Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 261 of 770
Found at i:78415319 original size:21 final size:21
Alignment explanation
Indices: 78415293--78415334 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
78415283 AGTAAAAAAA
*
78415293 ATTAATTTCACATTAGAAATT
1 ATTAATATCACATTAGAAATT
*
78415314 ATTAATATCCCATTAGAAATT
1 ATTAATATCACATTAGAAATT
78415335 TTAGTATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (21 bp):
ATTAATATCACATTAGAAATT
Found at i:78421313 original size:25 final size:25
Alignment explanation
Indices: 78421298--78421364 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
78421288 GTCATAATCT
*
78421298 AATTCCTAATTTAAAGTCCTAGTAG
1 AATTCCTAATTTAAAGTCCTAATAG
78421323 AATTCCTAATTTAAAGTCCTAATAG
1 AATTCCTAATTTAAAGTCCTAATAG
78421348 AATTCCTAATTTAAAGT
1 AATTCCTAATTTAAAGT
78421365 TTATAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (25 bp):
AATTCCTAATTTAAAGTCCTAATAG
Found at i:78421344 original size:13 final size:13
Alignment explanation
Indices: 78421301--78421364 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
78421291 ATAATCTAAT
78421301 TCCTAATTTAAAG
1 TCCTAATTTAAAG
* *
78421314 TCCT-A-GTAGAAT
1 TCCTAATTTA-AAG
78421326 TCCTAATTTAAAG
1 TCCTAATTTAAAG
*
78421339 TCCTAA--TAGAAT
1 TCCTAATTTA-AAG
78421351 TCCTAATTTAAAG
1 TCCTAATTTAAAG
78421364 T
1 T
78421365 TTATAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
11 4 0.10
12 15 0.38
13 16 0.41
14 4 0.10
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (13 bp):
TCCTAATTTAAAG
Found at i:78424749 original size:29 final size:29
Alignment explanation
Indices: 78424716--78424876 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
78424706 GTGACGAGAT
78424716 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
78424745 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
78424774 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
78424803 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
78424832 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
78424861 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
78424877 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:78439435 original size:20 final size:22
Alignment explanation
Indices: 78439398--78439444 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
78439388 TTTAGGGATG
78439398 ATTTTCTTCTCAATTCTTTATT
1 ATTTTCTTCTCAATTCTTTATT
78439420 ATTTTCTT-TC-ATTCTTTATT
1 ATTTTCTTCTCAATTCTTTATT
*
78439440 GTTTT
1 ATTTT
78439445 TGGTAGCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 14 0.58
21 2 0.08
22 8 0.33
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.68
Consensus pattern (22 bp):
ATTTTCTTCTCAATTCTTTATT
Found at i:78440562 original size:89 final size:89
Alignment explanation
Indices: 78440395--78440565 Score: 220
Period size: 89 Copynumber: 1.9 Consensus size: 89
78440385 GTCCGCTGGG
* * * * *
78440395 ACAGTAAATACAAAACAAAGATAGTCTGCTGGGAAAGTAAACATAGATAAAGTCCACCGAGATAG
1 ACAGTAAACACAAAACAAAGATAGTCTGCTGAGAAAATAAACATAAATAAAGTCCACCGAGACAG
*
78440460 TAAACACGGGTTAAGTCCACTAGA
66 TAAACACGAGTTAAGTCCACTAGA
* *
78440484 ACAGTAAACATAAAACAAAGATAGTCTGCT-AGAATAATAAACATAAATAAAGTCCGCC-AGGAC
1 ACAGTAAACACAAAACAAAGATAGTCTGCTGAGAA-AATAAACATAAATAAAGTCCACCGA-GAC
* *
78440547 AGTAAATATGAGTTAAGTC
64 AGTAAACACGAGTTAAGTC
78440566 TGTCGGGAGA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
88 4 0.06
89 66 0.94
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (89 bp):
ACAGTAAACACAAAACAAAGATAGTCTGCTGAGAAAATAAACATAAATAAAGTCCACCGAGACAG
TAAACACGAGTTAAGTCCACTAGA
Found at i:78445678 original size:30 final size:30
Alignment explanation
Indices: 78445623--78445841 Score: 324
Period size: 29 Copynumber: 7.5 Consensus size: 30
78445613 ATAGTGAATC
78445623 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
78445652 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
78445682 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
78445711 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
78445741 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
78445770 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * * *
78445798 CGCATACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
78445828 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78445842 CAATCTTGTC
Statistics
Matches: 176, Mismatches: 7, Indels: 13
0.90 0.04 0.07
Matches are distributed among these distances:
27 2 0.01
28 21 0.12
29 77 0.44
30 75 0.43
31 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:78445715 original size:59 final size:59
Alignment explanation
Indices: 78445623--78445791 Score: 338
Period size: 59 Copynumber: 2.9 Consensus size: 59
78445613 ATAGTGAATC
78445623 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
78445682 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
78445741 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAAT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAAT
78445792 CAAACTCGCA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 110 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:78450866 original size:19 final size:19
Alignment explanation
Indices: 78450842--78450934 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
78450832 AATAAATTAC
*
78450842 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
78450861 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
** * *
78450880 TGC-T-GGAATAAATT-A-T
1 T-CATCTTAGTTAATTAAGT
*
78450896 TCATGTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* *
78450915 TCATCATAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
78450934 T
1 T
78450935 GCTGGAATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
15 1 0.02
16 3 0.05
17 7 0.12
18 7 0.12
19 38 0.67
20 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:78450886 original size:54 final size:54
Alignment explanation
Indices: 78450816--78450944 Score: 213
Period size: 54 Copynumber: 2.4 Consensus size: 54
78450806 CTTAGTTCAA
* *
78450816 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCATAG
* *
78450870 TTAATTAAGTTGCTGGAATAAATTATTCATGTTAGTTAATTAAGTTCATCATAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCATAG
*
78450924 TTAATTTAGTTGCTGGAATAA
1 TTAATTAAGTTGCTGGAATAA
78450945 TTTAATGATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.43
Consensus pattern (54 bp):
TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCATAG
Found at i:78451024 original size:10 final size:9
Alignment explanation
Indices: 78450991--78451054 Score: 58
Period size: 9 Copynumber: 6.6 Consensus size: 9
78450981 TTTATTTAAG
78450991 TTAA-GTGT
1 TTAATGTGT
78450999 TTAATGTGT
1 TTAATGTGT
*
78451008 TTTATGTGT
1 TTAATGTGT
78451017 TTAAATGTGT
1 TT-AATGTGT
78451027 TTAATATGTCTGT
1 TT-A-ATG--TGT
78451040 TGTAATGTGT
1 T-TAATGTGT
78451050 TTAAT
1 TTAAT
78451055 TTCAAGTGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
8 4 0.08
9 18 0.38
10 14 0.29
11 3 0.06
12 3 0.06
13 5 0.10
14 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.20, T:0.55
Consensus pattern (9 bp):
TTAATGTGT
Found at i:78453190 original size:42 final size:43
Alignment explanation
Indices: 78453079--78453191 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 43
78453069 ATCTGACATG
** * * *
78453079 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATTGAATTC
1 TGATTTCGTGTAAGACCTTGTCTGGGACATCGGCATCGAATTC
* * *
78453122 T-ATTTTACATATAAGA-CTATGTCTGGGACATCGGCATCGTA-TC
1 TGA-TTT-CGTGTAAGACCT-TGTCTGGGACATCGGCATCGAATTC
78453165 TGATTTCGTGTAAGACCTTGTCTGGGA
1 TGATTTCGTGTAAGACCTTGTCTGGGA
78453192 TAGTGGCATC
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
42 17 0.31
43 13 0.24
44 25 0.45
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCTTGTCTGGGACATCGGCATCGAATTC
Found at i:78458718 original size:6 final size:6
Alignment explanation
Indices: 78458707--78458731 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
78458697 GGTTTTCTTC
78458707 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
78458732 CCTGAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:78461843 original size:33 final size:33
Alignment explanation
Indices: 78461806--78461890 Score: 134
Period size: 33 Copynumber: 2.6 Consensus size: 33
78461796 AATATGCAAA
* *
78461806 ACAGTTTGGGCTTTAGCCCTATATAGTATCAGT
1 ACAGTCTGGGCTTTAGCCCTATACAGTATCAGT
*
78461839 ACAGTCTGGGCCTTAGCCCTATACAGTATCAGT
1 ACAGTCTGGGCTTTAGCCCTATACAGTATCAGT
*
78461872 ACAGTCTGGGCTGTAGCCC
1 ACAGTCTGGGCTTTAGCCC
78461891 AGTGTGGGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (33 bp):
ACAGTCTGGGCTTTAGCCCTATACAGTATCAGT
Found at i:78462403 original size:27 final size:27
Alignment explanation
Indices: 78462370--78462458 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
78462360 CAAAATAGTC
*
78462370 ATTTTAC-CTTACAGGGGTATTTCAGTA
1 ATTTTACACTT-CAAGGGTATTTCAGTA
*
78462397 ATTTTACACTTCAAGGGTATTTTAGTA
1 ATTTTACACTTCAAGGGTATTTCAGTA
**
78462424 ATTTTACAAAC-T-AAGGGTATTTTGGTA
1 ATTTTAC--ACTTCAAGGGTATTTCAGTA
78462451 ATTTTACA
1 ATTTTACA
78462459 AACAGGGGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
25 1 0.02
27 49 0.88
28 4 0.07
29 2 0.04
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (27 bp):
ATTTTACACTTCAAGGGTATTTCAGTA
Found at i:78462442 original size:54 final size:54
Alignment explanation
Indices: 78462384--78462486 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
78462374 TACCTTACAG
**
78462384 GGGTATTTCAGTAATTTTACACTTCA-AGGGTATTTTAGTAATTTTACAAACTAA
1 GGGTATTTCAGTAATTTTACA-AACAGAGGGTATTTTAGTAATTTTACAAACTAA
** * *
78462438 GGGTATTTTGGTAATTTTACAAACAGGGGGTATTTTGGTAATTTTACAA
1 GGGTATTTCAGTAATTTTACAAACAGAGGGTATTTTAGTAATTTTACAA
78462487 TCTGGGGTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.05
54 40 0.95
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAGAGGGTATTTTAGTAATTTTACAAACTAA
Found at i:78462459 original size:27 final size:27
Alignment explanation
Indices: 78462384--78462486 Score: 122
