ATCTATCGCG
* * * * * * *
69808 GCAAAAGGTCGATATCTATAACAGCATTTTCGAAACAAACGTC
1 GCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCC
* * * * *
69851 GCAAAAGGCCGATATCTATAGCGACGTTTTTTGAA-AAACGAC
1 GCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCC
* *
69893 GCAAAATGTCAGATCTATAGCGGCG-TTTTGGAACAAACGCT
1 GCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCC
* *
69934 GTAAAAGGTCGAGATCTATAGCGGCATTTTTGGAACAAACGCC
1 GCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCC
* * * *
69977 GCAAAAGGTCGAGATCTATAGCGACGTTTTCGGAA-TAATGCC
1 GCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCC
* * * *
70019 GCAAAAGATTAGATCTATAGCGGTGTTTTTGGATACAAACACC
1 GCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAACGCC
* * * * ** * *
70062 GCAAAAGGCCAGACCAATTGCAACGTTTTCGGAA-TAACGCC
1 GCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCC
* * * * *
70103 GCAAAAGATTAGATCTATAGCGGTGTTTTTGGATAAAAACGTC
1 GCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAACGCC
* * * *
70146 GCAAAAGGTCAAATCTACAACGGTGTTTTTGGAATCAAACGCC
1 GCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAA-CAAACGCC
* * *
70189 GCAAAAGGTCAGATCTATTGCGACGCTTTTGGATACAAACGCC
1 GCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAACGCC
70232 GC
1 GC
70234 TAATCACCTT
Statistics
Matches: 302, Mismatches: 72, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
40 7 0.02
41 74 0.25
42 45 0.15
43 175 0.58
44 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (42 bp):
GCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCC
Found at i:73026 original size:40 final size:40
Alignment explanation
Indices: 72943--73140 Score: 141
Period size: 40 Copynumber: 4.9 Consensus size: 40
72933 CTTTAGCATT
* * * *
72943 GTTTGTATAAAAACGCCACTAAAG-CCTAGTCTATAGTGGC
1 GTTTATATAAAAAC-CCACTAAAGTACTAGTCTATAGCGAC
*
72983 GTTTATATAAAAACTCCACTAACGTACTAGTCTA-AGCGAC
1 GTTTATATAAAAAC-CCACTAAAGTACTAGTCTATAGCGAC
* * * *
73023 GTTTGTAAAAAAAAACCCACTAAAGTACGAGTCTATAGCGGC
1 G-TT-TATATAAAAACCCACTAAAGTACTAGTCTATAGCGAC
* * * ** * * * *
73065 ATTTGTATTAAATGCCGCTAAATTACAAGTCTATAGCGGC
1 GTTTATATAAAAACCCACTAAAGTACTAGTCTATAGCGAC
* *
73105 GTTTGTATAAAAACACCACTAAAATACGT-GTCTATA
1 GTTTATATAAAAAC-CCACTAAAGTAC-TAGTCTATA
73141 CATTTGTTGA
Statistics
Matches: 124, Mismatches: 28, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
40 64 0.52
41 46 0.37
42 14 0.11
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (40 bp):
GTTTATATAAAAACCCACTAAAGTACTAGTCTATAGCGAC
Found at i:73036 original size:41 final size:42
Alignment explanation
Indices: 72991--73140 Score: 110
Period size: 41 Copynumber: 3.6 Consensus size: 42
72981 GCGTTTATAT
* * *
72991 AAAAACTCCACTAACGTACTAGTCTA-AGCGACGTTTGTAAAA
1 AAAAAC-CCACTAAAGTACGAGTCTATAGCGACATTTGTAAAA
* *
73033 AAAAACCCACTAAAGTACGAGTCTATAGCGGCATTTGT--AT
1 AAAAACCCACTAAAGTACGAGTCTATAGCGACATTTGTAAAA
* ** * * * * * *
73073 TAAATGCCGCTAAATTACAAGTCTATAGCGGCGTTTGTATAA
1 AAAAACCCACTAAAGTACGAGTCTATAGCGACATTTGTAAAA
* * *
73115 AAACA-CCACTAAAATACGTGTCTATA
1 AAAAACCCACTAAAGTACGAGTCTATA
73141 CATTTGTTGA
Statistics
Matches: 85, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
40 32 0.38
41 34 0.40
42 19 0.22
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (42 bp):
AAAAACCCACTAAAGTACGAGTCTATAGCGACATTTGTAAAA
Found at i:74874 original size:20 final size:21
Alignment explanation
Indices: 74849--74941 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
74839 TTTTCCCAAT
*
74849 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
74869 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
74890 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
74910 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
74931 TCGCAATGCGA
1 TCGCAATGCGA
74942 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:74894 original size:41 final size:41
Alignment explanation
Indices: 74849--74941 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
74839 TTTTCCCAAT
74849 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
74890 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
74931 TCGCAATGCGA
1 TCGCAATGCGA
74942 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:74954 original size:41 final size:41
Alignment explanation
Indices: 74868--75002 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
74858 GAATAAGTAA
* *
74868 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
74909 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
74950 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
74991 TTCGCAACGCGA
1 ATCGCAACGCGA
75003 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:74955 original size:20 final size:20
Alignment explanation
Indices: 74930--75023 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
74920 AATTGGGAAA
*
74930 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
74950 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
74971 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
74991 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
75011 TTCGCAACGCGAT
1 ATCGCAACGCGAT
75024 TTACATAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:75285 original size:27 final size:27
Alignment explanation
Indices: 75229--75293 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
75219 ATCGCCGGTG
* *
75229 AAATCCCTCACAACCATTCACAGTCAA
1 AAATCCCTCACAACCATTCAAAATCAA
* *
75256 AAATCCCTCACAATCATTCAGAAATGAA
1 AAATCCCTCACAACCATTCA-AAATCAA
75284 AAATCACCTC
1 AAATC-CCTC
75294 CGAGGGTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 19 0.59
28 9 0.28
29 4 0.12
ACGTcount: A:0.43, C:0.32, G:0.05, T:0.20
Consensus pattern (27 bp):
AAATCCCTCACAACCATTCAAAATCAA
Found at i:75628 original size:20 final size:19
Alignment explanation
Indices: 75570--75768 Score: 193
Period size: 19 Copynumber: 10.7 Consensus size: 19
75560 TAATCGCAAC
75570 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
75589 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
*
75608 GCGATTTTTATTTCGCGGTT
1 GCGATTTTCATTTCGC-GTT
75628 GCGATTTTCATTTCGCGGTT
1 GCGATTTTCATTTCGC-GTT
75648 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
* *
75667 GCGATTGTC---T-G-GTC
1 GCGATTTTCATTTCGCGTT
**
75681 GCGATAGTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
*
75700 GCGA--TTC---TCTCGTT
1 GCGATTTTCATTTCGCGTT
**
75714 GCGATAGTCATTTCCGCGTT
1 GCGATTTTCATTT-CGCGTT
* *
75734 GCGATTCATCATTATCTCGTT
1 GCGATT-TTCATT-TCGCGTT
75755 GCGATTTTCATTTC
1 GCGATTTTCATTTC
75769 AACCAAAAGA
Statistics
Matches: 152, Mismatches: 14, Indels: 28
0.78 0.07 0.14
Matches are distributed among these distances:
14 20 0.13
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 54 0.36
20 53 0.35
21 16 0.11
22 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.44
Consensus pattern (19 bp):
GCGATTTTCATTTCGCGTT
Found at i:75683 original size:39 final size:39
Alignment explanation
Indices: 75570--75672 Score: 181
Period size: 39 Copynumber: 2.6 Consensus size: 39
