Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003806.1 Hibiscus syriacus cultivar Beakdansim tig00008146_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: 1419252
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:629289 original size:25 final size:27
Alignment explanation
Indices: 629252--629308 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
629242 ACTAACTAAT
*
629252 AATAATAATTAAACA-T-A-TAAAATTA
1 AATAATAACTAAACAGTGACTAAAA-TA
629277 AATAATAACTAAACAGTGACTAAAATA
1 AATAATAACTAAACAGTGACTAAAATA
629304 AATAA
1 AATAA
629309 AATTAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 14 0.50
26 1 0.04
27 8 0.29
28 5 0.18
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (27 bp):
AATAATAACTAAACAGTGACTAAAATA
Found at i:630688 original size:3 final size:3
Alignment explanation
Indices: 630680--630806 Score: 215
Period size: 3 Copynumber: 43.3 Consensus size: 3
630670 ATTTAGTCCT
630680 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
630728 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA ATT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
630775 A-A ATA ATA ATA ACA ATA ATA AT- ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
630807 AAACAAATAG
Statistics
Matches: 117, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
2 6 0.05
3 111 0.95
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:631188 original size:122 final size:121
Alignment explanation
Indices: 631037--631605 Score: 657
Period size: 122 Copynumber: 4.7 Consensus size: 121
631027 ATAGGATCTA
* *
631037 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCGTCTCTTTCTTCAGATGATTTCTTCTCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC-TCTCTTTCTTCAGATAAGTTCTTCTCA
** *
631102 TTATGAACACT-TCTGGAAATGTCGATGATGATCTATCTCCTTCTGTGATAGAGTCAT
65 TTATGAACTTTCTCTGGAAAAGT-GATGATGATCTATCTCCTTCTGTGATAGAGTCAT
*
631159 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCT-TCTTCCTCTTCATATAAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTCTCTT--TCTTCAGATAAGTTCTTCTC
* *
631223 ATAATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCAT
64 ATTATGAACTTTCTCTGGAAAAG-TGATGATGATCTATCTCCTTCTGTGATAGAGTCAT
*
631282 GC-AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCT-TCTTCCTCTTCAGATAAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTCTCTT--TCTTCAGATAAGTTCTTCTC
**
631345 ATTATGAACTTTCTCTGGAAAAGTGTATTCTGATCTATCTCCTTCTGTGATAGAGTCAT
64 ATTATGAACTTTCTCTGGAAAAGTG-ATGATGATCTATCTCCTTCTGTGATAGAGTCAT
* * * * * *
631404 GCAAAA-GTTGATCAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTTATATAAGTTCTTCTCC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC-TCTCTTTCTTCAGATAAGTTCTTCTCA
* * *
631468 TTATGAAATTTCTCTGGAAAAGTG-T-ATG-T-TGA--TCCATC-GAATGAT-GAATTCGA-
65 TTATGAACTTTCTCTGGAAAAGTGATGATGATCT-ATCTCCTTCTG--TGATAG-AGTC-AT
* * *
631521 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GGTTTTTTCT
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC-TC-TCTTTCTTCAGATAAG-TTCTTCT
*
631585 CATTATGAACTCT-TCTGGAAA
63 CATTATGAACTTTCTCTGGAAA
631606 TGTTGATCCA
Statistics
Matches: 400, Mismatches: 31, Indels: 36
0.86 0.07 0.08
Matches are distributed among these distances:
115 1 0.00
116 6 0.01
117 14 0.04
118 43 0.11
119 29 0.07
120 5 0.01
121 3 0.01
122 247 0.62
123 48 0.12
124 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (121 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTCTCTTTCTTCAGATAAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGTGATGATGATCTATCTCCTTCTGTGATAGAGTCAT
Found at i:631427 original size:244 final size:239
Alignment explanation
Indices: 631036--631605 Score: 749
Period size: 244 Copynumber: 2.4 Consensus size: 239
631026 GATAGGATCT
*
631036 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCGTCTCTT--TCTTCAGATGATTTCTTC
1 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC-T-TCTTCCTCTTCAGAT-AGTTCTTC
* *
631099 TCATTATGAACACTTCTGGAAATGTCGATGATGATCTATCTCCTTCTGTGATAGAGTCATGCAAA
63 TCATTATGAACTCTTCTGGAAAAGTCGATGATGATCTATCTCCTTCTGTGATAGAGTCATGCAAA
631164 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCATATAAGTTCTTCTCATAAT
128 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC-TCCTTCTTCATATAAGTTCTTCTCATAAT
* * *** ** *
631228 GAACTTTCTCTGGAAAAGT-TGATGTTGATCTATCTCCTTCTGTGA-TAG
192 GAAATTTCTCTGGAAAAGTGT-ATGTTGATCCATCGAATGATG-AATTAG
*
631276 AGTCATGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCT
1 AG-CA---AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT-AGTTCT
* **
631341 TCTCATTATGAACTTTCTCTGGAAAAGT-GTATTCTGATCTATCTCCTTCTGTGATAGAGTCATG
61 TCTCATTATGAACTCT-TCTGGAAAAGTCG-ATGATGATCTATCTCCTTCTGTGATAGAGTCATG
* * * *
631405 CAAAA-GTTGATCAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTTATATAAGTTCTTCTCCT
124 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCTTCTTCATATAAGTTCTTCTCAT
* *
631469 TATGAAATTTCTCTGGAAAAGTGTATGTTGATCCATCGAATGATGAATTCG
189 AATGAAATTTCTCTGGAAAAGTGTATGTTGATCCATCGAATGATGAATTAG
* *
631520 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGGTTTTTTCT
1 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAG-TTCTTCT
631585 CATTATGAACTCTTCTGGAAA
64 CATTATGAACTCTTCTGGAAA
631606 TGTTGATCCA
Statistics
Matches: 291, Mismatches: 26, Indels: 26
0.85 0.08 0.08
Matches are distributed among these distances:
240 51 0.18
241 29 0.10
242 4 0.01
243 7 0.02
244 152 0.52
245 48 0.16
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (239 bp):
AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAGTTCTTCTCA
TTATGAACTCTTCTGGAAAAGTCGATGATGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGG
TTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCTTCTTCATATAAGTTCTTCTCATAATGAAA
TTTCTCTGGAAAAGTGTATGTTGATCCATCGAATGATGAATTAG
Found at i:632465 original size:54 final size:55
Alignment explanation
Indices: 632382--632544 Score: 231
Period size: 54 Copynumber: 3.0 Consensus size: 55
632372 TAATTATTGG
* * *
632382 TTCGTAAAACATTTGACAACGCATTCATCATTTCTTGTGGCTTCTGCACAGATGT
1 TTCGTAAAACATTTGACAACACATTCATCATTTCTTGTGGCTTTTGCCCAGATGT
* * * *
632437 TTCGT-AAACATTTAACAATACATTCATCATTTCTTGTGGCTTTTTCCCAAATG-
1 TTCGTAAAACATTTGACAACACATTCATCATTTCTTGTGGCTTTTGCCCAGATGT
* *
632490 TTCGTAAAACATTTGACAACACATTCATCCTTTATTGTGGCTTTTGCCCAGATGT
1 TTCGTAAAACATTTGACAACACATTCATCATTTCTTGTGGCTTTTGCCCAGATGT
632545 CTGGTCAATG
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
53 5 0.05
54 83 0.89
55 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (55 bp):
TTCGTAAAACATTTGACAACACATTCATCATTTCTTGTGGCTTTTGCCCAGATGT
Found at i:633548 original size:75 final size:75
Alignment explanation
Indices: 633419--633578 Score: 241
Period size: 75 Copynumber: 2.1 Consensus size: 75
633409 TGATATGGAT
* *
633419 CTTT-AGCATGCCCCAACATTGGCTAATACAAACATTCAAAATACATCAACATTCCTGATTCTTA
1 CTTTCAGCATGCCCCAACATTGGCTAATACAAACATTCAAAATACATCAACATTCCTGATTATGA
633483 TTGAAAGGGG
66 TTGAAAGGGG
* *** *
633493 CTTTCAGCATGCCCCAGCATTGGCTAATACAAACATTCAAAATGTTTCAATATTCCTGATTATGA
1 CTTTCAGCATGCCCCAACATTGGCTAATACAAACATTCAAAATACATCAACATTCCTGATTATGA
*
633558 TTGAAATGGG
66 TTGAAAGGGG
633568 CTTTCAGCATG
1 CTTTCAGCATG
633579 ATACATCATT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 4 0.05
75 73 0.95
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (75 bp):
CTTTCAGCATGCCCCAACATTGGCTAATACAAACATTCAAAATACATCAACATTCCTGATTATGA
TTGAAAGGGG
Found at i:640240 original size:14 final size:14
Alignment explanation
Indices: 640211--640291 Score: 51
Period size: 14 Copynumber: 5.8 Consensus size: 14
640201 TTGAAACTAT
640211 AGATGTAACTATGCAA
1 AGATGTAA--ATGCAA
640227 AGATGTAAATGCAA
1 AGATGTAAATGCAA
* ** *
640241 ACATAAAAATGAAA
1 AGATGTAAATGCAA
*
640255 AGATGCAAATG-AA
1 AGATGTAAATGCAA
640268 A-AT-TCAAATGCAA
1 AGATGT-AAATGCAA
* *
640281 ATATGTGAATG
1 AGATGTAAATG
640292 TAGAAATAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
12 7 0.13
13 6 0.12
14 30 0.58
15 1 0.02
16 8 0.15
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (14 bp):
AGATGTAAATGCAA
Found at i:640355 original size:6 final size:7
Alignment explanation
Indices: 640340--640380 Score: 59
Period size: 6 Copynumber: 6.0 Consensus size: 7
640330 AGCAAACAAC
640340 AAATGCA
1 AAATGCA
640347 AAATG-A
1 AAATGCA
640353 AAATGCA
1 AAATGCA
640360 AAGATGCA
1 AA-ATGCA
640368 AAATGC-
1 AAATGCA
640374 AAATGCA
1 AAATGCA
640381 TTAACGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.39
7 12 0.39
8 7 0.23
ACGTcount: A:0.56, C:0.12, G:0.17, T:0.15
Consensus pattern (7 bp):
AAATGCA
Found at i:640540 original size:43 final size:44
Alignment explanation
Indices: 640457--640541 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 44
640447 GTGCATCAAA
* *
640457 CAAAACTTTTACACGTAGGGGACAACTTTCAGTCCGAACTTCAG
1 CAAAACTTTTACACATAGGGGACAACTTTCACTCCGAACTTCAG
* * * *
640501 CAAAAC-TTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 CAAAACTTTTACACATAGGGGACAACTTTCACTCCGAACTTC
640542 TATAAAGCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
43 29 0.83
44 6 0.17
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (44 bp):
CAAAACTTTTACACATAGGGGACAACTTTCACTCCGAACTTCAG
Found at i:640974 original size:36 final size:36
Alignment explanation
Indices: 640926--640999 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
640916 TACTCTTGTC
* *
640926 GTAGAATGCTTTTGGTATCAATCTAACAGGATCTTT
1 GTAGAATACTTTTGGTATCAATATAACAGGATCTTT
*
640962 GTAGAATACTTTTGGTATTAATATAACAGGATCTTT
1 GTAGAATACTTTTGGTATCAATATAACAGGATCTTT
640998 GT
1 GT
641000 GTGCGTAGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (36 bp):
GTAGAATACTTTTGGTATCAATATAACAGGATCTTT
Found at i:642837 original size:25 final size:27
Alignment explanation
Indices: 642800--642856 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
642790 ACTAACTAAT
*
642800 AATAATAATTAAACA-T-A-TAAAATTA
1 AATAATAACTAAACAGTGACTAAAA-TA
642825 AATAATAACTAAACAGTGACTAAAATA
1 AATAATAACTAAACAGTGACTAAAATA
642852 AATAA
1 AATAA
642857 AATTAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 14 0.50
26 1 0.04
27 8 0.29
28 5 0.18
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (27 bp):
AATAATAACTAAACAGTGACTAAAATA
Found at i:644236 original size:3 final size:3
Alignment explanation
Indices: 644228--644346 Score: 149
Period size: 3 Copynumber: 41.0 Consensus size: 3
644218 TTTGGGCCTG
644228 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
644275 TAA T-A TAA TTA TAA -AA TAG TAA TAG TAA TAG TAA TAAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
*
644318 TAA TAA TAA CAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
644347 AAACAAATGG
Statistics
Matches: 100, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
2 10 0.10
3 87 0.87
4 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:644949 original size:14 final size:14
Alignment explanation
Indices: 644931--644967 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
644921 TTTGATTGCC
644931 CTGTTTTGCTGAAG
1 CTGTTTTGCTGAAG
*
644945 TTGTTTTGCTGAAG
1 CTGTTTTGCTGAAG
644959 CTGTTTTGC
1 CTGTTTTGC
644968 CTTGACTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.11, C:0.14, G:0.27, T:0.49
Consensus pattern (14 bp):
CTGTTTTGCTGAAG
Found at i:645110 original size:13 final size:13
Alignment explanation
Indices: 645088--645128 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
645078 TAACTGATTT
*
645088 CTAGTCAGTTGGG
1 CTAGTTAGTTGGG
*
