Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 287 of 332
Found at i:95758816 original size:6 final size:6
Alignment explanation
Indices: 95758807--95758835 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
95758797 TTATTTAAAT
95758807 ATTTAA ATTTAA ATTTAA ATTTAA ATTTA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTA
95758836 TAAATTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:95759813 original size:29 final size:29
Alignment explanation
Indices: 95759771--95759829 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
95759761 TAGATGAAAG
95759771 AAATGGGATTAGGGTTTTACTTGTTTCAT
1 AAATGGGATTAGGGTTTTACTTGTTTCAT
95759800 AAATGGGATTAGGGTTTTACTTGTTTCAT
1 AAATGGGATTAGGGTTTTACTTGTTTCAT
95759829 A
1 A
95759830 CATTTGAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.44
Consensus pattern (29 bp):
AAATGGGATTAGGGTTTTACTTGTTTCAT
Found at i:95762409 original size:5 final size:5
Alignment explanation
Indices: 95762399--95762424 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
95762389 TGAGAAAAGG
95762399 GTGCA GTGCA GTGCA GTGCA GTGCA G
1 GTGCA GTGCA GTGCA GTGCA GTGCA G
95762425 GTTTCTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.42, T:0.19
Consensus pattern (5 bp):
GTGCA
Found at i:95766569 original size:895 final size:896
Alignment explanation
Indices: 95764838--95766611 Score: 2981
Period size: 895 Copynumber: 2.0 Consensus size: 896
95764828 AATCGTGTAA
* *
95764838 TGTGCATTGAATATGAATCGTGAAACAGACATGAAAGCTACCAACAAAAAAAATAATTACATTAA
1 TGTGCATTGAATATGAACCGTGAAACAAACATGAAAGCTACCAACAAAAAAAATAATTACATTAA
* ** *
95764903 ACATCAATTAAATTTAGACTTGAATCAAATTCTTAAACCCAAAATCCTGCACCAATCAGATTTTA
66 ACATCAATTAAATTTAGACTCGAATCAAATTCTTAAACCCAAAATCCAACACCAATCAAATTTTA
*
95764968 AGTAACGCAAGTTATTTAATTCTGCAATAATAACCATTGAATAACATTAATAATACTCGATTTGA
131 AGTAACGCAAGTTATTTAATTCTGCAATAATAACCATTAAATAACATTAATAATACTCGATTTGA
*
95765033 TCAATATGTATTTATTACAAGATTAGATAATAAGACAAAAAATAAACTATAAATTATTATACTTC
196 TCAATATATATTTATTACAAGATTAGATAATAAGACAAAAAATAAACTATAAATTATTATACTTC
95765098 CACTATAGGTGGACACGTGTCAGAGTGCAAGCCATCTGAAATATAATCATGACCAATCATTCAGC
261 CACTATAGGTGGACACGTGTCAGAGTGCAAGCCATCTGAAATATAATCATGACCAATCATTCAGC
* *
95765163 TCTACTCGAACGCATTAGTAATTGTCTCTTTCAGATTCTTACTCTCCATTTGACACTCTATCTCA
326 TCTACTCGAACGCATTAGTAACTATCTCTTTCAGATTCTTACTCTCCATTTGACACTCTATCTCA
*
95765228 GCAAGAGACTTGGACTGCATTCGTCTTCTTGAAACACCTAAACTATCCGCTTCTAGAGACAATCC
391 GCAAGAGACTTGGACTGCATTCGTCTTCTTGAAACACCTAAACCATCCGCTTCTAGAGACAATCC
* * *
95765293 ACTTGCTTGGCAAACATCCTTGCTAGCCACAACCTTTGAACATACCAGTTGTTGGAAAAATTACA
456 ACTTGCTTGGAAAACATCATTGCTAGCCACAACCTTTGAACATACCAGTTGTTGGAAAAAATACA
*
95765358 TTTTATGGGAACTTTGAGGCATATTCTCAATAGGTAAAGGTGAAGAGTTGAATCATAAAATTATG
521 TTTTATGGGAACTTTGAGGCATATTCGCAATAGGTAAAGGTGAAGAGTTGAATCATAAAATTATG
95765423 GTTTCATATTCTAATCCATGAGACCTTTACAACGGTATATCATATGCTCAAAATGGTTGAGTGAT
586 GTTTCATATTCTAATCCATGAGACCTTTACAACGGTATATCATATGCTCAAAATGGTTGAGTGAT
95765488 GAATGAGAAATTGATGCTCAAAGTAAGCTACTTGGAAATATTTGTTGAGGAAAAGAAAAGCTTAG
651 GAATGAGAAATTGATGCTCAAAGTAAGCTACTTGGAAATATTTGTTGAGGAAAAGAAAAGCTTAG
*
95765553 ATCCCACATCGGTTAAAACCCAAGTGTGAGATGTGTTTATTTATGGGAACCCTTTTGAAAGATGA
716 ATCCCACATCGGTTAAAACCCAAGTGTGAGATGTGTTTATATATGGGAACCCTTTTGAAAGATGA
** *
95765618 TTGAATGACTTTGTATGGAACCTTGCCTTGCGCGCAAGAGGGTGAAAGTCTATACCTGTCG-GAG
781 TTGAATGACTAAGTATGGAACCTTGCCTCGCGCGCAAGAGGGTGAAAGTCTATACCTGTCGAGAG
*
95765682 CTGGGGCACACCCGAACGACATGAGCGACGTGGATAGAAAAAGACATCGTT
846 CTGGGGCACACCAGAACGACATGAGCGACGTGGATAGAAAAAGACATCGTT
* * * *
95765733 TGTGCATTGAATATGAACCGTGAAATAAATATGAAAGCTA-CAA-ATAACAAATTAATTACATTA
1 TGTGCATTGAATATGAACCGTGAAACAAACATGAAAGCTACCAACA-AAAAAAATAATTACATTA
*
95765796 AACATCAATTAAATTTAGACTCGAATCAAATTCTTAATA-CCGAAATCCAACACCAATCAAATTT
65 AACATCAATTAAATTTAGACTCGAATCAAATTCTTAA-ACCCAAAATCCAACACCAATCAAATTT
* * *
95765860 TAAGTAACGCAAGTTATTTAATTTTGTC-ATAATAACTATTAAATAGCATTAATAATACTCGATT
129 TAAGTAACGCAAGTTATTTAATTCTG-CAATAATAACCATTAAATAACATTAATAATACTCGATT
*
95765924 TGATCAATATATATTTATTACAAGATTAGATAATAAGATAAAAAATAAACTATAAATTATTATAC
193 TGATCAATATATATTTATTACAAGATTAGATAATAAGACAAAAAATAAACTATAAATTATTATAC
95765989 TTCCACTACT-GGTGGACACGTGTCAGCA-TGACAAGCCATCTGAGAA-ATAATCATGACCAATC
258 TTCCACTA-TAGGTGGACACGTGTCAG-AGTG-CAAGCCATCTGA-AATATAATCATGACCAATC
* * * *
95766051 ATTCAGCTCTACTCGAATGCCTTGGTAACTATCT-TTATCAGATTCTTACTCTCCATTTGACCCT
319 ATTCAGCTCTACTCGAACGCATTAGTAACTATCTCTT-TCAGATTCTTACTCTCCATTTGACACT
*