75560 TAATCGCAAC
75570 GCGATTTTCATTTCGCGTTGCGATTTTCATTTCGC-GTT
1 GCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGGTT
*
75608 GCGATTTTTATTTCGCGGTTGCGATTTTCATTTCGCGGTT
1 GCGATTTTCATTTCGC-GTTGCGATTTTCATTTCGCGGTT
75648 GCGATTTTCATTTCGCGTTGCGATT
1 GCGATTTTCATTTCGCGTTGCGATT
75673 GTCTGGTCGC
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
38 15 0.25
39 28 0.46
40 18 0.30
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (39 bp):
GCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGGTT
Found at i:75692 original size:33 final size:33
Alignment explanation
Indices: 75655--75740 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
75645 GTTGCGATTT
* *
75655 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
75688 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
75721 TCATTTCCGCGTTGCGATTC
1 TCATTT-CGCGTTGCGATTC
75741 ATCATTATCT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 36 0.73
34 13 0.27
ACGTcount: A:0.12, C:0.24, G:0.26, T:0.38
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:76592 original size:18 final size:17
Alignment explanation
Indices: 76565--76608 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
76555 CAAAGAAAAG
* *
76565 GAAAAGAAAATAACAAA
1 GAAAAAAAAAAAACAAA
*
76582 GAAAAAAAAAAAATAAA
1 GAAAAAAAAAAAACAAA
76599 -AAAAAAAAAA
1 GAAAAAAAAAA
76609 CCAAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.86, C:0.02, G:0.07, T:0.05
Consensus pattern (17 bp):
GAAAAAAAAAAAACAAA
Found at i:76599 original size:12 final size:12
Alignment explanation
Indices: 76584--76631 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
76574 ATAACAAAGA
76584 AAAAAAAAAAAT
1 AAAAAAAAAAAT
76596 AAAAAAAAAAA-
1 AAAAAAAAAAAT
**
76607 AACCAAAAAAAT
1 AAAAAAAAAAAT
* *
76619 AATAAAAATAAT
1 AAAAAAAAAAAT
76631 A
1 A
76632 TGTAGCGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.85, C:0.04, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAAAAAAAAAT
Found at i:76600 original size:26 final size:26
Alignment explanation
Indices: 76571--76629 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
76561 AAAGGAAAAG
76571 AAAATAACAAAGAAA-AAAAAAA-AATA
1 AAAATAA-AAA-AAACAAAAAAATAATA
76597 AAAA-AAAAAAAACCAAAAAAATAATA
1 AAAATAAAAAAAA-CAAAAAAATAATA
76623 AAAATAA
1 AAAATAA
76630 TATGTAGCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 3 0.10
24 3 0.10
25 9 0.31
26 12 0.41
27 2 0.07
ACGTcount: A:0.85, C:0.05, G:0.02, T:0.08
Consensus pattern (26 bp):
AAAATAAAAAAAACAAAAAAATAATA
Found at i:76614 original size:14 final size:14
Alignment explanation
Indices: 76583--76617 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
76573 AATAACAAAG
*
76583 AAAAAAAAAAAATA
1 AAAAAAAAAAAACA
76597 AAAAAAAAAAAACCA
1 AAAAAAAAAAAA-CA
76612 AAAAAA
1 AAAAAA
76618 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAACA
Found at i:76614 original size:20 final size:20
Alignment explanation
Indices: 76551--76608 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 20
76541 GAAAAATAAT
76551 ATAACAAAGAAAAGGAAAAGAAA
1 ATAACAAAGAAAA--AAAA-AAA
76574 ATAACAAAGAAAAAAAAAAA
1 ATAACAAAGAAAAAAAAAAA
76594 ATAA-AAA-AAAAAAAA
1 ATAACAAAGAAAAAAAA
76609 CCAAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.23
19 3 0.09
20 7 0.20
21 4 0.11
23 13 0.37
ACGTcount: A:0.83, C:0.03, G:0.09, T:0.05
Consensus pattern (20 bp):
ATAACAAAGAAAAAAAAAAA
Found at i:77436 original size:23 final size:21
Alignment explanation
Indices: 77398--77440 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
77388 ATAATTATTT
77398 AAAAAATTAAATAAAAATATA
1 AAAAAATTAAATAAAAATATA
*
77419 AAAAATATTTAATAAAAA-ATA
1 AAAAA-ATTAAATAAAAATATA
77440 A
1 A
77441 TTTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATATA
Found at i:81046 original size:20 final size:20
Alignment explanation
Indices: 81023--81064 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
81013 TTTATTTTAA
81023 TTCTATTCAATTTAGTCGTG
1 TTCTATTCAATTTAGTCGTG
81043 TTCTATTCAATTTAGTCGTG
1 TTCTATTCAATTTAGTCGTG
81063 TT
1 TT
81065 GCGGCTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.52
Consensus pattern (20 bp):
TTCTATTCAATTTAGTCGTG
Found at i:87470 original size:20 final size:20
Alignment explanation
Indices: 87445--87489 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
87435 TAAGTCGAAT
87445 TTTTTACAAAATAAATGAAA
1 TTTTTACAAAATAAATGAAA
87465 TTTTTACAAAATAAATGAAA
1 TTTTTACAAAATAAATGAAA
87485 TTTTT
1 TTTTT
87490 GAAGTATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (20 bp):
TTTTTACAAAATAAATGAAA
Found at i:87789 original size:45 final size:45
Alignment explanation
Indices: 87738--87827 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
87728 ACTGGTTTGC
* * *
87738 GTCTTTCTGCTTATTCAACTTCTCTAGATTCACCTGCATGCATAA
1 GTCTTTCTGCCTATACAACTTCTCTAGATCCACCTGCATGCATAA
* * *
87783 GTCTTTCTTCCTATACAACTTCTCTTGGTCCACCTGCATGCATAA
1 GTCTTTCTGCCTATACAACTTCTCTAGATCCACCTGCATGCATAA
87828 TTTCTTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (45 bp):
GTCTTTCTGCCTATACAACTTCTCTAGATCCACCTGCATGCATAA
Found at i:89894 original size:240 final size:238
Alignment explanation
Indices: 89447--89900 Score: 615
Period size: 240 Copynumber: 1.9 Consensus size: 238
89437 CCAGTAGTGA
* * ** *
89447 AATATTATGAATTTCATCATTCGTGCATAAATCTGTACTGGGTAAATTGTCCGGATCAGAAAATT
1 AATATTATGAATTTCATCAGTCGTGCAGAAATCTGTACCAGGTAAATTGTCAGGATCAGAAAATT
* * * * *
89512 TCCCCGAGAACTGCATCATCTGTTTACTGGAAAAATTCTGAGGGAGATAGTTCAGGAAAACTCGT
66 TCCCCGAGAACTGCAACATCAGTTCAATGGAAAAATTCTGAGGGAGATAGGTCAGGAAAACTCGT
* * * **
89577 GGAGATCCCAATGCCTGAAATGATATTGGATGAGGCAGAGGATTCAATTATTAATGGATGATGGT
131 GGAGATCCCAATGCCTGAAATGATATTCGATGAGGCAGAGGATTCAACTATTAATAGATGATGAA
*
89642 CTGCATTATCATCTGTAACCGCAGGCAACATCTGTACTGGGTG
196 CTACATTATCATCTGTAACCGCAGGCAACATCTGTACTGGGTG
*
89685 AATATTATGAATTTCATCAGTCGTGCAGAAATCTGTACCAGGTAAATTGTCAGGATCAGAAGATT
1 AATATTATGAATTTCATCAGTCGTGCAGAAATCTGTACCAGGTAAATTGTCAGGATCAGAAAATT
** * * ** * *
89750 TCCCCGAGAGTTGCAACATCAGTTCAATGGGAAGATTCAGTGAGGGATCTGGGTCAGGTAAACTC
66 TCCCCGAGAACTGCAACATCAGTTCAATGGAAAAATTC--TGAGGGAGATAGGTCAGGAAAACTC
* *
89815 GTGGAGATTCCATTG-CTAGAAATGATATTCGATGAGGCAGAGGATTCAACTA-TATATAGATGA
129 GTGGAGATCCCAATGCCT-GAAATGATATTCGATGAGGCAGAGGATTCAACTATTA-ATAGATGA
89878 TGAACTACATTATCATCTGTAAC
192 TGAACTACATTATCATCTGTAAC
89901 TGCGGGCATT
Statistics
Matches: 185, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
238 89 0.48
239 4 0.02
240 92 0.50
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (238 bp):
AATATTATGAATTTCATCAGTCGTGCAGAAATCTGTACCAGGTAAATTGTCAGGATCAGAAAATT
TCCCCGAGAACTGCAACATCAGTTCAATGGAAAAATTCTGAGGGAGATAGGTCAGGAAAACTCGT
GGAGATCCCAATGCCTGAAATGATATTCGATGAGGCAGAGGATTCAACTATTAATAGATGATGAA
CTACATTATCATCTGTAACCGCAGGCAACATCTGTACTGGGTG
Found at i:93886 original size:12 final size:13
Alignment explanation
Indices: 93863--93895 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
93853 TATATTTTTA
*
93863 TTATAATTATATT
1 TTATATTTATATT
93876 TT-TATTTATATT