645101 CTAGTTAGTTTGG
1 CTAGTTAGTTGGG
645114 CTAGTTAGTTGGG
1 CTAGTTAGTTGGG
645127 CT
1 CT
645129 TATCTGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.12, G:0.34, T:0.39
Consensus pattern (13 bp):
CTAGTTAGTTGGG
Found at i:646800 original size:24 final size:24
Alignment explanation
Indices: 646773--646826 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
646763 ATTATACAAG
646773 TTCTGCACCTCAAATTCCACAATT
1 TTCTGCACCTCAAATTCCACAATT
* *
646797 TTCTGCATCTCAAATTCCTCAATT
1 TTCTGCACCTCAAATTCCACAATT
646821 TTCTGC
1 TTCTGC
646827 TCAATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.24, C:0.31, G:0.06, T:0.39
Consensus pattern (24 bp):
TTCTGCACCTCAAATTCCACAATT
Found at i:646833 original size:36 final size:36
Alignment explanation
Indices: 646792--646894 Score: 152
Period size: 36 Copynumber: 2.9 Consensus size: 36
646782 TCAAATTCCA
*
646792 CAATTTTCTGCATCTCAAATTCCTCAATTTTCTGCT
1 CAATTTTCTGCACCTCAAATTCCTCAATTTTCTGCT
* *
646828 CAATTTTTTACACCTCAAATTCCTCAATTTTCTGCT
1 CAATTTTCTGCACCTCAAATTCCTCAATTTTCTGCT
* * *
646864 CAATATTCTGCACCTCAATTTCCTTAATTTT
1 CAATTTTCTGCACCTCAAATTCCTCAATTTT
646895 TTGTAGTCTC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.24, C:0.27, G:0.04, T:0.45
Consensus pattern (36 bp):
CAATTTTCTGCACCTCAAATTCCTCAATTTTCTGCT
Found at i:665336 original size:12 final size:13
Alignment explanation
Indices: 665317--665352 Score: 65
Period size: 12 Copynumber: 2.8 Consensus size: 13
665307 TATTTCGCCT
665317 GAAAAAATGAATG
1 GAAAAAATGAATG
665330 G-AAAAATGAATG
1 GAAAAAATGAATG
665342 GAAAAAATGAA
1 GAAAAAATGAA
665353 AAAAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (13 bp):
GAAAAAATGAATG
Found at i:665368 original size:21 final size:22
Alignment explanation
Indices: 665344--665396 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
665334 AATGAATGGA
665344 AAAAATGAAAAAAAAAG-AAAG
1 AAAAATGAAAAAAAAAGAAAAG
** *
665365 AAAAATGAGGAAAAAGGAAAAG
1 AAAAATGAAAAAAAAAGAAAAG
665387 AAAAAT-AAAA
1 AAAAATGAAAA
665397 GAAGGGTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (22 bp):
AAAAATGAAAAAAAAAGAAAAG
Found at i:666801 original size:111 final size:111
Alignment explanation
Indices: 666559--667337 Score: 1249
Period size: 111 Copynumber: 7.0 Consensus size: 111
666549 GTTCGACCCA
* *
666559 GATTCAATGGATCAACTTTCCCATATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCT
1 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCT
* *
666624 TTCAAGATTTG-TATTCCATGAGTGGCAGCGGAACAAGTCTACCTT
66 TTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTT
666669 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCT
1 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCT
*
666734 TTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGACTACCTT
66 TTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTT
*
666780 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAAAAGAAGTGGAACAGATCCCTCTCT
1 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCT
*
666845 TTCAAGATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTACCTT
66 TTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTT
* * *
666891 GATTCAATGAATCAAATTTCACAGATCTGATATTCCCTTAGAGGAAGTGGAACAGAT-CC-CTCT
1 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCT
*
666954 TTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTT
66 TTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTT
* *
667000 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACAGATCCCTCTCT
1 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCT
667065 TTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTT
66 TTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTT
* *
667111 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACAGATCCCTCTCT
1 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCT
* * *
667176 TTCAAGATTTGATATTCCCTGAGCGACAGTGGAACAAGTCTACCCT
66 TTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTT
* * * * * **
667222 GATTCAATGGATCAACTTTCCTAGATCTGATATTCCCTCAGGAGAAGCGGAACAGATCAAATCTC
1 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATC-CCTCTC
* * * ** *
667287 TTTCAAGATTTGATATTCCATAAGTGATAATGGAACAAGTCTACCCT
65 TTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTT
667334 GATT
1 GATT
667338 TAATTTTACC
Statistics
Matches: 632, Mismatches: 33, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
109 102 0.16
110 78 0.12
111 402 0.64
112 50 0.08
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (111 bp):
GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCT
TTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTT
Found at i:667027 original size:220 final size:222
Alignment explanation
Indices: 666559--667337 Score: 1267
Period size: 220 Copynumber: 3.5 Consensus size: 222
666549 GTTCGACCCA
* * *
666559 GATTCAATGGATCAACTTTCCCATATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCT
1 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCCTCTCT
*
666624 TTCAAGATTTG-TATTCCATGAGTGGCAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTT
66 TTCAAGATTTGATATTCCATGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTT
*
666688 CCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCC
131 CCCAGATCTGATATTCCCTTAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCC
* *
666753 TGAGTGACAGCGGAACAAGACTACCTT
196 TGAGTGACAGTGGAACAAGTCTACCTT
* *
666780 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAAAAGAAGTGGAACAGATCCCTCTCT
1 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCCTCTCT
* * *
666845 TTCAAGATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTACCTTGATTCAATGAATCAAATTT
66 TTCAAGATTTGATATTCCATGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTT
*
666910 CACAGATCTGATATTCCCTTAGAGGAAGTGGAACAGAT-CC-CTCTTTCAAGATTTGATATTCCC
131 CCCAGATCTGATATTCCCTTAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCC
666973 TGAGTGACAGTGGAACAAGTCTACCTT
196 TGAGTGACAGTGGAACAAGTCTACCTT
*
667000 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACAGATCCCTCTCT
1 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCCTCTCT
*
667065 TTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTT
66 TTCAAGATTTGATATTCCATGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTT
*
667130 CCCAGATCTGATATTCCCTCAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCC
131 CCCAGATCTGATATTCCCTTAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCC
* *
667195 TGAGCGACAGTGGAACAAGTCTACCCT
196 TGAGTGACAGTGGAACAAGTCTACCTT
* * * * **
667222 GATTCAATGGATCAACTTTCCTAGATCTGATATTCCCTCAGGAGAAGCGGAACAGATCAAATCTC
1 GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATC-CCTCTC
* * ** *
667287 TTTCAAGATTTGATATTCCATAAGTGATAATGGAACAAGTCTACCCTGATT
65 TTTCAAGATTTGATATTCCATGAGTGACAGCGGAACAAGTCTACCTTGATT
667338 TAATTTTACC
Statistics
Matches: 521, Mismatches: 33, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
220 209 0.40
221 77 0.15
222 186 0.36
223 49 0.09
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (222 bp):
GATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCCTCTCT
TTCAAGATTTGATATTCCATGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTT
CCCAGATCTGATATTCCCTTAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCC
TGAGTGACAGTGGAACAAGTCTACCTT
Found at i:667162 original size:331 final size:330
Alignment explanation
Indices: 666554--667337 Score: 1248
Period size: 331 Copynumber: 2.4 Consensus size: 330
666544 TTCAGGTTCG
* * *
666554 ACCCAGATTCAATGGATCAACTTTCCCATATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCC
1 ACCCTGATTCAATGGATCAACTTT-CCAGATCTGATATTCCCTTAGAGGAAGTGGAACAGAT-CC
* *
666619 TCTCTTTCAAGATTTG-TATTCCATGAGTGGCAGCGGAACAAGTCTACCTTGATTCAATGAATCA
64 -CTCTTTCAAGATTTGATATTCCATGAGTGACAGTGGAACAAGTCTACCTTGATTCAATGAATCA
*
666683 ACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATA
128 ACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATA
666748 TTCCCTGAGTGACAGCGGAACAAGACTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATAT
193 TTCCCTGAGTGACAGCGGAACAAGACTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATAT
* *
666813 TCCCTTAAAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGCGGA
258 TCCCTCAAAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGCAACAGCGGA
666878 ACAAGTCT
323 ACAAGTCT
* * *
666886 ACCTTGATTCAATGAATCAAATTTCACAGATCTGATATTCCCTTAGAGGAAGTGGAACAGATCCC
1 ACCCTGATTCAATGGATCAACTTTC-CAGATCTGATATTCCCTTAGAGGAAGTGGAACAGATCCC
*
666951 TCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTTGATTCAATGAATCAAC
65 TCTTTCAAGATTTGATATTCCATGAGTGACAGTGGAACAAGTCTACCTTGATTCAATGAATCAAC
*
667016 TTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATT
130 TTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATT
*
667081 CCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTC
195 CCCTGAGTGACAGCGGAACAAGACTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTC
* * * *
667146 CCTCAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGCGACAGTGGAAC
260 CCTCAAAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGCAACAGCGGAAC
667211 AAGTCT
325 AAGTCT
* *
667217 ACCCTGATTCAATGGATCAACTTTCCTAGATCTGATATTCCCTCAG-GAGAAGCGGAACAGATCA
1 ACCCTGATTCAATGGATCAACTTTCC-AGATCTGATATTCCCTTAGAG-GAAGTGGAACAGATC-
* * * * *
667281 AATCTCTTTCAAGATTTGATATTCCATAAGTGATAATGGAACAAGTCTACCCTGATT
63 --CCTCTTTCAAGATTTGATATTCCATGAGTGACAGTGGAACAAGTCTACCTTGATT
667338 TAATTTTACC
Statistics
Matches: 416, Mismatches: 29, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
330 17 0.04
331 296 0.71
332 54 0.13
334 49 0.12
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (330 bp):
ACCCTGATTCAATGGATCAACTTTCCAGATCTGATATTCCCTTAGAGGAAGTGGAACAGATCCCT
CTTTCAAGATTTGATATTCCATGAGTGACAGTGGAACAAGTCTACCTTGATTCAATGAATCAACT
TTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTC
CCTGAGTGACAGCGGAACAAGACTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCC
CTCAAAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGCAACAGCGGAACA
AGTCT
Found at i:668880 original size:2 final size:2
Alignment explanation
Indices: 668873--668900 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
668863 GTTTAAAATA
668873 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
668901 TTATTCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:671243 original size:182 final size:181
Alignment explanation
Indices: 670951--671424 Score: 648
Period size: 182 Copynumber: 2.6 Consensus size: 181
670941 GATCCAAATT
* * **
670951 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGGCAAAACCGGTAT-AGAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCA-AAATGAT
* * * * *
671015 AAAACCAGT-AAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACT
65 AAAACCGGTAAAAG-GATACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACT
* * *
671079 TCGTGAATTTAAAAG-AGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
128 TCGTGAATTTAAAAGAAAAAACAGTTTTAAAGCCTATAAAGTGTCGATAC-TTTA
* * **
671133 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAATCGGTATCAAAACAATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
671198 AAACCGGTAAAAGGTTACCGGATATATTAAAAGTGTCGATACTTTATATAAGGATCGACACTTTG
66 AAACCGGTAAAAGGATACCGGATATATTAAAAGTGTCGATACTTTATATAAGGATCGACACTTCG
** *
671263 TGAATTTAAAAGAAAAAACAGTTTTAGCGCCTATAATGTGTCGATACTTTA
131 TGAATTTAAAAGAAAAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
* *