Period size: 27 Copynumber: 3.8 Consensus size: 27
78462374 TACCTTACAG
*
78462384 GGGTATTTCAGTAATTTTAC--ACTTCAA
1 GGGTATTTTAGTAATTTTACAAAC-T-AA
78462411 GGGTATTTTAGTAATTTTACAAACTAA
1 GGGTATTTTAGTAATTTTACAAACTAA
* *
78462438 GGGTATTTTGGTAATTTTACAAAC-AGG
1 GGGTATTTTAGTAATTTTACAAACTA-A
*
78462465 GGGTATTTTGGTAATTTTACAA
1 GGGTATTTTAGTAATTTTACAA
78462487 TCTGGGGTCT
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
26 1 0.01
27 66 0.94
28 1 0.01
29 2 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACTAA
Found at i:78462725 original size:17 final size:18
Alignment explanation
Indices: 78462703--78462736 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78462693 ATCAATGTGA
78462703 GGCCCAC-GAGCCCATTG
1 GGCCCACAGAGCCCATTG
*
78462720 GGCCCACATAGCCCATT
1 GGCCCACAGAGCCCATT
78462737 TAGCCCAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.15
Consensus pattern (18 bp):
GGCCCACAGAGCCCATTG
Found at i:78465546 original size:39 final size:33
Alignment explanation
Indices: 78465450--78465575 Score: 172
Period size: 33 Copynumber: 4.0 Consensus size: 33
78465440 TATGCAAAAC
*
78465450 AGTCTGGGCTTTAGCCCTATACAGTATCAGTAA
1 AGTCTGGGCCTTAGCCCTATACAGTATCAGTAA
* *
78465483 AGTCTGGGCCTTAGCCCTATACAGTATGAGTAT
1 AGTCTGGGCCTTAGCCCTATACAGTATCAGTAA
*
78465516 AGTCTGGGCCTTAGCCCTATACAGTAACAGT--
1 AGTCTGGGCCTTAGCCCTATACAGTATCAGTAA
*
78465547 -G--TGGGCCTTAGCCCTATACAATATCAGTA
1 AGTCTGGGCCTTAGCCCTATACAGTATCAGTA
78465576 CAGTGTAATG
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
28 25 0.29
30 1 0.01
33 59 0.69
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (33 bp):
AGTCTGGGCCTTAGCCCTATACAGTATCAGTAA
Found at i:78466086 original size:33 final size:33
Alignment explanation
Indices: 78466007--78466088 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 33
78465997 ATTTAGCGCT
* * * *
78466007 ATACAGTATCAGTACAATCTAGGCCTTAGCCCT
1 ATACAGTATCAGTACAGTGTAGGCCTAAGCCCA
*
78466040 ATACAG--T-A--ACAGTGTGGGCCTAAGCCCA
1 ATACAGTATCAGTACAGTGTAGGCCTAAGCCCA
78466068 ATACAGTATCAGTACAGTGTA
1 ATACAGTATCAGTACAGTGTA
78466089 ATGCAATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
28 21 0.55
30 2 0.05
31 2 0.05
33 13 0.34
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (33 bp):
ATACAGTATCAGTACAGTGTAGGCCTAAGCCCA
Found at i:78466266 original size:27 final size:27
Alignment explanation
Indices: 78466231--78466295 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
78466221 AGCATAGCTG
*
78466231 CCAGAAACAGTAAATGTGACAAAGCCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
* * *
78466258 CCAGTAACAGTGAATGTGACATAGTCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
*
78466285 CAAGT-ACAGTA
1 CCAGTAACAGTA
78466296 CTTTCTCAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGACAAAGCCA
Found at i:78466516 original size:26 final size:26
Alignment explanation
Indices: 78466487--78466573 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
78466477 CAAAATAGTC
78466487 ATTTTACCCTAC-AGGGTATTTCGATA
1 ATTTTACCCTACAAGGGTATTTC-ATA
* *
78466513 ATTTTACACTTCAAGGGTATTTCAGTA
1 ATTTTACCCTACAAGGGTATTTCA-TA
** *
78466540 ATTTTA-CAAATCGAGGGTATTTCAATA
1 ATTTTACCCTA-CAAGGGTATTTC-ATA
78466567 ATTTTAC
1 ATTTTAC
78466574 AAATCAGGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
26 11 0.22
27 37 0.76
28 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (26 bp):
ATTTTACCCTACAAGGGTATTTCATA
Found at i:78466532 original size:27 final size:27
Alignment explanation
Indices: 78466499--78466599 Score: 123
Period size: 27 Copynumber: 3.7 Consensus size: 27
78466489 TTTACCCTAC
**
78466499 AGGGTATTTCGATAATTTTACACTTCA
1 AGGGTATTTCGATAATTTTACAAATCA
*
78466526 AGGGTATTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCA
*
78466553 AGGGTATTTCAATAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCA
* * *
78466580 GGGGTATTTTGGTAATTTTA
1 AGGGTATTTCGATAATTTTA
78466600 TAATCTGGGG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.02
27 62 0.97
28 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCA
Found at i:78468310 original size:40 final size:41
Alignment explanation
Indices: 78468261--78468446 Score: 152
Period size: 40 Copynumber: 4.6 Consensus size: 41
78468251 ATCTCGCTCG
* * *
78468261 ATTGTCTTCGGGACA-TAGCCC-GATTATAGTGATTCGCACA
1 ATTGCCTTCGGGACATTAGCCCGGATT-TAGTAACTCGCACA
*
78468301 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGTACA
1 ATTGCCTTCGGGACATTAGCCCGGATTTAGTAACTCGCACA
* * * * * *
78468341 AATGCCTTCGGGAC-TTAACTCGGTTTTGGTAACTCGCATA
1 ATTGCCTTCGGGACATTAGCCCGGATTTAGTAACTCGCACA
* * * *
78468381 AATGCCTTCGGGA-ATT-GACCCGAATTTAGTCACTTAGCACA
1 ATTGCCTTCGGGACATTAG-CCCGGATTTAGTAAC-TCGCACA
**
78468422 AAAGCCTTCGGGAC-TTAGCCCGGAT
1 ATTGCCTTCGGGACATTAGCCCGGAT
78468447 ACCATTCGAA
Statistics
Matches: 117, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
39 1 0.01
40 86 0.74
41 29 0.25
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (41 bp):
ATTGCCTTCGGGACATTAGCCCGGATTTAGTAACTCGCACA
Found at i:78470230 original size:18 final size:18
Alignment explanation
Indices: 78470207--78470253 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
78470197 ACGTGCGATC
78470207 ATACGCCTATATGGCATA
1 ATACGCCTATATGGCATA
* *
78470225 ATACGCCTATGTGGCATC
1 ATACGCCTATATGGCATA
78470243 ATACGCC-ATAT
1 ATACGCCTATAT
78470254 TTCCGGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (18 bp):
ATACGCCTATATGGCATA
Found at i:78475029 original size:40 final size:40
Alignment explanation
Indices: 78474981--78475186 Score: 308
Period size: 40 Copynumber: 5.2 Consensus size: 40
78474971 GAACTAAGAT
*
78474981 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
78475021 CCGAAGGCATTTGTGCTAATGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
78475061 TCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
78475101 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
78475141 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
78475180 CCGAAGG
1 CCGAAGG
78475187 TACTTGGGTT
Statistics
Matches: 154, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 14 0.09
40 138 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:78479066 original size:40 final size:40
Alignment explanation
Indices: 78479017--78479222 Score: 123
Period size: 40 Copynumber: 5.1 Consensus size: 40
78479007 TCGAATTTAA
* * *
78479017 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACA-TAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGA-ATTAGC
* * *
78479057 CCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* *** * *
78479097 CCGGATTTAATAACTCGCACGAA-TGCCTTCGGGACTTAAC
1 CCGGATATAGCGACTCGCAC-AATTGCCTTCGGGAATTAGC
* * * ** * *
78479137 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTT-GAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAG-C
* * ** *
78479177 CCGGATTTAGTC-ACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAG-CGAC-TCGCACAATTGCCTTCGGGAATTAGC
78479218 CCGGA
1 CCGGA
78479223 CACCATTCGA
Statistics
Matches: 135, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
39 3 0.02
40 103 0.76
41 28 0.21
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
Found at i:78479142 original size:80 final size:80
Alignment explanation
Indices: 78479029--78479221 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
78479019 GGATATAGCG
* * * * * * *
78479029 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
78479094 -AGCCCGGATTTAATA
66 GA-CCCGGATTTAATA
* * * *
78479109 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
* *
78479174 GACCCGGATTTAGTC
66 GACCCGGATTTAATA
* * *
78479189 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
78479222 ACACCATTCG
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 67 0.71
81 27 0.29
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAATA
Found at i:78479210 original size:41 final size:39
Alignment explanation
Indices: 78479071--78479222 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
78479061 TTATAGTGAT
* *
78479071 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAATAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * * *
78479111 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* *
78479151 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
78479191 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGA
78479223 CACCATTCGA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 67 0.71
41 27 0.29
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:78487141 original size:40 final size:39
Alignment explanation
Indices: 78487083--78487275 Score: 140
Period size: 40 Copynumber: 4.8 Consensus size: 39
78487073 GGATATAGCG
* * * *
78487083 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGTT-TAGTA
* *
78487123 ATTCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAATA
1 ACTCGCACAATTGCCTTCGGGACA-TAGCCCGG-TTTAGTA
* * *
78487163 ACTCGCACGAA-TGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCAC-AATTGCCTTCGGGACATAGCCCGG-TTTAGTA
* * * *
78487203 ACTCGCACAAATGCCTTCGGGA-GTTGACCCGGATTTAGTC
1 ACTCGCACAATTGCCTTCGGGACATAG-CCCGG-TTTAGTA
* ** *
78487243 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAATTGCCTTCGGGACATAGCCCGG
78487276 ACACCATTCG
Statistics
Matches: 123, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
39 4 0.03
40 90 0.73
41 27 0.22
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
ACTCGCACAATTGCCTTCGGGACATAGCCCGGTTTAGTA
Found at i:78487195 original size:80 final size:80
Alignment explanation
Indices: 78487083--78487275 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
78487073 GGATATAGCG
* * * * * * *
78487083 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
78487148 -AGCCCGGATTTAATA
66 GA-CCCGGATTTAATA
* * * *
78487163 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
* *
78487228 GACCCGGATTTAGTC
66 GACCCGGATTTAATA
* * *
78487243 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
78487276 ACACCATTCG
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 67 0.71