95766115 CTATCTCAGCAAGAGACTTGGACTGCATTCGTCTTCTTGAAACACCTAAACCATCCGCTTTTAGA
383 CTATCTCAGCAAGAGACTTGGACTGCATTCGTCTTCTTGAAACACCTAAACCATCCGCTTCTAGA
*
95766180 GACAATCCACTTGCTTGGAAAACATCATTGCTAGCCACAACCTTTGAACATACTAGTTGTTGGAA
448 GACAATCCACTTGCTTGGAAAACATCATTGCTAGCCACAACCTTTGAACATACCAGTTGTTGGAA
95766245 AAAATACATTTTATGGGAACTTTGAGGCATATTCGCAATAGGTAAAGGTGAAGAGTTGAATCATA
513 AAAATACATTTTATGGGAACTTTGAGGCATATTCGCAATAGGTAAAGGTGAAGAGTTGAATCATA
* *
95766310 AAATTATGGTTTCATATTCTACTTCATGAGACCTTTACAACGGTATATCATATGCTCAAAATGGT
578 AAATTATGGTTTCATATTCTAATCCATGAGACCTTTACAACGGTATATCATATGCTCAAAATGGT
*
95766375 TGAGTGATGAATGAGAAATTGATGCTCAAATTAAGCTACTTGGAAATATTTGTTGAGGAAAAGAA
643 TGAGTGATGAATGAGAAATTGATGCTCAAAGTAAGCTACTTGGAAATATTTGTTGAGGAAAAGAA
* *
95766440 AAGCTTAGATGCCACATTGGTTAAAACCCAAGTGTGAGATGTGTTTATATATGGGAACCCTTTTG
708 AAGCTTAGATCCCACATCGGTTAAAACCCAAGTGTGAGATGTGTTTATATATGGGAACCCTTTTG
* *
95766505 AAAGATGATTGAATGACTAAGTATGGAACCTTGCCTCGCGCGCAAGAGGGTGCAAGTTTATACCT
773 AAAGATGATTGAATGACTAAGTATGGAACCTTGCCTCGCGCGCAAGAGGGTGAAAGTCTATACCT
* ** *
95766570 GTCGTCAGAGTTGGGGCGTACCAGAATGACATGAGCGACGTG
838 GTCG--AGAGCTGGGGCACACCAGAACGACATGAGCGACGTG
95766612 AAATGCCCAA
Statistics
Matches: 822, Mismatches: 46, Indels: 19
0.93 0.05 0.02
Matches are distributed among these distances:
893 1 0.00
894 225 0.27
895 564 0.69
896 2 0.00
898 30 0.04
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (896 bp):
TGTGCATTGAATATGAACCGTGAAACAAACATGAAAGCTACCAACAAAAAAAATAATTACATTAA
ACATCAATTAAATTTAGACTCGAATCAAATTCTTAAACCCAAAATCCAACACCAATCAAATTTTA
AGTAACGCAAGTTATTTAATTCTGCAATAATAACCATTAAATAACATTAATAATACTCGATTTGA
TCAATATATATTTATTACAAGATTAGATAATAAGACAAAAAATAAACTATAAATTATTATACTTC
CACTATAGGTGGACACGTGTCAGAGTGCAAGCCATCTGAAATATAATCATGACCAATCATTCAGC
TCTACTCGAACGCATTAGTAACTATCTCTTTCAGATTCTTACTCTCCATTTGACACTCTATCTCA
GCAAGAGACTTGGACTGCATTCGTCTTCTTGAAACACCTAAACCATCCGCTTCTAGAGACAATCC
ACTTGCTTGGAAAACATCATTGCTAGCCACAACCTTTGAACATACCAGTTGTTGGAAAAAATACA
TTTTATGGGAACTTTGAGGCATATTCGCAATAGGTAAAGGTGAAGAGTTGAATCATAAAATTATG
GTTTCATATTCTAATCCATGAGACCTTTACAACGGTATATCATATGCTCAAAATGGTTGAGTGAT
GAATGAGAAATTGATGCTCAAAGTAAGCTACTTGGAAATATTTGTTGAGGAAAAGAAAAGCTTAG
ATCCCACATCGGTTAAAACCCAAGTGTGAGATGTGTTTATATATGGGAACCCTTTTGAAAGATGA
TTGAATGACTAAGTATGGAACCTTGCCTCGCGCGCAAGAGGGTGAAAGTCTATACCTGTCGAGAG
CTGGGGCACACCAGAACGACATGAGCGACGTGGATAGAAAAAGACATCGTT
Found at i:95772423 original size:7 final size:8
Alignment explanation
Indices: 95772398--95772423 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
95772388 TTCTAATTTG
95772398 TTTCAATT
1 TTTCAATT
95772406 TTTCAATT
1 TTTCAATT
95772414 TTTCAATT
1 TTTCAATT
95772422 TT
1 TT
95772424 AATATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTCAATT
Found at i:95779710 original size:18 final size:18
Alignment explanation
Indices: 95779687--95779745 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
95779677 TACCAGAGAC
95779687 AATGTCCAAGAGAAAGAA
1 AATGTCCAAGAGAAAGAA
** * **
95779705 AATGTCCATCATGAATGCT
1 AATGTCCAAGA-GAAAGAA
*
95779724 AATGTCCAGGAGAAAGAA
1 AATGTCCAAGAGAAAGAA
95779742 AATG
1 AATG
95779746 ACCTTAGGAT
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.19
Consensus pattern (18 bp):
AATGTCCAAGAGAAAGAA
Found at i:95781933 original size:19 final size:19
Alignment explanation
Indices: 95781872--95781933 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
95781862 TCTTTTTTAA
95781872 TTAAAATAATTTATATTAT
1 TTAAAATAATTTATATTAT
* ** * ** *
95781891 TCAATGTTATTT-TCGTAA
1 TTAAAATAATTTATATTAT
95781909 TTAAAATAATTTATATTAT
1 TTAAAATAATTTATATTAT
95781928 TTAAAA
1 TTAAAA
95781934 GTATTTTAAT
Statistics
Matches: 28, Mismatches: 14, Indels: 2
0.64 0.32 0.05
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (19 bp):
TTAAAATAATTTATATTAT
Found at i:95781939 original size:37 final size:37
Alignment explanation
Indices: 95781869--95781940 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
95781859 AAATCTTTTT
* *
95781869 TAATTAAAATAATTTATATTATTCAATGTTATTTTCG
1 TAATTAAAATAATTTATATTATTAAAAGTTATTTTCG
95781906 TAATTAAAATAATTTATATTATTTAAAAG-TATTTT
1 TAATTAAAATAATTTATATTA-TTAAAAGTTATTTT
95781941 AATTTTTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 27 0.84
38 5 0.16
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (37 bp):
TAATTAAAATAATTTATATTATTAAAAGTTATTTTCG
Found at i:95782759 original size:42 final size:42
Alignment explanation
Indices: 95782695--95782779 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
95782685 CCTAACCTCC
