Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 235 of 235
Found at i:78417664 original size:268 final size:268
Alignment explanation
Indices: 78416883--78417653 Score: 1121
Period size: 268 Copynumber: 2.9 Consensus size: 268
78416873 GCAACTTTAG
* * * * *
78416883 GAAGATAAGACTTG-TGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCC--AT
1 GAAGATAAGAC-TGATGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTTGCCAAAA
* * * *
78416945 TTCTGATCTGCTCCA-TAGCC-GATACA-TGGAGATAAGATCTGGTA--TTTAGCCTACTCCACT
65 TT-TGATCTGCTTCACT--CCTGCT-CAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACT
* * * *
78417005 CCTGCTCAGTGAAGATAAGGCCGATGATTGGAATCTGCTCCATCGTCGGTACGTGAAGATAAGAT
126 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGGTACGTGGAGATAAGAT
* *
78417070 TCTTCAAAGTTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCC
191 TCTCCAAAGTTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCC
*
78417135 ACTCGTGCTCAGT
256 ACTCCTGCTCAGT
* * * *
78417148 AAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCTGATATATGAAGATAAGACTTGCCAAAAT
1 GAAGATAAGACTGATGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTTGCCAAAAT
78417213 TTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGC
66 TTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGC
78417278 TCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCC
131 TCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCC
*
78417343 AAAGTTTGATCTGCTTCACTCCTGATCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCC
196 AAAGTTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCC
78417408 TGCTCAGT
261 TGCTCAGT
*
78417416 GAAGATAAGACTGATGGTTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTTGCCAAAAT
1 GAAGATAAGACTGATGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTTGCCAAAAT
*
78417481 TTGATCTGCTTCACTCCTGCTCAGTGAAGAAAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGC
66 TTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGC
* * ** *
78417546 TCAGTAAAGATAAGGCTGATGATTGGAATATGCTCCATTGCCTATACATGGAGATAAGATT-TAC
131 TCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCT-C
* * * * *
78417610 CAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAA-ATAAGATCTG
195 CAAAGTTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTG
78417654 TAATTTTAGC
Statistics
Matches: 459, Mismatches: 38, Indels: 16
0.89 0.07 0.03
Matches are distributed among these distances:
264 2 0.00
265 53 0.12
266 30 0.07
267 15 0.03
268 359 0.78
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (268 bp):
GAAGATAAGACTGATGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTTGCCAAAAT
TTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGC
TCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCC
AAAGTTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCC
TGCTCAGT
Found at i:78419142 original size:11 final size:10
Alignment explanation
Indices: 78419102--78419143 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
78419092 GCCTCTCCAG
78419102 TTTCTTTTTCT
1 TTTCTTTTT-T
78419113 TTTCTTTTTT
1 TTTCTTTTTT
*
78419123 TTT-TATTTT
1 TTTCTTTTTT
*
78419132 TATCTTTTTT
1 TTTCTTTTTT
78419142 TT
1 TT
78419144 GAAACTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 7 0.27
10 10 0.38
11 9 0.35
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:78419653 original size:7 final size:7
Alignment explanation
Indices: 78419628--78419680 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
78419618 CTACAATCTC
78419628 TTTTTGT
1 TTTTTGT
78419635 TATTTT-T
1 T-TTTTGT
78419642 TTTTTGT
1 TTTTTGT
78419649 TTTTTGT
1 TTTTTGT
* **
78419656 CTTTCCT
1 TTTTTGT
78419663 TTTTTGT
1 TTTTTGT
*
78419670 TTTTTCT
1 TTTTTGT
78419677 TTTT
1 TTTT
78419681 GGCCGCCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
6 4 0.11
7 29 0.78
8 4 0.11
ACGTcount: A:0.02, C:0.08, G:0.08, T:0.83
Consensus pattern (7 bp):
TTTTTGT
Found at i:78423147 original size:22 final size:23
Alignment explanation
Indices: 78423100--78423158 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
78423090 AAAGCCAAGC
*
78423100 TATATACGAATAATTTTAAAGAAAA
1 TATATAC-AATAAATTT-AAGAAAA
78423125 TATATACAATAAATTT-AGAAAA
1 TATATACAATAAATTTAAGAAAA
*
78423147 TATTTAC-ATAAA
1 TATATACAATAAA
78423159 ATAATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
24 8 0.25
25 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TATATACAATAAATTTAAGAAAA
Found at i:78423742 original size:41 final size:41
Alignment explanation
Indices: 78423685--78423764 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
78423675 GAAATCATGC
*
78423685 GCATGAACCAAGTCAAAAAAGCTGTCTGTTCCTTCCCCCGT
1 GCATGAACCAAGTCAAAAAACCTGTCTGTTCCTTCCCCCGT
78423726 GCATGAACCAAGTCAAAAAACCTGTCTGTTCCTTCCCCC
1 GCATGAACCAAGTCAAAAAACCTGTCTGTTCCTTCCCCC
78423765 AATGCCATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.24
Consensus pattern (41 bp):
GCATGAACCAAGTCAAAAAACCTGTCTGTTCCTTCCCCCGT
Found at i:78424058 original size:27 final size:25
Alignment explanation
Indices: 78424028--78424080 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
78424018 TCACGCAAGA
*
78424028 AGAAAATGAAAGAATAATAACAAAATC
1 AGAAAAGGAAAGAA-AATAA-AAAATC
* *
78424055 AGAAAGGGAAAGAAACTAAAAAATC
1 AGAAAAGGAAAGAAAATAAAAAATC
78424080 A
1 A
78424081 CCTTTAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 4 0.17
27 12 0.52
ACGTcount: A:0.66, C:0.08, G:0.15, T:0.11
Consensus pattern (25 bp):
AGAAAAGGAAAGAAAATAAAAAATC
Found at i:78428677 original size:17 final size:17
Alignment explanation
Indices: 78428655--78428691 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
78428645 GCAGAAGTTA
78428655 GAACCAATATGTAGCCT
1 GAACCAATATGTAGCCT
78428672 GAACCAATATGTAGCCT
1 GAACCAATATGTAGCCT
78428689 GAA
1 GAA
78428692 ACATAAGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (17 bp):
GAACCAATATGTAGCCT
Found at i:78429182 original size:84 final size:84
Alignment explanation
Indices: 78429035--78429204 Score: 241
Period size: 84 Copynumber: 2.0 Consensus size: 84
78429025 GATTCAAAGT
* * * *
78429035 GAAGTAGAACGATGCATACCGTTTTTCCCTTTCATGTCTATTTCTGCATTTTTCAATTTTCAAGA
1 GAAGTAGAACGATGCATACCATTTTTCCCTTTCATGTCTATTGCTGCATTTTTCAAGTCTCAAGA
**
78429100 ATGGTGTTTGTTTTTCATG
66 ATGACGTTTGTTTTTCATG
* * * *
78429119 GAAGTAGAACGATGCATACTATTTTTCCCTTTCATGTCTGTTGCTTCATTTTTCGAGTCTCAAGA
1 GAAGTAGAACGATGCATACCATTTTTCCCTTTCATGTCTATTGCTGCATTTTTCAAGTCTCAAGA
*
78429184 ATGACGTTTGTTTTTTATG
66 ATGACGTTTGTTTTTCATG
78429203 GA
1 GA
78429205 TATTATTGAT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (84 bp):
GAAGTAGAACGATGCATACCATTTTTCCCTTTCATGTCTATTGCTGCATTTTTCAAGTCTCAAGA
ATGACGTTTGTTTTTCATG
Found at i:78429374 original size:25 final size:25
Alignment explanation
Indices: 78429329--78429379 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
78429319 GTTAGGTTTC
*
78429329 TTGGGAAAAAATCATATTTTTTTTAG
1 TTGGGAAAAAAT-ATATTTTTGTTAG
*
78429355 TTGGGAAAAAAT-TTTCTTTTGTTAG
1 TTGGGAAAAAATATAT-TTTTGTTAG
78429380 ATAAGAAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 8 0.36
26 12 0.55
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (25 bp):
TTGGGAAAAAATATATTTTTGTTAG
Found at i:78429544 original size:19 final size:19
Alignment explanation
Indices: 78429515--78429558 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
78429505 AAAGCATGAT
78429515 TAATT-AAAATTAATAATA
1 TAATTAAAAATTAATAATA
*
78429533 TAATTAAAAATTAGTAATA
1 TAATTAAAAATTAATAATA
78429552 TAATTAA
1 TAATTAA
78429559 TATATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TAATTAAAAATTAATAATA
Found at i:78433713 original size:26 final size:26
Alignment explanation
Indices: 78433676--78433781 Score: 185
Period size: 26 Copynumber: 4.1 Consensus size: 26
78433666 GTACAAATTC
78433676 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
78433702 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
78433728 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
78433754 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
78433780 AT
1 AT
78433782 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:78445392 original size:21 final size:21
Alignment explanation
Indices: 78445366--78445405 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
78445356 TTTAACATAA
*
78445366 AAATGTTATATCATCAAAATG
1 AAATGTCATATCATCAAAATG
78445387 AAATGTCATATCATCAAAA
1 AAATGTCATATCATCAAAA
78445406 AGGGAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (21 bp):
AAATGTCATATCATCAAAATG
Found at i:78445936 original size:31 final size:31
Alignment explanation
Indices: 78445900--78445966 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
78445890 CATGGAAGAA
78445900 TAAGATCACAAGAAAATTGGCAAACATTGGC
1 TAAGATCACAAGAAAATTGGCAAACATTGGC
* *
78445931 TAAGATCACAATAAAATTGGGAAACATTGGC
1 TAAGATCACAAGAAAATTGGCAAACATTGGC
78445962 TAAGA
1 TAAGA
78445967 ATTTTATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.21
Consensus pattern (31 bp):
TAAGATCACAAGAAAATTGGCAAACATTGGC
Found at i:78448340 original size:34 final size:31
Alignment explanation
Indices: 78448264--78448351 Score: 113
Period size: 31 Copynumber: 2.7 Consensus size: 31
78448254 TAAATTTTTT
* * *
78448264 ATTTTCAAACTCAGCTTAGAACATAAACTTA
1 ATTTTCAAACTGAGTTTAGAACATAAACTAA
78448295 ATTTTCAAACTGAGTTTAGAACATAAACATAAA
1 ATTTTCAAACTGAGTTTAGAACATAAAC-T-AA
*
78448328 ATATTTCAAACTGAGTTTAAAACA
1 AT-TTTCAAACTGAGTTTAGAACA
78448352 ACATTAAGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
31 26 0.52
32 1 0.02
33 3 0.06
34 20 0.40
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (31 bp):
ATTTTCAAACTGAGTTTAGAACATAAACTAA
Found at i:78452865 original size:307 final size:307
Alignment explanation
Indices: 78452205--78452959 Score: 1011
Period size: 307 Copynumber: 2.5 Consensus size: 307
78452195 AGCTTTTTGT
* * * * * *
78452205 AATTTACACGATAATCTCTCCCC-AAATGTCTTACCCAAATAATCTTATTTTTCTTTTAATCAAA
1 AATTTACACCATGACCTCTCCCCAAAATATCTTGCCCAAATAATCTTATTTTCCTTTTAATCAAA
* *
78452269 ACCTTGAATTTATTCTG-GCGCTTTCCATTG-CTGCCTTCTTGTTGAGGTCTTGCCATGAGAGTG