671314 AAAATATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAA-ATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
* * *
671379 AAAACCGGTAAAATGATACCGAATATATTGAAAGTGTCGATACTTT
65 AAAACCGGTAAAAGGATACCGGATATATTAAAAGTGTCGATACTTT
671425 CGTAAGTACG
Statistics
Matches: 258, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
181 39 0.15
182 214 0.83
183 5 0.02
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAAGGATACCGGATATATTAAAAGTGTCGATACTTTATATAAGGATCGACACTTCG
TGAATTTAAAAGAAAAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
Found at i:671359 original size:20 final size:19
Alignment explanation
Indices: 671345--671391 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
671335 CGATATAACA
671345 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
671365 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
671385 GGTAAAA
1 GGTAAAA
671392 TGATACCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:671393 original size:17 final size:19
Alignment explanation
Indices: 671354--671396 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
671344 AGGTAAAAAT
671354 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
671374 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
671391 ATGATA
1 ATGATA
671397 CCGAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:673636 original size:21 final size:21
Alignment explanation
Indices: 673612--673655 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
673602 AAGACAATCA
673612 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
673633 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
673654 AG
1 AG
673656 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:673731 original size:33 final size:33
Alignment explanation
Indices: 673689--673754 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
673679 AAATAGATGG
*
673689 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
673722 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
673755 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:675569 original size:19 final size:19
Alignment explanation
Indices: 675545--675593 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
675535 AATATAGGGT
675545 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
675564 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
675583 TATTTTTGTAT
1 TAATTTTGTAT
675594 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:676055 original size:199 final size:200
Alignment explanation
Indices: 675712--676883 Score: 2201
Period size: 199 Copynumber: 5.9 Consensus size: 200
675702 CAATATGGCC
*
675712 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
675777 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
**
675842 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTATTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
675907 TGGAA
196 TGGAA
*
675912 AGCAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
675976 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
676041 GAATATGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
676106 TAGAA
196 TGGAA
* *
676111 AACAGTGTGCAACCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
676176 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
676241 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
676305 TGGAA
196 TGGAA
*
676310 AATAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
676374 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
676439 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
676504 TGGAA
196 TGGAA
* *
676509 AACAGGGTGCAACTATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
676574 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
676639 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
676704 TGGAA
196 TGGAA
676709 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
676773 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATATCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
676838 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
676884 CTAATTTAAA
Statistics
Matches: 949, Mismatches: 20, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
198 114 0.12
199 485 0.51
200 350 0.37
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:678358 original size:6 final size:6
Alignment explanation
Indices: 678347--678440 Score: 71
Period size: 6 Copynumber: 15.7 Consensus size: 6
678337 CAAGCGGTCA
* * * * *
678347 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * * *
678395 CTGACG ATGAAG ATGATG ACGATG ATGATG ATGATG ATGGAG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
678441 TGATCCAAAG
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.37, C:0.07, G:0.34, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:678369 original size:12 final size:12
Alignment explanation
Indices: 678347--678433 Score: 93
Period size: 12 Copynumber: 7.2 Consensus size: 12
678337 CAAGCGGTCA
*
678347 ATGAAGATGAAG
1 ATGACGATGAAG
*
678359 CTGACGATGAAG
1 ATGACGATGAAG
*
678371 ATGACGATGATG
1 ATGACGATGAAG
678383 ATGACGATGAAG
1 ATGACGATGAAG
*
678395 CTGACGATGAAG
1 ATGACGATGAAG
* * *
678407 ATGATGACGATG
1 ATGACGATGAAG
* *
678419 ATGATGATGATG
1 ATGACGATGAAG
678431 ATG
1 ATG
678434 GAGATGATGA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 64 1.00
ACGTcount: A:0.37, C:0.08, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:678399 original size:36 final size:36
Alignment explanation
Indices: 678347--678428 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
678337 CAAGCGGTCA
*
678347 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
* *
678383 ATGACGATGAAGCTGACGATGAAGATGATGACGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
*
678419 ATGATGATGA
1 ATGAAGATGA
678429 TGATGGAGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.21
Consensus pattern (36 bp):
ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
Found at i:678432 original size:9 final size:9
Alignment explanation
Indices: 678364--678444 Score: 74
Period size: 9 Copynumber: 9.0 Consensus size: 9
678354 TGAAGCTGAC
*
678364 GATGAAGAT
1 GATGATGAT
*
678373 GACGATGAT
1 GATGATGAT
*
678382 GATGACGAT
1 GATGATGAT
* * *
678391 GAAGCTGAC
1 GATGATGAT
*
678400 GATGAAGAT
1 GATGATGAT
*
678409 GATGACGAT
1 GATGATGAT
678418 GATGATGAT
1 GATGATGAT
678427 GATGATGGA-
1 GATGAT-GAT
678436 GATGATGAT
1 GATGATGAT
678445 CCAAAGAAGT
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
8 2 0.04
9 52 0.93
10 2 0.04
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (9 bp):
GATGATGAT
Found at i:679657 original size:16 final size:16
Alignment explanation
Indices: 679636--679669 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
679626 TATCCACAAC
*
679636 AAAGTGTCGATTTAAA
1 AAAGTGTCGATTGAAA
679652 AAAGTGTCGATTGAAA
1 AAAGTGTCGATTGAAA
679668 AA
1 AA
679670 TGTAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (16 bp):
AAAGTGTCGATTGAAA
Found at i:680062 original size:23 final size:23
Alignment explanation
Indices: 680031--680094 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
680021 ATAGGTAAAA
*
680031 ATATGATGTAATAGGTAGCGCCT
1 ATATAATGTAATAGGTAGCGCCT
* **
680054 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCCT
680077 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
680095 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCCT
Found at i:680101 original size:23 final size:23
Alignment explanation
Indices: 680031--680103 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
680021 ATAGGTAAAA
* * *
680031 ATATGATGTAATAGGTAGCGCCT
1 ATATAATGTAATAGGTAGTGCTT
*
680054 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
680077 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
680100 ATAT
1 ATAT
680104 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:680758 original size:183 final size:183
Alignment explanation
Indices: 680483--681158 Score: 1257
Period size: 183 Copynumber: 3.7 Consensus size: 183
680473 GCAATGCTAT
680483 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
* * *
680548 GTGTCAGTACTTTATGTCCAGATTGGAAGAAAAATGTGTTGATA-CATTGTCAAAAAGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGAC
680612 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
680666 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
680731 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTCAAAAAGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGAC
680795 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
680849 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
680914 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
* *
680979 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
131 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
*
681032 CGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
681097 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
681159 GTAATTTTAA
Statistics
Matches: 486, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
183 482 0.99
184 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:683603 original size:25 final size:25
Alignment explanation
Indices: 683569--683638 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
683559 AAATTCGCAG
683569 TACATATTTAGGTATGTACAATAAC
1 TACATATTTAGGTATGTACAATAAC
683594 TACATATTTAGGTATGTACAATAAC
1 TACATATTTAGGTATGTACAATAAC
*
683619 TACATATTTAGGTATATACA
1 TACATATTTAGGTATGTACA
683639 TCTTTTGAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (25 bp):
TACATATTTAGGTATGTACAATAAC
Found at i:684016 original size:23 final size:23
Alignment explanation
Indices: 683985--684034 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
683975 ATAGGTAAAA
*
683985 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
684008 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
684031 ATAT
1 ATAT
684035 TGTAAAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:684424 original size:23 final size:23
Alignment explanation
Indices: 684393--684465 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
684383 ATAGGTAAAA
*
684393 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* **
684416 ATATAATGTAATAGGTATCATTT
1 ATATAATGTAATAGGTAGCGCTT
* *
684439 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
684462 ATAT
1 ATAT
684466 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:684854 original size:23 final size:23
Alignment explanation
Indices: 684823--684895 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
684813 ATAGGTAAAA
*
684823 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
684846 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
684869 ATATAATGTAATAAGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
684892 ATAT
1 ATAT
684896 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:684963 original size:430 final size:430
Alignment explanation
Indices: 683985--685492 Score: 2809
Period size: 431 Copynumber: 3.5 Consensus size: 430
683975 ATAGGTAAAA
* *
683985 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
1 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
684050 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
66 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
*
684115 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
131 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
*
684180 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATCAAATATCAAAACAATCAAATAATTT