81 27 0.29
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAATA
Found at i:78487264 original size:41 final size:39
Alignment explanation
Indices: 78487125--78487276 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
78487115 TTATAGTGAT
* *
78487125 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAATAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * * *
78487165 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* *
78487205 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
78487245 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGA
78487277 CACCATTCGA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 67 0.71
41 27 0.29
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:78494293 original size:40 final size:40
Alignment explanation
Indices: 78494245--78494450 Score: 326
Period size: 40 Copynumber: 5.2 Consensus size: 40
78494235 GGACTAAGAT
*
78494245 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
78494285 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
78494325 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
78494365 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
78494405 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
78494444 CCGAAGG
1 CCGAAGG
78494451 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.09
40 142 0.90
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:78499987 original size:40 final size:40
Alignment explanation
Indices: 78499932--78500105 Score: 312
Period size: 40 Copynumber: 4.3 Consensus size: 40
78499922 TATTCGAATG
78499932 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
78499972 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
78500012 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
78500052 ATATCCGGGCTAAGTCCCGAAGGCTTTTTTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
78500092 ATATCCGGGCTAAG
1 ATATCCGGGCTAAG
78500106 ATATATCCGG
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:78508046 original size:46 final size:45
Alignment explanation
Indices: 78507987--78508109 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 45
78507977 CGTAGCCGAT
78507987 GCATGT-CTCAGACATGTCTTACACTGGCTTACGTCTCAAGGCTGAA
1 GCATGTCCT-AGACATGTCTTACACTGGCTT-CGTCTCAAGGCTGAA
* * * *
78508033 GCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATGCTGAT
1 GCATGTCCTAGACATGTCTTACACTGGC-TTCGTCTCAAGGCTGAA
* *
78508079 GCCATGTCCCAAACATGGTCTTACACTGGCT
1 G-CATGTCCTAGACAT-GTCTTACACTGGCT
78508110 CTCATAATGT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
46 38 0.58
47 15 0.23
48 12 0.18
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (45 bp):
GCATGTCCTAGACATGTCTTACACTGGCTTCGTCTCAAGGCTGAA
Found at i:78511539 original size:40 final size:40
Alignment explanation
Indices: 78511494--78511647 Score: 254
Period size: 40 Copynumber: 3.9 Consensus size: 40
78511484 CGGAATACAA
* * * *
78511494 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
78511534 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* *
78511574 CCAGATAGAACGACTTGCACAAATACCTTCGGGTCTTAGC
1 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
78511614 CCGGATAGAACGACTTGCACAAATGCCTTCGGGT
1 CCGGATAGAACGACTTGCACAAATGCCTTCGGGT
78511648 GTACAAGATA
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:78513579 original size:40 final size:39
Alignment explanation
Indices: 78513534--78513772 Score: 197
Period size: 40 Copynumber: 6.2 Consensus size: 39
78513524 CGGAATACAA
*
78513534 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCAC-AATGCCTTCGGGTCTTAGC
* * *
78513574 CCGGATAGAACGACTTGCACAA----AT---G-CTTAGC
1 CCGGATATAACCACTTGCACAATGCCTTCGGGTCTTAGC
* * *
78513605 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCAC-AATGCCTTCGGGTCTTAGC
* *
78513645 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCAC-AATGCCTTCGGGTCTTAGC
* ** * *
78513685 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAA-TGCCTTCGGGTCTTAGC
** * * * *
78513725 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCA-CAATGCCTTCGGGTCTTAGC
78513765 CCGGATAT
1 CCGGATAT
78513773 CATTCAATTG
Statistics
Matches: 164, Mismatches: 24, Indels: 22
0.78 0.11 0.10
Matches are distributed among these distances:
31 26 0.16
32 3 0.02
35 1 0.01
36 1 0.01
39 5 0.03
40 126 0.77
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTTGCACAATGCCTTCGGGTCTTAGC
Found at i:78513606 original size:31 final size:31
Alignment explanation
Indices: 78513568--78513630 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
78513558 GCCTTCGGGT
78513568 CTTAGCCCGGATAGAACGACTTGCACAAATG
1 CTTAGCCCGGATAGAACGACTTGCACAAATG
78513599 CTTAGCCCGGATAGAACGACTTGCACAAATG
1 CTTAGCCCGGATAGAACGACTTGCACAAATG
78513630 C
1 C
78513631 CTTCGGGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (31 bp):
CTTAGCCCGGATAGAACGACTTGCACAAATG
Found at i:78513650 original size:71 final size:71
Alignment explanation
Indices: 78513534--78513670 Score: 193
Period size: 71 Copynumber: 1.9 Consensus size: 71
78513524 CGGAATACAA
* * * *
78513534 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATAGAACCACATGCACAAATGCCTTCGGGTATTAGCCCGGATAGAACAACTTGCACAAATG
78513599 CTTAGC
66 CTTAGC
* * ** *
78513605 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCCGGATTTAACAACTTGCACGAATG
1 CCGGATAGAACCACATGCACAAATGCCTTCGGGTATTAGCCCGGATAGAACAACTTGCACAAATG
78513670 C
66 C
78513671 CTTCGGGTCT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (71 bp):
CCGGATAGAACCACATGCACAAATGCCTTCGGGTATTAGCCCGGATAGAACAACTTGCACAAATG
CTTAGC
Found at i:78521778 original size:120 final size:113
Alignment explanation
Indices: 78521561--78521801 Score: 288
Period size: 120 Copynumber: 2.1 Consensus size: 113
78521551 CGGAATACAA
*
78521561 CCGGATATAACCACATGCACGAATGCTTCGGGTCTTAGCCCGGATAGACGACTGAATGCCTTCGG
1 CCGGATATAACAACATGCACGAATGCTTCGGGTCTTAGCCCGGATAGACGACTGAATGCCTTCGG
* *
78521626 GTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTA-TTAGC
66 GTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGG-ACTTAGC
* * *
78521674 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACATGCACGAATG-CTTCGGGTCTTAGCCCGGA--TAGACGACT-G---AA-T
* ** * *
78521738 GCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
58 GCCTTCGGGTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGGACTTAGC
78521794 CCGGATAT
1 CCGGATAT
78521802 CATTCAATTG
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
113 22 0.21
114 19 0.18
115 3 0.03
116 5 0.05
119 3 0.03
120 55 0.51
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (113 bp):
CCGGATATAACAACATGCACGAATGCTTCGGGTCTTAGCCCGGATAGACGACTGAATGCCTTCGG
GTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:78521801 original size:40 final size:40
Alignment explanation
Indices: 78521561--78521801 Score: 221
Period size: 40 Copynumber: 6.2 Consensus size: 40
78521551 CGGAATACAA
* *
78521561 CCGGATATAACCAC-ATGCACGAATG-CTTCGGGTCTTAGC
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
78521600 CCGGATA-GACGACT-G----AATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
78521634 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
78521674 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
78521714 CCGGATGTAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
78521754 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
78521794 CCGGATAT
1 CCGGATAT
78521802 CATTCAATTG
Statistics
Matches: 169, Mismatches: 23, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
33 4 0.02
34 21 0.12
35 6 0.04
36 1 0.01
37 1 0.01
38 4 0.02
39 7 0.04
40 124 0.73
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:78531570 original size:40 final size:40
Alignment explanation
Indices: 78531443--78531572 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
78531433 ATGCTGGAAA
* *
78531443 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
78531483 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
78531523 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
78531563 TTATATCCGG
1 TTATATCCGG
78531573 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:78534425 original size:23 final size:23
Alignment explanation
Indices: 78534380--78534469 Score: 69
Period size: 23 Copynumber: 3.8 Consensus size: 23
78534370 GAGCTGATGG
**
78534380 ACAGTAAGCTCTATTGAGC-TGAA
1 ACAGTAAGCTCTA-CAAGCTTGAA
78534403 ACAGTAAGCTCTGACAAG-TTGAA
1 ACAGTAAGCTCT-ACAAGCTTGAA
* * *
78534426 TCAATAAGCTCATACGAGCTT-AGA
1 ACAGTAAGCTC-TACAAGCTTGA-A
78534450 ACAGTAAGCTCTTACAAGCT
1 ACAGTAAGCTC-TACAAGCT
78534470 GATATATCGG
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
23 32 0.60
24 21 0.40
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (23 bp):
ACAGTAAGCTCTACAAGCTTGAA
Found at i:78534460 original size:47 final size:49
Alignment explanation
Indices: 78534402--78534495 Score: 129
Period size: 47 Copynumber: 1.9 Consensus size: 49
78534392 ATTGAGCTGA
*
78534402 AACAGTAAGCTCTGACAAGTTG-A-ATCAATAAGCTCATACGAGCTTAG
1 AACAGTAAGCTCTGACAAGCTGAATATCAATAAGCTCATACGAGCTTAG
* **
78534449 AACAGTAAGCTCTTACAAGCTGATATATCGGTAAGCTCATACGAGCT
1 AACAGTAAGCTCTGACAAGCTGA-ATATCAATAAGCTCATACGAGCT
78534496 GTGGTGAGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 20 0.50
49 1 0.03
50 19 0.47
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (49 bp):
AACAGTAAGCTCTGACAAGCTGAATATCAATAAGCTCATACGAGCTTAG
Found at i:78534469 original size:24 final size:23
Alignment explanation
Indices: 78534402--78534469 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
78534392 ATTGAGCTGA
*
78534402 AACAGTAAGCTCTGACAAG-TTG
1 AACAGTAAGCTCTTACAAGCTTG
* * *
78534424 AATCAATAAGCTCATACGAGCTTAG
1 AA-CAGTAAGCTCTTACAAGCTT-G
78534449 AACAGTAAGCTCTTACAAGCT
1 AACAGTAAGCTCTTACAAGCT
78534470 GATATATCGG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
22 2 0.06
23 13 0.36
24 18 0.50
25 3 0.08
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (23 bp):
AACAGTAAGCTCTTACAAGCTTG