1 TTATATTTATATT
93888 TTATATTT
1 TTATATTT
93896 TTTTTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATATTTATATT
Found at i:93906 original size:18 final size:21
Alignment explanation
Indices: 93853--93916 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 21
93843 TTATATAAAA
93853 TATATTTTTA-TTATA---AT
1 TATATTTTTATTTATATTTAT
93870 TATATTTTTATTTATA-TT-T
1 TATATTTTTATTTATATTTAT
93889 TATATTTTT-TTTGA-ATTTAT
1 TATATTTTTATTT-ATATTTAT
93909 TATATTTT
1 TATATTTT
93917 AAATTGATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.24
18 9 0.22
19 13 0.32
20 9 0.22
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TATATTTTTATTTATATTTAT
Found at i:94150 original size:3 final size:3
Alignment explanation
Indices: 94142--94168 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
94132 CTTTCCATTC
94142 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
94169 TCATATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:95186 original size:24 final size:24
Alignment explanation
Indices: 95159--95209 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
95149 TATTAAAATT
*
95159 GTATTACTTCATTACTGGCACTTG
1 GTATTACTTCATTACTAGCACTTG
*
95183 GTATTACTTCATTCCTAGCACTTG
1 GTATTACTTCATTACTAGCACTTG
95207 GTA
1 GTA
95210 ATATGGCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (24 bp):
GTATTACTTCATTACTAGCACTTG
Found at i:96234 original size:21 final size:20
Alignment explanation
Indices: 96204--96245 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
96194 TTTTTTATTC
96204 GAATTATTTTTTTCATTTTTT
1 GAATTA-TTTTTTCATTTTTT
* *
96225 GAATTGTTTTTTCTTTTTTT
1 GAATTATTTTTTCATTTTTT
96245 G
1 G
96246 GAACATGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.14, C:0.05, G:0.10, T:0.71
Consensus pattern (20 bp):
GAATTATTTTTTCATTTTTT
Found at i:96412 original size:25 final size:25
Alignment explanation
Indices: 96380--96435 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
96370 GTTAACTAAT
96380 GGGAAATAATAGGATAGACATTTTG
1 GGGAAATAATAGGATAGACATTTTG
96405 GGGAAATAATAGGATAGACATTTTG
1 GGGAAATAATAGGATAGACATTTTG
*
96430 AGGAAA
1 GGGAAA
96436 AATGTAGGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.43, C:0.04, G:0.29, T:0.25
Consensus pattern (25 bp):
GGGAAATAATAGGATAGACATTTTG
Found at i:98647 original size:3 final size:3
Alignment explanation
Indices: 98641--98698 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
98631 TATAATAATA
* *
98641 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
98689 ATT ATT ATT A
1 ATT ATT ATT A
98699 AATATATATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:98654 original size:21 final size:21
Alignment explanation
Indices: 98641--98698 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
98631 TATAATAATA
98641 ATTATTATTATTATTATCATT
1 ATTATTATTATTATTATCATT
98662 ATTATTATTATTATTATCATT
1 ATTATTATTATTATTATCATT
98683 ATTATTATTATTATTA
1 ATTATTATTATTATTA
98699 AATATATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATTATTATTATTATCATT
Found at i:98721 original size:14 final size:15
Alignment explanation
Indices: 98697--98726 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
98687 TTATTATTAT
98697 TAAATATATATTAAA
1 TAAATATATATTAAA
98712 TAAATA-ATATTAAA
1 TAAATATATATTAAA
98726 T
1 T
98727 TACAAAGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATATATATTAAA
Found at i:100081 original size:13 final size:13
Alignment explanation
Indices: 100065--100104 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
100055 ATATAATAAA
100065 TAAATATTTATTT
1 TAAATATTTATTT
*
100078 TAAATAAATTATTT
1 TAAAT-ATTTATTT
100092 T-AATATTTATTT
1 TAAATATTTATTT
100104 T
1 T
100105 TCAATATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:111455 original size:9 final size:8
Alignment explanation
Indices: 111441--111511 Score: 79
Period size: 8 Copynumber: 8.1 Consensus size: 8
111431 ATTATGCTTG
111441 AAGAAAAGA
1 AAGAAAA-A
111450 AAGAAAAA
1 AAGAAAAA
*
111458 GAGAAAAA
1 AAGAAAAA
111466 AAGAAAAA
1 AAGAAAAA
111474 AAGAGAAAA
1 AAGA-AAAA
111483 AAGAAAAAAA
1 AAG--AAAAA
111493 AAGGAGAAAA
1 AA-GA-AAAA
111503 AAGAAAAA
1 AAGAAAAA
111511 A
1 A
111512 GGGGGGTCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
8 24 0.44
9 17 0.31
10 12 0.22
11 2 0.04
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:111459 original size:10 final size:9
Alignment explanation
Indices: 111444--111511 Score: 75
Period size: 9 Copynumber: 7.2 Consensus size: 9
111434 ATGCTTGAAG
111444 AAAAGAAAGA
1 AAAAGAAA-A
111454 AAAAGAGAAA
1 AAAAGA-AAA
111464 AAAAGAAAA
1 AAAAGAAAA
111473 AAAGAGAAAA
1 AAA-AGAAAA
111483 AAGAA-AAAA
1 AA-AAGAAAA
* *
111492 AAAGGAGAA
1 AAAAGAAAA
111501 AAAAGAAAA
1 AAAAGAAAA
111510 AA
1 AA
111512 GGGGGGTCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
8 1 0.02
9 24 0.48
10 22 0.44
11 3 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:111462 original size:17 final size:16
Alignment explanation
Indices: 111441--111511 Score: 79
Period size: 17 Copynumber: 4.1 Consensus size: 16
111431 ATTATGCTTG
111441 AAGAAAAGAAAGAAAAA
1 AAGAAAA-AAAGAAAAA
*
111458 GAGAAAAAAAGAAAAA
1 AAGAAAAAAAGAAAAA
111474 AAGAGAAAAAAGAAAAAAA
1 AAGA-AAAAAAG--AAAAA
111493 AAGGAGAAAAAAGAAAAA
1 AA-GA-AAAAAAGAAAAA
111511 A
1 A
111512 GGGGGGTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.25
17 13 0.27
18 6 0.12
19 7 0.15
20 10 0.21
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAAGAAAAA
Found at i:111469 original size:20 final size:19
Alignment explanation
Indices: 111444--111511 Score: 88
Period size: 20 Copynumber: 3.6 Consensus size: 19
111434 ATGCTTGAAG
111444 AAAAGAAAGAAAAAGAGAAA
1 AAAAGAAA-AAAAAGAGAAA
111464 AAAAG-AAAAAAAGAG-AA
1 AAAAGAAAAAAAAGAGAAA
111481 AAAAGAAAAAAAA-AGGAGAA
1 AAAAGAAAAAAAAGA-GA-AA
111501 AAAAGAAAAAA
1 AAAAGAAAAAA
111512 GGGGGGTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.18
18 16 0.36
19 2 0.05
20 18 0.41
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAAAGAGAAA
Found at i:111474 original size:18 final size:18
Alignment explanation
Indices: 111453--111511 Score: 84
Period size: 17 Copynumber: 3.2 Consensus size: 18
111443 GAAAAGAAAG
111453 AAAAAGAGAAAAAAAGAA
1 AAAAAGAGAAAAAAAGAA
111471 AAAAAGAG-AAAAAAGAA
1 AAAAAGAGAAAAAAAGAA
*
111488 AAAAAAAGGAGAAAAAAGAA
1 AAAAAGA-GA-AAAAAAGAA
111508 AAAA
1 AAAA
111512 GGGGGGTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 15 0.41
18 9 0.24
20 13 0.35
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAGAGAAAAAAAGAA
Found at i:112962 original size:83 final size:83
Alignment explanation
Indices: 112647--112959 Score: 590
Period size: 83 Copynumber: 3.8 Consensus size: 83
112637 AAACATTAAA
*
112647 TGGAAGATGAATGTGTTCATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TGGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
112712 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
*
112730 TGGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTTGC
1 TGGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
112795 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
* *
112813 TGGAAGATGAATATGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
1 TGGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
112878 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
112896 TGGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 TGGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
112960 TAGGAACTAC
Statistics
Matches: 224, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 224 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (83 bp):
TGGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
AGAACCAATCATTGAATT
Found at i:113885 original size:113 final size:113
Alignment explanation
Indices: 113687--114468 Score: 1106
Period size: 113 Copynumber: 6.9 Consensus size: 113
113677 GATTTAAATC
* * *
113687 CATCACTTGATGAATTAGATTTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGATTTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
**
113752 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATT
66 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
* * *
113800 CATCACTTGATGAATTAGATTTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGATTTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
113865 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATC
66 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
*
113913 CATCATTTGATGGATCATCA-TTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCA-GATTTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
**
113977 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATT
65 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
* * *
114026 CATCACTTGATGAATTAGATTTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGATTTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
114091 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATC
66 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
*
114139 CATCATTTGATGGATCATCA-TTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 CATCATTTGATGGATCA-GATTTTCCAGA-AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAG
* * * *
114202 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATT
64 GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
* * *
114252 CATCATTTGATGGATCA-ACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 CATCATTTGATGGATCAGA-TTTTCCAGAAAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGA
* * * * *
114316 AGGAAGAAGAAGTTCATAATGAAAAGAACTTGTTCAACTTTTTGTTTGAATT
62 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
* *
114368 CATCATTTGATGGATCA-ATATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 CATCATTTGATGGATCAGAT-TTTCCAGAAAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGA
* * *
114432 AGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
62 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
114469 TAATTCTATC
Statistics
Matches: 622, Mismatches: 36, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
111 1 0.00
112 3 0.00
113 454 0.73
114 4 0.01
115 1 0.00
116 159 0.26
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (113 bp):
CATCATTTGATGGATCAGATTTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
Found at i:114800 original size:3 final size:3
Alignment explanation
Indices: 114785--114843 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
114775 TTTTTACCCA
*
114785 TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
114833 TAT TAT TAT TA
1 TAT TAT TAT TA
114844 AATATATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:114855 original size:11 final size:12
Alignment explanation
Indices: 114839--114869 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
114829 TTATTATTAT
114839 TATTAAAT-ATA
1 TATTAAATAATA
114850 TATTAAATAATA
1 TATTAAATAATA
114862 TATTAAAT
1 TATTAAAT
114870 TACAAAGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TATTAAATAATA
Found at i:116247 original size:13 final size:13
Alignment explanation
Indices: 116229--116268 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
116219 AAATATATAA
116229 TAAATATTTATTT
1 TAAATATTTATTT
*
116242 TAAATAAATTATTT
1 TAAAT-ATTTATTT
116256 T-AATATTTATTT
1 TAAATATTTATTT
116268 T
1 T
116269 TCAATATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:117404 original size:63 final size:58
Alignment explanation
Indices: 117336--117465 Score: 188
Period size: 58 Copynumber: 2.2 Consensus size: 58
117326 GATTAAACTC
117336 AAGTTTTAGGATAATATTTTAAACATTATATTTTATCTTTGTTTTACGTATTTTAGTTTAAAT
1 AAGTTTTAGGATAATATTTT-----TTATATTTTATCTTTGTTTTACGTATTTTAGTTTAAAT
* *
117399 AAGTTTTAGGATATTATTTTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAAT
1 AAGTTTTAGGATAATATTTTTTATATTTTATCTTTGTTTTACGTATTTTAGTTTAAAT
*
117457 AGGTTTTAG
1 AAGTTTTAG
117466 TATTTTAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
58 45 0.70
63 19 0.30
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.56
Consensus pattern (58 bp):
AAGTTTTAGGATAATATTTTTTATATTTTATCTTTGTTTTACGTATTTTAGTTTAAAT
Found at i:117462 original size:25 final size:25
Alignment explanation
Indices: 117434--117533 Score: 79
Period size: 25 Copynumber: 4.3 Consensus size: 25
117424 TTTTATCTTT
117434 GTTTTAGGTATTTTAGTTTAAATAG
1 GTTTTAGGTATTTTAGTTTAAATAG
* *
117459 GTTTTA-GTATTTTA-ATT-AGTA-
1 GTTTTAGGTATTTTAGTTTAAATAG
* * * *
117480 --TTTA-GAATATTATTTTAAATAT
1 GTTTTAGGTATTTTAGTTTAAATAG
*
117502 TTTTTAGGTATTTTAGTTTAAATAG
1 GTTTTAGGTATTTTAGTTTAAATAG
*
117527 TTTTTAG
1 GTTTTAG
117534 TGTTTTAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
19 10 0.17
20 2 0.03
21 3 0.05
22 3 0.05
23 2 0.03
24 12 0.20
25 27 0.46
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (25 bp):
GTTTTAGGTATTTTAGTTTAAATAG
Found at i:118164 original size:17 final size:18
Alignment explanation
Indices: 118142--118184 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
118132 TCTTTTGATT
118142 ATTTATTTAATTATT-TC
1 ATTTATTTAATTATTATC
*
118159 ATTTATTTAATTCTTATC
1 ATTTATTTAATTATTATC
*
118177 TTTTATTT
1 ATTTATTT
118185 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTATTTAATTATTATC
Found at i:118258 original size:20 final size:20
Alignment explanation
Indices: 118233--118282 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
118223 CTATTATTTA
* *
118233 TTATTTTATTATTTTCCCTT
1 TTATTTTATTATTATCCATT
*
118253 TTA-TTTATTATTATCTATT
1 TTATTTTATTATTATCCATT
118272 TTATTTTATTA
1 TTATTTTATTA
118283 AATCTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTTATTATTATCCATT
Found at i:118273 original size:19 final size:19
Alignment explanation
Indices: 118224--118282 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
118214 ATTTGACTAC
* *
118224 TATTATTTATTAT-TTTAT
1 TATTATCTATTTTATTTAT
* **
118242 TATTTTCCCTTTTATTTAT
1 TATTATCTATTTTATTTAT
118261 TATTATCTATTTTATTTTAT
1 TATTATCTATTTTA-TTTAT
118281 TA
1 TA
118283 AATCTTTTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
18 8 0.26
19 16 0.52
20 7 0.23