196 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
684245 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
261 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAA
684310 TTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
325 TTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
684375 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
390 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
* *
684416 ATATAATGTAATAGGTATCATTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
1 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
* * *
684481 TTTTTTTTAAAAGTGTCTATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAG
66 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
*
684546 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATAT
131 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
684611 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
196 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
*
684676 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAT
261 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
684741 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
326 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
684806 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
391 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
* *
684846 ATATAATGTAATAGGTATCGTTTATATAATGTAATAAGTAGTGGTTATATTGTAAAGTATCTATC
1 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
684911 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
66 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
*
684976 TGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGATAT
131 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
*
685041 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTG
196 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
*
685106 TTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
261 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
*
685171 TGAAACATAAATTACATAACTTTAAAAGAAGTATTGATCCTTTTTATAAAAAAGTATGGACACTT
326 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTAT-AAAAAGTATGGACACTT
685236 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
390 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
685277 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
1 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
* *
685342 ATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
66 CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
* *
685407 TGAGTTTTAAGATATTAATTTAGTAATTATAAGCCTCTAATGATTTATTTTTTACGTTACGATAT
131 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
685472 ATATTATTATTAAATTAAAAA
196 ATATTATTATTAAATTAAAAA
685493 CAATAAACAT
Statistics
Matches: 1049, Mismatches: 27, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
430 474 0.45
431 575 0.55
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.40
Consensus pattern (430 bp):
ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATC
CTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAG
TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
Found at i:685285 original size:23 final size:23
Alignment explanation
Indices: 685254--685326 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
685244 ATAGGTAAAA
*
685254 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
685277 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
685300 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
685323 ATAT
1 ATAT
685327 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:685322 original size:861 final size:839
Alignment explanation
Indices: 683782--685492 Score: 3007
Period size: 861 Copynumber: 2.0 Consensus size: 839
683772 GTTAATGTTG
*
683782 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
*
683846 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAATTGAAACATA
683911 AATTACATAACTTTAAACAAAGTATCGATCCATTTTATAAAAAAGTATGGACACTTTCAATATAA
131 AATTACATAACTTTAAACAAAGTATCGATCCATTTTATAAAAAAGTATGGACACTTTCAATATAA
683976 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGTGGTTATATTGTAAA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGTGGTTATATTGTAAA
684041 GTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
261 GTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
*
684106 TCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACG
326 TCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
*
684171 TTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATCAAATATCAAAACAATC
391 TTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATC
* *
684236 AAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT
456 AAATAATTGTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT
684301 TAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
521 TAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
684366 TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
586 TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
* * *
684431 TATCATTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCTTTTTTTTAAAAGTG
651 TAGCATTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTG
*
684496 TCTATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
716 TCCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
* * *
684561 TAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATATTATTA
781 TAATTTAGTAATTATAAGCCTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
684620 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
684685 ATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAATTGAAACATA
*
684750 AATTACATAACTTTAAA-AGAAGTATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAATATA
131 AATTACATAACTTTAAACA-AAGTATCGATCCATTTTATAAAAAAGTATGGACACTTTCAATATA
684813 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
195 ATAGGTAAAAATATGATGTAATAGGTAGCGC---T-T-A--T-ATA---AT-G--TA-AT-A-G-
684878 AATAAGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
242 -----GTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
684943 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
302 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
*
685008 GTGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATATT
367 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATATT
685073 ATTTTATAAAATATCAAAACAATCAAATAATTGTTTGTGCAAATGAAATTATTAAATTAATATTG
432 ATTTTATAAAATATCAAAACAATCAAATAATTGTTTGTGCAAATGAAATTATTAAATTAATATTG
685138 TAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAG
497 TAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAG
*
685202 TATTGATCCTTTTTATAAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATA
562 TATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATA
*
685267 GGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAA
626 GGTAGCGCTTATATAATGTAATAGGTAGCATTTATATAATGTAATAGGTAGTGGTTATATTGTAA
*
685332 AGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
691 AGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTT
685397 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAAGCCTCTAATGATTTATTTTTTAC
756 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAAGCCTCTAATGATTTATTTTTTAC
685462 GTTACGATATATATTATTA
821 GTTACGATATATATTATTA
685481 TTAAATTAAAAA
1 TTAAATTAAAAA
685493 CAATAAACAT
Statistics
Matches: 829, Mismatches: 18, Indels: 29
0.95 0.02 0.03
Matches are distributed among these distances:
838 64 0.08
839 155 0.19
841 1 0.00
842 1 0.00
843 1 0.00
845 1 0.00
846 3 0.00
849 2 0.00
850 1 0.00
852 2 0.00
853 2 0.00
854 1 0.00
855 1 0.00
860 54 0.07
861 540 0.65
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (839 bp):
TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
ATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAACAAAGTATCGATCCATTTTATAAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGTGGTTATATTGTAAA
GTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
TCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
TTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATC
AAATAATTGTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT
TAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
TAGCATTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTG
TCCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
TAATTTAGTAATTATAAGCCTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:685838 original size:23 final size:23
Alignment explanation
Indices: 685802--685849 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
685792 AAATAGGTAA
* * *
685802 ATATAGGCGTTACCTATTATATT
1 ATATAAGCGCTACCTAGTATATT
*
685825 ATATAAGCGCTACCTAGTATGTT
1 ATATAAGCGCTACCTAGTATATT
685848 AT
1 AT
685850 TGTACTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (23 bp):
ATATAAGCGCTACCTAGTATATT
Found at i:686578 original size:3 final size:3
Alignment explanation
Indices: 686570--686604 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
686560 TGTTCAAGTT
686570 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
686605 CCTCCATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:686653 original size:22 final size:21
Alignment explanation
Indices: 686627--686676 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
686617 CATAATAAAA
686627 ATAATTAATACTGTGTACAAAT
1 ATAATTAATA-TGTGTACAAAT
* * *
686649 ATAATT-ATATTTGTATAATT
1 ATAATTAATATGTGTACAAAT
686669 ATAATTAA
1 ATAATTAA
686677 AATCAATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 14 0.58
21 4 0.17
22 6 0.25
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (21 bp):
ATAATTAATATGTGTACAAAT
Found at i:690311 original size:50 final size:49
Alignment explanation
Indices: 690219--690316 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 49
690209 ACCCTTTGTA
* *
690219 ATAAGGCGCGACCCTTGCAGCGCTTTACGTTGATCTGGCGTCACGTGGG
1 ATAAGGCGCGACCCCTGCAGCGCTTTACGTTGATCTGACGTCACGTGGG
*
690268 ATAAGGCGCG-CCCCTGCAGCGCGCTTTATGTTGAGT-TGACGTCACGTGG
1 ATAAGGCGCGACCCCTGCA--GCGCTTTACGTTGA-TCTGACGTCACGTGG
690317 AGTATAGCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
48 7 0.16
49 10 0.23
50 25 0.58
51 1 0.02
ACGTcount: A:0.16, C:0.27, G:0.33, T:0.24
Consensus pattern (49 bp):
ATAAGGCGCGACCCCTGCAGCGCTTTACGTTGATCTGACGTCACGTGGG
Found at i:690587 original size:17 final size:16
Alignment explanation
Indices: 690548--690613 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
690538 ATATTTTATT
*
690548 ATATTTAA--TATTTT
1 ATATTTAATTTATTTA
*
690562 ATTTTTAATTTATTTA
1 ATATTTAATTTATTTA
*
690578 AGTATTTAATTTTTTTTA
1 A-TATTTAA-TTTATTTA
* *
690596 ATATTTTATTTAATTA
1 ATATTTAATTTATTTA
690612 AT
1 AT
690614 TTTTTTACAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 7 0.17
16 14 0.34
17 12 0.29
18 8 0.20
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
ATATTTAATTTATTTA
Found at i:690589 original size:24 final size:23
Alignment explanation
Indices: 690541--690610 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
690531 TTAAGGTATA
*
690541 TTTTATTATATTTAATATTTTAT
1 TTTTATTATATTTAATATTTAAT
690564 TTTTAATT-TATTTAAGTATTTAAT
1 TTTT-ATTATATTTAA-TATTTAAT
*
690588 TTTTTTTAATATTT--TATTTAAT
1 TTTTATT-ATATTTAATATTTAAT
690610 T
1 T
690611 AATTTTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 9 0.22
23 13 0.32
24 14 0.34
25 5 0.12
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (23 bp):
TTTTATTATATTTAATATTTAAT
Found at i:690603 original size:18 final size:18