66 ATCTTGAATTCATTCTGAG-GCTTTCCATTGTC-GCCTTCTTGTTGAGGTCTTGCCATGAGAGTG
* *
78452332 ATTTCGTCATATGGTAGCCAATATTTGTAATGAATAAAAGGGAGAAGATAATTAATATATATTTG
129 ATTTCATCATATGGTAGCCAATATTTGTAATGAATAAAAGAGAGAAGATAATTAATATATATTTG
* * * **
78452397 AACCACGAGTTTTATTCAGTATGAGAAAACATTTGGTATATGAAAGACATAACTTTAGTACCTGT
194 AACCACGAGTTTTATTCAATATGAGAAAACATTAGGTACATGAAAGACATAACTTTAGTACCTAC
* * **
78452462 TCTTATTTTCTAATGGTTCCCCCCAACAATGGCGTAAAAAGCTTTTGGT
259 TCTTATTTTCTAATGGCTCCCCCCAACAATGGCGTAAAAAACTTTTGAC
* * *
78452511 AATTTACACCATGACCTCTCCCCAAAATGTCTTGCCCAAACAATCTTATTTTCCTTTTAATGAAA
1 AATTTACACCATGACCTCTCCCCAAAATATCTTGCCCAAATAATCTTATTTTCCTTTTAATCAAA
** * * *
78452576 ATCTTGAATTCATTCTGAGGCACTCAATTGTCGCCTTCATGTCGAGGTCTTGCCATGAGAGTGAT
66 ATCTTGAATTCATTCTGAGGCTTTCCATTGTCGCCTTCTTGTTGAGGTCTTGCCATGAGAGTGAT
* *
78452641 TTCATTATATTGTAGCCAATATTTGTAATGAATAAAAGAGAGAAGATAATTAATATATATTTGAA
131 TTCATCATATGGTAGCCAATATTTGTAATGAATAAAAGAGAGAAGATAATTAATATATATTTG-A
* * *
78452706 ACCACGGGTTTTATTCAATATGA-AGAAATATTCAGG-ACATGAAAGACATAGCTTTAGTACCTA
195 ACCACGAGTTTTATTCAATATGAGA-AAACATT-AGGTACATGAAAGACATAACTTTAGTACCTA
*
78452769 CTCTTATTTTCTAATGGCTCCCCCCAACAATGGTGTAAAAAACTTTTGAC
258 CTCTTATTTTCTAATGGCTCCCCCCAACAATGGCGTAAAAAACTTTTGAC
* * * * * *
78452819 AATTTACATCATGACCTCTTCCC-AGATATCTTGTCCGAATAATCTTATTTTCCTTTTAATCAGA
1 AATTTACACCATGACCTCTCCCCAAAATATCTTGCCCAAATAATCTTATTTTCCTTTTAATCAAA
* * * *
78452883 ATCTTGAATTCATTTTGA-GCTTTTCCATTGTCGCATTCTTGTTAAGGTCTTGCCATGAAAGTGA
66 ATCTTGAATTCATTCTGAGGC-TTTCCATTGTCGCCTTCTTGTTGAGGTCTTGCCATGAGAGTGA
*
78452947 TTTCACCATATGG
130 TTTCATCATATGG
78452960 GTTTAGTCAT
Statistics
Matches: 390, Mismatches: 52, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
306 22 0.06
307 247 0.63
308 119 0.31
309 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (307 bp):
AATTTACACCATGACCTCTCCCCAAAATATCTTGCCCAAATAATCTTATTTTCCTTTTAATCAAA
ATCTTGAATTCATTCTGAGGCTTTCCATTGTCGCCTTCTTGTTGAGGTCTTGCCATGAGAGTGAT
TTCATCATATGGTAGCCAATATTTGTAATGAATAAAAGAGAGAAGATAATTAATATATATTTGAA
CCACGAGTTTTATTCAATATGAGAAAACATTAGGTACATGAAAGACATAACTTTAGTACCTACTC
TTATTTTCTAATGGCTCCCCCCAACAATGGCGTAAAAAACTTTTGAC
Found at i:78454569 original size:19 final size:19
Alignment explanation
Indices: 78454540--78454597 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
78454530 AAAGCATGAT
78454540 TAATT-AAAATTAATAATA
1 TAATTAAAAATTAATAATA
* *
78454558 TAATTAAAAATTAGTAATG
1 TAATTAAAAATTAATAATA
*
78454577 TAA-TAATAATTAATATATA
1 TAATTAAAAATTAATA-ATA
78454596 TA
1 TA
78454598 TGGAAAGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (19 bp):
TAATTAAAAATTAATAATA
Found at i:78455678 original size:95 final size:95
Alignment explanation
Indices: 78455515--78455705 Score: 355
Period size: 95 Copynumber: 2.0 Consensus size: 95
78455505 ATTTTTTTGT
*
78455515 GAGTAATATGTAAAAATAATAAACAAACATAGCGGTACACATGCGATAATATGTTTGACACATCA
1 GAGTAATATGTAAAAATAACAAACAAACATAGCGGTACACATGCGATAATATGTTTGACACATCA
78455580 AATTTTGAAAATAACATAATGAATTTAATA
66 AATTTTGAAAATAACATAATGAATTTAATA
* *
78455610 GAGTAATATGTAAAAATAACAAACAAACATAGCGGTACATATGCGATAATATGTTTGATACATCA
1 GAGTAATATGTAAAAATAACAAACAAACATAGCGGTACACATGCGATAATATGTTTGACACATCA
78455675 AATTTTGAAAATAACATAATGAATTTAATA
66 AATTTTGAAAATAACATAATGAATTTAATA
78455705 G
1 G
78455706 TTATTATTTG
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (95 bp):
GAGTAATATGTAAAAATAACAAACAAACATAGCGGTACACATGCGATAATATGTTTGACACATCA
AATTTTGAAAATAACATAATGAATTTAATA
Found at i:78456593 original size:7 final size:7
Alignment explanation
Indices: 78456581--78456619 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
78456571 GACAAGAAGC
78456581 TGAAGGT
1 TGAAGGT
78456588 TGAAGGT
1 TGAAGGT
78456595 TGAAGGT
1 TGAAGGT
*
78456602 TGAAGGC
1 TGAAGGT
78456609 TGAAGGT
1 TGAAGGT
78456616 TGAA
1 TGAA
78456620 CGCTGGGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.41, T:0.26
Consensus pattern (7 bp):
TGAAGGT
Found at i:78456600 original size:14 final size:14
Alignment explanation
Indices: 78456579--78456624 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
78456569 ATGACAAGAA
78456579 GCTGAAGGTTGAAG
1 GCTGAAGGTTGAAG
*
78456593 GTTGAAGGTTGAAG
1 GCTGAAGGTTGAAG
*
78456607 GCTGAAGGTTGAAC
1 GCTGAAGGTTGAAG
78456621 GCTG
1 GCTG
78456625 GGATTGGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.26, C:0.09, G:0.41, T:0.24
Consensus pattern (14 bp):
GCTGAAGGTTGAAG
Found at i:78457964 original size:23 final size:23
Alignment explanation
Indices: 78457938--78457981 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
78457928 CGGATCGAAT
78457938 ATGATGTTGTCTTTAAAATTTGA
1 ATGATGTTGTCTTTAAAATTTGA
*
78457961 ATGATGTTGTTTTTAAAATTT
1 ATGATGTTGTCTTTAAAATTT
78457982 AAATTTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.52
Consensus pattern (23 bp):
ATGATGTTGTCTTTAAAATTTGA
Found at i:78459860 original size:24 final size:24
Alignment explanation
Indices: 78459825--78459879 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
78459815 TATTTTAATA
* *
78459825 TATAAAATATAAATTTTAAATATT
1 TATAAAAAATAAATATTAAATATT
* *
78459849 TTTAAAAAATAAATATTAATTATT
1 TATAAAAAATAAATATTAAATATT
78459873 TATAAAA
1 TATAAAA
78459880 TTTAATTAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TATAAAAAATAAATATTAAATATT
Found at i:78471696 original size:24 final size:24
Alignment explanation
Indices: 78471663--78471709 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
78471653 TATTGTCCTT
* * *
78471663 GACATTGAAAATCAAGTGTAAGCA
1 GACATGGAAAAGCAAGTGCAAGCA
78471687 GACATGGAAAAGCAAGTGCAAGC
1 GACATGGAAAAGCAAGTGCAAGC
78471710 TATAAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.26, T:0.15
Consensus pattern (24 bp):
GACATGGAAAAGCAAGTGCAAGCA
Found at i:78472899 original size:20 final size:20
Alignment explanation
Indices: 78472860--78472901 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
78472850 ATGTTAGAGT
*
78472860 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
78472880 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
78472900 TA
1 TA
78472902 CCGATGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:78472930 original size:15 final size:15
Alignment explanation
Indices: 78472910--78472940 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
78472900 TACCGATGTA
78472910 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
78472925 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
78472940 A
1 A
78472941 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:78476080 original size:20 final size:20
Alignment explanation
Indices: 78476041--78476082 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
78476031 ATGTTAGAGT
*
78476041 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
78476061 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
78476081 TA
1 TA
78476083 CCGATGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:78476111 original size:15 final size:15
Alignment explanation
Indices: 78476091--78476121 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
78476081 TACCGATGTA
78476091 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
78476106 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
78476121 A
1 A
78476122 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:78481991 original size:17 final size:17
Alignment explanation
Indices: 78481971--78482004 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
78481961 AGGTTTAGGT
78481971 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
78481988 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
78482005 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:78482949 original size:3 final size:3
Alignment explanation
Indices: 78482941--78482966 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
78482931 TAGGTTTCCT
78482941 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
78482967 TTACCCTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:78485380 original size:9 final size:9
Alignment explanation
Indices: 78485349--78485386 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
78485339 GTTGATGTAG
78485349 TAAA-TATA
1 TAAATTATA
78485357 TAAATTTATTA
1 TAAA-TTA-TA
78485368 TAAATTATA
1 TAAATTATA
78485377 TAAATTATA
1 TAAATTATA
78485386 T
1 T
78485387 GTTTATTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 4 0.15
9 12 0.44
10 5 0.19
11 6 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
TAAATTATA
Found at i:78485621 original size:5 final size:5
Alignment explanation
Indices: 78485581--78485619 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
78485571 TTTACATATA
* *
78485581 TAATT TAATT TAATT TAATT TAATT TAATG TAATG TAAT
1 TAATT TAATT TAATT TAATT TAATT TAATT TAATT TAAT
78485620 GTCTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (5 bp):
TAATT
Found at i:78491439 original size:20 final size:20
Alignment explanation
Indices: 78491402--78491441 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
78491392 CCTGGAAACA
*
78491402 GCTCTTTTTGCCTGATTTTG
1 GCTCTTTTTGCCTCATTTTG
78491422 GCTCGTTTTTG-CTCATTTTG
1 GCTC-TTTTTGCCTCATTTTG
78491442 CTCCTCTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.05, C:0.20, G:0.20, T:0.55
Consensus pattern (20 bp):
GCTCTTTTTGCCTCATTTTG
Found at i:78495129 original size:68 final size:63
Alignment explanation
Indices: 78494983--78495129 Score: 154
Period size: 63 Copynumber: 2.3 Consensus size: 63
78494973 TATAGTTCGA
* * *
78494983 CTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCAATTTATCTCGTAG
1 CTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAGCCAATATATCTCGCAG
* * *
78495046 CTCTCTTGT-CTACATGGTGTACACAT-AGTATCACCCATGCGACCTAGCTACATCATAATGTCT
1 CTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGCGACCTAGC--CA--AT-ATATCT
*
78495109 TGCAG
59 CGCAG
78495114 CTCTCTTGTACACATG
1 CTCTCTTGTACACATG
78495130 ATGTGCACCC
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
62 1 0.01
63 41 0.59
64 1 0.01
65 2 0.03
67 2 0.03
68 21 0.30