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTATCTATTTTATTTAT
Found at i:123074 original size:64 final size:64
Alignment explanation
Indices: 122991--123200 Score: 259
Period size: 65 Copynumber: 3.2 Consensus size: 64
122981 GTCACTAAGA
*
122991 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGTTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGTTG
* *
123055 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAGC-CAGAGTGCATCGATGCATGGT
123118 AT-
63 -TG
* **
123120 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAGTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAG-CCA-GAGTGCATCGATGCATGG-T
123183 TG
63 TG
*
123185 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
123201 CTCTGAAAAA
Statistics
Matches: 126, Mismatches: 10, Indels: 19
0.81 0.06 0.12
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 46 0.37
65 70 0.56
66 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGTTG
Found at i:125879 original size:23 final size:22
Alignment explanation
Indices: 125843--125924 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 22
125833 GCATGGCCTT
*
125843 GTGCATCGACGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
125865 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
125887 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
*
125910 GATGTATCGATGCAC
1 G-TGCATCGATGCAC
125925 TGTTAAGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 18 0.38
24 13 0.27
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:125899 original size:21 final size:23
Alignment explanation
Indices: 125847--125924 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 23
125837 GGCCTTGTGC
* *
125847 ATCGACGCACATTCAAGGCG-TGC
1 ATCGATGCACATTCAAGG-GATGT
* * *
125870 ATCGGTGCACCTTC-ATGG-TGT
1 ATCGATGCACATTCAAGGGATGT
125891 ATCGATGCACATTCAAAGGGATGT
1 ATCGATGCACATTC-AAGGGATGT
125915 ATCGATGCAC
1 ATCGATGCAC
125925 TGTTAAGTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
21 15 0.34
22 2 0.05
23 14 0.32
24 13 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (23 bp):
ATCGATGCACATTCAAGGGATGT
Found at i:132669 original size:77 final size:75
Alignment explanation
Indices: 132481--132696 Score: 292
Period size: 76 Copynumber: 2.8 Consensus size: 75
132471 TTTAAACATT
* * *
132481 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTTAGTATTTTAATTAAGTTTTAGG
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAAT-AGTTTTAGTATTTTAATTAGGATTTAGA
* *
132546 ATATTATTTTT
65 ATATCATTTTA
132557 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGA
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAGTATTTTAATTAGGATTTAGA
132622 ATATCATTTTAA
65 ATATCATTTT-A
* * *
132634 ATATTTTTAT-TATT-TTTTAAGTATTTTAGTTTAAATAGTTTTAAATGTTTTAATTAGGATTTA
1 ATA-TTTTATCT-TTGTTTTAGGTATTTTAGTTTAAATAGTTTT-AGTATTTTAATTAGGATTTA
132697 AGTTGTTTTA
Statistics
Matches: 127, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
75 1 0.01
76 74 0.58
77 44 0.35
78 8 0.06
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.57
Consensus pattern (75 bp):
ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAGTATTTTAATTAGGATTTAGAA
TATCATTTTA
Found at i:133376 original size:15 final size:15
Alignment explanation
Indices: 133358--133410 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
133348 ATTTTACTGC
133358 TATTATTTTTTATTT
1 TATTATTTTTTATTT
**
133373 TATTATTTTTCCTTT
1 TATTATTTTTTATTT
133388 TATTTATTATTATCTATTT
1 TA-TTATT-TT-T-TATTT
133407 TATT
1 TATT
133411 TTATTAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 15 0.50
16 5 0.17
17 2 0.07
18 3 0.10
19 5 0.17
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTATTTTTTATTT
Found at i:133390 original size:20 final size:20
Alignment explanation
Indices: 133344--133416 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 20
133334 AAATCCAATT
133344 TTTTATTTTACTGCTATTAT-T-
1 TTTTATTTTA-T--TATTATCTA
* *
133365 TTTTATTTTATTATT-TTTCC
1 TTTTATTTTATTATTATCT-A
133385 TTTTA-TTTATTATTATCTA
1 TTTTATTTTATTATTATCTA
133404 TTTTATTTTATTA
1 TTTTATTTTATTA
133417 AATATTTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 1 0.02
18 5 0.11
19 14 0.31
20 15 0.33
21 10 0.22
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.71
Consensus pattern (20 bp):
TTTTATTTTATTATTATCTA
Found at i:143912 original size:2 final size:2
Alignment explanation
Indices: 143905--143990 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
143895 AATTTTAAGA
143905 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
143947 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
143989 AT
1 AT
143991 CTTAGAAATC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:144220 original size:18 final size:18
Alignment explanation
Indices: 144187--144227 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
144177 CCCATTTCTT
*
144187 AATATTAAAAAATAAATA
1 AATATTAAAAAATAAACA
**
144205 AATATTAAAATTTAAACA
1 AATATTAAAAAATAAACA
144223 AATAT
1 AATAT
144228 ATATATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AATATTAAAAAATAAACA
Found at i:144231 original size:2 final size:2
Alignment explanation
Indices: 144224--144258 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
144214 ATTTAAACAA
144224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
144259 ATTAAAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:145618 original size:3 final size:3
Alignment explanation
Indices: 145610--145660 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
145600 GGCCTGTTTG
* * *
145610 TAA TAA TAA TAT TAA TAA TAA AAA TAAA TAA TAA AAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
145655 TAA TAA
1 TAA TAA
145661 ACAAAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:145666 original size:21 final size:20
Alignment explanation
Indices: 145626--145688 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
145616 TAATATTAAT
*
145626 AATAAAAATAAATAATAAAAA
1 AATAAAAATAAA-AACAAAAA
* *
145647 TATAATAATAATAAACAAAAA
1 AATAAAAATAA-AAACAAAAA
*
145668 AATAAAAATAAAAATAAAAA
1 AATAAAAATAAAAACAAAAA
145688 A
1 A
145689 CAAAATGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 9 0.26
21 25 0.71
22 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (20 bp):
AATAAAAATAAAAACAAAAA
Found at i:145674 original size:6 final size:6
Alignment explanation
Indices: 145626--145700 Score: 75
Period size: 6 Copynumber: 12.3 Consensus size: 6
145616 TAATATTAAT
* *
145626 AATAAA AATAAA TAATAAA AAT-AT AATAAT AATAAA CAA-AAA AATAAA
1 AATAAA AATAAA -AATAAA AATAAA AATAAA AATAAA -AATAAA AATAAA
145674 AATAAA AATAAA AA-ACAA AATGAAA AA
1 AATAAA AATAAA AATA-AA AAT-AAA AA
145701 AACTAGTGTC
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
5 7 0.12
6 40 0.67
7 12 0.20
8 1 0.02
ACGTcount: A:0.79, C:0.03, G:0.01, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:145701 original size:27 final size:26
Alignment explanation
Indices: 145626--145702 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