*
95782695 CCCGAAAACTCCTCGCCTTGACTCTATCCTCATATTCTTCAA
1 CCCGAAAACTCCTCGCCCTGACTCTATCCTCATATTCTTCAA
* *
95782737 CCCGAAAACTCCTCGCCCTGACTTTATCCTCATCTTCTTCAA
1 CCCGAAAACTCCTCGCCCTGACTCTATCCTCATATTCTTCAA
95782779 C
1 C
95782780 ACTATGCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.22, C:0.40, G:0.07, T:0.31
Consensus pattern (42 bp):
CCCGAAAACTCCTCGCCCTGACTCTATCCTCATATTCTTCAA
Found at i:95785205 original size:14 final size:16
Alignment explanation
Indices: 95785181--95785214 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
95785171 CAAATAATTC
95785181 AAAATTATAAAAATA-
1 AAAATTATAAAAATAT
95785196 AAAATT-TAAAAATAT
1 AAAATTATAAAAATAT
95785211 AAAA
1 AAAA
95785215 AAGTTCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATTATAAAAATAT
Found at i:95786144 original size:17 final size:17
Alignment explanation
Indices: 95786124--95786185 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
95786114 ATAAAATAAA
95786124 AAAAAATTCAA-AAATAT
1 AAAAAATT-AATAAATAT
95786141 AAAAAATTAATAAATAT
1 AAAAAATTAATAAATAT
*
95786158 GAAATAA-TAATAGAAATAT
1 -AAAAAATTAAT--AAATAT
*
95786177 AAATAATTA
1 AAAAAATTA
95786186 TTTTATAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 2 0.05
17 18 0.46
18 11 0.28
19 8 0.21
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAAAATTAATAAATAT
Found at i:95799008 original size:24 final size:26
Alignment explanation
Indices: 95798981--95799030 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
95798971 ATTTGTTTTA
*
95798981 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
95799005 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
95799031 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:95806133 original size:51 final size:51
Alignment explanation
Indices: 95806062--95806175 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
95806052 CTAATCACAT
95806062 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
95806113 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
95806164 TTGTCGCTTGTC
1 TTATCACTTGTC
95806176 GCTTGTCACT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:95813893 original size:51 final size:52
Alignment explanation
Indices: 95813836--95813950 Score: 205
Period size: 51 Copynumber: 2.2 Consensus size: 52
95813826 CTGATCACAT
95813836 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCT-ACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAACCACTTATCAC
95813887 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAACCACTTATCAC
* *
95813939 TTGTCGCTTGTC
1 TTATCACTTGTC
95813951 GCTTGTCATT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 39 0.64
52 22 0.36
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (52 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAACCACTTATCAC
Found at i:95819965 original size:50 final size:50
Alignment explanation
Indices: 95819804--95820050 Score: 302
Period size: 50 Copynumber: 4.8 Consensus size: 50
95819794 GATAATAACA
* ** *
95819804 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * *
95819855 TGCCCATGCCATGTCCCAGACATGGTCTTATA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
95819904 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* *
95819954 TGCCCATGCCATGTCCCAGACATGGTCTTACA-GGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGG
*
95820008 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
95820051 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
48 1 0.01
49 46 0.27
50 50 0.29
51 30 0.18
52 2 0.01
53 1 0.01
54 2 0.01
55 31 0.18
56 8 0.05
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:95819981 original size:99 final size:103
Alignment explanation
Indices: 95819803--95820050 Score: 353
Period size: 99 Copynumber: 2.4 Consensus size: 103
95819793 TGATAATAAC
**
95819803 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
95819868 TCCCAGACATGGTCTTATAGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGACCTCTCAATCTTAAGG
* *
95819904 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
95819967 TCCCAGACATGGTCTTACAGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGACCTCTCA--ATCTTAAGG
* *
95820008 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
95820051 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
98 1 0.01
99 49 0.37
100 36 0.27
102 3 0.02
103 1 0.01
104 2 0.02
105 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.26
Consensus pattern (103 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGACCTCTCAATCTTAAGG
Found at i:95820166 original size:13 final size:13
Alignment explanation
Indices: 95820145--95820176 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
95820135 GCTTGGATCA
*
95820145 TCATCAAATAAAT
1 TCATAAAATAAAT
95820158 TCATAAAATAAAT
1 TCATAAAATAAAT
95820171 TCATAA
1 TCATAA
95820177 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:95827042 original size:50 final size:50
Alignment explanation
Indices: 95826918--95827166 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
95826908 GATAATAACA
* * ** * *
95826918 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
95826969 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
95827019 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
95827069 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
95827124 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
95827167 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:95827096 original size:100 final size:104
Alignment explanation
Indices: 95826917--95827166 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
95826907 TGATAATAAC
**
95826917 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
95826982 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
95827019 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
95827082 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
95827124 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
95827167 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:95827282 original size:13 final size:13
Alignment explanation
Indices: 95827261--95827292 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
95827251 GCTTGGATCA
*
95827261 TCATCAAATAAAT
1 TCATAAAATAAAT
95827274 TCATAAAATAAAT
1 TCATAAAATAAAT
95827287 TCATAA
1 TCATAA
95827293 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:95829025 original size:14 final size:14
Alignment explanation
Indices: 95829006--95829034 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
95828996 ACTGGTGTGC
95829006 ATGTAACACCCCTA
1 ATGTAACACCCCTA
95829020 ATGTAACACCCCTA
1 ATGTAACACCCCTA
95829034 A
1 A
95829035 CCCGTATCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.34, G:0.07, T:0.21
Consensus pattern (14 bp):
ATGTAACACCCCTA
Found at i:95829413 original size:23 final size:25
Alignment explanation
Indices: 95829387--95829433 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
95829377 TATCATTCAT
*
95829387 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
95829410 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
95829434 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:95829754 original size:46 final size:46
Alignment explanation
Indices: 95829694--95830097 Score: 556
Period size: 46 Copynumber: 9.0 Consensus size: 46
95829684 TTTAACGTGA
* * * * * *
95829694 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
95829740 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
95829786 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
95829832 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * ** * * *
95829878 TGTCATGGTATCTTTCAACCATGATCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
95829924 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
95829970 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
95830016 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
95830054 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
95830098 AGAGCACACT
Statistics
Matches: 320, Mismatches: 29, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
38 33 0.10
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 273 0.85
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:95829942 original size:138 final size:138
Alignment explanation
Indices: 95829694--95830097 Score: 628
Period size: 138 Copynumber: 3.0 Consensus size: 138
95829684 TTTAACGTGA
* * * * * *
95829694 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
*
95829758 CCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTC
65 CCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
95829823 ATATCAGGT
130 ATATCAGGT
*
95829832 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
95829897 CATGATCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
95829962 TATCAGGT
131 TATCAGGT
*
95829970 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
* *
95830035 CATGGTCTTA--C---ACA---CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
95830092 TATCAG
131 TATCAG
95830098 AGAGCACACT