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (63 bp):
CTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAGCCAATATATCTCGCAG
Found at i:78497548 original size:95 final size:95
Alignment explanation
Indices: 78497433--78497718 Score: 342
Period size: 95 Copynumber: 3.0 Consensus size: 95
78497423 AATAGCCATG
* * *
78497433 CACGAGCCGATGCATAATGTTCTAGTAAAATTTTTTATTATTTATTACCATTTTTGTAAAAAATT
1 CACGAGCCGATGCATAATGTTCTAGTATAAGTTTTTATTATTTATTACCATTTTAGTAAAAAATT
78497498 AGAAATTTTATATTTTTAATATTATTCATA
66 AGAAATTTTATATTTTTAATATTATTCATA
* * * * * * * * * *
78497528 TACGAGCCAATGCACAATGTTCCAATATAAGTTCTTGTTATTTATTACTA-TTTCGATAAAAAGT
1 CACGAGCCGATGCATAATGTTCTAGTATAAGTTTTTATTATTTATTACCATTTTAG-TAAAAAAT
* *
78497592 TTGAAATTTTATATTTTTAATATTATTCATG
65 TAGAAATTTTATATTTTTAATATTATTCATA
* * *
78497623 CACGAGCCGATGCATAATGTT-TCGGTATGAGTTTTTATTATTTATTATCATTTTAGTAAAAAAG
1 CACGAGCCGATGCATAATGTTCT-AGTATAAGTTTTTATTATTTATTACCATTTTAGTAAAAAA-
* *
78497687 TTAGAAATTTTACATTTTTTACTATTATTCAT
64 TTAGAAATTTTATA-TTTTTAATATTATTCAT
78497719 GAATTAATTG
Statistics
Matches: 156, Mismatches: 30, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
94 4 0.03
95 120 0.77
96 16 0.10
97 16 0.10
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (95 bp):
CACGAGCCGATGCATAATGTTCTAGTATAAGTTTTTATTATTTATTACCATTTTAGTAAAAAATT
AGAAATTTTATATTTTTAATATTATTCATA
Found at i:78508151 original size:36 final size:36
Alignment explanation
Indices: 78508111--78508183 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
78508101 TTTAGCGAAG
* *
78508111 TTAAAACATAAACTTATTTAACTTGGTATGTTTATA
1 TTAAAACATAAACTTATGTAACTTGGTATCTTTATA
*
78508147 TTAAAACATGAACTTATGTAACTTGGTATCTTTATA
1 TTAAAACATAAACTTATGTAACTTGGTATCTTTATA
78508183 T
1 T
78508184 AAGTAGAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (36 bp):
TTAAAACATAAACTTATGTAACTTGGTATCTTTATA
Found at i:78523028 original size:43 final size:43
Alignment explanation
Indices: 78522979--78523084 Score: 194
Period size: 43 Copynumber: 2.5 Consensus size: 43
78522969 CCAAAGACAA
78522979 GGCCGTGTCACAGGCCATGTGGACATTCAAAATAGGAGCACAT
1 GGCCGTGTCACAGGCCATGTGGACATTCAAAATAGGAGCACAT
78523022 GGCCGTGTCACAGGCCATGTGGACATTCAAAATAGGAGCACAT
1 GGCCGTGTCACAGGCCATGTGGACATTCAAAATAGGAGCACAT
* *
78523065 GGCCGTGTCCCAGCCCATGT
1 GGCCGTGTCACAGGCCATGT
78523085 CTAACCCCGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (43 bp):
GGCCGTGTCACAGGCCATGTGGACATTCAAAATAGGAGCACAT
Found at i:78524357 original size:48 final size:48
Alignment explanation
Indices: 78524294--78524428 Score: 225
Period size: 48 Copynumber: 2.8 Consensus size: 48
78524284 CGCACCCTAG
* *
78524294 GTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCGAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCAAA
* *
78524342 GTGCTAATATCATGGCTCGAAGCCAAATCAATGAAGCTCGCACCCAAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCAAA
*
78524390 GTGCTAGTATCATGGCCCGAAGCCAAATCAATGAAGCTC
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATGAAGCTC
78524429 TTAATGACAC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (48 bp):
GTGCTAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCAAA
Found at i:78528854 original size:73 final size:73
Alignment explanation
Indices: 78528773--78528919 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 73
78528763 AATGACCTAA
* *
78528773 TCTATAATGCCATAAAGAAGATTCAACCATATAAACAGAGAGAGTATTTTTATTCTTATTAATAA
1 TCTATAATGCCATAAAGAAGATTCAACCATATAAACAAAAAGAGTATTTTTATTCTTATTAATAA
*
78528838 TATTGAGT
66 TATTAAGT
* *
78528846 TCTATAATGTCATAAAGAAGATTCAACCATATAAGCAAAAAGAGTATTTTTATTCTTATTAATAA
1 TCTATAATGCCATAAAGAAGATTCAACCATATAAACAAAAAGAGTATTTTTATTCTTATTAATAA
78528911 TATTAAGT
66 TATTAAGT
78528919 T
1 T
78528920 TGAACTTGAT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (73 bp):
TCTATAATGCCATAAAGAAGATTCAACCATATAAACAAAAAGAGTATTTTTATTCTTATTAATAA
TATTAAGT
Found at i:78540903 original size:29 final size:31
Alignment explanation
Indices: 78540840--78540903 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
78540830 TTATAATGTG
* *
78540840 ATTAATCGTTTTCTTTTTTTTTCTTTATTGTA
1 ATTAATCG-TTTCTTTGTATTTCTTTATTGTA
78540872 ATTAATC-TTTCTTTGTATTT-TTTATTGTA
1 ATTAATCGTTTCTTTGTATTTCTTTATTGTA
78540901 ATT
1 ATT
78540904 CCAAGTAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 12 0.40
30 11 0.37
32 7 0.23
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.67
Consensus pattern (31 bp):
ATTAATCGTTTCTTTGTATTTCTTTATTGTA
Found at i:78543517 original size:26 final size:27
Alignment explanation
Indices: 78543472--78543523 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
78543462 AAATTTTATA
*
78543472 ATTTCTTTAAATTGTTTTAA-ATTTTG
1 ATTTCTTTAAATAGTTTTAAGATTTTG
78543498 ATTTC-TTAAATAGTTCTTAAGATTTT
1 ATTTCTTTAAATAGTT-TTAAGATTTT
78543524 TTTAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 9 0.39
26 9 0.39
27 5 0.22
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.58
Consensus pattern (27 bp):
ATTTCTTTAAATAGTTTTAAGATTTTG
Found at i:78552161 original size:5 final size:5
Alignment explanation
Indices: 78552143--78552190 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
78552133 AAAATATCCC
* *
78552143 TTTTA TTTTAA TTTTA TTTTAA TTCTC TTTTA TTTTAA TTTTA TTTTA
1 TTTTA TTTT-A TTTTA TTTT-A TTTTA TTTTA TTTT-A TTTTA TTTTA
78552191 AATGAGTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 22 0.61
6 14 0.39
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:78552191 original size:11 final size:10
Alignment explanation
Indices: 78552143--78552190 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
78552133 AAAATATCCC
78552143 TTTTATTTTAA
1 TTTTATTTT-A
78552154 TTTTATTTTAA
1 TTTTATTTT-A
* *
78552165 TTCTCTTTTA
1 TTTTATTTTA
78552175 TTTTAATTTTA
1 TTTT-ATTTTA
78552186 TTTTA
1 TTTTA
78552191 AATGAGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 5 0.16
11 27 0.84
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:78552200 original size:27 final size:27
Alignment explanation
Indices: 78552142--78552193 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
78552132 TAAAATATCC
* *
78552142 CTTTTATTTTAATTTTATTTTAATTCT
1 CTTTTATTTTAATTTTATTTTAAATCA
78552169 CTTTTATTTTAATTTTATTTTAAAT
1 CTTTTATTTTAATTTTATTTTAAAT
78552194 GAGTTTTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (27 bp):
CTTTTATTTTAATTTTATTTTAAATCA
Found at i:78552498 original size:25 final size:22
Alignment explanation
Indices: 78552447--78552501 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
78552437 TATTATTTTA
* *
78552447 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
78552469 TGTATATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
78552493 TCGTATATA
1 T-GTATATA
78552502 GCTTGGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.43
24 9 0.32
25 7 0.25
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:78558019 original size:135 final size:135
Alignment explanation
Indices: 78557777--78558200 Score: 561
Period size: 135 Copynumber: 3.2 Consensus size: 135
78557767 TGGAATCGTG
* *
78557777 AACATACCTGATCTTATCTTCACTAAGCAGGAGTGAAGCAGATTAAATTTTGGCGAGTCTTATCT
1 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATTAAATTTTGGCGAGTCTTATCT
* * *
78557842 TCACTGAGTAGGAGTGGAGCAGATTTCAGCCTCCAGCCTTATCTTCACTGAGCAGGAGTGGAGCA
66 TCACTGAGCAGGAGTGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCA
78557907 GGCTA
131 GGCTA
* * * *
78557912 AACATACCCGATCTTATCTTTACTGAGCAAGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCT
1 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATTAAATTTTGGCGAGTCTTATCT
* *
78557977 TCACTGAGCAGGAGTGGAGTAGATTTCAACCACCAGCCTTATCTTCACTGAGCAAGAGTGGAGCA
66 TCACTGAGCAGGAGTGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCA
78558042 GGCTA
131 GGCTA
* * ** *** * *
78558047 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAGTAGATTTCA--CCCGCCAGCCTTATCT
1 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATTAAATTTTGGCGAGTCTTATCT
* ** * * *
78558110 TCACTGAGCAAGAGTGGAGCAG-GCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAG
66 TCACTGAGCAGGAGTGGAGCAGATTTCAAC-CACCAG-CCTTATCTTCACTGAGCAGGAGTGGAG
78558174 CAGGCT-
129 CAGGCTA
78558180 AA-ATACCAGATCTTATCTTCA
1 AACATACCAGATCTTATCTTCA
78558201 TGTATCGGCT
Statistics
Matches: 256, Mismatches: 31, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
132 23 0.09
133 38 0.15
134 31 0.12
135 164 0.64
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (135 bp):
AACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATTAAATTTTGGCGAGTCTTATCT
TCACTGAGCAGGAGTGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCA
GGCTA
Found at i:78558084 original size:89 final size:89
Alignment explanation
Indices: 78557969--78558173 Score: 392
Period size: 89 Copynumber: 2.3 Consensus size: 89
78557959 TTTTGGCGAG
78557969 TCTTATCTTCACTGAGCAGGAGTGGAGTAGATTTCAACCACCAGCCTTATCTTCACTGAGCAAGA
1 TCTTATCTTCACTGAGCAGGAGTGGAGTAGATTTCAACCACCAGCCTTATCTTCACTGAGCAAGA
78558034 GTGGAGCAGGCTAAACATACCAGA
66 GTGGAGCAGGCTAAACATACCAGA
* *
78558058 TCTTATCTTCACTGAGCAGGAGTGGAGTAGATTTCACCCGCCAGCCTTATCTTCACTGAGCAAGA
1 TCTTATCTTCACTGAGCAGGAGTGGAGTAGATTTCAACCACCAGCCTTATCTTCACTGAGCAAGA
78558123 GTGGAGCAGGCTAAACATACCAGA
66 GTGGAGCAGGCTAAACATACCAGA
78558147 TCTTATCTTCACTGAGCAGGAGTGGAG
1 TCTTATCTTCACTGAGCAGGAGTGGAG
78558174 CAGGCTAAAT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 114 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (89 bp):
TCTTATCTTCACTGAGCAGGAGTGGAGTAGATTTCAACCACCAGCCTTATCTTCACTGAGCAAGA
GTGGAGCAGGCTAAACATACCAGA
Found at i:78558219 original size:43 final size:45
Alignment explanation
Indices: 78557777--78558200 Score: 337
Period size: 44 Copynumber: 9.5 Consensus size: 45
78557767 TGGAATCGTG
* * * **
78557777 AACATACCTGATCTTATCTTCACTAAGCAGGAGTGAAGCAGATTA
1 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
** ** * ** *
78557822 AATTTTGGC-GAGTCTTATCTTCACTGAGTAGGAGTGGAGCAGATTTC
1 AA-CATACCAGA-TCTTATCTTCACTGAGCAGGAGTGGAGCAG-GCTA
* * *