145616 TAATATTAAT
* *
145626 AATAAAAATA-AATAATAAAAATATAAT
1 AATAAAAA-ACAA-AATAAAAAAATAAA
* *
145653 AATAATAAACAAAAAAATAAAAATAAA
1 AATAAAAAACAAAATAA-AAAAATAAA
145680 AATAAAAAACAAAATGAAAAAAA
1 AATAAAAAACAAAAT-AAAAAAA
145703 CTAGTGTCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 5 0.12
27 34 0.83
28 2 0.05
ACGTcount: A:0.79, C:0.03, G:0.01, T:0.17
Consensus pattern (26 bp):
AATAAAAAACAAAATAAAAAAATAAA
Found at i:146028 original size:39 final size:39
Alignment explanation
Indices: 145935--146028 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 39
145925 AATTCTTTTT
* * * *
145935 ATTATGAACTTATTCTTCTTTTTCAGATGAGTTCTTCTC
1 ATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTA
*
145974 ACTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTA
1 ATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTA
*
146013 ATTATGAACTCCTTCT
1 ATTATGAACTTCTTCT
146029 GGAAATGTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.47
Consensus pattern (39 bp):
ATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTA
Found at i:146551 original size:118 final size:118
Alignment explanation
Indices: 145964--146625 Score: 614
Period size: 123 Copynumber: 5.6 Consensus size: 118
145954 TTTTCAGATG
* * *
145964 AGTTCTTCTCACTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTAATTATGAACTC-CTT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTC-T
* * * *
146027 CTGGAAATGTTAATGCTGA-CCTATCTCATTCTGTGATAGAGTT--ACGCAAAAGGTTGAACA
65 CTGGAAAAG-TGATGCTGATCC-A--TCA---AGTGAT-GAATTCGA-GCAAAAGGTTGAACA
* *
146087 AGCTT-TTCTTATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTTCT
1 AG-TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTCT
* * ** * * *
146150 CTAGAAAAGTGTATGCTGATCTATCTCCTTCTGTGCTAGCA-TCGAGCAAAATGTTGAACA
65 CTGGAAAAGTG-ATGCTGATCCA--T-C--AAGTGAT-GAATTCGAGCAAAAGGTTGAACA
* * *
146210 AGCTCTTCTTATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTTTCC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAAC-TCT-C
* * ** * *
146274 ACTGG--CA---ATGCTGATTAATCTAGTGATGAATTCGAGCAAAAAGTTGAAC-
64 TCTGGAAAAGTGATGCTGATCCATCAAGTGATGAATTCGAGCAAAAGGTTGAACA
* * *
146323 AGACTCTTCTCATTATGAACTTCTTC-TCATTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC
1 AG-TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCT-C
* * *
146387 -CTGG--CA---ATGCTGATCCATCGAGTGATGAATTCGAGCGAAAGGTTGAACA
64 TCTGGAAAAGTGATGCTGATCCATCAAGTGATGAATTCGAGCAAAAGGTTGAACA
*
146436 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-TC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTCTC
* *
146500 TGGAAAAGTTGATGATGATCCATCAAATGATGAATTCGAGCAAAAGGTTGAACA
66 TGGAAAAG-TGATGCTGATCCATCAAGTGATGAATTCGAGCAAAAGGTTGAACA
* * *
146554 AATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTATTATGAACTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTC-TCT
146619 CTGGAAA
65 CTGGAAA
146626 TGTTGATCCA
Statistics
Matches: 466, Mismatches: 46, Indels: 57
0.82 0.08 0.10
Matches are distributed among these distances:
112 69 0.15
113 46 0.10
114 72 0.15
116 1 0.00
117 1 0.00
118 96 0.21
119 10 0.02
120 8 0.02
122 3 0.01
123 144 0.31
124 12 0.03
125 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (118 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTCTC
TGGAAAAGTGATGCTGATCCATCAAGTGATGAATTCGAGCAAAAGGTTGAACA
Found at i:147032 original size:22 final size:22
Alignment explanation
Indices: 147007--147080 Score: 121
Period size: 22 Copynumber: 3.4 Consensus size: 22
146997 AAATCTTTAT
*
147007 TCTTTGAAAAGAGAATGTATCA
1 TCTTTGAAAAGAGAATCTATCA
*
147029 TCTTTGAAGAGAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
*
147051 TCTTTGAAAAGAGAATCTATAA
1 TCTTTGAAAAGAGAATCTATCA
147073 TCTTTGAA
1 TCTTTGAA
147081 GACTATAGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (22 bp):
TCTTTGAAAAGAGAATCTATCA
Found at i:152233 original size:18 final size:18
Alignment explanation
Indices: 152210--152245 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
152200 AGAAAATTGA
152210 AAGAAATTGCACAGCGAT
1 AAGAAATTGCACAGCGAT
152228 AAGAAATTGCACAGCGAT
1 AAGAAATTGCACAGCGAT
152246 TTAGAGTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (18 bp):
AAGAAATTGCACAGCGAT
Found at i:152911 original size:64 final size:60
Alignment explanation
Indices: 152842--153021 Score: 166
Period size: 64 Copynumber: 2.8 Consensus size: 60
152832 TTGGACTCCT
*
152842 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTAA-AAAAT-AG
1 AGTGCATCGATGCA-T-AGAGTGCATCGATGCATGAA-TGCATTCGATGTTTAATAAAATCAG
* * * * *
152903 CCTGGTGCATCGATGCATGGATTGTGCATCGATACATCAAATGCATTCGATGTTTTAATTAAATC
1 ---AGTGCATCGATGCATAGA--GTGCATCGATGCAT-GAATGCATTCGATG-TTTAATAAAATC
152968 AG
59 AG
*
152970 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGCATCGATGCAT--AGAGTGCATCGATGCAT-GAATGCATTCGATGTTT
153022 CAATTTATTC
Statistics
Matches: 96, Mismatches: 12, Indels: 17
0.77 0.10 0.14
Matches are distributed among these distances:
62 2 0.02
63 4 0.04
64 75 0.78
65 7 0.07
66 6 0.06
67 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (60 bp):
AGTGCATCGATGCATAGAGTGCATCGATGCATGAATGCATTCGATGTTTAATAAAATCAG
Found at i:152992 original size:19 final size:19
Alignment explanation
Indices: 152968--153018 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
152958 TAATTAAATC
152968 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
152987 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
153006 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
153019 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:153056 original size:21 final size:21
Alignment explanation
Indices: 153032--153071 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
153022 CAATTTATTC
153032 ATTGATGCATC-GATGCATGGT
1 ATTGATGCATCAG-TGCATGGT
153053 ATTGATGCATCAGTGCATG
1 ATTGATGCATCAGTGCATG
153072 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCAGTGCATGGT
Found at i:155208 original size:17 final size:19
Alignment explanation
Indices: 155182--155219 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
155172 AATTCAATAA
*
155182 TGTTT-TTTTTGAA-AAAT
1 TGTTTGTTTTGGAAGAAAT
155199 TGTTTGTTTTGGAAGAAAT
1 TGTTTGTTTTGGAAGAAAT
155218 TG
1 TG
155220 GCAGTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 7 0.39
19 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (19 bp):
TGTTTGTTTTGGAAGAAAT
Found at i:155675 original size:44 final size:43
Alignment explanation
Indices: 155560--155682 Score: 108
Period size: 44 Copynumber: 2.8 Consensus size: 43
155550 AAAACTGACC
* *
155560 GATGCATCGATGCA-TGATCT-TGTGCATCGAATGAACATTCAAGG
1 GATGCATCGATGCATTG-T-TAAGTGCATCG-ATGCACATTCAAGG
* * **
155604 CATGCATCGGTGCATCATGCGAA-TGCATCGATGCACATTCAAAGG
1 GATGCATCGATGCAT--TGTTAAGTGCATCGATGCACATTC-AAGG
*
155649 GATGCATCGATGCATTGTTAAGTGCATCGGTGCA
1 GATGCATCGATGCATTGTTAAGTGCATCGATGCA
155683 TTAAGCACAA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
43 4 0.06
44 32 0.52
45 24 0.39
47 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