Statistics
Matches: 251, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
130 48 0.19
133 2 0.01
136 1 0.00
137 4 0.02
138 196 0.78
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
TATCAGGT
Found at i:95830062 original size:38 final size:38
Alignment explanation
Indices: 95830011--95830086 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
95830001 CATTTCATAT
95830011 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
95830049 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
95830087 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:95832186 original size:11 final size:11
Alignment explanation
Indices: 95832170--95832217 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
95832160 CTTTATATAC
95832170 TAATAAAATAA
1 TAATAAAATAA
95832181 TAATAAAATATA
1 TAATAAAATA-A
* * *
95832193 TTATTAAAGTAT
1 -TAATAAAATAA
95832205 TAATAAAATAA
1 TAATAAAATAA
95832216 TA
1 TA
95832218 TTTATCTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
11 20 0.69
12 1 0.03
13 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:95832200 original size:24 final size:24
Alignment explanation
Indices: 95832164--95832219 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
95832154 TTCTTTCTTT
*
95832164 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* * *
95832188 ATATATTATTAAAGTATTAATAAA
1 ATATATTAATAAAATAATAATAAA
95832212 ATAATATT
1 AT-ATATT
95832220 TATCTAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:95837684 original size:42 final size:43
Alignment explanation
Indices: 95837582--95837688 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 43
95837572 TACAATACCG
* * *
95837582 ATGTCCTGGACGTGGTCTTACATGTAATTCAATATCAATGCCT
1 ATGTCCTGGACATGGTCTTACACGAAATTCAATATCAATGCCT
* * * *
95837625 CTGTCCCGGACAGGGTCTTACACGAAATT-AGATA-CGATGCCT
1 ATGTCCTGGACATGGTCTTACACGAAATTCA-ATATCAATGCCT
*
95837667 ATGTCCTAGACATGGTCTTACA
1 ATGTCCTGGACATGGTCTTACA
95837689 TGTAAAACTC
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (43 bp):
ATGTCCTGGACATGGTCTTACACGAAATTCAATATCAATGCCT
Found at i:95841304 original size:23 final size:23
Alignment explanation
Indices: 95841270--95841316 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
95841260 TATTACATGA
95841270 TTAATTAAGTAAGTTTGTTTTGC
1 TTAATTAAGTAAGTTTGTTTTGC
*
95841293 TTAATTAGGTAAGTTTGTTTTGC
1 TTAATTAAGTAAGTTTGTTTTGC
95841316 T
1 T
95841317 CGGTTTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.04, G:0.19, T:0.53
Consensus pattern (23 bp):
TTAATTAAGTAAGTTTGTTTTGC
Found at i:95841353 original size:12 final size:12
Alignment explanation
Indices: 95841336--95841366 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
95841326 ATAATTTCTA
95841336 CGTTTCTGTGAT
1 CGTTTCTGTGAT
95841348 CGTTTCTGTGAT
1 CGTTTCTGTGAT
95841360 CGTTTCT
1 CGTTTCT
95841367 TCGTGTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.19, G:0.23, T:0.52
Consensus pattern (12 bp):
CGTTTCTGTGAT
Found at i:95842201 original size:43 final size:42
Alignment explanation
Indices: 95842092--95842201 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
95842082 GATTTGATAT
* *
95842092 TTACATGTAAGACCATGTATGGGACATAAGCATCGTATCTGA
1 TTACATGTAAGACCATGTCTGGGACAGAAGCATCGTATCTGA
* * *
95842134 TTTCGTGTAAGACTC-TGTCTGGGACAGAGGCATCG-ATACTGAA
1 TTACATGTAAGAC-CATGTCTGGGACAGAAGCATCGTAT-CTG-A
* *
95842177 TTACATGTAAGACCACGTCCGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
95842202 GTCGGCATTG
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.04
42 32 0.58
43 21 0.38
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAGAAGCATCGTATCTGA
Found at i:95844863 original size:84 final size:84
Alignment explanation
Indices: 95844722--95844891 Score: 304
Period size: 84 Copynumber: 2.0 Consensus size: 84
95844712 AATCTCATAT
*
95844722 AGTTGAACAAAGCAATATTCCTCGGTTTCAATACCCTAATCTCATAAATCACGAAGTTATCTTCA
1 AGTTGAACAAAGCAACATTCCTCGGTTTCAATACCCTAATCTCATAAATCACGAAGTTATCTTCA
95844787 TAATTGGTCTACAACTACC
66 TAATTGGTCTACAACTACC
* *
95844806 AGTTGGACAAAGCAACATTCCTCGGTTTCAATAGCCTAATCTCATAAATCACGAAGTTATCTTCA
1 AGTTGAACAAAGCAACATTCCTCGGTTTCAATACCCTAATCTCATAAATCACGAAGTTATCTTCA
*
95844871 TAATTGGTCTATAACTACC
66 TAATTGGTCTACAACTACC
95844890 AG
1 AG
95844892 ATGGGTGTGT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (84 bp):
AGTTGAACAAAGCAACATTCCTCGGTTTCAATACCCTAATCTCATAAATCACGAAGTTATCTTCA
TAATTGGTCTACAACTACC
Found at i:95846415 original size:3 final size:3
Alignment explanation