78557869 AGCCT-CCAG-CCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
1 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
* * * * *
78557912 AACATACCCGATCTTATCTTTACTGAGCAAGAGTGAAGCA-GATCA
1 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-A
** ** * ** *
78557957 AATTTTGGC-GAGTCTTATCTTCACTGAGCAGGAGTGGAGTAGATTTC
1 AA-CATACCAGA-TCTTATCTTCACTGAGCAGGAGTGGAGCAG-GCTA
* * *
78558004 AAC-CACCAG-CCTTATCTTCACTGAGCAAGAGTGGAGCAGGCTA
1 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
* ** *
78558047 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAGTAGATTT
1 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
* *** * *
78558092 CACCCGCCAG-CCTTATCTTCACTGAGCAAGAGTGGAGCAGGCTA
1 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
78558136 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-
1 AACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
78558180 AA-ATACCAGATCTTATCTTCA
1 AACATACCAGATCTTATCTTCA
78558201 TGTATCGGCT
Statistics
Matches: 294, Mismatches: 70, Indels: 32
0.74 0.18 0.08
Matches are distributed among these distances:
43 27 0.09
44 101 0.34
45 101 0.34
46 59 0.20
47 5 0.02
48 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (45 bp):
AACATACCAGATCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
Found at i:78560162 original size:25 final size:22
Alignment explanation
Indices: 78560108--78560162 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
78560098 TATTATTTTA
* *
78560108 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
*
78560130 TGTGTATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
78560154 TCGTATATA
1 T-GTATATA
78560163 GCTTGGCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 11 0.42
24 9 0.35
25 6 0.23
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:78562639 original size:40 final size:39
Alignment explanation
Indices: 78562581--78562666 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 39
78562571 TTTTTGTATT
78562581 AAAA-ATACTTAAATTAAATTATTAATTTTTTAAAATAA
1 AAAATATACTTAAATTAAATTATTAATTTTTTAAAATAA
78562619 AAAAGTATACTTAAATTAAATTATTAATTTTTTAAAATAA
1 AAAA-TATACTTAAATTAAATTATTAATTTTTTAAAATAA
78562659 AAAATATA
1 AAAATATA
78562667 TTTTTTTCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
38 4 0.09
39 4 0.09
40 38 0.83
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (39 bp):
AAAATATACTTAAATTAAATTATTAATTTTTTAAAATAA
Found at i:78564306 original size:32 final size:33
Alignment explanation
Indices: 78564246--78564308 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
78564236 TAAGAGTTGG
* *
78564246 AAATAGATATTATGTAAAAATCTGAAATAAATA
1 AAATAGAAATTATGTAAAAATATGAAATAAATA
78564279 AAATAGAAATT-TGTAAAAA-ATGAAAATAAA
1 AAATAGAAATTATGTAAAAATATG-AAATAAA
78564309 ATGAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 2 0.07
32 15 0.56
33 10 0.37
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.27
Consensus pattern (33 bp):
AAATAGAAATTATGTAAAAATATGAAATAAATA
Found at i:78564322 original size:23 final size:23
Alignment explanation
Indices: 78564270--78564323 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
78564260 TAAAAATCTG
***
78564270 AAATAAATAAAATAGAAATTTGT
1 AAATAAATAAAATAGAAATGAAT
78564293 AAA-AAATGAAAATA-AAATGAAT
1 AAATAAAT-AAAATAGAAATGAAT
78564315 AAATAAATA
1 AAATAAATA
78564324 CAAAAAGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (23 bp):
AAATAAATAAAATAGAAATGAAT
Found at i:78564459 original size:29 final size:29
Alignment explanation
Indices: 78564427--78564492 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
78564417 CTAATAAGCG
*
78564427 TGATAATATATTAATGATAA-AAATAGAAA
1 TGATAATATAATAATGATAATAAA-AGAAA
*
78564456 TGAT-ATGTTAATAATGATAATAAAAGAAA
1 TGATAAT-ATAATAATGATAATAAAAGAAA
*
78564485 TGAAAATA
1 TGATAATA
78564493 ACACTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.07
29 23 0.77
30 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (29 bp):
TGATAATATAATAATGATAATAAAAGAAA
Found at i:78564510 original size:3 final size:3
Alignment explanation
Indices: 78564502--78564581 Score: 65
Period size: 3 Copynumber: 25.7 Consensus size: 3
78564492 AACACTATAT
* *
78564502 TAA TAA TAA TAA TAA TAA TAA TAA TAGGT TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA
* *
78564549 AAA GGTGAA -AA TAA TAA TAA -AA TAA TAA AAA TA
1 TAA --T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA
78564582 CTATTACGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
2 4 0.06
3 54 0.87
5 2 0.03
6 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:78564521 original size:29 final size:29
Alignment explanation
Indices: 78564489--78564548 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
78564479 AAGAAATGAA
* *
78564489 AATAACACTATATTAATAATAATAATAAT
1 AATAACAATAGATTAATAATAATAATAAT
* * *
78564518 AATAATAATAGGTTAATAATAATAGTAAT
1 AATAACAATAGATTAATAATAATAATAAT
78564547 AA
1 AA
78564549 AAAGGTGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (29 bp):
AATAACAATAGATTAATAATAATAATAAT
Found at i:78564534 original size:26 final size:26
Alignment explanation
Indices: 78564505--78564575 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
78564495 ACTATATTAA
78564505 TAATAATAATAATAATAATAATAGGT
1 TAATAATAATAATAATAATAATAGGT
*
78564531 TAATAATAATAGTAATAA-AA-AGGT
1 TAATAATAATAATAATAATAATAGGT
*
78564555 GAA-AATAATAATAA-AATAATA
1 TAATAATAATAATAATAATAATA
78564576 AAAATACTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.05
23 12 0.30
24 7 0.17
25 2 0.05
26 17 0.43
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (26 bp):
TAATAATAATAATAATAATAATAGGT
Found at i:78578553 original size:18 final size:18
Alignment explanation
Indices: 78578521--78578584 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
78578511 TATCAATATC
*
78578521 ATTCATTAA-AATCAATT
1 ATTCAGTAACAATCAATT
* *
78578538 TTTCAGTAGCAATCAATT
1 ATTCAGTAACAATCAATT
78578556 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
*
78578574 ATTCAATAACA
1 ATTCAGTAACA
78578585 GTTAGTCGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
17 6 0.15
18 34 0.85
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.36
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:78579473 original size:17 final size:15
Alignment explanation
Indices: 78579445--78579478 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
78579435 TCCCTATTTC
78579445 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
78579460 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
78579477 TC
1 TC
78579479 TTTCTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:78579821 original size:3 final size:3
Alignment explanation
Indices: 78579813--78579856 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
78579803 AATTTATTTG
*
78579813 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
78579857 TTAATAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:78588632 original size:33 final size:33
Alignment explanation
Indices: 78588590--78588688 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
78588580 TTTCTTCTTG
*
78588590 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
78588623 ACATTCCAGCTCCTATCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
* *
78588656 ACATTCCAGCTCCCGTCTAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
78588689 GTTTGTAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.32, C:0.41, G:0.08, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:78599918 original size:8 final size:8
Alignment explanation
Indices: 78599903--78599935 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
78599893 ATTCAAATTC
78599903 AAAAATAA
1 AAAAATAA
*
78599911 AAATATAA
1 AAAAATAA
78599919 AAAAATAA
1 AAAAATAA
78599927 AAAAATAA
1 AAAAATAA
78599935 A
1 A
78599936 TTTATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAATAA
Found at i:78601502 original size:24 final size:24
Alignment explanation
Indices: 78601443--78601504 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
78601433 ATCATTGTAG
* * *
78601443 TCATCTTCATCTCTACCATCGTCT
1 TCATCTTCGTCTCCACCATCGACT
* * *
78601467 TTATTTTTGTCTCCACCATCGACT
1 TCATCTTCGTCTCCACCATCGACT
78601491 TCATCTTCGTCTCC
1 TCATCTTCGTCTCC
78601505 GTTGCACTCC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.15, C:0.35, G:0.06, T:0.44
Consensus pattern (24 bp):
TCATCTTCGTCTCCACCATCGACT
Found at i:78604273 original size:32 final size:32
Alignment explanation
Indices: 78604232--78604295 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
78604222 ATCTGTATGT
78604232 ACATTACTTATTGACCCGGAATTGTTGAACTA
1 ACATTACTTATTGACCCGGAATTGTTGAACTA
78604264 ACATTACTTATTGACCCGGAATTGTTGAACTA
1 ACATTACTTATTGACCCGGAATTGTTGAACTA
78604296 TGTCATGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (32 bp):
ACATTACTTATTGACCCGGAATTGTTGAACTA
Found at i:78607537 original size:18 final size:18
Alignment explanation
Indices: 78607514--78607577 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
78607504 ACATCGTGAT
78607514 CTGAAGCCAGAAGGCTAA
1 CTGAAGCCAGAAGGCTAA
*
78607532 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CAGAAG-GCT-AA
* *
78607553 CAGAAGCCCGAAGGCTAA
1 CTGAAGCCAGAAGGCTAA
78607571 CTGAAGC
1 CTGAAGC
78607578 TCATTAGAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 15 0.39
19 8 0.21
20 7 0.18
21 8 0.21
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.12
Consensus pattern (18 bp):
CTGAAGCCAGAAGGCTAA
Found at i:78607570 original size:39 final size:39
Alignment explanation
Indices: 78607516--78607592 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
78607506 ATCGTGATCT
*
78607516 GAAGCCAGAAGGCTAACTGAAGCACATAAGTGCTAAACA
1 GAAGCCAGAAGGCTAACTGAAGCACATAAGAGCTAAACA
* * *
78607555 GAAGCCCGAAGGCTAACTGAAGCTCATTAGAGCTAAAC
1 GAAGCCAGAAGGCTAACTGAAGCACATAAGAGCTAAAC
78607593 TGAAACCCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.14
Consensus pattern (39 bp):
GAAGCCAGAAGGCTAACTGAAGCACATAAGAGCTAAACA
Found at i:78616534 original size:34 final size:36
Alignment explanation
Indices: 78616490--78616582 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 36