Alignment explanation
Indices: 690564--690612 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
690554 AATATTTTAT
690564 TTTTAATTTATTTAAGTA
1 TTTTAATTTATTTAAGTA
*
690582 -TTTAATTTTTTTTAA-TA
1 TTTTAA-TTTATTTAAGTA
*
690599 TTTT-ATTTAATTAA
1 TTTTAATTTATTTAA
690613 TTTTTTTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 7 0.27
17 8 0.31
18 11 0.42
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTAATTTATTTAAGTA
Found at i:690603 original size:26 final size:27
Alignment explanation
Indices: 690563--690619 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
690553 TAATATTTTA
* *
690563 TTTTTAATTTATTTAAGTATTTAATTT
1 TTTTTAATATATTTAAGTAATTAATTT
**
690590 TTTTTAATAT-TTTATTTAATTAATTT
1 TTTTTAATATATTTAAGTAATTAATTT
690616 TTTT
1 TTTT
690620 ACAGATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (27 bp):
TTTTTAATATATTTAAGTAATTAATTT
Found at i:693010 original size:35 final size:31
Alignment explanation
Indices: 692975--693055 Score: 81
Period size: 38 Copynumber: 2.3 Consensus size: 31
692965 TTTGGTTAAT
692975 TTTGTTTATTACCATTTAATATCAGTTATTGTAA
1 TTTGTTTATTACCATTTAATA-C--TTATTGTAA
693009 TTTGTTTACCATTTACCATTTAATACTTATTGTAA
1 TTTGTTT---A-TTACCATTTAATACTTATTGTAA
693044 GTTTGTTGTATT
1 -TTTGTT-TATT
693056 TAAAATTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
33 2 0.05
34 8 0.20
35 9 0.22
36 6 0.15
37 3 0.07
38 13 0.32
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (31 bp):
TTTGTTTATTACCATTTAATACTTATTGTAA
Found at i:699244 original size:4 final size:4
Alignment explanation
Indices: 699235--699260 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
699225 TGTAATATTG
699235 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
699261 AATAGTGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:704090 original size:66 final size:66
Alignment explanation
Indices: 703962--704091 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 66
703952 TAGGTTCATA
** *
703962 AGGAATTACCAGTCGATGTTGAACCTATAAAAGGAATTACCAGCAGCAACTGAACCTGCCAGAGA
1 AGGAATTACCAGTCGATGCAGAACCTATAAAAGGAATTACCAGCAGCAACTAAACCTGCCAGAGA
704027 T
66 T
* * * * *
704028 AGGAATTACCAGTCGGTGCAGAACCTATACAAGGAATTACCAGTAGCAACTAAATCTTCCAGAG
1 AGGAATTACCAGTCGATGCAGAACCTATAAAAGGAATTACCAGCAGCAACTAAACCTGCCAGAG
704092 TCTTTATATA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (66 bp):
AGGAATTACCAGTCGATGCAGAACCTATAAAAGGAATTACCAGCAGCAACTAAACCTGCCAGAGA
T
Found at i:704176 original size:12 final size:12
Alignment explanation
Indices: 704152--704186 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
704142 ACAAAGATAT
*
704152 CAGAAATCGGAA
1 CAGAAATCAGAA
*
704164 CAGAGATCAGAA
1 CAGAAATCAGAA
704176 CAGAAATCAGA
1 CAGAAATCAGA
704187 GAAAACATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.09
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:707318 original size:20 final size:20
Alignment explanation
Indices: 707279--707319 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
707269 CATTTCAGGA
*
707279 ATTTATGGCCTCGACGAAAG
1 ATTTATGGCCTCCACGAAAG
707299 ATTTCATGGCCTCCAC-AAAG
1 ATTT-ATGGCCTCCACGAAAG
707319 A
1 A
707320 CCTTCATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (20 bp):
ATTTATGGCCTCCACGAAAG
Found at i:707325 original size:21 final size:21
Alignment explanation
Indices: 707283--707327 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
707273 TCAGGAATTT
* *
707283 ATGGCCTCGACGAAAGATTTC
1 ATGGCCTCCACGAAAGACTTC
707304 ATGGCCTCCAC-AAAGACCTTC
1 ATGGCCTCCACGAAAGA-CTTC
707325 ATG
1 ATG
707328 CACGAACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (21 bp):
ATGGCCTCCACGAAAGACTTC
Found at i:723543 original size:38 final size:38
Alignment explanation
Indices: 723418--723543 Score: 108
Period size: 38 Copynumber: 3.3 Consensus size: 38
723408 TTGATTTTTA
* * * *
723418 GTAACATTTTCAATTGAATCAAAAATGTCATGAAGAAT
1 GTAACATTTTCAGTTGAACCAAAAATGTAATGAAAAAT
* * * * * *
723456 GTAATATTTTCGGTTACCAACCAAAAATGTTATGAATAAG
1 GTAACATTTTCAGTT--GAACCAAAAATGTAATGAAAAAT
* * * *
723496 GTGATATTTTCAGTTGAACCGAAAATGTAATAAAAAAT
1 GTAACATTTTCAGTTGAACCAAAAATGTAATGAAAAAT
723534 GTAACATTTT
1 GTAACATTTT
723544 AGGCTACGCC
Statistics
Matches: 68, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
38 37 0.54
40 31 0.46
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.33
Consensus pattern (38 bp):
GTAACATTTTCAGTTGAACCAAAAATGTAATGAAAAAT
Found at i:736810 original size:4 final size:4
Alignment explanation
Indices: 736801--736829 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
736791 AAAAACATAT
736801 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
736830 AGAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:738524 original size:19 final size:19
Alignment explanation
Indices: 738500--738539 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
738490 CCCTTGCCAC
738500 CGGAACTTGGACCTGAGTT
1 CGGAACTTGGACCTGAGTT
738519 CGGAACTTGGACCTGAGTT
1 CGGAACTTGGACCTGAGTT
738538 CG
1 CG
738540 TGACGGCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.25
Consensus pattern (19 bp):
CGGAACTTGGACCTGAGTT
Found at i:741982 original size:48 final size:45
Alignment explanation
Indices: 741915--742042 Score: 141
Period size: 48 Copynumber: 2.8 Consensus size: 45
741905 TAATAAATTT
*
741915 CTTACCTTTATCCCATAAGCTCATAAGCTTATTTTTACCAA-ATA
1 CTTACCTTTATTCCATAAGCTCATAAGCTTATTTTTACCAATATA
* * *
741959 CTTACCATTTAAAATTCCATAAGCTCGTAAGCCTTTTTTTTTCCAATATA
1 CTTACC-TTT---ATTCCATAAGCTCATAAG-CTTATTTTTACCAATATA
* * *
742009 CTTGCCTTTATTCCGTAAGCTAATAAGCTTATTT
1 CTTACCTTTATTCCATAAGCTCATAAGCTTATTT
742043 GCATGGTTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
44 6 0.09
45 9 0.13
46 15 0.22
48 16 0.23
49 15 0.22
50 8 0.12
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (45 bp):
CTTACCTTTATTCCATAAGCTCATAAGCTTATTTTTACCAATATA
Found at i:745441 original size:33 final size:33
Alignment explanation
Indices: 745401--745483 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
745391 TTTTCATCTC
*
745401 TCATTTTTTCTCTTTTTC-TTTTCTT-TCTCGTTT
1 TCATTTTTT-TCTTCTTCGTTTTCTTCT-TCGTTT
745434 TCATTTTTTTCTTCTTCGTTTTCTTCTTCGTTT
1 TCATTTTTTTCTTCTTCGTTTTCTTCTTCGTTT
745467 TCTATTTTTTTTCTTCT
1 TC-A-TTTTTTTCTTCT
745484 GTTTTTTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
32 7 0.16
33 24 0.53
34 2 0.04
35 12 0.27
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.72
Consensus pattern (33 bp):
TCATTTTTTTCTTCTTCGTTTTCTTCTTCGTTT
Found at i:745457 original size:12 final size:12
Alignment explanation
Indices: 745440--745469 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
745430 GTTTTCATTT
745440 TTTTCTTCTTCG
1 TTTTCTTCTTCG
745452 TTTTCTTCTTCG
1 TTTTCTTCTTCG
745464 TTTTCT
1 TTTTCT
745470 ATTTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTTCTTCTTCG
Found at i:745469 original size:50 final size:47
Alignment explanation
Indices: 745388--745509 Score: 115
Period size: 48 Copynumber: 2.5 Consensus size: 47
745378 GTGAAATATT
* * * *
745388 TTTTTTTCATCTCTCATTTTTTC-TCTTTTTCT-TTTCTTTCTCGTTTTCA
1 TTTTTTTCTTCT-TCGTTTTTTCTTCGTTTTCTATTT-TTTCTC-TTCT-A
* *
745437 TTTTTTTCTTCTTCGTTTTCTTCTTCGTTTTCTATTTTTTTTCTTCTG
1 TTTTTTTCTTCTTCGTTTT-TTCTTCGTTTTCTATTTTTTCTCTTCTA
745485 TTTTTTT-TTCTTCTGTTTTTTCTTC
1 TTTTTTTCTTCTTC-GTTTTTTCTTC
745510 TTCTTATAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
47 12 0.19
48 18 0.29
49 17 0.27
50 13 0.21
51 3 0.05
ACGTcount: A:0.03, C:0.20, G:0.04, T:0.73
Consensus pattern (47 bp):
TTTTTTTCTTCTTCGTTTTTTCTTCGTTTTCTATTTTTTCTCTTCTA
Found at i:745491 original size:15 final size:15
Alignment explanation
Indices: 745471--745513 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
745461 TCGTTTTCTA
745471 TTTTTTTTCTTCTGT
1 TTTTTTTTCTTCTGT
745486 TTTTTTTTCTTCTGT
1 TTTTTTTTCTTCTGT
*
745501 TTTTTCTTCTTCT
1 TTTTTTTTCTTCT
745514 TATAATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (15 bp):
TTTTTTTTCTTCTGT
Found at i:745496 original size:35 final size:33
Alignment explanation
Indices: 745401--745503 Score: 111
Period size: 35 Copynumber: 3.0 Consensus size: 33
745391 TTTTCATCTC
* *
745401 TCATTTTTTCTCTTTTTCTTTTCTTTC-TCGTTT
1 TCATTTTTT-TCTTCTTCTTTTTTTTCTTCGTTT
* *
745434 TCATTTTTTTCTTCTTCGTTTTCTTCTTCGTTT
1 TCATTTTTTTCTTCTTCTTTTTTTTCTTCGTTT
745467 TCTATTTTTTTTCTTCTGT-TTTTTTTTCTTCTGTTT
1 TC-A-TTTTTTTCTTCT-TCTTTTTTTTCTTC-GTTT
745503 T
1 T
745504 TTCTTCTTCT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
32 13 0.22
33 17 0.29
34 1 0.02
35 22 0.37
36 6 0.10
ACGTcount: A:0.03, C:0.18, G:0.05, T:0.74
Consensus pattern (33 bp):
TCATTTTTTTCTTCTTCTTTTTTTTCTTCGTTT
Found at i:746610 original size:6 final size:6
Alignment explanation
Indices: 746603--746637 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
746593 ATCATAACCG
*
746603 TGACCG TGACCA TGACCA TGACCA TGACCA TGACC
1 TGACCA TGACCA TGACCA TGACCA TGACCA TGACC
746638 TATGGGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (6 bp):
TGACCA
Found at i:748190 original size:47 final size:44
Alignment explanation
Indices: 748132--748252 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 44
748122 TTCTTACCTT
*
748132 TTATCCCATAAGCTCATAAGCTTATTTTACCAA-ATACTTACCA
1 TTATTCCATAAGCTCATAAGCTTATTTTACCAATATACTTACCA
* * *
748175 TTTAAAATTCCATAAGCTCGTAAGCTTATTTTTTTTCCAATATACTTGCCA
1 -TT---ATTCCATAAGCTCATAAGCTTA---TTTTACCAATATACTTACCA
*
748226 TTATTCCGTAAGCTCATAAGCTTATTT
1 TTATTCCATAAGCTCATAAGCTTATTT
748253 GCATGGTTAC
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
44 5 0.08
47 40 0.62
50 10 0.16
51 9 0.14
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.40
Consensus pattern (44 bp):
TTATTCCATAAGCTCATAAGCTTATTTTACCAATATACTTACCA
Found at i:761880 original size:17 final size:18
Alignment explanation
Indices: 761858--761893 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
761848 CATATTTGTC
761858 ATTTT-AATAAAATAATA
1 ATTTTAAATAAAATAATA
761875 ATTTTAAATAAAATAATA
1 ATTTTAAATAAAATAATA
761893 A
1 A
761894 ACTTGTGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTTTAAATAAAATAATA
Found at i:762540 original size:132 final size:130
Alignment explanation
Indices: 762234--762604 Score: 440
Period size: 132 Copynumber: 2.8 Consensus size: 130
762224 AATAATTTTA
**
762234 AGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTGAAA-
1 AGAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATA-CTT-AAAG
* * * ** * *
762298 CAATTATTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAATTCAATATCGA
64 CAGTCATTTATTACTCCAACCGAAATGAAGAGATATCACTATTCAATCTTAAAAATCAATATCAA
762363 TT
129 TT
* * * * *
762365 TGAGTGAAAATGATAATATCTAATGATTTCCAATCTAGAATAAATGACATCTCATATCTTAAAGC
1 AGAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATA-CTTAAAGC
* * * * *
762430 AGTCGTTTATTGCTCCAACCGAAATGAGGAGATATCATTTATTCAATCTTAAAAATCAATATTAA
65 AGTCATTTATTACTCCAACCGAAATGAAGAGATATCA-CTATTCAATCTTAAAAATCAATATCAA
762495 TT
129 TT
* * * *
762497 AGAGAGAGAATGATAATATCGAATTATTTCCAATCGATAATAAATGACCTCTCATGACTTAGAGC
1 AGAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCAT-ACTTAAAGC
* * *
762562 AGTCATTTATTACTCAAACC-AAAGTGAAAAGATATTACTATTC
65 AGTCATTTATTACTCCAACCGAAA-TGAAGAGATATCACTATTC
762605 TCAATATCAA
Statistics
Matches: 200, Mismatches: 36, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
130 3 0.01
131 92 0.46
132 104 0.52
133 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (130 bp):
AGAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACTTAAAGCA
GTCATTTATTACTCCAACCGAAATGAAGAGATATCACTATTCAATCTTAAAAATCAATATCAATT
Found at i:763481 original size:21 final size:21
Alignment explanation
Indices: 763457--763509 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
763447 TAGAAAATAG
763457 AAATAAATATGAAAAAAA-GAA
1 AAATAAATAT-AAAAAAATGAA
*
763478 AAATATTAATATAAAAAAATTAA
1 AAATA--AATATAAAAAAATGAA
763501 AAATAAATA
1 AAATAAATA
763510 AAATTGAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 9 0.32
22 7 0.25
23 12 0.43
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (21 bp):
AAATAAATATAAAAAAATGAA
Found at i:763532 original size:6 final size:6
Alignment explanation
Indices: 763521--763586 Score: 64
Period size: 6 Copynumber: 10.5 Consensus size: 6
763511 AATTGAGTAA
763521 AAAAAT AAAAAT AATAAGA- AAATAAT AAAAAT AAATAAT AAAAAT -AAAAT
1 AAAAAT AAAAAT AA-AA-AT AAA-AAT AAAAAT AAA-AAT AAAAAT AAAAAT
*
763571 AAATAAT AATAAT AAA
1 AAA-AAT AAAAAT AAA
763587 TAAAAACGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
5 5 0.10
6 26 0.51
7 19 0.37
8 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:763536 original size:3 final size:3
Alignment explanation
Indices: 763524--763585 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
763514 TGAGTAAAAA
* * * *
763524 AAT AAA AAT AAT AAG AA- AAT AAT AAA AAT AAAT AAT AAA AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
763568 AAT AAAT AAT AAT AAT AA
1 AAT -AAT AAT AAT AAT AA
763586 ATAAAAACGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
2 4 0.08
3 38 0.79
4 6 0.12
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:763542 original size:18 final size:18
Alignment explanation
Indices: 763470--763592 Score: 74
Period size: 18 Copynumber: 6.6 Consensus size: 18
763460 TAAATATGAA
* *
763470 AAAAAGAAAAATATTAAT
1 AAAAATAAAAATAATAAT
* *
763488 ATAAA-AAAATTAA-AA-
1 AAAAATAAAAATAATAAT
* * *
763503 ATAAATAAAATTGAGTAA-
1 AAAAATAAAAAT-AATAAT
*
763521 AAAAATAAAAATAATAAGA
1 AAAAATAAAAATAATAA-T
763540 AAATAATAAAAATAAATAAT
1 AAA-AATAAAAAT-AATAAT
763560 AAAAATAAAATAAATAATAAT
1 AAAAAT--AA-AAATAATAAT
763581 AATAAATAAAAA
1 AA-AAATAAAAA
763593 CGAAATAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
15 5 0.06
16 8 0.09
17 11 0.13
18 16 0.19
19 9 0.10
20 14 0.16
21 15 0.17
22 8 0.09
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
AAAAATAAAAATAATAAT
Found at i:763549 original size:28 final size:28
Alignment explanation
Indices: 763488--763592 Score: 83
Period size: 31 Copynumber: 3.6 Consensus size: 28
763478 AAATATTAAT
*
763488 ATAAAA-AAATTAAAAATAA-ATAAAATTGA
1 ATAAAATAAA-TAAAAATAATA-AAAAAT-A
*
763517 GTAAAA-AAATAAAAATAATAAGAAAATA
1 ATAAAATAAATAAAAATAATAA-AAAATA
763545 ATAAAAATAAATAATAAA-AATAAAATAAATA
1 AT-AAAATAAATAA-AAATAAT-AAA-AAATA
763576 ATAATAATAAATAAAAA
1 ATAA-AATAAATAAAAA
763593 CGAAATAAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
28 12 0.18
29 17 0.26
30 15 0.23
31 21 0.32
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (28 bp):
ATAAAATAAATAAAAATAATAAAAAATA
Found at i:763587 original size:13 final size:13
Alignment explanation
Indices: 763523--763589 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
763513 TTGAGTAAAA
*
763523 AAATAAAAATAAT
1 AAATAATAATAAT
*
763536 -AAGAA-AATAAT
1 AAATAATAATAAT
763547 AAA-AATAAATAAT
1 AAATAAT-AATAAT
763560 AAA-AATAA-AAT
1 AAATAATAATAAT
763571 AAATAATAATAAT
1 AAATAATAATAAT
763584 AAATAA
1 AAATAA
763590 AAACGAAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
11 14 0.29
12 13 0.27
13 21 0.44
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.22
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:763598 original size:28 final size:26
Alignment explanation
Indices: 763521--763601 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 26
763511 AATTGAGTAA
*
763521 AAAAATAAAAATAATAAGAAA-ATAAT
1 AAAAATAAAAATAAAAAGAAATA-AAT
*
763547 AAAAATAAATAATAAAAATAAAATAAAT
1 AAAAATAAA-AATAAAAA-GAAATAAAT
*
763575 AATAATAATAAATAAAAACGAAATAAA
1 AAAAATAA-AAATAAAAA-GAAATAAA
763602 ATGAAGGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
26 9 0.20
27 7 0.15
28 28 0.61
29 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.02, T:0.20
Consensus pattern (26 bp):
AAAAATAAAAATAAAAAGAAATAAAT
Found at i:765949 original size:106 final size:106
Alignment explanation
Indices: 765764--765970 Score: 315
Period size: 106 Copynumber: 2.0 Consensus size: 106
765754 TTCCGAGTCC
* * * * * *
765764 ATATCCTCCGCCGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACAACCAGCCG
1 ATATCCTCCGCCGTGAAGTTGAAATTGGCTCCGAAACCGAGAAATTGTTTATTGACAACCAGCCA
765829 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAATCCA
66 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAATCCA
* * ** *
765870 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAATTGTTTATTGACAACCAGTCA
1 ATATCCTCCGCCGTGAAGTTGAAATTGGCTCCGAAACCGAGAAATTGTTTATTGACAACCAGCCA
765935 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGA
66 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGA
765971 GTGGCATGAT
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 90 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (106 bp):
ATATCCTCCGCCGTGAAGTTGAAATTGGCTCCGAAACCGAGAAATTGTTTATTGACAACCAGCCA
TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAATCCA
Found at i:766345 original size:36 final size:36
Alignment explanation
Indices: 766305--766375 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
766295 ACAAAGTTTA
* *
766305 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
* *
766341 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAAT
766376 CTTCTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
Found at i:766512 original size:36 final size:36
Alignment explanation
Indices: 766384--766512 Score: 87
Period size: 36 Copynumber: 3.5 Consensus size: 36
766374 ATCTTCTTTA
** *
766384 AAAACAGTCTTGAGTGAAATGAAATGCCTTCTTTCTAGT
1 AAAACAGTCTCAAGTGAAAT-AAAT--CTTCTTTCAAGT
* * * * * * *
766423 GAAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 -AAAACAGTCTCAAGTGAAATAAATCTTCTTTCAAGT
* * ** *
766460 AAAACAATTTTGAGTGAAATAAATCTTCTTTCGAGT
1 AAAACAGTCTCAAGTGAAATAAATCTTCTTTCAAGT
766496 AAAACAGTCTCAAGTGA
1 AAAACAGTCTCAAGTGA
766513 GACAAAGTCT
Statistics
Matches: 63, Mismatches: 26, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
36 37 0.59
37 8 0.13
39 4 0.06
40 14 0.22
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAAATAAATCTTCTTTCAAGT
Found at i:766515 original size:72 final size:75
Alignment explanation
Indices: 766383--766541 Score: 218
Period size: 72 Copynumber: 2.1 Consensus size: 75
766373 AATCTTCTTT
* * *
766383 AAAAACAGTCTTGAGTGAAATGAAATGCCTTCTTTCTAGTGAAAACGGTCTCAAGCGAGACAAA-
1 AAAAACAATCTTGAGTGAAATGAAAT-CCTTCTTTCGAGTGAAAACAGTCTCAAGCGAGACAAAG
766447 TCTTGTTTTAAG
65 TC-TGTTTTAAG
* *
766459 AAAAACAATTTTGAGTGAAAT-AAAT-CTTCTTTCGAGT-AAAACAGTCTCAAGTGAGACAAAGT
1 AAAAACAATCTTGAGTGAAATGAAATCCTTCTTTCGAGTGAAAACAGTCTCAAGCGAGACAAAGT
766521 CTGTTTTAAG
66 CTGTTTTAAG
*
766531 AAAAGCAATCT
1 AAAAACAATCT
766542 CAAGTGAGAT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
72 39 0.52
73 13 0.17
75 4 0.05
76 19 0.25
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (75 bp):
AAAAACAATCTTGAGTGAAATGAAATCCTTCTTTCGAGTGAAAACAGTCTCAAGCGAGACAAAGT
CTGTTTTAAG
Found at i:766920 original size:18 final size:18
Alignment explanation
Indices: 766893--766928 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
766883 TGTTGAATCC
*
766893 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
766911 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
766929 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:768010 original size:19 final size:20
Alignment explanation
Indices: 767988--768042 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
767978 TCCTTTTGAT
767988 TTTTGTTCTTTCTTTTTT-C
1 TTTTGTTCTTTCTTTTTTGC
*
768007 TTTTGTTTTTTCCTTTTTTGC
1 TTTTGTTCTTT-CTTTTTTGC
768028 TTCTT-TTCTTT-TTTT
1 TT-TTGTTCTTTCTTTT
768043 CTTTTTGCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 14 0.45
20 7 0.23
21 8 0.26
22 2 0.06
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTTGTTCTTTCTTTTTTGC
Found at i:768025 original size:8 final size:7
Alignment explanation
Indices: 767996--768048 Score: 54
Period size: 7 Copynumber: 7.3 Consensus size: 7
767986 ATTTTTGTTC
767996 TTTCTTT
1 TTTCTTT
768003 TTTCTTT
1 TTTCTTT
*
768010 TGT-TTT
1 TTTCTTT
*
768016 TTCCTTT
1 TTTCTTT
768023 TTTGCTTCT
1 TTT-CTT-T
768032 TTTCTTTT
1 TTTC-TTT
768040 TTTCTTT
1 TTTCTTT
768047 TT
1 TT
768049 GCCCTTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 4 0.11
7 19 0.50
8 9 0.24
9 6 0.16
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (7 bp):
TTTCTTT
Found at i:768047 original size:24 final size:23
Alignment explanation
Indices: 767987--768048 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
767977 TTCCTTTTGA
* *
767987 TTTTTGTTCTTTCTTTTTTCTTTTG
1 TTTTT-TTCTTT-TTTCTTCTTTTC
*
768012 TTTTTTCCTTTTTTGCTTCTTTTC
1 TTTTTTTCTTTTTT-CTTCTTTTC
768036 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
768049 GCCCTTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 3 0.09
24 24 0.75
25 5 0.16
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.81
Consensus pattern (23 bp):
TTTTTTTCTTTTTTCTTCTTTTC
Found at i:769241 original size:21 final size:19
Alignment explanation
Indices: 769211--769272 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 19
769201 TTTCATATTT
769211 ATGAAAATGCTTAAAAATGAA
1 ATGAAAATGC--AAAAATGAA
*
769232 ATGAAGATGCAAAAATGCAGA
1 ATGAAAATGCAAAAATG-A-A
769253 ATGCAAGAATGCATAAAATG
1 ATG-AA-AATGCA-AAAATG
769273 TTCGAGGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 7 0.21
20 1 0.03
21 13 0.38
22 2 0.06
23 5 0.15
24 6 0.18
ACGTcount: A:0.53, C:0.08, G:0.19, T:0.19
Consensus pattern (19 bp):
ATGAAAATGCAAAAATGAA
Found at i:771108 original size:23 final size:23
Alignment explanation
Indices: 771076--771140 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
771066 AATAGAAATA
*
771076 AATATGAAAAAAAGAAAAATATT
1 AATATAAAAAAAAGAAAAATATT
*
771099 AATATAAAAAATAA-ATAAA-ATT
1 AATATAAAAAA-AAGAAAAATATT
* *
771121 GA-GTAAAAAAAAGAAAAATA
1 AATATAAAAAAAAGAAAAATA
771141 ATAAGAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 2 0.06
21 11 0.32
22 5 0.15
23 14 0.41
24 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (23 bp):
AATATAAAAAAAAGAAAAATATT
Found at i:771118 original size:24 final size:24
Alignment explanation
Indices: 771091--771210 Score: 69
Period size: 24 Copynumber: 5.2 Consensus size: 24
771081 GAAAAAAAGA
*
771091 AAAATATTAATATAAAAAATAAAT
1 AAAATAATAATATAAAAAATAAAT
* *
771115 AAAAT--TGAGTA-AAAAAA-AGA-
1 AAAATAAT-AATATAAAAAATAAAT
* *
771135 AAAATAATAAGA-AAATAAT-AAT
1 AAAATAATAATATAAAAAATAAAT
*
771157 AATAAATAATAATA-ATAAAATAAAT
1 -A-AAATAATAATATAAAAAATAAAT
**
771182 AATAATAATAA-ATAAAAACGAAAT
1 AA-AATAATAATATAAAAAATAAAT
771206 AAAAT
1 AAAAT
771211 GAAGGAAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
20 5 0.07
21 10 0.14
22 8 0.11
23 9 0.12
24 39 0.53
25 3 0.04
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (24 bp):
AAAATAATAATATAAAAAATAAAT
Found at i:771143 original size:3 final size:3
Alignment explanation
Indices: 771137--771192 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