Found at i:78547773 original size:25 final size:25
Alignment explanation
Indices: 78547745--78547814 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
78547735 CTCTTTTAAT
*
78547745 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
* *
78547770 AACTGGGGTAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
78547795 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
78547815 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:78548049 original size:27 final size:27
Alignment explanation
Indices: 78548019--78548235 Score: 276
Period size: 27 Copynumber: 8.0 Consensus size: 27
78548009 GGGGTAAAAT
* * *
78548019 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
78548046 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
78548073 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
78548100 GGTAATTTTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
78548127 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
78548154 GGTAATTCTACCTTAC-AGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
78548181 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
78548208 AGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
78548235 G
1 G
78548236 ATATTTTACA
Statistics
Matches: 164, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.02
27 157 0.96
28 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:78548145 original size:81 final size:81
Alignment explanation
Indices: 78548019--78548241 Score: 322
Period size: 81 Copynumber: 2.8 Consensus size: 81
78548009 GGGGTAAAAT
* * * *
78548019 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTCGGTATTTCTAC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
78548084 CCTACAAGGG-TATTTC
66 CCTAC-AGGGTTATTTC
* *
78548100 GGTAATTTTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
*
78548165 CTTACAGGGTTATTTC
66 CCTACAGGGTTATTTC
* * * * *
78548181 AGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGAGGTATTTCGATATTT
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTT
78548242 TACAAATCGA
Statistics
Matches: 127, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 4 0.03
81 123 0.97
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (81 bp):
GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
CCTACAGGGTTATTTC
Found at i:78548254 original size:27 final size:27
Alignment explanation
Indices: 78548223--78548404 Score: 142
Period size: 27 Copynumber: 6.8 Consensus size: 27
78548213 TTCTACCCTA
*
78548223 CAGAGGTATTTCGAT-ATTTTACAAAT
1 CAGAGGTATTTTGATAATTTTACAAAT
*
78548249 C-GAGAGTATTTTGATAATTTCACAAAT
1 CAGAG-GTATTTTGATAATTTTACAAAT
* * **
78548276 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGAGGTATTTTGATAATTTTACAAAT
* *
78548303 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAGAGGTATTTTGATAATTTTACAAAT
* *
78548329 CTAGGGGTATTTT-AGTAATTTTAGAAA-
1 C-AGAGGTATTTTGA-TAATTTTACAAAT
* * **
78548356 CTAGGGGTATTTTGGTAATTTTACTGAT
1 C-AGAGGTATTTTGATAATTTTACAAAT
*
78548384 C-GAGGGTATTTTGGTAATTTT
1 CAGA-GGTATTTTGATAATTTT
78548405 GTAAACCAAT
Statistics
Matches: 133, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.02
26 12 0.09
27 115 0.86
28 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
CAGAGGTATTTTGATAATTTTACAAAT
Found at i:78548312 original size:54 final size:54
Alignment explanation
Indices: 78548254--78548431 Score: 207
Period size: 54 Copynumber: 3.3 Consensus size: 54
78548244 CAAATCGAGA
* * *
78548254 GTATTTTGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGG
* * *
78548308 GTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTAGTAATTTTAGAAACTAGGG
1 GTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAGGG
** ** **
78548362 GTATTTTGGTAATTTTACTGATC-GAGGGTATTTTGGTAATTTTGTAAACCAATG
1 GTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACCAGGG
*
78548416 GTATTTTAGTAATTTT
1 GTATTTTGGTAATTTT
78548432 GTAAATCGAG
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.02
54 103 0.97
55 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (54 bp):
GTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGG
Found at i:78548362 original size:81 final size:81
Alignment explanation
Indices: 78548238--78548431 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 81
78548228 GTATTTCGAT
* * * * *
78548238 ATTTTACAAATCGAGAGTATTTT-GATAATTTCACAAA-TCAGGGGTATTTTGGTAATTTTAC-A
1 ATTTTACAAACCAAGGGTATTTTAG-TAATTTTAGAAACT-AGGGGTATTTTGGTAATTTTACTA
78548300 AGCCAGGGGTATTTTGGTA
64 AGCCA-GGGTATTTTGGTA
* * * *
78548319 ATTTTACAAACTAGGGGTATTTTAGTAATTTTAGAAACTAGGGGTATTTTGGTAATTTTACTGAT
1 ATTTTACAAACCAAGGGTATTTTAGTAATTTTAGAAACTAGGGGTATTTTGGTAATTTTACTAAG
*
78548384 CGAGGGTATTTTGGTA
66 CCAGGGTATTTTGGTA
** *
78548400 ATTTTGTAAACCAATGGTATTTTAGTAATTTT
1 ATTTTACAAACCAAGGGTATTTTAGTAATTTT
78548432 GTAAATCGAG
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
81 90 0.95
82 5 0.05
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (81 bp):
ATTTTACAAACCAAGGGTATTTTAGTAATTTTAGAAACTAGGGGTATTTTGGTAATTTTACTAAG
CCAGGGTATTTTGGTA
Found at i:78548418 original size:27 final size:27
Alignment explanation
Indices: 78548276--78548436 Score: 155
Period size: 27 Copynumber: 6.0 Consensus size: 27
78548266 TTTCACAAAT
** *
78548276 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTGTAAAC
**
78548303 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTGTAAAC
* *
78548330 TAGGGGTATTTTAGTAATTTTAG-AAAC
1 CAGGGGTATTTTGGTAATTTT-GTAAAC
* * * *
78548357 TAGGGGTATTTTGGTAATTTTACTGATC
1 CAGGGGTATTTTGGTAATTTT-GTAAAC
*
78548385 GA-GGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTGTAAAC
** *
78548411 CAATGGTATTTTAGTAATTTTGTAAA
1 CAGGGGTATTTTGGTAATTTTGTAAA
78548437 TCGAGGGTAA
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.03
27 109 0.94
28 3 0.03
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.42
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTGTAAAC
Found at i:78548454 original size:27 final size:27
Alignment explanation
Indices: 78548424--78548551 Score: 166
Period size: 27 Copynumber: 4.7 Consensus size: 27
78548414 TGGTATTTTA
* *
78548424 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
78548451 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
78548478 GTAATTCTATAAATAGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
78548505 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
78548532 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
78548552 CATTTTAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:78548454 original size:81 final size:81
Alignment explanation
Indices: 78548306--78548456 Score: 180
Period size: 81 Copynumber: 1.9 Consensus size: 81
78548296 TACAAGCCAG
* * * ****
78548306 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTAGAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAGAAACGAGGGGTAAAACGG
78548371 TAATTTTACTGATCGA
66 TAATTTTACTGATCGA
** *
78548387 GGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTAGTAATTTT-GTAAATCGA-GGGTAAAAC
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAG-AAA-CGAGGGGTAAAAC
78548450 GGTAATT
64 GGTAATT
78548457 CTGTAAATTG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
80 1 0.02
81 55 0.95
82 2 0.03
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAGAAACGAGGGGTAAAACGG
TAATTTTACTGATCGA
Found at i:78548470 original size:81 final size:82
Alignment explanation
Indices: 78548385--78548572 Score: 191
Period size: 81 Copynumber: 2.3 Consensus size: 82
78548375 TTTACTGATC
* *** * *
78548385 GAGGGTATTTTGGTAATTTTGTAAACCA-ATGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAA
1 GAGGGTATTTTGGTAATTTTGTAAACCAGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
**
78548449 CGGTAATTCTGTAAATT
66 CGGTAATTCTACAAATT
*** * * * *
78548466 GAGGGTAAAATGGTAATTCTATAAA-TAGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
1 GAGGGTATTTTGGTAATTTTGTAAACCAGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
*
78548530 CGGTAATTTTACAAATT
66 CGGTAATTCTACAAATT
* * *
78548547 GAGGGCATTTTAGTAATTTGGTAAAC
1 GAGGGTATTTTGGTAATTTTGTAAAC
78548573 TAAAGTATTC
Statistics
Matches: 81, Mismatches: 24, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
80 1 0.01
81 80 0.99
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (82 bp):
GAGGGTATTTTGGTAATTTTGTAAACCAGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
CGGTAATTCTACAAATT
Found at i:78550022 original size:18 final size:19
Alignment explanation
Indices: 78549996--78550034 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
78549986 CAATTTCGAA
78549996 AAAAGAAAAAAATAA-AAT
1 AAAAGAAAAAAATAACAAT
*
78550014 AAAATAAAAAAATAACAAT
1 AAAAGAAAAAAATAACAAT
78550033 AA
1 AA
78550035 TTTTTTGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (19 bp):
AAAAGAAAAAAATAACAAT
Found at i:78552480 original size:24 final size:24
Alignment explanation
Indices: 78552308--78552478 Score: 288
Period size: 24 Copynumber: 7.1 Consensus size: 24
78552298 GCAAAGACCA
*
78552308 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
78552332 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
78552356 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
78552380 TATGGCACTATGTGTGCGATACAC
1 TATGGCACTATGTGTGCGATTTAC
78552404 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
78552428 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
78552452 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
78552476 TAT
1 TAT
78552479 AGTCACATTC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 140 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:78560410 original size:24 final size:24
Alignment explanation
Indices: 78560238--78560408 Score: 288
Period size: 24 Copynumber: 7.1 Consensus size: 24
78560228 GCAAAGACCA
*
78560238 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
78560262 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
78560286 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
78560310 TATGGCACTATGTGTGCGATACAC