78616480 GTATTTAATA
* *
78616490 TTTTAATCACATTTATTT-ACCT-ATTTAATTTTAT
1 TTTTAATCACATTTATTTAAACTAATTTAAATTTAT
*
78616524 TTTTATTCACA---ATTTAAACTAATTTAAATTTAT
1 TTTTAATCACATTTATTTAAACTAATTTAAATTTAT
*
78616557 TTTTACTCACA---ATTTAAACTAATTTA
1 TTTTAATCACATTTATTTAAACTAATTTA
78616583 TATATATATT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
31 4 0.08
32 3 0.06
33 36 0.68
34 10 0.19
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (36 bp):
TTTTAATCACATTTATTTAAACTAATTTAAATTTAT
Found at i:78616549 original size:33 final size:33
Alignment explanation
Indices: 78616512--78616582 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
78616502 TTATTTACCT
* *
78616512 ATTTAATTTTATTTTTATTCACAATTTAAACTA
1 ATTTAAATTTATTTTTACTCACAATTTAAACTA
78616545 ATTTAAATTTATTTTTACTCACAATTTAAACTA
1 ATTTAAATTTATTTTTACTCACAATTTAAACTA
78616578 ATTTA
1 ATTTA
78616583 TATATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (33 bp):
ATTTAAATTTATTTTTACTCACAATTTAAACTA
Found at i:78625860 original size:17 final size:17
Alignment explanation
Indices: 78625818--78625860 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
78625808 AACAACCATC
78625818 AAACCACAAATAAAAAA
1 AAACCACAAATAAAAAA
78625835 AAA--AGCAAATAAAAAA
1 AAACCA-CAAATAAAAAA
*
78625851 AAACCTCAAA
1 AAACCACAAA
78625861 CCTAAACCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
15 1 0.05
16 14 0.64
17 7 0.32
ACGTcount: A:0.74, C:0.16, G:0.02, T:0.07
Consensus pattern (17 bp):
AAACCACAAATAAAAAA
Found at i:78627015 original size:21 final size:21
Alignment explanation
Indices: 78626971--78627015 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
78626961 AGAGTTAACC
* * *
78626971 TTTATCATTTAAAAAATATCA
1 TTTATAATTTAAAAAAGATAA
*
78626992 TTTATAATTTAACAAAGATAA
1 TTTATAATTTAAAAAAGATAA
78627013 TTT
1 TTT
78627016 TTTTAAACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTATAATTTAAAAAAGATAA
Found at i:78627807 original size:1 final size:1
Alignment explanation
Indices: 78627801--78627827 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
78627791 AACGGCTAAG
78627801 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
78627828 AACACTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:78631955 original size:17 final size:17
Alignment explanation
Indices: 78631925--78631958 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
78631915 TCATGCACCA
**
78631925 TTTTTTAATTTTTAAAT
1 TTTTTTAAAATTTAAAT
78631942 TTTTTTAAAATTTAAAT
1 TTTTTTAAAATTTAAAT
78631959 ATAAAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTAAAATTTAAAT
Found at i:78633193 original size:28 final size:28
Alignment explanation
Indices: 78633161--78633233 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
78633151 AGATGATTTG
* *
78633161 AAAACCCAAAGTTCGAAAACATTTATTC
1 AAAACCCAAAATTCAAAAACATTTATTC
78633189 AAAACCCAAAATTCAAAAACATTTATTC
1 AAAACCCAAAATTCAAAAACATTTATTC
78633217 AAAACCCAAAATTCAAA
1 AAAACCCAAAATTCAAA
78633234 TTCAAAGTCG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.53, C:0.22, G:0.03, T:0.22
Consensus pattern (28 bp):
AAAACCCAAAATTCAAAAACATTTATTC
Found at i:78633204 original size:14 final size:14
Alignment explanation
Indices: 78633185--78633233 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
78633175 GAAAACATTT
78633185 ATTCAAAACCCAAA
1 ATTCAAAACCCAAA
* **
78633199 ATTCAAAA-ACATTT
1 ATTCAAAACCCA-AA
78633213 ATTCAAAACCCAAA
1 ATTCAAAACCCAAA
78633227 ATTCAAA
1 ATTCAAA
78633234 TTCAAAGTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 2 0.07
14 23 0.85
15 2 0.07
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.22
Consensus pattern (14 bp):
ATTCAAAACCCAAA
Found at i:78633514 original size:6 final size:6
Alignment explanation
Indices: 78633470--78633513 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
78633460 AATAAAAGCA
**
78633470 AAAACC AAAACC AAAACC AAGCCC AAAA-C AAAACC AAAA-C AAAA
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAA
78633514 AACTTAGTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
5 10 0.30
6 23 0.70
ACGTcount: A:0.68, C:0.30, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:78633514 original size:12 final size:12
Alignment explanation
Indices: 78633470--78633513 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
78633460 AATAAAAGCA
78633470 AAAACCAAAACC
1 AAAACCAAAACC
**
78633482 AAAACCAAGCCC
1 AAAACCAAAACC
78633494 AAAA-CAAAACC
1 AAAACCAAAACC
78633505 AAAA-CAAAA
1 AAAACCAAAA
78633514 AACTTAGTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 14 0.50
12 14 0.50
ACGTcount: A:0.68, C:0.30, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAACCAAAACC
Found at i:78633914 original size:133 final size:133
Alignment explanation
Indices: 78633676--78633926 Score: 448
Period size: 133 Copynumber: 1.9 Consensus size: 133
78633666 AGCCCAATGC
*
78633676 ACATGCAAAATCATAATATCATATATTCATATTACATAATTGAACCAAATAGCTTATCAAAACAG
1 ACATGCAAAATCATAATATCATATATTCATATTACACAATTGAACCAAATAGCTTATCAAAACAG
78633741 ATAACAAAATAAGTATAACACACATGATTTACAAAATAGTCATGCTTAACTCACCCCAATGTACA
66 ATAACAAAATAAGTATAACACACATGATTTACAAAATAGTCATGCTTAACTCACCCCAATGTACA
78633806 TGG
131 TGG
* * * *
78633809 ACATGCAGAATCATAATATCATATGTTCATATTACACAATTGAATCAATTAGCTTATCAAAACAG
1 ACATGCAAAATCATAATATCATATATTCATATTACACAATTGAACCAAATAGCTTATCAAAACAG
*
78633874 ATAATAAAATAAGTATAACACACATGATTTACAAAATAGTCATGCTTAACTCA
66 ATAACAAAATAAGTATAACACACATGATTTACAAAATAGTCATGCTTAACTCA
78633927 TGTACCTACT
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 112 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (133 bp):
ACATGCAAAATCATAATATCATATATTCATATTACACAATTGAACCAAATAGCTTATCAAAACAG
ATAACAAAATAAGTATAACACACATGATTTACAAAATAGTCATGCTTAACTCACCCCAATGTACA
TGG
Found at i:78641464 original size:192 final size:192
Alignment explanation
Indices: 78641137--78641894 Score: 1318
Period size: 192 Copynumber: 3.9 Consensus size: 192
78641127 CGCCACAAGT
* * *
78641137 GGATGATCAGGGTAGTCTGGATCAAATTTTGGTTAAACACAAATCAAAATTAGAGAAAGAGAAGA
1 GGATGATCAGGGTAGTCTGGACCAAATTTTAGTTAAACACAAATCAAAATTAGAAAAAGAGAAGA
* * * * * * * *
78641202 TGACAAGTTCTGAGCAAGCAAGCGAGCAAATTAGATTATCTGTATCTCGTAGAGAAGCAAGGGAG
66 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGACAAGCAAGGGAG
78641267 AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTAGAAAACTCCATTAAGCAACAGGTGGC
131 AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTAGAAAACTCCATTAAGCAACAGGTGGC
78641329 GGATGATCAGGGTAGTCTGGACCAAATTTTAGTTAAACACAAATCAAAATTAGAAAAAGAGAAGA
1 GGATGATCAGGGTAGTCTGGACCAAATTTTAGTTAAACACAAATCAAAATTAGAAAAAGAGAAGA
78641394 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGACAAGCAAGGGAG
66 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGACAAGCAAGGGAG
78641459 AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTAGAAAACTCCATTAAGCAACAGGTGGC
131 AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTAGAAAACTCCATTAAGCAACAGGTGGC
78641521 GGATGATCAGGGTAGTCTGGACCAAATTTTAGTTAAACACAAATCAAAATTAGAAAAAGAGAAGA
1 GGATGATCAGGGTAGTCTGGACCAAATTTTAGTTAAACACAAATCAAAATTAGAAAAAGAGAAGA
78641586 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGACAAGCAAGGGAG
66 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGACAAGCAAGGGAG
* *
78641651 AGAGAGTTGCAAGAAGCATGGGGCGGTTTAAGCTTAGGAAACTCCATTAAGCAACAGGTGGC
131 AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTAGAAAACTCCATTAAGCAACAGGTGGC
* * *
78641713 GGATGATCGGGGTAGTCTGGACCAAATTTTGGTTAAACACAAATCAAAATTAGAGAAAGAGAAGA
1 GGATGATCAGGGTAGTCTGGACCAAATTTTAGTTAAACACAAATCAAAATTAGAAAAAGAGAAGA
* *
78641778 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTCTATCTCGTAGAGAAGCAAGGGAG
66 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGACAAGCAAGGGAG
* * * *
78641843 AGAGAGTTGCAAGAAGCATGGGGAGGCCTAGGCTTAGGAAACTCCATTAAGC
131 AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTAGAAAACTCCATTAAGC
78641895 CACATTTATC
Statistics
Matches: 544, Mismatches: 22, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
192 544 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (192 bp):
GGATGATCAGGGTAGTCTGGACCAAATTTTAGTTAAACACAAATCAAAATTAGAAAAAGAGAAGA
TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGACAAGCAAGGGAG
AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTAGAAAACTCCATTAAGCAACAGGTGGC
Found at i:78644837 original size:133 final size:133
Alignment explanation
Indices: 78644596--78644962 Score: 626
Period size: 133 Copynumber: 2.8 Consensus size: 133
78644586 GGCCCAATGC
*
78644596 ACATGCAGGATCATAATATCATATGTTCATATTACATAATTGAATCAAATAGCTTATCAAAACAG
1 ACATGCAGAATCATAATATCATATGTTCATATTACATAATTGAATCAAATAGCTTATCAAAACAG
* *
78644661 ATAACAGAATAAGTATAACACACATGATTTACAAAATAGTCATGCTTAACTCACCCCAATGCACA
66 ATAACAGAATAAGTATAACACACATGATTTACAAAACAATCATGCTTAACTCACCCCAATGCACA
78644726 TGG
131 TGG
* *
78644729 ACATGTAGAATCATAATATCATAGGTTCATATTACATAATTGAATCAAATAGCTTATCAAAACAG
1 ACATGCAGAATCATAATATCATATGTTCATATTACATAATTGAATCAAATAGCTTATCAAAACAG
* *
78644794 ATAACAGAATAAGTATAACGCACATGATTTACAAAACAATCATGCTTAACTCACCTCAATGCACA
66 ATAACAGAATAAGTATAACACACATGATTTACAAAACAATCATGCTTAACTCACCCCAATGCACA
78644859 TGG
131 TGG
* * *
78644862 ACATGCAAAATCATAATATCATATGTTCATATTACATAACTGAATCAAATAGCTTATCAAATCAG
1 ACATGCAGAATCATAATATCATATGTTCATATTACATAATTGAATCAAATAGCTTATCAAAACAG
* *
78644927 ATAATAGAATAAGTATAACACACATGATTTAAAAAA
66 ATAACAGAATAAGTATAACACACATGATTTACAAAA
78644963 ATAGCCATGA
Statistics
Matches: 219, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 219 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (133 bp):
ACATGCAGAATCATAATATCATATGTTCATATTACATAATTGAATCAAATAGCTTATCAAAACAG
ATAACAGAATAAGTATAACACACATGATTTACAAAACAATCATGCTTAACTCACCCCAATGCACA
TGG
Found at i:78662703 original size:4 final size:4
Alignment explanation
Indices: 78662694--78662718 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
78662684 CTATAAACTC
78662694 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
78662719 TATAATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:78666007 original size:55 final size:56