Indices: 95846407--95846439 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
95846397 AATGGCCATT
*
95846407 ATC ATC ATC ATC ATC ATC ATC ATC ATC ACC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
95846440 CACTATCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (3 bp):
ATC
Found at i:95847726 original size:6 final size:6
Alignment explanation
Indices: 95847668--95847724 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
95847658 GAAAAGGATG
* *
95847668 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GAGGAA GGGAAA
1 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA
*
95847716 GGGAAA GGG
1 GGGGAA GGG
95847725 AAGATCATGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:95865942 original size:4 final size:4
Alignment explanation
Indices: 95865933--95865981 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
95865923 TTTATGAAAA
95865933 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
95865981 A
1 A
95865982 TTAGTCTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:95872523 original size:21 final size:21
Alignment explanation
Indices: 95872499--95872568 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
95872489 CACATACATC
95872499 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
** * * *
95872520 ATGAGTTCAAATGTCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
95872544 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
95872565 ATGA
1 ATGA
95872569 GTACAGATTT
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 13 0.38
22 4 0.12
23 4 0.12
24 9 0.26
25 2 0.06
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.21
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:95872535 original size:45 final size:45
Alignment explanation
Indices: 95872485--95872570 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
95872475 GCCAAAACAT
95872485 ATGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAA
1 ATGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAA
*
95872530 ATGTCACATATATCATGAACTCAGACCACAACTCAATGAGT
1 ATGTCACATACATCATGAACTCAGACCACAACTCAATGAGT
95872571 ACAGATTTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.23
Consensus pattern (45 bp):
ATGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAA
Found at i:95875188 original size:31 final size:31
Alignment explanation
Indices: 95875150--95875212 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
95875140 TTAAATAAAA
*
95875150 GAAAAAAACTCATTTTAGCAAAGAAAGAAGT
1 GAAAAAAACTCATTTTAGAAAAGAAAGAAGT
95875181 GAAAAAAACTCATTTTAGAAAAGAAAGAAGT
1 GAAAAAAACTCATTTTAGAAAAGAAAGAAGT
95875212 G
1 G
95875213 TTTATTGCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.56, C:0.08, G:0.17, T:0.19
Consensus pattern (31 bp):
GAAAAAAACTCATTTTAGAAAAGAAAGAAGT
Found at i:95876681 original size:48 final size:48
Alignment explanation
Indices: 95876629--95876727 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
95876619 TCGAATGGAA
95876629 GAATTATATACTACGAACATTATTGATGATTCTTTGGAGGAAATTATT
1 GAATTATATACTACGAACATTATTGATGATTCTTTGGAGGAAATTATT
*
95876677 GAATTATATACTGCGAACATTATTGATGATTCTTTGGAGGAAATTATT
1 GAATTATATACTACGAACATTATTGATGATTCTTTGGAGGAAATTATT
95876725 GAA
1 GAA
95876728 ACAAAGGTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (48 bp):
GAATTATATACTACGAACATTATTGATGATTCTTTGGAGGAAATTATT
Found at i:95876722 original size:24 final size:24
Alignment explanation
Indices: 95876647--95876726 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
95876637 TACTACGAAC
95876647 ATTATTGATGATTCTTTGGAGGAA
1 ATTATTGATGATTCTTTGGAGGAA
* * ***
95876671 ATTATTGA--ATTATATACTGCGAA
1 ATTATTGATGATTCTTTGGAG-GAA
95876694 CATTATTGATGATTCTTTGGAGGAA
1 -ATTATTGATGATTCTTTGGAGGAA
95876719 ATTATTGA
1 ATTATTGA
95876727 AACAAAGGTA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
22 6 0.14
23 3 0.07
24 24 0.57
25 3 0.07
26 6 0.14
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (24 bp):
ATTATTGATGATTCTTTGGAGGAA
Found at i:95879328 original size:7 final size:7
Alignment explanation
Indices: 95879311--95879349 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
95879301 ACATACCAAT
95879311 TTCAC-A
1 TTCACAA
95879317 TTCACAA
1 TTCACAA
95879324 TTCACAA
1 TTCACAA
95879331 TTCACAA
1 TTCACAA
95879338 TTCACAA
1 TTCACAA
95879345 TTCAC
1 TTCAC
95879350 CTAAATGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (7 bp):
TTCACAA
Found at i:95883497 original size:13 final size:13
Alignment explanation