1 TATGGCACTATGTGTGCGATTTAC
78560334 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
78560358 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
78560382 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
78560406 TAT
1 TAT
78560409 AGTCACATTC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 140 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:78561911 original size:27 final size:27
Alignment explanation
Indices: 78561881--78562058 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78561871 CAAATCGAGA
* * *
78561881 GTATTTTGATAATTTCACAAATTAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
* *
78561908 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
78561935 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
* *
78561962 GTATTTTAGTAATTTTAGAAACTAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
** *
78561989 GTATTTTGGTAATTTTACTGA-TCGAGG
1 GTATTTTGGTAATTTTACAAACTAG-GG
** * *
78562016 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAACTAGGG
*
78562043 GTATTTTAGTAATTTT
1 GTATTTTGGTAATTTT
78562059 GTAAATCGAG
Statistics
Matches: 127, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 125 0.98
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACTAGGG
Found at i:78562004 original size:81 final size:81
Alignment explanation
Indices: 78561881--78562058 Score: 234
Period size: 81 Copynumber: 2.2 Consensus size: 81
78561871 CAAATCGAGA
* *
78561881 GTATTTT-GATAATTTCACAAATTAGGGGTATTTTGGTAATTTTAC-AAGCCAGGGGTATTTTGG
1 GTATTTTAG-TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTAAGCCA-GGGTATTTTGG
* *
78561944 TAATTTTACAAACTAGGG
64 TAATTTTACAAACCAAGG
* * * *
78561962 GTATTTTAGTAATTTTAGAAACTAGGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTA
1 GTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTAAGCCAGGGTATTTTGGTA
**
78562027 ATTTTGTAAACCAAGG
66 ATTTTACAAACCAAGG
78562043 GTATTTTAGTAATTTT
1 GTATTTTAGTAATTTT
78562059 GTAAATCGAG
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
81 81 0.95
82 4 0.05
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.43
Consensus pattern (81 bp):
GTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTAAGCCAGGGTATTTTGGTA
ATTTTACAAACCAAGG
Found at i:78562081 original size:27 final size:27
Alignment explanation
Indices: 78562051--78562178 Score: 184
Period size: 27 Copynumber: 4.7 Consensus size: 27
78562041 GGGTATTTTA
* *
78562051 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
78562078 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
78562105 GTAATTCTATAAATAGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
78562132 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
78562159 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
78562179 CATTTCAGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:78562081 original size:54 final size:54
Alignment explanation
Indices: 78562023--78562156 Score: 142
Period size: 54 Copynumber: 2.5 Consensus size: 54
78562013 AGGGTATTTT
* * *** * * *
78562023 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTATAAACCAAGGGTAAAATAGTAATTCTATAAATAGAGGGTAAAAC
* * * *
78562077 GGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATAGAGGGTAAAAT
1 GGTAATTCTATAAACCAAGGGTAAAATAGTAATTCTATAAATAGAGGGTAAAAC
* *
78562131 GGTAATTCTATAAATCGAGGGTAAAA
1 GGTAATTCTATAAACCAAGGGTAAAA
78562157 CGGTAATTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (54 bp):
GGTAATTCTATAAACCAAGGGTAAAATAGTAATTCTATAAATAGAGGGTAAAAC
Found at i:78562081 original size:81 final size:82
Alignment explanation
Indices: 78561933--78562202 Score: 228
Period size: 81 Copynumber: 3.3 Consensus size: 82
78561923 TACAAGCCAG
* * * ****
78561933 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTAG-AAA-CTAGGGGTATTTT
1 GGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTT-GTAAATCGA-GGGTAAAAC
*
78561996 GGTAATTTTACT-GATCGA
64 GGTAATTTTACTAAATCGA
* *
78562014 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGG
1 GGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGG
*
78562079 TAATTCTA-TAAATCGA
66 TAATTTTACTAAATCGA
*** * *** * * *
78562095 GGGTAAAATGGTAATTCTATAAA-TAGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
1 GGGTATTTTGGTAATTTTATAAACTA-AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACG
*
78562159 GTAATTTTAC-AAATTGA
65 GTAATTTTACTAAATCGA
* ** **
78562176 GGGCATTTCAGTAATTTGGTAAACTAA
1 GGGTATTTTGGTAATTTTATAAACTAA
78562203 AGTATTCTAA
Statistics
Matches: 149, Mismatches: 34, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
80 3 0.02
81 142 0.95
82 4 0.03
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (82 bp):
GGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGG
TAATTTTACTAAATCGA
Found at i:78565844 original size:20 final size:19
Alignment explanation
Indices: 78565799--78565846 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
78565789 ATTTTTGGAA
* *
78565799 AATTAATTTTAAAGTAATT
1 AATTAATTTTAAAGAAAAT
* *
78565818 AAATAATTATTAATGAAAAT
1 AATTAATT-TTAAAGAAAAT
78565838 AATTAATTT
1 AATTAATTT
78565847 GGGTCGAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
AATTAATTTTAAAGAAAAT
Found at i:78566260 original size:21 final size:21
Alignment explanation
Indices: 78566227--78566266 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
78566217 CTCTCAATTC
*
78566227 AGCCGAAATTATTCTCAAAAGT
1 AGCCGAAAATATTCT-AAAAGT
78566249 AGCC-AAAATATTCTAAAA
1 AGCCGAAAATATTCTAAAA
78566267 TTTCTCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.25
Consensus pattern (21 bp):
AGCCGAAAATATTCTAAAAGT
Found at i:78568219 original size:55 final size:54
Alignment explanation
Indices: 78568098--78568351 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
78568088 ATTAGGGTTT
* *
78568098 AAGGATACCATGTAAGACCATG-CAAGGCATGGCAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-GTTCTATAAGGC
* * *
78568152 AAGGATATCATGTAAGACCATGTCATGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* * * *
78568207 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
* *
78568260 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * * *
78568309 AAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
78568352 GTACCCATGT
Statistics
Matches: 172, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
49 39 0.23
52 6 0.03
53 45 0.26
54 29 0.17
55 49 0.28
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:78568303 original size:108 final size:109
Alignment explanation
Indices: 78568105--78568304 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 109
78568095 TTTAAGGATA
*
78568105 CCATGTAAGACCATGCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGAC
1 CCATGTAAGACCATGCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
* *
78568170 CATGTCATGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
*
78568214 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATG-CAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
78568276 ACCATGTCAAGACATGGCAATGGTAAGTT
64 ACCATGTCAAGACATGGCAATGATAAGTT
78568305 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 22 0.26
110 11 0.13
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (109 bp):
CCATGTAAGACCATGCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:78568446 original size:23 final size:24
Alignment explanation
Indices: 78568420--78568464 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
78568410 AAGGTAAGGT
*
78568420 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
78568443 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
78568465 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:78568576 original size:20 final size:20
Alignment explanation
Indices: 78568537--78568576 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
78568527 GTATTAATAA
* *
78568537 ATTTAATTAAGTAAGTAAGT
1 ATTTAAGTAAGTAAGGAAGT
*
78568557 ATTTAAGTAAGTGAGGAAGT
1 ATTTAAGTAAGTAAGGAAGT
78568577 GAAGAAGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (20 bp):
ATTTAAGTAAGTAAGGAAGT
Found at i:78570859 original size:39 final size:38
Alignment explanation
Indices: 78570816--78570920 Score: 101
Period size: 34 Copynumber: 2.8 Consensus size: 38
78570806 TAGGCAATTA
* *
78570816 CAGTTTGGGCCTGAGCCCATTTCAGTAATAGTTCAGTTT
1 CAGTTTGGGCCTAAGCCCATTTCAGTAATAGTT-AGTAT
* *
78570855 CAGTTAGGGCCTAAGCCCA-TT-A-TAGTA-TTAGTAT
1 CAGTTTGGGCCTAAGCCCATTTCAGTAATAGTTAGTAT
* * * *
78570889 CAGTGTGGACCTTAGCCCATTTCAGTGATAGT
1 CAGTTTGGGCCTAAGCCCATTTCAGTAATAGT
78570921 AACAGTATAG
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
34 19 0.37
35 4 0.08
36 5 0.10
37 4 0.08
38 3 0.06
39 17 0.33
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (38 bp):
CAGTTTGGGCCTAAGCCCATTTCAGTAATAGTTAGTAT
Found at i:78577525 original size:93 final size:93
Alignment explanation
Indices: 78577413--78577584 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
78577403 GCCCATAAGT
* *
78577413 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78577478 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
78577506 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78577571 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
78577585 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:78577580 original size:46 final size:46
Alignment explanation
Indices: 78577405--78577580 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
78577395 TGTAACCCGC
* * *
78577405 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
78577451 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
78577501 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
78577544 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
78577581 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:78580712 original size:18 final size:17
Alignment explanation
Indices: 78580670--78580712 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
78580660 TAATGTAAAG
* *
78580670 GAGTGTTTTATTATGCT
1 GAGTGTTTTACTATACT
*