Alignment explanation
Indices: 78665947--78666056 Score: 161
Period size: 54 Copynumber: 2.0 Consensus size: 56
78665937 TCTTACACGG
* *
78665947 ATCACATAACATACCGATGCCATATCCCAGATATGGTCTTATAC-GAAAT-CATATT
1 ATCACAT-ACACACCGATGCCATAGCCCAGATATGGTCTTATACGGAAATACATATT
* *
78666002 ATCACATTCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATACATAT
1 ATCACATACACACCGATGCCATAGCCCAGATATGGTCTTATACGGAAATACATAT
78666057 CACATCTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 32 0.65
55 12 0.24
56 5 0.10
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (56 bp):
ATCACATACACACCGATGCCATAGCCCAGATATGGTCTTATACGGAAATACATATT
Found at i:78673032 original size:27 final size:27
Alignment explanation
Indices: 78673002--78673055 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
78672992 CATAATTATG
*
78673002 ATTTCTGCTGTGTATATTTAACAGTGT
1 ATTTCTGCTATGTATATTTAACAGTGT
78673029 ATTTCTGCTATGTATATTTAACAGTGT
1 ATTTCTGCTATGTATATTTAACAGTGT
78673056 TACAAAGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (27 bp):
ATTTCTGCTATGTATATTTAACAGTGT
Found at i:78680438 original size:32 final size:32
Alignment explanation
Indices: 78680402--78680463 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
78680392 ACCTAAAAAT
78680402 AAATTCATTTCTTCGTCTATCAAAACCAACAC
1 AAATTCATTTCTTCGTCTATCAAAACCAACAC
78680434 AAATTCATTTCTTCGTCTATCAAAACCAAC
1 AAATTCATTTCTTCGTCTATCAAAACCAAC
78680464 GAATCTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.32
Consensus pattern (32 bp):
AAATTCATTTCTTCGTCTATCAAAACCAACAC
Found at i:78680921 original size:16 final size:17
Alignment explanation
Indices: 78680900--78680936 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
78680890 GAGTTAGATA
78680900 AAAACTT-TTAA-AATTG
1 AAAACTTATTAACAA-TG
78680916 AAAACTTATTAACAATG
1 AAAACTTATTAACAATG
78680933 AAAA
1 AAAA
78680937 ACAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 10 0.53
18 2 0.11
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (17 bp):
AAAACTTATTAACAATG
Found at i:78683452 original size:3 final size:3
Alignment explanation
Indices: 78683113--78683435 Score: 169
Period size: 3 Copynumber: 107.7 Consensus size: 3
78683103 ATTCCATTTC
*
78683113 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- GAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
78683160 T-T TCT TAT TAA TA- TAT TAT TAT TAT TATT TCT TTT TCT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * * * * *
78683204 TACGG TCT TAT TAT TAT TAC TAT TAC TAC TAT TTT TAGT T-T CAT TAG
1 TA--T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * *
78683251 TAT TAT TAT TAG CAT CCTAT T-T TAT TAT TAT TAT CACT T-T TGT AAT
1 TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * * *
78683297 TAC TAT TAC TAT T-T T-T TTT TCT TAT TAT TATT TAG CA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* ** * *
78683340 TAC TAT TAT TGC CAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
78683388 TAC TACT TTT TAC TAT TAT TAT TAC TAC TAT TAG TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
78683434 TA
1 TA
78683436 CTGTTTTCAT
Statistics
Matches: 242, Mismatches: 61, Indels: 34
0.72 0.18 0.10
Matches are distributed among these distances:
2 15 0.06
3 215 0.89
4 9 0.04
5 3 0.01
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:78683470 original size:14 final size:16
Alignment explanation
Indices: 78683445--78683478 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
78683435 ACTGTTTTCA
78683445 TTATTATTGTCAT-TT
1 TTATTATTGTCATATT
78683460 TTATT-TTGTCATATT
1 TTATTATTGTCATATT
78683475 TTAT
1 TTAT
78683479 GTTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (16 bp):
TTATTATTGTCATATT
Found at i:78683511 original size:12 final size:12
Alignment explanation
Indices: 78683483--78683531 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
78683473 TTTTATGTTT
*
78683483 TTATTTATTTAC
1 TTATTTATTTGC
*
78683495 CTATTTATTTGC
1 TTATTTATTTGC
*
78683507 TTATTTCACTTGTC
1 TTATTT-ATTTG-C
78683521 TTATTTATTTG
1 TTATTTATTTG
78683532 TTTAAATTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 15 0.50
13 8 0.27
14 7 0.23
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.63
Consensus pattern (12 bp):
TTATTTATTTGC
Found at i:78688661 original size:64 final size:64
Alignment explanation
Indices: 78688582--78688709 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
78688572 TCATTCATAA
* *
78688582 CACATCTAGTTAGGAGCATTTGATTTATTTCGATCATAGCATCCTAATTATTTGACACAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGACACAAGCAT
* * *
78688646 CACATCTAGTTAGGAGCATTTGATTCATTTCGATTATAGCATCCTAACTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGACACAAGCAT
78688710 AGATACATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGACACAAGCAT
Found at i:78688922 original size:86 final size:86
Alignment explanation
Indices: 78688761--78689601 Score: 1004
Period size: 86 Copynumber: 9.7 Consensus size: 86
78688751 GTGAATTCAC
*
78688761 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAGAATTACAGATCTTGTCTCCCTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT--GAATTACAGATCTTATCTCCCTAAGCAG
* * *
78688826 TAGTAGAGCAGATCGAAGATGGT
64 TAGTGGAGCAGATCGAAGACGAT
78688849 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCTCCCTAAGCAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCTCCCTAAGCAGTA
* *
78688914 GTGGAGCAGATCGAAGGCGGT
66 GTGGAGCAGATCGAAGACGAT
** * * *
78688935 GAGCCTTAACCCCCTAAATAGTAAGGTAACAGGCTGAATTACAGATATTGTCTCCCTAAGCAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCTCCCTAAGCAGTA
* *
78689000 GTGGAGCAGATCAAAGACGGT
66 GTGGAGCAGATCGAAGACGAT
* * **
78689021 GAGCCTTAACCTCCTAAGC-GATAGTGTAACAGGCTGGAAATTTTAGATCTTATCTCCCTAAGCA
1 GAGCCTTAACCCCCTAAGCAG-TAGGGTAACAGGCT-G-AATTACAGATCTTATCTCCCTAAGCA
** *
78689085 GTAGTGGAGTGGATCGAAGACAAT
63 GTAGTGGAGCAGATCGAAGACGAT
* * * * *
78689109 AAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCCGAATTACAGATCTTGTCACCCTAAGCAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCTCCCTAAGCAGTA
* * **
78689174 GTGGAACGGATCGAAGATAAT
66 GTGGAGCAGATCGAAGACGAT
* * * *
78689195 GGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTTCAGATCTTGTCTCTCTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG--AATTACAGATCTTATCTCCCTAAGCAG
**
78689260 TAGTGGAGCAGATCGAAGATAAT
64 TAGTGGAGCAGATCGAAGACGAT
* * * ** *
78689283 GGGCCTTAA-CCCCTAAGCAGTATGGTAACAGGTTGAAAATTTTAGATCTTATCTCTCTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG--AATTACAGATCTTATCTCCCTAAGCAG
* * *
78689347 TAGTGTAGCGGATCGAAGACAAT
64 TAGTGGAGCAGATCGAAGACGAT
* * * *
78689370 AAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTGAATTTATAGATCTTATCACCCTAAGCAGT
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAA-TTACAGATCTTATCTCCCTAAGCAGT
* * **
78689435 AGGGGAACAGATCGAAGGTGAT
65 AGTGGAGCAGATCGAAGACGAT
* *
78689457 GGGCTTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCTCCCTAAGCAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCTCCCTAAGCAGTA
** *
78689522 GTGGAGCAGATTAAAGACGGT
66 GTGGAGCAGATCGAAGACGAT
* * *
78689543 AAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTGGGAATTACAAATCTCT-TCTCCCT
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT--GAATTACAGATCT-TATCTCCCT
78689602 GAAATGGCGT
Statistics
Matches: 656, Mismatches: 86, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
85 1 0.00
86 301 0.46
87 152 0.23
88 200 0.30
89 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (86 bp):
GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACGAT
Found at i:78689082 original size:174 final size:173
Alignment explanation
Indices: 78688761--78689601 Score: 1026
Period size: 174 Copynumber: 4.8 Consensus size: 173
78688751 GTGAATTCAC
78688761 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAGAATTACAGATCTTGTCTCCCTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT--GAATTACAGATCTTGTCTCCCTAAGCAG
* * *
78688826 TAGTAGAGCAGATCGAAGATGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAATTA
64 TAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAATTT
* **
78688890 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCGGT
129 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAAT
** * *
78688935 GAGCCTTAACCCCCTAAATAGTAAGGTAACAGGCTGAATTACAGATATTGTCTCCCTAAGCAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTGTCTCCCTAAGCAGTA
* * *
78689000 GTGGAGCAGATCAAAGACGGTGAGCCTTAACCTCCTAAGC-GATAGTGTAACAGGCTGGAAATTT
66 GTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAG-TAGGGTAACAGGCTGG-AATTT
* **
78689064 TAGATCTTATCTCCCTAAGCAGTAGTGGAGTGGATCGAAGACAAT
129 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAAT
* * * *
78689109 AAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCCGAATTACAGATCTTGTCACCCTAAGCAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTGTCTCCCTAAGCAGTA
* * *** * *
78689174 GTGGAACGGATCGAAGATAATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTTC
66 GTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-GAATTTC
* * *
78689239 AGATCTTGTCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATAAT
130 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAAT
* * * ** * *
78689283 GGGCCTTAA-CCCCTAAGCAGTATGGTAACAGGTTGAAAATTTTAGATCTTATCTCTCTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG--AATTACAGATCTTGTCTCCCTAAGCAG
* * ** * *
78689347 TAGTGTAGCGGATCGAAGACAATAAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCT-GAATTT
64 TAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAATTT
* * * * ***
78689411 ATAGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGGTGAT
129 -CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAAT
* * *
78689457 GGGCTTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCTCCCTAAGCAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTGTCTCCCTAAGCAGTA
** * * *
78689522 GTGGAGCAGATTAAAGACGGTAAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTGGGAATTAC
66 GTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GGAATTTC