771127 AAAAAAGAAA
*
771137 AAT AAT AAG AA- AAT AAT AAT AAT AAAT AAT AAT AAT AA- AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT
771182 AAT AAT AAT AA
1 AAT AAT AAT AA
771193 ATAAAAACGA
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
2 4 0.08
3 38 0.79
4 6 0.12
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:771149 original size:21 final size:21
Alignment explanation
Indices: 771082--771238 Score: 61
Period size: 21 Copynumber: 7.1 Consensus size: 21
771072 AATAAATATG
* *
771082 AAAAAAAGAAAAATATTAATA
1 AAAAAAAGAAAAATAATAAGA
* * *
771103 TAAAAAATAAATAA-AATTGAGTA
1 AAAAAAAGAAA-AATAA-TAAG-A
771126 AAAAAAAGAAAAATAATAAGA
1 AAAAAAAGAAAAATAATAAGA
* *
771147 AAATAATAATAATAAATAATAATA
1 AAA-AA-AAGAA-AAATAATAAGA
* * *
771171 ATAAAATA-AATAATAATAATA
1 A-AAAAAAGAAAAATAATAAGA
771192 AATAAAAACGAAATAA-AATGAAG-
1 AA-AAAAA-GAAA-AATAAT-AAGA
* * * *
771215 GAAAAAATAATAATAATAACA
1 AAAAAAAGAAAAATAATAAGA
771236 AAA
1 AAA
771239 GGTTAAATTC
Statistics
Matches: 101, Mismatches: 20, Indels: 30
0.67 0.13 0.20
Matches are distributed among these distances:
20 5 0.05
21 36 0.36
22 18 0.18
23 23 0.23
24 17 0.17
25 2 0.02
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (21 bp):
AAAAAAAGAAAAATAATAAGA
Found at i:771185 original size:31 final size:30
Alignment explanation
Indices: 771137--771196 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
771127 AAAAAAGAAA
*
771137 AATAATAAGAAAATAATAATAATAAATAAT
1 AATAATAAAAAAATAATAATAATAAATAAT
771167 AATAATAAAATAAATAATAATAATAAATAA
1 AATAATAAAA-AAATAATAATAATAAATAA
771197 AAACGAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (30 bp):
AATAATAAAAAAATAATAATAATAAATAAT
Found at i:783826 original size:69 final size:69
Alignment explanation
Indices: 783746--783886 Score: 255
Period size: 69 Copynumber: 2.0 Consensus size: 69
783736 CGTTTGAAAA
783746 ATTATTTCATAAGCAGCCTGATTATACTTTCATGAAAGTGTTTAGTGTTCGGTGTTTTCCTCATT
1 ATTATTTCATAAGCAGCCTGATTATACTTTCATGAAAGTGTTTAGTGTTCGGTGTTTTCCTCATT
783811 TGCG
66 TGCG
* * *
783815 ATTATTTCATAAGCAGCCTGATTATACTTTCATGAAAGTGTTTGGTTTTCGGTGTTTTCCTTATT
1 ATTATTTCATAAGCAGCCTGATTATACTTTCATGAAAGTGTTTAGTGTTCGGTGTTTTCCTCATT
783880 TGCG
66 TGCG
783884 ATT
1 ATT
783887 GTTACAAGAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.45
Consensus pattern (69 bp):
ATTATTTCATAAGCAGCCTGATTATACTTTCATGAAAGTGTTTAGTGTTCGGTGTTTTCCTCATT
TGCG
Found at i:792667 original size:22 final size:22
Alignment explanation
Indices: 792642--792687 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
792632 GTGAGTCTTG
792642 AATGACAAC-AAAATATATGAAA
1 AATGACAACGAAAA-ATATGAAA
*
792664 AATGACAACGAAGAATATGAAA
1 AATGACAACGAAAAATATGAAA
792686 AA
1 AA
792688 AATGATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.63, C:0.09, G:0.13, T:0.15
Consensus pattern (22 bp):
AATGACAACGAAAAATATGAAA
Found at i:795898 original size:23 final size:23
Alignment explanation
Indices: 795868--795953 Score: 136
Period size: 23 Copynumber: 3.7 Consensus size: 23
795858 TTTATGTTCA
* *
795868 AACTTGAGTTCAAGCTTGAACTG
1 AACTTGAGTTCGAGCTTGGACTG
795891 AACTTGAGTTCGAGCTTGGACTG
1 AACTTGAGTTCGAGCTTGGACTG
* *
795914 AACTTGAATTCGAGCTTGGACCG
1 AACTTGAGTTCGAGCTTGGACTG
795937 AACTTGAGTTCGAGCTT
1 AACTTGAGTTCGAGCTT
795954 CAATCGAGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (23 bp):
AACTTGAGTTCGAGCTTGGACTG
Found at i:798545 original size:6 final size:6
Alignment explanation
Indices: 798521--799804 Score: 1743
Period size: 6 Copynumber: 221.3 Consensus size: 6
798511 GAATTCATTC
798521 ATATGT -TATGT ATTATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT A-TATGT ATATGT ATATGT ATATGT ATATGT ATATGT
798569 ATATGT ATATGT ATATGT -T-TGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
798615 ATATGT ATATGT ATA--T AT-TGT ATATGT A-ATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
798659 ATATGTGT ATATGT AT-TGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATA--TGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
798708 ATA--T ATATGT ATATGT ATATGT ATATGTAT ATATGT ATATGT AT-TGT
1 ATATGT ATATGT ATATGT ATATGT ATATG--T ATATGT ATATGT ATATGT
*
798755 ATATGT ATATGT ATATAT ATGATGT ATATGT ATA--T ATATGT ATATGT
1 ATATGT ATATGT ATATGT AT-ATGT ATATGT ATATGT ATATGT ATATGT
*
798802 ATATGT ATATGT ATATGT A-ATGT ATATG- GTATGT AATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT -ATATGT ATATGT
798849 ATATGT -TATGT ATATGT ATA--T ATATGT ATATGT -TATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
* *
798893 -TATGT ATATAT GTATGT ATATGT ATA-GT ATATGT ATAT-T ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
* *
798938 ATGTATGT ATATGT ATATGTT ATATAT GTATGTT ATATG- -TATGT ATATGT
1 A--TATGT ATATGT ATATG-T ATATGT ATATG-T ATATGT ATATGT ATATGT
798988 ATATGT ATATGT ATA--T -TATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
799033 ATATGT ATATGT ATATGT ATATGT ATA-GT ATATGT CTATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
799080 ATA-GT ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
799125 A-ATG- ATATGT ATATGT ATATGT ATATG- -TATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
799169 ATA-GT ATATGT ATATG- -TATGT ATATGT ATATGAT ATATGT CTATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATG-T ATATGT ATATGT
* *
799215 -TATGT ATA--T ATATGT ATAGTTT GTATG- ATAT-T ATATG- -TATGT
1 ATATGT ATATGT ATATGT ATA-TGT ATATGT ATATGT ATATGT ATATGT
799257 ATATGT ATATG- -TAT-T ATATGT ATATGT ATATGTCT ATATGT ATA-GT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATG--T ATATGT ATATGT
799303 ATATGT ATATGT -TGATGT ATATGT ATATG- -TATGT ATATGT ATATGT
1 ATATGT ATATGT AT-ATGT ATATGT ATATGT ATATGT ATATGT ATATGT
799349 ATAT-T ATATGT ATATGT ATGTAT-T ATATGGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT A--TATGT ATAT-GT ATATGT ATATGT ATATGT
* *
799398 ATA-GT ATATGT ATATG- -TATGT AT-TGT ATGTAT ATAATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT AT-ATGT ATATGT
799443 ATATGT ATATGT ATATGT -TATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
799490 ATATGT ATATG- -TAT-T ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
799535 ATATGT ATATGT ATATG- -TATGT ATAT-T ATATG- -TATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
799578 ATATGT ATATGT ATATGTGT ATATGT ATA-GT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATA--TGT ATATGT ATATGT ATATGT ATATGT ATATGT
799627 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
799675 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
799723 ATATGT ATATGTT CTATGT ATAT-T ATATGT ATATTGT ATAATGT ATATGT
1 ATATGT ATATG-T ATATGT ATATGT ATATGT ATA-TGT AT-ATGT ATATGT
799773 ATATGT ATATGT ATATGT ATATGT ATATGT AT
1 ATATGT ATATGT ATATGT ATATGT ATATGT AT
799805 GTATAATCGT
Statistics
Matches: 1160, Mismatches: 24, Indels: 188
0.85 0.02 0.14
Matches are distributed among these distances:
3 2 0.00
4 66 0.06
5 143 0.12
6 852 0.73
7 63 0.05
8 34 0.03
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:801181 original size:186 final size:189
Alignment explanation
Indices: 800809--801186 Score: 699
Period size: 186 Copynumber: 2.0 Consensus size: 189
800799 TGGATTAGTA
800809 TTTGGATTTCTAATGATGTATTTGACTTGTCAATGGTCTAATTAAGAAGTTAGAAGTATTAGAAA
1 TTTGGATTTCTAATGATGTATTTGACTTGTCAATGGTCTAATTAAGAAGTTAGAAGTATTAGAAA
800874 TGATTAAGAACGCGTTTGAATATTTGGTGTGATTTTTAGTTCTAAGTGTTCTACGAAGAAATTTA
66 TGATTAAGAACGCGTTTGAATATTTGGTGTGATTTTTAGTTC--A-TGTTCTACGAAGAAATTTA
*
800939 GATGTTATAAGGGGAATTATGGAGGTAAGTTAGCTAGAGTAAGTGATAGTAAGTTTGAGGGT
128 GATGTTATAAGGGGAATTATGGAGGTAAGTTAGCTAGAGTAAGTGATAATAAGTTTGAGGGT
801001 TTTGGATTTCTAATGATGTATTTGACTTGTCAATGGTCTAATTAAGAAGTTAGAAGTATTAGAAA
1 TTTGGATTTCTAATGATGTATTTGACTTGTCAATGGTCTAATTAAGAAGTTAGAAGTATTAGAAA
801066 TGATTAAGAA-GCGTTTGAATA-TTGGTGTGATTTTTAGTTC-TGTTCTACGAAGAAATTTAGAT
66 TGATTAAGAACGCGTTTGAATATTTGGTGTGATTTTTAGTTCATGTTCTACGAAGAAATTTAGAT
801128 GTTATAAGGGGAATTATGGAGGTAAGTTAGCTAGAGTAAGTGATAATAAGTTTGAGGGT
131 GTTATAAGGGGAATTATGGAGGTAAGTTAGCTAGAGTAAGTGATAATAAGTTTGAGGGT
801187 ATGAATGGAG
Statistics
Matches: 185, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
186 80 0.43
190 19 0.10
191 11 0.06
192 75 0.41
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (189 bp):
TTTGGATTTCTAATGATGTATTTGACTTGTCAATGGTCTAATTAAGAAGTTAGAAGTATTAGAAA
TGATTAAGAACGCGTTTGAATATTTGGTGTGATTTTTAGTTCATGTTCTACGAAGAAATTTAGAT
GTTATAAGGGGAATTATGGAGGTAAGTTAGCTAGAGTAAGTGATAATAAGTTTGAGGGT
Found at i:801567 original size:3 final size:3
Alignment explanation
Indices: 801549--801588 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
801539 CATTTTATAA
801549 TAT TA- TAT TA- TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
801589 TTTACAGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.18
3 28 0.82
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:801579 original size:20 final size:19
Alignment explanation
Indices: 801549--801588 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
801539 CATTTTATAA
801549 TATTATATTATATTATTAT
1 TATTATATTATATTATTAT
*
801568 TATTATTATTATTTTATTAT
1 TATTA-TATTATATTATTAT
801588 T
1 T
801589 TTTACAGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATATTATATTATTAT
Found at i:801588 original size:8 final size:8
Alignment explanation
Indices: 801549--801590 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
801539 CATTTTATAA
*
801549 TATTATAT
1 TATTATTT
801557 TA-TATTAT
1 TATTATT-T
801565 TATTATTAT
1 TATTATT-T
801574 TATTATTT
1 TATTATTT
801582 TATTATTT
1 TATTATTT
801590 T
1 T
801591 TACAGGCTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 3 0.10
8 15 0.48
9 13 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTATTT
Found at i:802262 original size:25 final size:25
Alignment explanation
Indices: 802226--802345 Score: 75
Period size: 25 Copynumber: 4.8 Consensus size: 25
802216 AAAAAGTTGG
*
802226 TTTTATTTTTTTTAATTTTAGCATT
1 TTTTATTATTTTTAATTTTAGCATT
*
802251 TTTTATTATTTTTTATTTTATG--TT
1 TTTTATTATTTTTAATTTTA-GCATT
* * * **
802275 TTTTACTTCTTATTATTTTTA-TTTT
1 TTTTA-TTATTTTTAATTTTAGCATT
* * *
802300 ATTTTATTACTTTTAGAATTTAACATT
1 -TTTTATTATTTTTA-ATTTTAGCATT
* *
802327 TTTTATTTTTTTTATTTTT
1 TTTTATTATTTTTAATTTT
802346 CCCTTTAATT
Statistics
Matches: 71, Mismatches: 17, Indels: 14
0.70 0.17 0.14
Matches are distributed among these distances:
24 7 0.10
25 40 0.56
26 22 0.31
27 2 0.03
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (25 bp):
TTTTATTATTTTTAATTTTAGCATT
Found at i:802278 original size:14 final size:14
Alignment explanation
Indices: 802259--802314 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
802249 TTTTTTATTA
802259 TTTTTTA-TTTTAT
1 TTTTTTACTTTTAT
802272 GTTTTTTACTTCTTAT
1 -TTTTTTACTT-TTAT
802288 TATTTTTA-TTTTAT
1 T-TTTTTACTTTTAT
*
802302 TTTATTACTTTTA
1 TTTTTTACTTTTA
802315 GAATTTAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
13 5 0.14
14 17 0.46
15 5 0.14
16 10 0.27
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTTTTACTTTTAT
Found at i:802288 original size:31 final size:29
Alignment explanation
Indices: 802253--802311 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
802243 TTAGCATTTT
*
802253 TTATTATTTTTTATTTTATGTTTTTTACTTC
1 TTATTA-TTTTTATTTTAT-TTTATTACTTC
802284 TTATTATTTTTATTTTATTTTATTACTT
1 TTATTATTTTTATTTTATTTTATTACTT
802312 TTAGAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 9 0.33