78580687 GTGTGTTTTACTATTACT
1 GAGTGTTTTACTA-TACT
78580705 GAGTGTTT
1 GAGTGTTT
78580713 GAGGAGTGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.16, C:0.07, G:0.23, T:0.53
Consensus pattern (17 bp):
GAGTGTTTTACTATACT
Found at i:78582610 original size:40 final size:40
Alignment explanation
Indices: 78582522--78582689 Score: 192
Period size: 40 Copynumber: 4.2 Consensus size: 40
78582512 CAATTGAATG
* * ** * **
78582522 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
78582562 ATACCCGGGCTAAGACTCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
78582602 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
78582642 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
78582682 ATATCCGG
1 ATATCCGG
78582690 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:78582657 original size:80 final size:80
Alignment explanation
Indices: 78582524--78582689 Score: 217
Period size: 80 Copynumber: 2.1 Consensus size: 80
78582514 ATTGAATGAT
* *
78582524 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGCTAAGACTCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGACATTTATGCAAGTAATTATACCCGGGCTAAGACCCGAAGGCATT
*
78582589 CGTGCAAGTTGTTAA
66 CGTGCAAGTGGTTAA
* * ** * *
78582604 ATCCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGT-CCCGAAGACATTTATGCAAGTAATTATACCCGGGCTAAGACCCGAAGGCAT
* *
78582668 TCGTGCATGTGGTTAT
65 TCGTGCAAGTGGTTAA
78582684 ATCCGG
1 ATCCGG
78582690 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
79 1 0.01
80 73 0.99
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGACATTTATGCAAGTAATTATACCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGTTAA
Found at i:78585999 original size:18 final size:19
Alignment explanation
Indices: 78585964--78586005 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
78585954 AATAAGGCCT
*
78585964 ATTT-GGATTTTATTTTTA
1 ATTTGGGATTTTATATTTA
78585982 ATTTGGGATTTTA-ATTTA
1 ATTTGGGATTTTATATTTA
*
78586000 CTTTGG
1 ATTTGG
78586006 TTATAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.21, C:0.02, G:0.17, T:0.60
Consensus pattern (19 bp):
ATTTGGGATTTTATATTTA
Found at i:78591461 original size:19 final size:19
Alignment explanation
Indices: 78591417--78591462 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
78591407 TTCAAAGTCC
78591417 ATAAAAA-TCCATAAATTG
1 ATAAAAAGTCCATAAATTG
* *
78591435 ATATAAAGTCCAT-AATTT
1 ATAAAAAGTCCATAAATTG
78591453 ATTAAAAAGT
1 A-TAAAAAGT
78591463 TCCCTTCAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.33
Consensus pattern (19 bp):
ATAAAAAGTCCATAAATTG
Found at i:78591608 original size:14 final size:14
Alignment explanation
Indices: 78591589--78591619 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
78591579 AATCGCATAC
78591589 ATCTCAAAATATCA
1 ATCTCAAAATATCA
*
78591603 ATCTCAACATATCA
1 ATCTCAAAATATCA
78591617 ATC
1 ATC
78591620 ATCATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
ATCTCAAAATATCA
Found at i:78591612 original size:22 final size:22
Alignment explanation
Indices: 78591568--78591617 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
78591558 GTGTGAGATC
78591568 ATCACAAATATAATCGCATACAT
1 ATCA-AAATATAATCGCATACAT
* *
78591591 CTCAAAATATCAATCTCA-ACAT
1 ATCAAAATAT-AATCGCATACAT
78591613 ATCAA
1 ATCAA
78591618 TCATCATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (22 bp):
ATCAAAATATAATCGCATACAT
Found at i:78593243 original size:40 final size:40
Alignment explanation
Indices: 78593194--78593342 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 40
78593184 CGGAATTTAA
** *
78593194 CCGGATATAGCT-ACTCGTTCAAATGCCTTCAGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCAGGACATAAC
* * *
78593234 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCAGGACATAAC
* * * * * *
78593274 CCGGATTTAGTGACTCGCACCAATGCCTTC-GGGCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCAGGACATAAC
*
78593313 CCGGA-ATTAGTAACTTGCACAAATGCCTTC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTC
78593343 GGATCTTAGT
Statistics
Matches: 91, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
39 33 0.36
40 58 0.64
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCAGGACATAAC
Found at i:78593315 original size:79 final size:79
Alignment explanation
Indices: 78593215--78593397 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 79
78593205 TACTCGTTCA
* * *
78593215 AATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTC-GGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* * *
78593278 ATTTAGTGAC-TCGCACC
63 ATATAGTCACTTAGCA-C
* ** *
78593295 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTTGCACAAATGCCTTCGGATCTTAGTCCGGGTA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
78593360 TAGTCACTTAGCAC
66 TAGTCACTTAGCAC
*
78593374 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
78593398 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.68
80 25 0.28
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
TAGTCACTTAGCAC
Found at i:78593391 original size:40 final size:40
Alignment explanation
Indices: 78593213--78593396 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
78593203 GCTACTCGTT
* * *
78593213 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGGTATAGTAACTCGCA
* * * *
78593253 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGGTATAGTAACTCGCA
* * *
78593293 CCAATGCCTTCGGG-CTTAGCCC-GGAATTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGGTA-TAGTAACTCGCA
* * *
78593332 CAAATGCCTTC-GGATCTTAGTCCGGGTATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGGTATAGTAAC-TCGCA
78593373 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
78593397 ACATCATTCG
Statistics
Matches: 119, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 27 0.23
40 75 0.63
41 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGGTATAGTAACTCGCA
Found at i:78596043 original size:39 final size:39
Alignment explanation
Indices: 78595989--78596132 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
78595979 GAATGTTCGA
*
78595989 GTGATATCCTGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
78596028 GTGATATCCGGGCTAAGCCCGAAGGCAATTTTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
78596067 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
78596106 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
78596133 CTTTGTGCGG
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 85 0.90
40 9 0.10
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:78596082 original size:78 final size:79
Alignment explanation
Indices: 78595990--78596172 Score: 262
Period size: 78 Copynumber: 2.3 Consensus size: 79
78595980 AATGTTCGAG
*
78595990 TGATATCCTGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
78596054 AATTT-TGCGAGTTA
66 -ATTTGTGCGAGTTA
*
78596068 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
* *
78596133 CTTTGTGCGGGTTA
66 ATTTGTGCGAGTTA
** * *
78596147 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
78596173 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
78 56 0.60
79 29 0.31
80 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCGAGTTA
Found at i:78599759 original size:17 final size:19
Alignment explanation
Indices: 78599717--78599760 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
78599707 ATGAAATTTT
*
78599717 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
78599736 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
78599754 AA-TATTA
1 AATTATTA
78599761 CTAAAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:78602285 original size:20 final size:20
Alignment explanation
Indices: 78602262--78602320 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
78602252 TAAACATGGT
*
78602262 ATGTATGATATGTACATGAC
1 ATGTATGATATGCACATGAC
* *
78602282 ATGTATGATATGCACATCAT
1 ATGTATGATATGCACATGAC
78602302 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
78602321 TGTATTCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:78602436 original size:46 final size:47
Alignment explanation
Indices: 78602369--78602464 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
78602359 AGGAAATGCA
78602369 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
78602415 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
78602462 AAA
1 AAA
78602465 AGAGGCTAGC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 23 0.48
47 25 0.52
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:78602447 original size:24 final size:24
Alignment explanation
Indices: 78602368--78602471 Score: 176
Period size: 23 Copynumber: 4.4 Consensus size: 24
78602358 GAGGAAATGC
78602368 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
78602392 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
78602415 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
78602438 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
78602462 AAAAGAGGCT
1 AAAAG-GGCT
78602472 AGCCTCCAAT
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
23 46 0.60
24 27 0.35
25 4 0.05
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:78602719 original size:31 final size:31
Alignment explanation
Indices: 78602678--78602741 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
78602668 CATTTACAGT
*
78602678 AAAGGCTTCGGCTCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
78602709 AAAGGTTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
78602740 AA
1 AA
78602742 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:78604770 original size:17 final size:19
Alignment explanation
Indices: 78604728--78604771 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
78604718 ATGAAATTTT
*
78604728 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
78604747 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
78604765 AA-TATTA
1 AATTATTA
78604772 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:78607224 original size:34 final size:33
Alignment explanation
Indices: 78607181--78607249 Score: 129