*
78689587 AAATCTCT-TCTCCCT
130 AGATCT-TATCTCCCT
78689602 GAAATGGCGT
Statistics
Matches: 571, Mismatches: 84, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
171 1 0.00
172 78 0.14
173 102 0.18
174 285 0.50
175 105 0.18
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (173 bp):
GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTGTCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAATTTCA
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAAT
Found at i:78689225 original size:260 final size:259
Alignment explanation
Indices: 78688761--78689584 Score: 1141
Period size: 260 Copynumber: 3.2 Consensus size: 259
78688751 GTGAATTCAC
** *
78688761 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAGAATTACAGATCTTGTCTCCCTAAGCA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGA-AATTTTAGATCTTATCTCCCTAAGCA
* * *** *
78688825 GTAGTAGAGCAGATCGAAGATGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTA
65 GTAGTGGAGCGGATCGAAGACAATAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTA
* * * * * **
78688890 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCGGTGAGCCTTAACCCCCTAAATA
129 CAGATCTTATCACCCTAAGCAGTAGTGGAACAGATCGAAGGTGATGGGCCTTAACCCCCTAAGCA
* *
78688955 GTAAGGTAACAGGCTGAATTACAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
194 GTAGGGTAACAGGCTGAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
78689020 T
259 T
* *
78689021 GAGCCTTAACCTCCTAAGC-GATAGTGTAACAGGCTGGAAATTTTAGATCTTATCTCCCTAAGCA
1 GAGCCTTAACCCCCTAAGCAG-TAGGGTAACAGGCTGGAAATTTTAGATCTTATCTCCCTAAGCA
* *
78689085 GTAGTGGAGTGGATCGAAGACAATAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCCGAATTA
65 GTAGTGGAGCGGATCGAAGACAATAAGCCTTAACCC-CTAAGCAGTAGGGTAACAGGCTGAATTA
* * * *
78689150 CAGATCTTGTCACCCTAAGCAGTAGTGGAACGGATCGAAGATAATGGGCCTTAACCCCCTAAGCA
129 CAGATCTTATCACCCTAAGCAGTAGTGGAACAGATCGAAGGTGATGGGCCTTAACCCCCTAAGCA
* * * *
78689215 GTAGGGTAACAGGCTGAAAATTTCAGATCTTGTCTCTCTAAGCAGTAGTGGAGCAGATCGAAGAT
194 GTAGGGTAACAGGCTG--AATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
**
78689280 AAT
257 GGT
* * * * *
78689283 GGGCCTTAA-CCCCTAAGCAGTATGGTAACAGGTTGAAAATTTTAGATCTTATCTCTCTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTTTAGATCTTATCTCCCTAAGCAG
*
78689347 TAGTGTAGCGGATCGAAGACAATAAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTGAATTTA
66 TAGTGGAGCGGATCGAAGACAATAAGCCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAA-TTA
* * *
78689412 TAGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGGTGATGGGCTTTAACCCCCTAAGCA
129 CAGATCTTATCACCCTAAGCAGTAGTGGAACAGATCGAAGGTGATGGGCCTTAACCCCCTAAGCA
* *
78689477 GTAGGGTAACAGGCTGAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACGG
194 GTAGGGTAACAGGCTGAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
78689542 T
259 T
* * *
78689543 AAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTGGGAATT
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATT
78689585 ACAAATCTCT
Statistics
Matches: 491, Mismatches: 64, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
259 4 0.01
260 226 0.46
261 132 0.27
262 129 0.26
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (259 bp):
GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTTTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCGGATCGAAGACAATAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACA
GATCTTATCACCCTAAGCAGTAGTGGAACAGATCGAAGGTGATGGGCCTTAACCCCCTAAGCAGT
AGGGTAACAGGCTGAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGT
Found at i:78689745 original size:85 final size:85
Alignment explanation
Indices: 78689636--78689792 Score: 224
Period size: 85 Copynumber: 1.8 Consensus size: 85
78689626 GCCACAGCAG
* * *
78689636 ATCTCCTTAAAGTTTCAGCAGAGTAGATTGAAGTCACAAATCTTATCTCCCTGAAGTTGCAGTAG
1 ATCTCCCTAAAGTTGCAGCAGAGTAGATTGAAGTCACAAATCTTATCTCCCTAAAGTTGCAGTAG
78689701 AGCAAATCAAAACAAACCTA
66 AGCAAATCAAAACAAACCTA
** * * * * *
78689721 ATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTTACTAGTCTTATCTCCCTAAAGTTGCAGTGG
1 ATCTCCCTAAAGTTGCAGCAGAGTAGATTGAAGTCACAAATCTTATCTCCCTAAAGTTGCAGTAG
78689786 AGCAAAT
66 AGCAAAT
78689793 AGAAGATAGC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 62 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (85 bp):
ATCTCCCTAAAGTTGCAGCAGAGTAGATTGAAGTCACAAATCTTATCTCCCTAAAGTTGCAGTAG
AGCAAATCAAAACAAACCTA
Found at i:78689956 original size:55 final size:55
Alignment explanation
Indices: 78689872--78689983 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 55
78689862 ATCTCTCTGA
*
78689872 AGTTGCAGTAGAACAGGTCAAAACAAACCTTATCTCCCTGAAGTTACAGTGGAGC
1 AGTTGCAGTAGAACAGATCAAAACAAACCTTATCTCCCTGAAGTTACAGTGGAGC
* * *
78689927 AGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTTCCTGAAGTTGCAGTGGAGC
1 AGTTGCAGTAGAACAGATCAAAACAAACCTTATCTCCCTGAAGTTACAGTGGAGC
78689982 AG
1 AG
78689984 GTTGAAGTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (55 bp):
AGTTGCAGTAGAACAGATCAAAACAAACCTTATCTCCCTGAAGTTACAGTGGAGC
Found at i:78690034 original size:44 final size:45
Alignment explanation
Indices: 78689927--78690064 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 45
78689917 ACAGTGGAGC
* * * * *
78689927 AGTTGCAGTAGAGCAGA-TCAA-A-A-CAAACCTTATCTTCCTGA
1 AGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAA
** * * *
78689968 AGTTGCAGTGGAGCAGGTTGAAGTTAG-TAGTCTTATCTCCCTAA
1 AGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAA
* *
78690012 AGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATTTCCCTAA
1 AGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAA
*
78690057 AATTGCAG
1 AGTTGCAG
78690065 CGAAGCATAT
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
41 15 0.20
42 3 0.04
44 36 0.48
45 21 0.28
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (45 bp):
AGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAA
Found at i:78690153 original size:28 final size:28
Alignment explanation
Indices: 78690113--78690169 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
78690103 TTGCATGAAG
*
78690113 TGGATCGAAGCAACAAGACGCAGTGGAC
1 TGGATCCAAGCAACAAGACGCAGTGGAC
*
78690141 TGGATCCAAGCAACAAGACGTAGTGGAC
1 TGGATCCAAGCAACAAGACGCAGTGGAC
78690169 T
1 T
78690170 AGAACGAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.30, T:0.14
Consensus pattern (28 bp):
TGGATCCAAGCAACAAGACGCAGTGGAC
Found at i:78691131 original size:15 final size:15
Alignment explanation
Indices: 78691109--78691207 Score: 119
Period size: 15 Copynumber: 6.5 Consensus size: 15
78691099 TTATTTAGCA
78691109 TATTATTACTATTAT
1 TATTATTACTATTAT
78691124 T-TTCATTACTATTAT
1 TATT-ATTACTATTAT
*
78691139 TATTATTATTATTAT
1 TATTATTACTATTAT
*
78691154 TATTATTATTATTAT
1 TATTATTACTATTAT
* *
78691169 TACTTTTTACTATTAC
1 TA-TTATTACTATTAT
* *
78691185 TATTACTACTATTAG
1 TATTATTACTATTAT
78691200 TATTATTA
1 TATTATTA
78691208 TTACTGTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
14 2 0.03
15 57 0.78
16 14 0.19
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (15 bp):
TATTATTACTATTAT
Found at i:78691227 original size:3 final size:3
Alignment explanation
Indices: 78691109--78691210 Score: 107
Period size: 3 Copynumber: 33.7 Consensus size: 3
78691099 TTATTTAGCA
* *
78691109 TAT TAT TAC TAT TAT T-T TCAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
78691154 TAT TAT TAT TAT TAT TACT TTT TAC TAT TAC TAT TAC TAC TAT TAG
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
78691200 TAT TAT TAT TA
1 TAT TAT TAT TA
78691211 CTGTTTTCAT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
2 2 0.02
3 76 0.93
4 4 0.05
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:78691245 original size:14 final size:16
Alignment explanation
Indices: 78691220--78691253 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
78691210 ACTGTTTTCA
78691220 TTATTATTGTCAT-TT
1 TTATTATTGTCATATT
78691235 TTATT-TTGTCATATT
1 TTATTATTGTCATATT
78691250 TTAT
1 TTAT
78691254 GTTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (16 bp):
TTATTATTGTCATATT
Found at i:78691286 original size:12 final size:12
Alignment explanation
Indices: 78691258--78691306 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
78691248 TTTTATGTTT
*
78691258 TTATTTATTTAC
1 TTATTTATTTGC
*
78691270 CTATTTATTTGC
1 TTATTTATTTGC
*
78691282 TTATTTCACTTTTC
1 TTATTT-A-TTTGC
78691296 TTATTTATTTG
1 TTATTTATTTG
78691307 TTTAAATTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 18 0.60
13 2 0.07
14 10 0.33
ACGTcount: A:0.18, C:0.12, G:0.04, T:0.65
Consensus pattern (12 bp):
TTATTTATTTGC
Found at i:78697349 original size:16 final size:16
Alignment explanation
Indices: 78697328--78697358 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
78697318 AACTTATTTA
78697328 TTAAATTAATTTTAAC
1 TTAAATTAATTTTAAC
78697344 TTAAATTAATTTTAA
1 TTAAATTAATTTTAA
78697359 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAATTAATTTTAAC
Found at i:78699448 original size:20 final size:21
Alignment explanation
Indices: 78699404--78699458 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
78699394 CAATTATTAT
**
78699404 AAAAATATAAAAATATA-TTA
1 AAAAATATAAAAATATAGAAA
*
78699424 GAAAATATAAAAATATAGAAA
1 AAAAATATAAAAATATAGAAA
78699445 AAAAATATAGAAAA
1 AAAAATATA-AAAA
78699459 ATATTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 16 0.55
21 9 0.31
22 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAAATATAAAAATATAGAAA
Found at i:78699450 original size:13 final size:13
Alignment explanation
Indices: 78699432--78699459 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
78699422 TAGAAAATAT
78699432 AAAAATATAGAAA
1 AAAAATATAGAAA
78699445 AAAAATATAGAAA
1 AAAAATATAGAAA
78699458 AA
1 AA
78699460 TATTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAATATAGAAA
Found at i:78699520 original size:22 final size:22
Alignment explanation
Indices: 78699495--78699588 Score: 84
Period size: 23 Copynumber: 4.1 Consensus size: 22
78699485 AATTTTTCTT
78699495 AAAAA-TATTATAAAAATCATAAA
1 AAAAATTATTAT-AAAAT-ATAAA
78699518 AAAAATTATTATAAAATATAAAA