Indices: 95883479--95883504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95883469 TGGTGCGCTT
95883479 CTATCTGTTCGAG
1 CTATCTGTTCGAG
95883492 CTATCTGTTCGAG
1 CTATCTGTTCGAG
95883505 TTCCCTGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
CTATCTGTTCGAG
Found at i:95883746 original size:9 final size:9
Alignment explanation
Indices: 95883694--95883746 Score: 61
Period size: 9 Copynumber: 5.6 Consensus size: 9
95883684 TTTTAGAAAA
95883694 TTTTTAATT
1 TTTTTAATT
*
95883703 TTTTAAATT
1 TTTTTAATT
95883712 TTTTTATATAT
1 TTTTTA-AT-T
*
95883723 ATTTTAGATT
1 TTTTTA-ATT
95883733 TTTTTAATT
1 TTTTTAATT
95883742 TTTTT
1 TTTTT
95883747 TTTAAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 21 0.57
10 8 0.22
11 8 0.22
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTAATT
Found at i:95883776 original size:20 final size:20
Alignment explanation
Indices: 95883753--95883790 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
95883743 TTTTTTTAAA
95883753 ATAAAAATTTTAAATTTTTT
1 ATAAAAATTTTAAATTTTTT
*
95883773 ATAAATATTTTAAATTTT
1 ATAAAAATTTTAAATTTT
95883791 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAAAAATTTTAAATTTTTT
Found at i:95884389 original size:23 final size:23
Alignment explanation
Indices: 95884336--95884408 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
95884326 ATATTCTATA
** *
95884336 TAAATAATTTAATAAATAAAAATA
1 TAAA-AATTTAATAAATATTAATT
* *
95884360 TATAAATTTATTAAATATTAATT
1 TAAAAATTTAATAAATATTAATT
*
95884383 TAAAAA--TAATATATATT-ATT
1 TAAAAATTTAATAAATATTAATT
95884403 TAAAAA
1 TAAAAA
95884409 ATTATAAGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 9 0.22
21 9 0.22
23 20 0.49
24 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAAAATTTAATAAATATTAATT
Found at i:95884414 original size:19 final size:21
Alignment explanation
Indices: 95884368--95884414 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
95884358 TATATAAATT
*
95884368 TATTAAATATTAATTTAAAAA
1 TATTATATATTAATTTAAAAA
*
95884389 TAATATATATT-ATTTAAAAA
1 TATTATATATTAATTTAAAAA
95884409 -ATTATA
1 TATTATA
95884415 AGACCGGGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 5 0.22
20 9 0.39
21 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTATATATTAATTTAAAAA
Found at i:95892155 original size:10 final size:10
Alignment explanation
Indices: 95892140--95892197 Score: 68
Period size: 10 Copynumber: 5.9 Consensus size: 10
95892130 AATTTTAGCT
95892140 TTTATCTTTA
1 TTTATCTTTA
95892150 TTTATCTTT-
1 TTTATCTTTA
95892159 TTCTATCTTTA
1 TT-TATCTTTA
*
95892170 ATTATC-TTA
1 TTTATCTTTA
95892179 TTTAT-TTGTA
1 TTTATCTT-TA
95892189 TTTATCTTT
1 TTTATCTTT
95892198 TGGAATTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 10 0.24
10 28 0.68
11 3 0.07
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:95892167 original size:20 final size:19
Alignment explanation
Indices: 95892139--95892198 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
95892129 TAATTTTAGC
95892139 TTTTATCTTTATTTATCTT
1 TTTTATCTTTATTTATCTT
*
95892158 TTTCTATCTTTAATTATCTT
1 TTT-TATCTTTATTTATCTT
*
95892178 ATTTAT-TTGTATTTATCTT
1 TTTTATCTT-TATTTATCTT
95892197 TT
1 TT
95892199 GGAATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 2 0.06
19 16 0.46
20 17 0.49
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTATCTTTATTTATCTT
Found at i:95898446 original size:5 final size:5
Alignment explanation
Indices: 95898436--95898501 Score: 62
Period size: 5 Copynumber: 12.4 Consensus size: 5
95898426 GCAACCCAAT
*
95898436 TTTTA TTTTA TTTT- TCTTAA TTTTTA TTTTA TTATTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA T-TTTA -TTTTA TTTTA -T-TTTA TTTTA TTTTA
*
95898484 TTTTA TTATTA CTTTA TT
1 TTTTA TT-TTA TTTTA TT
95898502 CTGTTTGGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 1 0.02
5 36 0.71
6 9 0.18
7 5 0.10
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:95898500 original size:33 final size:33
Alignment explanation
Indices: 95898437--95898501 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
95898427 CAACCCAATT
* *
95898437 TTTATTTTATTTTTCTTAATTTTTATTTTATTA
1 TTTATTTTATTTTTCTTAATTATTACTTTATTA
*
95898470 TTTATTTTATTTTAT-TTTATTATTACTTTATT
1 TTTATTTTATTTT-TCTTAATTATTACTTTATT
95898502 CTGTTTGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (33 bp):
TTTATTTTATTTTTCTTAATTATTACTTTATTA
Found at i:95899560 original size:16 final size:14
Alignment explanation
Indices: 95899533--95899577 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
95899523 TGATAAAAAC