30 12 0.44
31 6 0.22
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (29 bp):
TTATTATTTTTATTTTATTTTATTACTTC
Found at i:802816 original size:6 final size:6
Alignment explanation
Indices: 802805--802830 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
802795 GCAAAAATAG
802805 TAAATT TAAATT TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAAATT TA
802831 TTTATTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:805754 original size:2 final size:2
Alignment explanation
Indices: 805743--805801 Score: 88
Period size: 2 Copynumber: 30.5 Consensus size: 2
805733 AAACATGGAG
805743 AT AT -T AT AT AT AT AT AT AT AT AT AT AT GAT 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
805785 AT AT -T AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
805802 GACTATATGA
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.06
2 48 0.91
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:805774 original size:19 final size:18
Alignment explanation
Indices: 805743--805801 Score: 88
Period size: 19 Copynumber: 3.4 Consensus size: 18
805733 AAACATGGAG
805743 ATAT-TATATATATATAT
1 ATATATATATATATATAT
805760 ATATATATATGATATATAT
1 ATATATATAT-ATATATAT
805779 ATATATATAT-TATATA-
1 ATATATATATATATATAT
805795 ATATATA
1 ATATATA
805802 GACTATATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.17
17 10 0.25
18 5 0.12
19 18 0.45
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATATATATATATATAT
Found at i:805774 original size:21 final size:20
Alignment explanation
Indices: 805743--805801 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 20
805733 AAACATGGAG
805743 ATAT-TATATATATATATAT
1 ATATATATATATATATATAT
805762 ATATATATGATATATATATAT
1 ATATATAT-ATATATATATAT
805783 ATATAT-TATATA-ATATAT
1 ATATATATATATATATATAT
805801 A
1 A
805802 GACTATATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.18
19 9 0.24
20 4 0.11
21 18 0.47
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATATATATATATATATATAT
Found at i:805808 original size:9 final size:8
Alignment explanation
Indices: 805747--805809 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
805737 ATGGAGATAT
*
805747 TATATATA
1 TATATAGA
*
805755 TATATATA
1 TATATAGA
805763 TATATATGA
1 TATATA-GA
*
805772 TATATATA
1 TATATAGA
*
805780 TATATATA
1 TATATAGA
805788 TTATATA-A
1 -TATATAGA
805796 TATATAGA
1 TATATAGA
805804 CTATAT
1 -TATAT
805810 GAAAATGTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
7 6 0.12
8 25 0.51
9 18 0.37
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (8 bp):
TATATAGA
Found at i:805808 original size:21 final size:20
Alignment explanation
Indices: 805743--805801 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 20
805733 AAACATGGAG
805743 ATATTATAT-ATATATATAT
1 ATATTATATAATATATATAT
805762 ATATATATGATATATATATATAT
1 ATAT-TAT-ATA-ATATATATAT
805785 ATATTATATAATATATA
1 ATATTATATAATATATA
805802 GACTATATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.11
20 10 0.28
21 5 0.14
22 3 0.08
23 14 0.39
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATATTATATAATATATATAT
Found at i:806076 original size:19 final size:19
Alignment explanation
Indices: 806028--806076 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
806018 AGATATATGA
*
806028 AAGAGAAAGTATATGTGAT
1 AAGAGAAAGTGTATGTGAT
806047 AAGAGAAAGTGTATGTGAT
1 AAGAGAAAGTGTATGTGAT
*
806066 AAGTGAAAGTG
1 AAGAGAAAGTG
806077 AATCATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (19 bp):
AAGAGAAAGTGTATGTGAT
Found at i:810032 original size:43 final size:43
Alignment explanation
Indices: 809968--810089 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
809958 TGGGCCATCA
*
809968 ACGATTTCAACTCCACGACAGAGGATATCGTACCCACAAATCC
1 ACGATTTCAACTCCACTACAGAGGATATCGTACCCACAAATCC
** *
810011 ACGATTTCAACTCCACTACAGAGGATATCGTGTCCACACATCC
1 ACGATTTCAACTCCACTACAGAGGATATCGTACCCACAAATCC
* * * * *
810054 ACAATTTTAACTTCA-TGCCGAAGGATATCGTACCCA
1 ACGATTTCAACTCCACTACAG-AGGATATCGTACCCA
810090 TCTCTATATT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
42 3 0.04
43 64 0.96
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (43 bp):
ACGATTTCAACTCCACTACAGAGGATATCGTACCCACAAATCC
Found at i:810553 original size:124 final size:123
Alignment explanation
Indices: 810222--810560 Score: 462
Period size: 124 Copynumber: 2.7 Consensus size: 123
810212 CTCGAAATAT
* * * *
810222 TTGGATTTCAACTTCACGATGAAAGATATCCAATTCCAGGCTTAACTTCACAACGAATGGGCTAT
1 TTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAGGCTCAACTTCACAACGAA-GGGCCAT
* * * * * *
810287 CCACGGTTTCAACTTCACAAAGAAAGGAATCGTGCTCACCAGTAACATTCATCTTTAGA
65 CCACGGTTTCAACTTCACGAAGAAGGGAATCATGCCCACCAGCAACATTCATCTTCAGA
** * *
810346 TTGGATTTCAACTTCACGACGATGGATATCCAATTCAAGGCGCAACTTCATAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAGGCTCAACTTCACAACGAA-GGGCCAT
* *
810411 CCACGGTTTCAACTTCACGATGAAGGGAATCATGCCCACCAGCAATATTCATCTTCAGA
65 CCACGGTTTCAACTTCACGAAGAAGGGAATCATGCCCACCAGCAACATTCATCTTCAGA
* * *
810470 TTGGATTTCAACTTTACGACGAAAGATATCCAAGTCAAGGCTCAACTTCACAACGAAGGGCCCCT
1 TTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAGGCTCAACTTCACAACGAAGGG-CCAT
* *
810535 CCACGATTTCAACTTCACGACGAAGG
65 CCACGGTTTCAACTTCACGAAGAAGG
810561 ATATCGTGTT
Statistics
Matches: 188, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
123 3 0.02
124 185 0.98
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (123 bp):
TTGGATTTCAACTTCACGACGAAAGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGCCATC
CACGGTTTCAACTTCACGAAGAAGGGAATCATGCCCACCAGCAACATTCATCTTCAGA
Found at i:810756 original size:83 final size:83
Alignment explanation
Indices: 810570--810859 Score: 346
Period size: 84 Copynumber: 3.5 Consensus size: 83
810560 GATATCGTGT
* * * * *
810570 TCATTTGCAATATAACTCAAGGCAAAAAGGGCTATTTGCCAATAAAAGACCTTCGAGTTTGATTA
1 TCATTTGCAACATAACTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTTGA-CA
*
810635 CGCTCAGCTCAAAGGCATA
65 CGCTCAGCTCAAAGGCACA
* * * * *
810654 TCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCAACTTTGACAC
1 TCATTTGCAACATAACTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTTGACAC
810719 GCTCAGCTCAAAGGCACA
66 GCTCAGCTCAAAGGCACA
* * * *
810737 TCATTTGCAGCATAACTCAAGGCAAGAAGGATTATTTACCAACAAAAGACCTTCGAGTTCGACTA
1 TCATTTGCAACATAACTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTTGAC-A
* *
810802 CACTCAGCTCAAATGCACA
65 CGCTCAGCTCAAAGGCACA
** * * * *
810821 TCATTTATAGCTTAGCTCAAGGCAATAAGGGGTTATTTG
1 TCATTTGCAACATAACTCAAGGCAAGAA-GGGTTATTTG
810860 TCAATAAACA
Statistics
Matches: 175, Mismatches: 29, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
83 73 0.42
84 94 0.54
85 8 0.05
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (83 bp):
TCATTTGCAACATAACTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTTGACAC
GCTCAGCTCAAAGGCACA
Found at i:810877 original size:84 final size:84
Alignment explanation
Indices: 810581--810907 Score: 262
Period size: 84 Copynumber: 3.9 Consensus size: 84
810571 CATTTGCAAT
* ** * * * * * * *
810581 ATAACTCAAGGCAAAAAGGGCTATTTGCCAATAAAAGACCTTCGAGTTTGATTACGCTCAGCTCA
1 ATAACTCAAGGCAAGAAGGATTATTTACCAACAAAACACCGTCGAGTTCGACTACACTCAGCTCA
* * *
810646 AAGGCATATCATTTGCAAC
66 AAGGCACATCATTTACAGC
* * * * * * * * * * *
810665 ATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCAACTTTGAC-ACGCTCAGCTCA
1 ATAACTCAAGGCAAGAAGGATTATTTACCAACAAAACACCGTCGAGTTCGACTACACTCAGCTCA
*
810729 AAGGCACATCATTTGCAGC
66 AAGGCACATCATTTACAGC
* *
810748 ATAACTCAAGGCAAGAAGGATTATTTACCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTCA
1 ATAACTCAAGGCAAGAAGGATTATTTACCAACAAAACACCGTCGAGTTCGACTACACTCAGCTCA
* *
810813 AATGCACATCATTTATAGC
66 AAGGCACATCATTTACAGC
* * * * ** * * * *
810832 TTAGCTCAAGGCAATAAGGGGTTATTTGTCAA-TAAACACCGTCGAGTTCGATTCCATTCAGCTC
1 ATAACTCAAGGCAAGAA-GGATTATTTACCAACAAAACACCGTCGAGTTCGACTACACTCAGCTC
* *
810896 GATGGCACATCA
65 AAAGGCACATCA
810908 ATCACATTAT
Statistics
Matches: 203, Mismatches: 38, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
83 73 0.36
84 119 0.59
85 11 0.05
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (84 bp):
ATAACTCAAGGCAAGAAGGATTATTTACCAACAAAACACCGTCGAGTTCGACTACACTCAGCTCA
AAGGCACATCATTTACAGC
Found at i:811311 original size:21 final size:19
Alignment explanation
Indices: 811287--811336 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
811277 CTATAAAAAC
811287 ATTTTATTATATTA-TATTT
1 ATTTTATTATATTATTA-TT
*
811306 ATATTTATATTTATTATTATT
1 AT-TTTAT-TATATTATTATT
811327 ATTTTATTAT
1 ATTTTATTAT
811337 TTTTGCAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 4 0.15
20 10 0.38
21 10 0.38
22 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTATTATATTATTATT
Found at i:811315 original size:12 final size:11
Alignment explanation
Indices: 811293--811336 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
811283 AAACATTTTA
811293 TTATATTATAT
1 TTATATTATAT
811304 TTATATTTATAT
1 TTATA-TTATAT
811316 TTATTATTATTAT
1 TTA-TATTA-TAT
811329 TT-TATTAT
1 TTATATTAT
811337 TTTTGCAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 10 0.33
12 12 0.40
13 7 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATATTATAT
Found at i:811337 original size:21 final size:21
Alignment explanation
Indices: 811287--811338 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
811277 CTATAAAAAC
811287 ATTTTATTA--TATTATATTT
1 ATTTTATTATTTATTATATTT
811306 ATATTTA-TATTTATTAT-TATT
1 AT-TTTATTATTTATTATAT-TT
811327 ATTTTATTATTT
1 ATTTTATTATTT
811339 TTGCAGACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 4 0.14
20 9 0.32
21 15 0.54
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTTATTATTTATTATATTT
Found at i:811988 original size:6 final size:6
Alignment explanation
Indices: 811977--812050 Score: 53
Period size: 6 Copynumber: 11.7 Consensus size: 6
811967 TAAAAAGTTG
* * *
811977 TTTTTA TTTTTA GCATTTTA TTATTA TTATTTA TTTTATA TTTTTTA CTTATTA
1 TTTTTA TTTTTA --TTTTTA TTTTTA TT-TTTA TTTT-TA -TTTTTA -TTTTTA
812031 TTTTTA -TTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTT
812051 ATTACTTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
5 10 0.18
6 22 0.40
7 14 0.25
8 9 0.16
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:812008 original size:14 final size:14
Alignment explanation
Indices: 811991--812060 Score: 66
Period size: 13 Copynumber: 5.4 Consensus size: 14
811981 TATTTTTAGC
811991 ATTTTATTATTATT
1 ATTTTATTATTATT
812005 A-TTTATT-TTA-T
1 ATTTTATTATTATT
812016 ATTTT-TTACTTATT
1 ATTTTATTA-TTATT
812030 A-TTT-TTATT-TT
1 ATTTTATTATTATT
812041 ATTTTATT-TTATT
1 ATTTTATTATTATT
812054 ACTTTTA
1 A-TTTTA
812061 GAATTTAACA
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
11 7 0.15
12 13 0.27
13 20 0.42
14 8 0.17
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTATTATTATT
Found at i:812022 original size:27 final size:27
Alignment explanation
Indices: 811977--812054 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
811967 TAAAAAGTTG
**
811977 TTTTTATTTT-TAGCATTTTATTATTA
1 TTTTTATTTTATATTATTTTATTATTA
812003 TTATTTATTTTATATT-TTTTACTTATTA
1 TT-TTTATTTTATATTATTTTA-TTATTA
*
812031 TTTTTATTTTATTTTATTTTATTA
1 TTTTTATTTTATATTATTTTATTA
812055 CTTTTAGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
26 2 0.04
27 28 0.62
28 15 0.33
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (27 bp):
TTTTTATTTTATATTATTTTATTATTA
Done.