GATGCATCGATGCATTGTTAAGTGCATCGATGCACATTCAAGG
Found at i:161378 original size:18 final size:17
Alignment explanation
Indices: 161324--161372 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
161314 TTGGACTCCT
* *
161324 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
161342 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
161360 AGTGCATTCGATG
1 AGTGCA-TCGATG
161373 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:161457 original size:64 final size:64
Alignment explanation
Indices: 161344--161551 Score: 178
Period size: 64 Copynumber: 3.2 Consensus size: 64
161334 TGCACTAAGA
* * * *
161344 GTGCATCGATGCATGAAGTGCATTCGATGTTTGAA--AAAT-AGCCTGGTGCATCGATGCATGGA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCAG---AGTGCATCGATGCATGGA
161406 TT
63 TT
* * **
161408 GTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCAGAGTGCATCGATTCATGGAGA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCAGAGTGCATCGATGCATGGATT
* * *
161472 GTGCATCG--GCA-CATGGATGCATTCGATGTTTCAATTTATTCATTGA-TGCATCGATGCATGG
1 GTGCATCGATGCATCA--AATGCATTCGATGTTTCAATTAAATCA--GAGTGCATCGATGCATGG
161533 TATT
62 -ATT
*
161537 GATGCATCGGTGCAT
1 G-TGCATCGATGCAT
161552 GCCTTTGAAA
Statistics
Matches: 118, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
61 2 0.02
62 3 0.03
63 23 0.19
64 70 0.59
65 4 0.03
66 11 0.09
67 2 0.02
68 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCAGAGTGCATCGATGCATGGATT
Found at i:161486 original size:19 final size:19
Alignment explanation
Indices: 161450--161488 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
161440 TAATTAAATC
**
161450 AGAGTGCATCGATTCATGG
1 AGAGTGCATCGACACATGG
*
161469 AGAGTGCATCGGCACATGG
1 AGAGTGCATCGACACATGG
161488 A
1 A
161489 TGCATTCGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGACACATGG
Found at i:161537 original size:21 final size:21
Alignment explanation
Indices: 161513--161552 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
161503 CAATTTATTC
161513 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
161534 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
161553 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:164812 original size:20 final size:20
Alignment explanation
Indices: 164784--164827 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
164774 TGCAAAGATG
*
164784 CAAAAATAAAAATGTAAATA
1 CAAAAATAAAAATGCAAATA
* *
164804 CAAACATAAAAATGCAAATG
1 CAAAAATAAAAATGCAAATA
164824 CAAA
1 CAAA
164828 TGCAAATGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.11, G:0.07, T:0.16
Consensus pattern (20 bp):
CAAAAATAAAAATGCAAATA
Found at i:164824 original size:6 final size:6
Alignment explanation
Indices: 164813--164852 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
164803 ACAAACATAA
* *
164813 AAATGC AAATGC AAATGC AAATGC AAATGT AAATGT AAAT
1 AAATGC AAATGC AAATGC AAATGC AAATGC AAATGC AAAT
164853 ATGTGAATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.23
Consensus pattern (6 bp):
AAATGC
Found at i:166982 original size:11 final size:13
Alignment explanation
Indices: 166966--167005 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
166956 ATTTCAAATT
166966 TATTAATATAAT-
1 TATTAATATAATA
*
166978 T-TTAAGATAATA
1 TATTAATATAATA
166990 TATTAATAT-ATA
1 TATTAATATAATA
167002 TATT
1 TATT
167006 TATTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 9 0.38
13 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TATTAATATAATA
Found at i:167281 original size:18 final size:17
Alignment explanation
Indices: 167244--167283 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
167234 CACATTCCTT
*
167244 AATATTAAAAATAAATA
1 AATATTAAAAATAAACA
*
167261 AATATTAAAATTTAAACA
1 AATATTAAAA-ATAAACA
167279 AATAT
1 AATAT
167284 ATATATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATTAAAAATAAACA
Found at i:168601 original size:3 final size:3
Alignment explanation
Indices: 168593--168660 Score: 93
Period size: 3 Copynumber: 22.3 Consensus size: 3
168583 GGGCCTGTTT
* *
168593 ATA ATA ATA ATA TTA ATA ATA AAA ATAA ATAA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA ATA ATA
168640 ATA ATA AT- ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
168661 ACAAATAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 50 0.85
4 7 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:168632 original size:23 final size:23
Alignment explanation
Indices: 168601--168677 Score: 88
Period size: 23 Copynumber: 3.3 Consensus size: 23
168591 TTATAATAAT
*
168601 AATATTAATAATAAAAATAAATA
1 AATAATAATAATAAAAATAAATA
*
168624 AATAATAATAATAATAAT-AATA
1 AATAATAATAATAAAAATAAATA
168646 ATATAATAATAATAAACAAATAAA-A
1 A-ATAATAATAAT-AA-AAATAAATA
168671 AA-AATAA
1 AATAATAA
168678 AAAACAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
22 5 0.11
23 32 0.68
24 3 0.06
25 5 0.11
26 2 0.04
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.27
Consensus pattern (23 bp):
AATAATAATAATAAAAATAAATA
Found at i:168635 original size:26 final size:26
Alignment explanation
Indices: 168598--168678 Score: 94
Period size: 26 Copynumber: 3.1 Consensus size: 26
168588 TGTTTATAAT
*
168598 AATAATATTAATAATAAAAATAAATA
1 AATAATAATAATAATAAAAATAAATA
*
168624 AATAATAATAATAATAATAAT-AATA
1 AATAATAATAATAATAAAAATAAATA
*
168649 TAATAATAATAAACAAATAAAAA-AAATA
1 -AATAATAAT-AA-TAATAAAAATAAATA
168677 AA
1 AA
168679 AAACAAAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 4 0.09
26 28 0.60
27 4 0.09
28 11 0.23
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (26 bp):
AATAATAATAATAATAAAAATAAATA
Found at i:173919 original size:22 final size:20
Alignment explanation
Indices: 173894--173942 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
173884 TAATTTCAGA
173894 CAATTAAGGGAATTATCTTTTG
1 CAATTAA-GGAATTATC-TTTG
*
173916 CAATTTTTAGGAATTATCTTTG
1 CAA--TTAAGGAATTATCTTTG
173938 CAATT
1 CAATT
173943 TATTAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 2 0.08
22 10 0.42
23 9 0.38
24 3 0.12
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (20 bp):
CAATTAAGGAATTATCTTTG
Found at i:173943 original size:22 final size:24
Alignment explanation
Indices: 173902--173948 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
173892 GACAATTAAG
173902 GGAATTATCTTTTGCAATTT-TTA
1 GGAATTATCTTTTGCAATTTATTA
173925 GGAATTATC-TTTGCAATTTATTA
1 GGAATTATCTTTTGCAATTTATTA
173948 G
1 G
173949 TTATCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.49
Consensus pattern (24 bp):
GGAATTATCTTTTGCAATTTATTA
Found at i:173952 original size:20 final size:21
Alignment explanation
Indices: 173905--173956 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
173895 AATTAAGGGA
173905 ATTATCTTTTGCAATTTTTAGG
1 ATTATC-TTTGCAATTTTTAGG
173927 AATTATCTTTGCAATTTATTA-G
1 -ATTATCTTTGCAATTT-TTAGG
173949 -TTATCTTT
1 ATTATCTTT
173957 TAGGGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.29
22 11 0.39
23 9 0.32
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.56