Period size: 34 Copynumber: 2.1 Consensus size: 33
78607171 GGGTTTAAAA
78607181 TGACTGAAATGCATGAATAATTGATACTGTATTT
1 TGACTGAAATGCATGAATAATTGATACTGT-TTT
78607215 TGACTGAAATGCATGAATAATTGATACTGTTTT
1 TGACTGAAATGCATGAATAATTGATACTGTTTT
78607248 TG
1 TG
78607250 CATTAATATC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 5 0.14
34 30 0.86
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (33 bp):
TGACTGAAATGCATGAATAATTGATACTGTTTT
Found at i:78610215 original size:20 final size:20
Alignment explanation
Indices: 78610155--78610215 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
78610145 ATAAACATAG
*
78610155 TATGTATGATATGCAGATGA
1 TATGTATGATATGCACATGA
*
78610175 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
78610195 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
78610215 T
1 T
78610216 GTATTCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:78610294 original size:23 final size:23
Alignment explanation
Indices: 78610264--78610336 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
78610254 AGGAAGTGCA
78610264 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
78610287 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
78610310 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
78610334 AAA
1 AAA
78610337 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 25 0.54
24 21 0.46
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:78610319 original size:24 final size:24
Alignment explanation
Indices: 78610263--78610343 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
78610253 GAGGAAGTGC
78610263 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
78610287 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
78610310 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
78610334 AAAAGAGGCT
1 AAAAG-GGCT
78610344 AGGCCTCCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 22 0.42
24 26 0.50
25 4 0.08
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:78613607 original size:40 final size:40
Alignment explanation
Indices: 78613578--78613780 Score: 280
Period size: 40 Copynumber: 5.1 Consensus size: 40
78613568 GTAAATACGT
* *
78613578 TCAGGTGTACCAAAGTACTAACAGGGGCACGTATGTGCAA
1 TCAGGGGTACCAAAGTACTAACAGGGGCACGTATGTACAA
*
78613618 TCAGGGGTACCAAAGTACTAACAAGGGCACGTATGTACAA
1 TCAGGGGTACCAAAGTACTAACAGGGGCACGTATGTACAA
* *
78613658 TCAGGGGTACCGAAGTACTAACAGGGGCACGTATGTGCAA
1 TCAGGGGTACCAAAGTACTAACAGGGGCACGTATGTACAA
* * * * *
78613698 TCAGGGATACCGAAGTACTAACAGGGGCTCATATGTGCAA
1 TCAGGGGTACCAAAGTACTAACAGGGGCACGTATGTACAA
* * * *
78613738 CCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAA
1 TCAGGGGTACCAAAGTACTAACAGGGGCACGTATGTACAA
78613778 TCA
1 TCA
78613781 TTCAACTAGT
Statistics
Matches: 146, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.18
Consensus pattern (40 bp):
TCAGGGGTACCAAAGTACTAACAGGGGCACGTATGTACAA
Found at i:78613624 original size:20 final size:20
Alignment explanation
Indices: 78613599--78613703 Score: 81
Period size: 20 Copynumber: 5.2 Consensus size: 20
78613589 AAAGTACTAA
*
78613599 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTACAAT
* ** *
78613619 CAGGGGTACCAAAGTACTAA-
1 CAGGGGCACGTATGTAC-AAT
*
78613639 CAAGGGCACGTATGTACAAT
1 CAGGGGCACGTATGTACAAT
* *
78613659 CAGGGGTACCG-AAGTACTAA-
1 CAGGGGCA-CGTATGTAC-AAT
*
78613679 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTACAAT
78613699 CAGGG
1 CAGGG
78613704 ATACCGAAGT
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
19 6 0.10
20 51 0.81
21 6 0.10
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.17
Consensus pattern (20 bp):
CAGGGGCACGTATGTACAAT
Found at i:78613722 original size:20 final size:20
Alignment explanation
Indices: 78613579--78613724 Score: 79
Period size: 20 Copynumber: 7.3 Consensus size: 20
78613569 TAAATACGTT
* *
78613579 CAGGTGTACCAAAGTACTAA
1 CAGGGGTACCGAAGTACTAA
* * *
78613599 CAGGGGCA-CGTATGTGC-AA
1 CAGGGGTACCG-AAGTACTAA
*
78613618 TCAGGGGTACCAAAGTACTAA
1 -CAGGGGTACCGAAGTACTAA
* * *
78613639 CAAGGGCA-CGTATGTAC-AA
1 CAGGGGTACCG-AAGTACTAA
78613658 TCAGGGGTACCGAAGTACTAA
1 -CAGGGGTACCGAAGTACTAA
* * *
78613679 CAGGGGCA-CGTATGTGC-AA
1 CAGGGGTACCG-AAGTACTAA
*
78613698 TCAGGGATACCGAAGTACTAA
1 -CAGGGGTACCGAAGTACTAA
78613719 CAGGGG
1 CAGGGG
78613725 CTCATATGTG
Statistics
Matches: 90, Mismatches: 24, Indels: 24
0.65 0.17 0.17
Matches are distributed among these distances:
19 10 0.11
20 69 0.77
21 11 0.12
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACTAA
Found at i:78616780 original size:2 final size:2
Alignment explanation
Indices: 78616773--78616798 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
78616763 AAATGAATCG
78616773 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
78616799 GTTATTATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78618220 original size:21 final size:21
Alignment explanation
Indices: 78618179--78618220 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
78618169 TATAAGTAGC
*
78618179 CTTGTAATGGTTGGTATATGG
1 CTTGTAATGGTTGGAATATGG
*
78618200 CTTGTTATGGTT-GAATGATGG
1 CTTGTAATGGTTGGAAT-ATGG
78618221 TAGATAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.19, C:0.05, G:0.33, T:0.43
Consensus pattern (21 bp):
CTTGTAATGGTTGGAATATGG
Found at i:78619473 original size:17 final size:16
Alignment explanation
Indices: 78619433--78619471 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
78619423 TGGTTGTTTG
78619433 TGAAAAAGGAGTGAAAA
1 TGAAAAAGGAGT-AAAA
78619450 TGAAAAAGGAGT-AAA
1 TGAAAAAGGAGTAAAA
78619465 TGAAAAA
1 TGAAAAA
78619472 AAAAAAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 10 0.45
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.26, T:0.13
Consensus pattern (16 bp):
TGAAAAAGGAGTAAAA
Found at i:78621604 original size:43 final size:43
Alignment explanation
Indices: 78621549--78621643 Score: 97
Period size: 43 Copynumber: 2.2 Consensus size: 43
78621539 GACAGGGTCA
78621549 TACACG-TAATCTCTAA-TTGATGCCAGT-GTCCCAAACACAGTCT
1 TACACGAT-ATCTC-AAGTTGATGCCA-TCGTCCCAAACACAGTCT
* * ***
78621592 TACACGATATCTCAAGTTGATTCCATCGTCCCAGACTTGGTCT
1 TACACGATATCTCAAGTTGATGCCATCGTCCCAAACACAGTCT
78621635 TACACGATA
1 TACACGATA
78621644 ACACATATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
42 3 0.07
43 40 0.91
44 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (43 bp):
TACACGATATCTCAAGTTGATGCCATCGTCCCAAACACAGTCT
Found at i:78625783 original size:40 final size:40
Alignment explanation
Indices: 78625724--78625865 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
78625714 AAATTGAATG
* * *
78625724 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
78625764 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
78625804 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
78625844 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
78625866 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:78625889 original size:40 final size:39
Alignment explanation
Indices: 78625762--78625891 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
78625752 ATGCTGGAAA
* * *
78625762 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
78625803 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
78625841 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
78625882 TTATATCCGG
1 TTATATCCGG
78625892 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:78633804 original size:40 final size:40
Alignment explanation
Indices: 78633745--78633886 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
78633735 AAATTGAATG
* * *
78633745 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
78633785 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
78633825 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
78633865 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
78633887 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:78633910 original size:40 final size:39
Alignment explanation
Indices: 78633783--78633912 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
78633773 ATGCTGGAAA
* * *
78633783 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
78633824 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
78633862 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
78633903 TTATATCCGG
1 TTATATCCGG
78633913 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:78637732 original size:8 final size:8
Alignment explanation
Indices: 78637715--78637749 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
78637705 TTATTACTAA
78637715 ATAA-AAT
1 ATAATAAT
78637722 ATAATAAT
1 ATAATAAT
78637730 ATAATAAT
1 ATAATAAT
*
78637738 ATAATAAA
1 ATAATAAT
78637746 ATAA
1 ATAA
78637750 AGAATGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 4 0.15
8 22 0.85
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
ATAATAAT
Found at i:78641531 original size:43 final size:42
Alignment explanation
Indices: 78641484--78641585 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
78641474 ATCAAATATC
**
78641484 GATGCCACTGTCCTAGACAGGGTCTTACACGTAATCTCTAA-TT
1 GATGCCACTGTCCTAGACACAGTCTTACACG-AATCTC-AAGTT
* * * *
78641527 GATGCTAGTGTCCCAAACACAGTCTTACACGAATCTCAAGTT
1 GATGCCACTGTCCTAGACACAGTCTTACACGAATCTCAAGTT
78641569 GATGCCAAC-GTCCTAGA
1 GATGCC-ACTGTCCTAGA
78641586 TGTGGTTTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
41 2 0.04
42 19 0.40
43 26 0.55
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
GATGCCACTGTCCTAGACACAGTCTTACACGAATCTCAAGTT
Found at i:78643461 original size:17 final size:18
Alignment explanation
Indices: 78643424--78643465 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
78643414 GGTTAAAAAT
*
78643424 AAATAAATTAATAACGAA
1 AAATAAATAAATAACGAA
78643442 AAATAAATAAATAA-GAA
1 AAATAAATAAATAACGAA
78643459 AAATAAA
1 AAATAAA
78643466 CAAACGACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (18 bp):
AAATAAATAAATAACGAA
Found at i:78646228 original size:41 final size:40
Alignment explanation