1 AAAAATTATTATAAAATAT-AAA
* *
78699541 ATAGGAAATTATTA-AAAATGTATA
1 A-A--AAATTATTATAAAATATAAA
* *
78699565 GAAAATTATTGTAAAATATAAA
1 AAAAATTATTATAAAATATAAA
78699587 AA
1 AA
78699589 TATAAGACAT
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
21 8 0.14
22 11 0.19
23 15 0.26
24 9 0.16
25 6 0.10
26 9 0.16
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (22 bp):
AAAAATTATTATAAAATATAAA
Found at i:78704915 original size:20 final size:20
Alignment explanation
Indices: 78704890--78704927 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
78704880 TATATTTGAA
78704890 ATGTTA-CGTTTTAGTCACTT
1 ATGTTATCGTTTT-GTCACTT
78704910 ATGTTATCGTTTTGTCAC
1 ATGTTATCGTTTTGTCAC
78704928 GAAGTAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (20 bp):
ATGTTATCGTTTTGTCACTT
Found at i:78705903 original size:18 final size:18
Alignment explanation
Indices: 78705882--78705920 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
78705872 AATTATATAT
* *
78705882 ATTTTATAAATTTTTAAA
1 ATTTTATAAAATTTAAAA
*
78705900 ATTTTTTAAAATTTAAAA
1 ATTTTATAAAATTTAAAA
78705918 ATT
1 ATT
78705921 ATTTCGAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTATAAAATTTAAAA
Found at i:78706307 original size:20 final size:20
Alignment explanation
Indices: 78706282--78706321 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
78706272 ACACTCCAGC
78706282 CCTTACCCTTTTGCTAGAGT
1 CCTTACCCTTTTGCTAGAGT
78706302 CCTTACCCTTTTGCTAGAGT
1 CCTTACCCTTTTGCTAGAGT
78706322 TTTTGTAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.30, G:0.15, T:0.40
Consensus pattern (20 bp):
CCTTACCCTTTTGCTAGAGT
Found at i:78708647 original size:40 final size:40
Alignment explanation
Indices: 78708587--78708665 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
78708577 AATTAAAATC
78708587 GGTGGTTGCATACTACTACTGCAATCATGGGTGTGGTACT
1 GGTGGTTGCATACTACTACTGCAATCATGGGTGTGGTACT
* * **
78708627 GGTGGTTGCATGCTATTACTGCTGTCATGGGTGTGGTAC
1 GGTGGTTGCATACTACTACTGCAATCATGGGTGTGGTAC
78708666 CAACTGTCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.16, C:0.16, G:0.33, T:0.34
Consensus pattern (40 bp):
GGTGGTTGCATACTACTACTGCAATCATGGGTGTGGTACT
Found at i:78710528 original size:23 final size:22
Alignment explanation
Indices: 78710483--78710536 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
78710473 AATAGTATTG
78710483 ATTTTTTTTTTCAATTCTCAAT
1 ATTTTTTTTTTCAATTCTCAAT
*
78710505 ATTTATTTTTTATCCATTCT-AAT
1 ATTT-TTTTTT-TCAATTCTCAAT
78710528 ATTTTTTTT
1 ATTTTTTTT
78710537 CTCTCTCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 9 0.31
23 13 0.45
24 7 0.24
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTTTTTTTCAATTCTCAAT
Found at i:78710956 original size:29 final size:28
Alignment explanation
Indices: 78710916--78710970 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
78710906 CTTTATGTAT
*
78710916 AATTATGTTATTAGTTATTACAATTTATA
1 AATTATGCTATTAGTTATTAC-ATTTATA
78710945 AATTATGCTATTAGTTATTACATTTA
1 AATTATGCTATTAGTTATTACATTTA
78710971 ACATAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.51
Consensus pattern (28 bp):
AATTATGCTATTAGTTATTACATTTATA
Found at i:78712303 original size:32 final size:32
Alignment explanation
Indices: 78712262--78712325 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
78712252 TTGGGTGGAG
78712262 GGTTTTGTTGCTGAGGTTCTCTTCCTGATTTT
1 GGTTTTGTTGCTGAGGTTCTCTTCCTGATTTT
78712294 GGTTTTGTTGCTGAGGTTCTCTTCCTGATTTT
1 GGTTTTGTTGCTGAGGTTCTCTTCCTGATTTT
78712326 AACTCTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.06, C:0.16, G:0.25, T:0.53
Consensus pattern (32 bp):
GGTTTTGTTGCTGAGGTTCTCTTCCTGATTTT
Found at i:78718548 original size:21 final size:21
Alignment explanation
Indices: 78718523--78718577 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
78718513 GCATGTATAT
*
78718523 GTGTGTGTATATATATACACA
1 GTGTGTGTGTATATATACACA
*
78718544 GTGTGTGTGTGTATATACACA
1 GTGTGTGTGTATATATACACA
78718565 GTGTGTGTGTATA
1 GTGTGTGTGTATA
78718578 GCCCTTCAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.40
Consensus pattern (21 bp):
GTGTGTGTGTATATATACACA
Found at i:78718571 original size:19 final size:20
Alignment explanation
Indices: 78718534--78718577 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
78718524 TGTGTGTATA
78718534 TATATACACAGTGTGTGTGTG
1 TATATACACAG-GTGTGTGTG
78718555 TATATACACA-GTGTGTGTG
1 TATATACACAGGTGTGTGTG
78718574 TATA
1 TATA
78718578 GCCCTTCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.57
21 10 0.43
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (20 bp):
TATATACACAGGTGTGTGTG
Found at i:78721877 original size:51 final size:51
Alignment explanation
Indices: 78721822--78721957 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
78721812 TGGAAACATG
* *
78721822 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATAAGATAGGTA
* * ** * *
78721873 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATAGGTA
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATAAGATAGGTA
** * *
78721924 ATCTTTGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGAT
78721958 TTGATTGTAG
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (51 bp):
ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATAAGATAGGTA
Found at i:78724580 original size:86 final size:86
Alignment explanation
Indices: 78724435--78724605 Score: 297
Period size: 86 Copynumber: 2.0 Consensus size: 86
78724425 TGAGAATAGC
* * * *
78724435 CGAAGGGGATGAGCCCAAGACAGCCTGTGTAACTAGGTATGGGTCCTTTGAGTTCTTGGTGATGT
1 CGAAGGGGATGAACCCAAGACAACCTGTGTAACTAGGTATGGGTCCTTTGAGTTCTTGGTAATGC
78724500 CATTCGGGTTGACAAATGCTT
66 CATTCGGGTTGACAAATGCTT
*
78724521 CGAAGGGGATGAACCCAAGACAATCTGTGTAACTAGGTATGGGTCCTTTGAGTTCTTGGTAATGC
1 CGAAGGGGATGAACCCAAGACAACCTGTGTAACTAGGTATGGGTCCTTTGAGTTCTTGGTAATGC
78724586 CATTCGGGTTGACAAATGCT
66 CATTCGGGTTGACAAATGCT
78724606 CCGGCCACAT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (86 bp):
CGAAGGGGATGAACCCAAGACAACCTGTGTAACTAGGTATGGGTCCTTTGAGTTCTTGGTAATGC
CATTCGGGTTGACAAATGCTT
Found at i:78727165 original size:51 final size:51
Alignment explanation
Indices: 78727110--78727245 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
78727100 TGGAAACATG
* * *
78727110 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAAATAAGATAGGTA
* * ** * *
78727161 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAAATAAGATAGGTA
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAAATAAGATAGGTA
* * *
78727212 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTAAAAGATATAATTTTATAATCTTAGAGAT
78727246 TTGATTGTAG
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (51 bp):
ATCTTAAAAGATATAATTTTATAATCTTAGAGATCTTAAATAAGATAGGTA
Found at i:78727971 original size:21 final size:21
Alignment explanation
Indices: 78727926--78727964 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
78727916 AACTTGTAAG
*
78727926 AATT-TTAAAAATTAGTAAAA
1 AATTATTAAAAAGTAGTAAAA
78727946 AATTATTAAAAAGTA-TAAA
1 AATTATTAAAAAGTAGTAAA
78727965 TATATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
AATTATTAAAAAGTAGTAAAA
Found at i:78738031 original size:26 final size:26
Alignment explanation
Indices: 78737972--78738031 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
78737962 AACTCATTTA
* *
78737972 AAAATATATTAAATTAAAATTTAGAT
1 AAAATATTTTAAATTAAAATATAGAT
*
78737998 AAAATATTTTAAATTAATATATAGAT
1 AAAATATTTTAAATTAAAATATAGAT
78738024 AAAATATT
1 AAAATATT
78738032 GAATTCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (26 bp):
AAAATATTTTAAATTAAAATATAGAT
Found at i:78740932 original size:13 final size:13
Alignment explanation
Indices: 78740914--78740945 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
78740904 TTTCCAGCAA
78740914 TTATGAATTTATT
1 TTATGAATTTATT
78740927 TTATGAATTTATT
1 TTATGAATTTATT
*
78740940 TGATGA
1 TTATGA
78740946 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:78741120 original size:50 final size:50
Alignment explanation
Indices: 78741040--78741224 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
78741030 ATTTGGGTAA
*
78741040 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
78741090 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
78741140 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
78741190 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
78741225 TTTGGCATGT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.26, C:0.24, G:0.33, T:0.17
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:78742384 original size:60 final size:60
Alignment explanation
Indices: 78742287--78742405 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
78742277 GTACTAATTG
* *
78742287 GCTGAACCAAAAATTCTAAAACTTTTATGGTGTGTAGATATATGAGTCTAGTTTCAGGGT
1 GCTGAACCAAAAATTCTAAAAATTTTATGGTGAGTAGATATATGAGTCTAGTTTCAGGGT
78742347 GCTGAACCAAAAATTCTAAAAATTTTATGGTGAGTAGATATATGAGTCTAGTTTCAGGG
1 GCTGAACCAAAAATTCTAAAAATTTTATGGTGAGTAGATATATGAGTCTAGTTTCAGGG
78742406 AAAATTTACG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.34
Consensus pattern (60 bp):
GCTGAACCAAAAATTCTAAAAATTTTATGGTGAGTAGATATATGAGTCTAGTTTCAGGGT
Found at i:78742726 original size:101 final size:101
Alignment explanation
Indices: 78742551--78742747 Score: 367
Period size: 101 Copynumber: 2.0 Consensus size: 101
78742541 GATAAGCTAA
*
78742551 GTAATGCCTCGTGCTCGACTCCGGAAACGGTCTCGGGTAAGGGGTGTTACATTTTGTTGGTATCA
1 GTAATGCCTCGTGCTCGACTCCGGAAACGGTCTCGGGTAAGGGGTGTTACATTTTATTGGTATCA
* *
78742616 GAGCAGGTTTAGTCGGTTCTTGGAATTACTCGGTAT
66 GAGCAGGTTTAGTCGGTTCTCGGAAATACTCGGTAT
78742652 GTAATGCCTCGTGCTCGACTCCGGAAACGGTCTCGGGTAAGGGGTGTTACATTTTATTGGTATCA
1 GTAATGCCTCGTGCTCGACTCCGGAAACGGTCTCGGGTAAGGGGTGTTACATTTTATTGGTATCA
78742717 GAGCAGGTTTAGTCGGTTCTCGGAAATACTC
66 GAGCAGGTTTAGTCGGTTCTCGGAAATACTC
78742748 AGTAAGAATA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 93 1.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (101 bp):
GTAATGCCTCGTGCTCGACTCCGGAAACGGTCTCGGGTAAGGGGTGTTACATTTTATTGGTATCA
GAGCAGGTTTAGTCGGTTCTCGGAAATACTCGGTAT
Done.