Consensus pattern (21 bp):
ATTATCTTTGCAATTTTTAGG
Found at i:177439 original size:18 final size:18
Alignment explanation
Indices: 177416--177453 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
177406 AATTCTATCT
*
177416 TTTCTGATTCAAGATTAA
1 TTTCTGATTCAAAATTAA
177434 TTTCTGATTCAAAATTAA
1 TTTCTGATTCAAAATTAA
177452 TT
1 TT
177454 CCCTCGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (18 bp):
TTTCTGATTCAAAATTAA
Found at i:185623 original size:13 final size:13
Alignment explanation
Indices: 185605--185643 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
185595 TTTTGTCCAT
185605 TTTTAATTTTTGA
1 TTTTAATTTTTGA
185618 TTTTAATTTTTGA
1 TTTTAATTTTTGA
185631 TTTTAATTTTTGA
1 TTTTAATTTTTGA
185644 AGGTACACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (13 bp):
TTTTAATTTTTGA
Found at i:192733 original size:83 final size:82
Alignment explanation
Indices: 192622--193233 Score: 400
Period size: 83 Copynumber: 7.5 Consensus size: 82
192612 TTTTATTGAC
* * * * * * *
192622 AGATAGCCCTTCTTGCCTTGAA-CTATGCTGTAAATTTGGTTTGCCTCT-GAGCTAAACGTAATC
1 AGATAGCCCTTCTCGACTT-AAGCTATGCTGCAAA--TGATGTGCCTCTCGAGCTGAGCGTAATC
*
192685 GAACTCAGAGGTCTTCGGTT
63 GAACTCAGAGGTCTTTGGTT
* * * *
192705 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCT-TGGAGCTGAGCGTAGTTGAA
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCTCGAGCTGAGCGTAATCGAA
*
192769 CTCAAAGGTCTTTGGTGAT
66 CTCAGAGGTCTTTGGT--T
* * * * * ** *
192788 AGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCC-CTCGAAGCTGAGTGTAATCGA
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCTCG-AGCTGAGCGTAATCGA
*
192852 ACTC-GAGGGTCTTTGG-C
65 ACTCAGA-GGTCTTTGGTT
* *
192869 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT-TGGAGCTGAGCGTAGTC-AA
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCTCGAGCTGAGCGTAATCGAA
* *
192932 CTCAAAGGTCTTTTGTT
66 CTCAGAGGTCTTTGGTT
* * * * * ** * * *
192949 GACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTACC-CTCTAAGCTGAGTGTAAT
1 ---AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCTC-GAGCTGAGCGTAAT
*
193013 C-AACTCAG-GGTCTTTGG-C
62 CGAACTCAGAGGTCTTTGGTT
* * * * * *
193031 AGATAGCCCTTCTCGACATAAG-TATG-TGCAAATAATGAGTCT-TGGAGCTGAGCGTAGTCGAA
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCTCGAGCTGAGCGTAATCG-A
193093 ACTC-GAAGGTCTTTGGTT
65 ACTCAG-AGGTCTTTGGTT
* * * * * * * *
193111 GGCAGATAACCCTTCTCAACTTAAGTTATGATGTAAATGATATGCCT-TGGAGCTGAGCGTAGTC
1 ---AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCTCGAGCTGAGCGTAATC
*
193175 AAACTC-GAAGGTCTTT--TT
63 GAACTCAG-AGGTCTTTGGTT
* * * *
193193 AGCAGATAGCCCTTCTGGCCTTGAGCTAAGCTGCAAATGAT
1 ---AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
193234 TTGTTTTAAA
Statistics
Matches: 414, Mismatches: 89, Indels: 53
0.74 0.16 0.10
Matches are distributed among these distances:
76 12 0.03
77 11 0.03
78 9 0.02
79 39 0.09
80 14 0.03
81 73 0.18
82 35 0.08
83 130 0.31
84 63 0.15
85 28 0.07
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (82 bp):
AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCTCGAGCTGAGCGTAATCGAA
CTCAGAGGTCTTTGGTT
Found at i:193124 original size:162 final size:164
Alignment explanation
Indices: 192679--193233 Score: 703
Period size: 164 Copynumber: 3.4 Consensus size: 164
192669 TGAGCTAAAC
* *
192679 GTAATCGAACTCAGAGGTCTTCGGTTAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 GTAATCGAACTCAG-GGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* *
192744 TA-CCTTGGAGCTGAGCGTAGTTGAACTCAAAGGTCTTTGG-TGATAGATAACCCTTCTAGCCTT
64 -AGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTAGCCTT
*
192807 GAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGT
128 GAGTTATGCTATAAATGATGTACCCTCGAAGCTGAGT
*
192844 GTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 GTAATCGAACTC-AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGA
*
192909 GCCTTGGAGCTGAGCGTAGTC-AACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGA
65 GCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTAGCCTTGA
*
192973 GTTATGCTATAAATGATGTACCCTCTAAGCTGAGT
130 GTTATGCTATAAATGATGTACCCTCGAAGCTGAGT
* *
193008 GTAATC-AACTCAGGGTCTTTGGCAGATAGCCCTTCTCGACATAAG-TATG-TGCAAATAATGAG
1 GTAATCGAACTCAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGAG
* * * * *
193070 TCTTGGAGCTGAGCGTAGTCGAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCA-ACTTA
66 CCTTGGAGCTGAGCGTAGTCG-AACTCAAAGGTCTTTGGTTGACAGATAACCCTTCT-AGCCTTG
* * * * * * *
193134 AGTTATGATGTAAATGATAT-GCCTTGGAGCTGAGC
129 AGTTATGCTATAAATGATGTACCCTCGAAGCTGAGT
* * * * * * * *
193169 GTAGTCAAACTCGAAGGTCTTTTTAGCAGATAGCCCTTCTGGCCTTGAGCTAAGCTGCAAATGAT
1 GTAATCGAACTC-AGGGTC--TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
193234 TTGTTTTAAA
Statistics
Matches: 344, Mismatches: 34, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
160 30 0.09
161 19 0.06
162 90 0.26
163 27 0.08
164 121 0.35
165 43 0.12
166 5 0.01
167 9 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (164 bp):
GTAATCGAACTCAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGAG
CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTAGCCTTGAG
TTATGCTATAAATGATGTACCCTCGAAGCTGAGT
Found at i:198479 original size:20 final size:21
Alignment explanation
Indices: 198454--198505 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
198444 TAAATAAAAG
198454 AATAAACCAAAAGAA-AATTA
1 AATAAACCAAAAGAATAATTA
* *
198474 AATAAA--AATAATAATTATTA
1 AATAAACCAA-AAGAATAATTA
198494 AATAAACCAAAA
1 AATAAACCAAAA
198506 AGATATGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 2 0.08
19 4 0.15
20 16 0.62
21 2 0.08
22 2 0.08
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.21
Consensus pattern (21 bp):
AATAAACCAAAAGAATAATTA
Found at i:200006 original size:37 final size:37
Alignment explanation
Indices: 199902--200180 Score: 272
Period size: 37 Copynumber: 7.6 Consensus size: 37
199892 TTTTTAAAAA
* * * * *
199902 ATTTCAAAACTATACATTATATAGTTTTCAAAAATTG
1 ATTTTAAAACTATATATTATATAATTTTTAAAAAATG
*
199939 --TTT-AAA--A-ATATTATATAAGTTTTTTAAAAATG
1 ATTTTAAAACTATATATTATATAA-TTTTTAAAAAATG
*
199971 TTTTTAAAACTATATATTATATAATTTTTAAAAAATG
1 ATTTTAAAACTATATATTATATAATTTTTAAAAAATG
*
200008 TTTTTAAAACTATATATTATATAATTTTTCAAAAAATG
1 ATTTTAAAACTATATATTATATAATTTTT-AAAAAATG
* * * *
200046 ATTATAAAAATATATATTATGTAATTTTTCAAAAATG
1 ATTTTAAAACTATATATTATATAATTTTTAAAAAATG
* *
200083 ATTTTAAAATTATATATTATATAA-TTTT-CAAAATG
1 ATTTTAAAACTATATATTATATAATTTTTAAAAAATG
* *
200118 ATTTTAGAAATTATATATTATATACGTATTTTTAAAAACTG
1 ATTTTA-AAACTATATATTATATA---ATTTTTAAAAAATG
*
200159 --TTTACAAACTATATAATATATA
1 ATTTTA-AAACTATATATTATATA
200181 TATATATATA
Statistics
Matches: 207, Mismatches: 21, Indels: 26
0.81 0.08 0.10
Matches are distributed among these distances:
31 9 0.04
32 11 0.05
34 6 0.03
35 17 0.08
36 21 0.10
37 70 0.34
38 44 0.21
39 20 0.10
40 4 0.02
41 5 0.02
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (37 bp):
ATTTTAAAACTATATATTATATAATTTTTAAAAAATG
Done.