Indices: 78646139--78646327 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
78646129 ACTCGATATG
* * * * **
78646139 TCGCACACAAAGTTCCAT-TCATAGTTGAAGCTATCTTAAA
1 TCGCACACTAAGTGCCATAT-ATAGCTGAAGCTATGTCGAA
* * * * *
78646179 TCACACACTAAGTGTCATATATAGCTGAATCTATCTCGATC
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGA-A
* * *
78646220 TCGCACACTAAGTTCCATATATAGCCGAAGCTATGTCAAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
*
78646260 TCGCACACTAAGTGCCATATATAGCTAAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
* * *
78646300 TCGCATACTAAGTGCCACATATATCTGA
1 TCGCACACTAAGTGCCATATATAGCTGA
78646328 TTTGTTGTCA
Statistics
Matches: 122, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
40 89 0.73
41 33 0.27
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
Found at i:78646268 original size:81 final size:80
Alignment explanation
Indices: 78646139--78646322 Score: 217
Period size: 81 Copynumber: 2.3 Consensus size: 80
78646129 ACTCGATATG
* ** * *
78646139 TCGCACACAAAGTTCCAT-TCATAGTTGAAGCTATCTTAAATCACACACTAAGTGTCATATATAG
1 TCGCACACTAAGTTCCATAT-ATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCATATATAG
* * *
78646203 CTGAATCTATCTCGATC
65 CTAAAGCTATCTCGA-A
* *
78646220 TCGCACACTAAGTTCCATATATAGCCGAAGCTATGTCAAATCGCACACTAAGTGCCATATATAGC
1 TCGCACACTAAGTTCCATATATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCATATATAGC
*
78646285 TAAAGCTATGTCGAA
66 TAAAGCTATCTCGAA
* * *
78646300 TCGCATACTAAGTGCCACATATA
1 TCGCACACTAAGTTCCATATATA
78646323 TCTGATTTGT
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 20 0.23
81 67 0.76
82 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (80 bp):
TCGCACACTAAGTTCCATATATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCATATATAGC
TAAAGCTATCTCGAA
Found at i:78655798 original size:40 final size:40
Alignment explanation
Indices: 78655690--78655899 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
78655680 CGGGATTTAA
* * * * *
78655690 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
78655730 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78655770 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78655810 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78655850 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78655890 CCGGATATAT
1 CCGGATATAT
78655900 TCGCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:78663946 original size:40 final size:40
Alignment explanation
Indices: 78663838--78664005 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
78663828 CGGGATTTAA
* * * * *
78663838 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
78663878 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78663918 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78663958 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTA-C
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78663997 CCGGATATA
1 CCGGATATA
78664006 GCACTGCTTC
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 11 0.10
40 100 0.90
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:78668558 original size:40 final size:40
Alignment explanation
Indices: 78668492--78668658 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
78668482 AAATTGAATG
* * *
78668492 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
78668531 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
78668571 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
78668611 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
78668651 ATATCCGG
1 ATATCCGG
78668659 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:78676542 original size:40 final size:40
Alignment explanation
Indices: 78676476--78676626 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
78676466 AAATTGAATG
* * *
78676476 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
78676515 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
78676555 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
78676595 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
78676627 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:78680207 original size:32 final size:31
Alignment explanation
Indices: 78680165--78680272 Score: 85
Period size: 32 Copynumber: 3.4 Consensus size: 31
78680155 ATACAGCTTT
*
78680165 AAGCCTTCAGTAGCAGTATTATAATTGGCACA
1 AAGCCATCAGTAGCAGTA-TATAATTGGCACA
* *
78680197 AAGCCATCAGTAACTGTA-ATAAGTTTGGCACA
1 AAGCCATCAGTAGCAGTATATAA--TTGGCACA
* * *
78680229 TAGCCATCAGT-GACGGTAATATAATCGGCACA
1 AAGCCATCAGTAG-CAGT-ATATAATTGGCACA
* *
78680261 CAGCCATGAGTA
1 AAGCCATCAGTA
78680273 AATATGATCG
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
30 4 0.07
32 52 0.85
33 1 0.02
34 4 0.07
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (31 bp):
AAGCCATCAGTAGCAGTATATAATTGGCACA
Found at i:78680282 original size:27 final size:27
Alignment explanation
Indices: 78680246--78680348 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 27
78680236 CAGTGACGGT
* *
78680246 AATATAATCGGCACACAGCCATGAGTA
1 AATATGATCGGCACAAAGCCATGAGTA
* * * * *
78680273 AATATGATCGACACAGAGTCATCAATA
1 AATATGATCGGCACAAAGCCATGAGTA
* *
78680300 AATATGATAGGCACATAGCCACTG-GTA
1 AATATGATCGGCACAAAGCCA-TGAGTA
* **
78680327 AATACGATTTGCACAAAGCCAT
1 AATATGATCGGCACAAAGCCAT
78680349 AATCAGCATA
Statistics
Matches: 59, Mismatches: 16, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
26 1 0.02
27 57 0.97
28 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.21
Consensus pattern (27 bp):
AATATGATCGGCACAAAGCCATGAGTA
Found at i:78680936 original size:81 final size:79
Alignment explanation
Indices: 78680759--78681212 Score: 416
Period size: 81 Copynumber: 5.6 Consensus size: 79
78680749 TACCCTACAG
* * * * * *
78680759 GGGTATTTCAATAATTTTACACTAC-AAGGGTATTTCGGTAATTTTACAAATTAGGGTATTTGGG
1 GGGTATTTCAGTAATTTTACAAT-CTGAGGGTATTT-GGTAATTTTACAAATGAGGGTATTTCGA
78680823 TAATTTTATAAACT-A
64 TAATTTTATAAACTGA
* * *
78680838 GGGTTATTTTAGTAATTTTACAATCTGAGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTCG
1 GGG-TATTTCAGTAATTTTACAATCTGAGGGTATTT-GGTAATTTTACAAA-TGAGGGTATTTCG
* *
78680903 ATAATTTTATAATCTAA
63 ATAATTTTATAAACTGA
* * * *
78680920 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTTGATAATTTTACAATATGAGAGTATTTCGA
1 GGGTATTTCAGTAATTTTACAATCTGAGGGTA-TTTGGTAATTTTACAA-ATGAGGGTATTTCGA
*
78680985 TAATTTTATAAATTGA
64 TAATTTTATAAACTGA
* * * *
78681001 GGGTATTTTAGTAATTTTACAAACTG-GCGGTATTTTGATAATTTTACAATTCGAGGGTATTTCG
1 GGGTATTTCAGTAATTTTACAATCTGAG-GGTA-TTTGGTAATTTTACAAAT-GAGGGTATTTCG
* * *
78681065 GTAATTTTACAAACTGG
63 ATAATTTTATAAACTGA
* * * **
78681082 GGGTATTTCAATAATTTTACAATTTGAGGGTATTTTGGTAATTTTACAATCTGAGGGTATTTCTC
1 GGGTATTTCAGTAATTTTACAATCTGAGGGTA-TTTGGTAATTTTACAA-ATGAGGGTATTTCGA
*
78681147 TAATTTTACAAA-TCGA
64 TAATTTTATAAACT-GA
* * * * * *
78681163 GGGCATTT-TGATAATTTTACAAACCG-GGGTAATTCGATAATTTTACAAAT
1 GGGTATTTCAG-TAATTTTACAATCTGAGGGT-ATTTGGTAATTTTACAAAT
78681213 CAAGGTCTTA
Statistics
Matches: 317, Mismatches: 45, Indels: 26
0.82 0.12 0.07
Matches are distributed among these distances:
79 5 0.02
80 61 0.19
81 241 0.76
82 10 0.03
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (79 bp):
GGGTATTTCAGTAATTTTACAATCTGAGGGTATTTGGTAATTTTACAAATGAGGGTATTTCGATA
ATTTTATAAACTGA
Found at i:78680950 original size:27 final size:27
Alignment explanation
Indices: 78680759--78681211 Score: 376
Period size: 27 Copynumber: 16.9 Consensus size: 27
78680749 TACCCTACAG
* * *
78680759 GGGTATTTCAATAATTTTACACTAC-AA
1 GGGTATTTCAGTAATTTTACA-AACTGA
* *
78680786 GGGTATTTCGGTAATTTTACAAA-TTA
1 GGGTATTTCAGTAATTTTACAAACTGA
** *
78680812 GGGTATTTGGGTAATTTTATAAACT-A
1 GGGTATTTCAGTAATTTTACAAACTGA
* *
78680838 GGGTTATTTTAGTAATTTTACAATCTGA
1 GGG-TATTTCAGTAATTTTACAAACTGA
*
78680866 GGGTATTTCAGTAATTTTACAAACCGA
1 GGGTATTTCAGTAATTTTACAAACTGA
* * *
78680893 GGGTATTTC-GATAATTTTATAATCTAA
1 GGGTATTTCAG-TAATTTTACAAACTGA
*
78680920 GGGTATTTCAGTAATTTTACAAACTGG
1 GGGTATTTCAGTAATTTTACAAACTGA
*
78680947 GGGTATTT-TGATAATTTTACAATA-TGA
1 GGGTATTTCAG-TAATTTTACAA-ACTGA
* * *
78680974 GAGTATTTC-GATAATTTTATAAATTGA
1 GGGTATTTCAG-TAATTTTACAAACTGA
*
78681001 GGGTATTTTAGTAATTTTACAAACTG-
1 GGGTATTTCAGTAATTTTACAAACTGA
* *
78681027 GCGGTATTT-TGATAATTTTAC-AATTCGA
1 G-GGTATTTCAG-TAATTTTACAAACT-GA
* *
78681055 GGGTATTTCGGTAATTTTACAAACTGG
1 GGGTATTTCAGTAATTTTACAAACTGA
* **
78681082 GGGTATTTCAATAATTTTACAATTTGA
1 GGGTATTTCAGTAATTTTACAAACTGA
** *
78681109 GGGTATTTTGGTAATTTTACAATCTGA
1 GGGTATTTCAGTAATTTTACAAACTGA
**
78681136 GGGTATTTCTCTAATTTTACAAA-TCGA
1 GGGTATTTCAGTAATTTTACAAACT-GA
* * *
78681163 GGGCATTT-TGATAATTTTACAAACCG-
1 GGGTATTTCAG-TAATTTTACAAACTGA
*
78681189 GGGTAATTC-GATAATTTTACAAA
1 GGGTATTTCAG-TAATTTTACAAA
78681212 TCAAGGTCTT
Statistics
Matches: 353, Mismatches: 52, Indels: 43
0.79 0.12 0.10
Matches are distributed among these distances:
26 57 0.16
27 284 0.80
28 12 0.03
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAACTGA
Found at i:78683807 original size:30 final size:29
Alignment explanation
Indices: 78683766--78683825 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 29
78683756 ACCAGAGACT
78683766 TGGTGTCCACACTTTTCAGAAGAACTATG
1 TGGTGTCCACACTTTTCAGAAGAACTATG
78683795 TGGTGTGCCACACTTTTCAGAAGAACTATG
1 TGGTGT-CCACACTTTTCAGAAGAACTATG
78683825 T
1 T
78683826 TTAATTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 6 0.20
30 24 0.80
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (29 bp):
TGGTGTCCACACTTTTCAGAAGAACTATG
Found at i:78685491 original size:15 final size:15
Alignment explanation
Indices: 78685440--78685484 Score: 81
Period size: 15 Copynumber: 2.9 Consensus size: 15
78685430 ACATATCATT
78685440 TATTTCATTATATCAA
1 TATTTCA-TATATCAA
78685456 TATTTCATATATCAA
1 TATTTCATATATCAA
78685471 TATTTCATATATCA
1 TATTTCATATATCA
78685485 TAGTTTCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 22 0.76
16 7 0.24
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTTCATATATCAA
Done.