*
95899533 AAAAACAAAAAGGAA
1 AAAAAGAAAAA-GAA
95899548 AAAATAGAAAAAGAA
1 AAAA-AGAAAAAGAA
95899563 AAAAAGAAAAA-AA
1 AAAAAGAAAAAGAA
95899576 AA
1 AA
95899578 GTGATGTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 4 0.14
14 7 0.25
15 11 0.39
16 6 0.21
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:95900223 original size:10 final size:10
Alignment explanation
Indices: 95900208--95900256 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
95900198 AATTTTAGCT
95900208 TTTATCTTTA
1 TTTATCTTTA
95900218 TTTATCTTTA
1 TTTATCTTTA
** *
95900228 AATATTTTTA
1 TTTATCTTTA
*
95900238 TTTATTTTTA
1 TTTATCTTTA
95900248 TTTATCTTT
1 TTTATCTTT
95900257 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:95902444 original size:6 final size:6
Alignment explanation
Indices: 95902418--95902489 Score: 58
Period size: 6 Copynumber: 12.3 Consensus size: 6
95902408 AAATTCTAAG
* * * * * *
95902418 AAAATT AAAATA AATAGA AAAATA AAAATA AAACTA AAATTA AAAATT
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
95902466 AAAA-G AAAA-G AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
95902490 TGGACTCAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
5 9 0.17
6 45 0.83
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:95902463 original size:18 final size:17
Alignment explanation
Indices: 95902415--95902474 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
95902405 AAAAAATTCT
95902415 AAGAAAATT-AAAATAA
1 AAGAAAATTAAAAATAA
*
95902431 ATAGAAAAATAAAAATAA
1 A-AGAAAATTAAAAATAA
*
95902449 AACTAAAATTAAAAATTAA
1 AA-GAAAATTAAAAA-TAA
95902468 AAGAAAA
1 AAGAAAA
95902475 GAAAATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 1 0.03
17 8 0.22
18 22 0.61
19 5 0.14
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (17 bp):
AAGAAAATTAAAAATAA
Found at i:95911135 original size:18 final size:18
Alignment explanation
Indices: 95911112--95911149 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
95911102 AAAACAATAA
95911112 GTTCAATGGCATACTTTT
1 GTTCAATGGCATACTTTT
95911130 GTTCAATGGCATACTTTT
1 GTTCAATGGCATACTTTT
95911148 GT
1 GT
95911150 GGCACTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (18 bp):
GTTCAATGGCATACTTTT
Found at i:95925496 original size:6 final size:6
Alignment explanation
Indices: 95925485--95925545 Score: 69
Period size: 6 Copynumber: 10.8 Consensus size: 6
95925475 AGGCAAACCA
*
95925485 ATTTTT ATTTTT ATTTTT A-TTTT ATTTTT A--TTA ATTTTT A-TTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
95925529 ATTATTT A-TTTT ATTTT
1 ATT-TTT ATTTTT ATTTT
95925546 ATTATTACTT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
4 3 0.06
5 14 0.30
6 26 0.55
7 4 0.09
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:95925502 original size:12 final size:11
Alignment explanation
Indices: 95925485--95925545 Score: 88
Period size: 11 Copynumber: 5.5 Consensus size: 11
95925475 AGGCAAACCA
95925485 ATTTTTATTTTT
1 ATTTTTA-TTTT
95925497 ATTTTTATTTT
1 ATTTTTATTTT
*
95925508 ATTTTTA-TTA
1 ATTTTTATTTT
95925518 ATTTTTATTTT
1 ATTTTTATTTT
95925529 ATTATTTATTTT
1 ATT-TTTATTTT
95925541 ATTTT
1 ATTTT
95925546 ATTATTACTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
10 9 0.20
11 18 0.40
12 18 0.40
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:95925509 original size:17 final size:17
Alignment explanation
Indices: 95925487--95925559 Score: 89
Period size: 17 Copynumber: 4.4 Consensus size: 17
95925477 GCAAACCAAT
*
95925487 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTATTA
*
95925504 TTTTATTTTTATTAAT-
1 TTTTATTTTTATTATTA
95925520 TTTTA-TTTTATTATTTA
1 TTTTATTTTTATTA-TTA
95925537 TTTTA-TTTTATTATTA
1 TTTTATTTTTATTATTA
*
95925553 CTTTATT
1 TTTTATT
95925560 CTGTTTAGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.16
16 13 0.27
17 28 0.57
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTTTATTATTA
Found at i:95925523 original size:21 final size:22
Alignment explanation
Indices: 95925489--95925538 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
95925479 AAACCAATTT
95925489 TTATTT-TT-ATTTTTATTTTA
1 TTATTTATTAATTTTTATTTTA
95925509 TT-TTTATTAATTTTTATTTTA
1 TTATTTATTAATTTTTATTTTA
95925530 TTATTTATT
1 TTATTTATT
95925539 TTATTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.11
20 4 0.15
21 14 0.52
22 6 0.22
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (22 bp):
TTATTTATTAATTTTTATTTTA
Found at i:95925559 original size:33 final size:32
Alignment explanation
Indices: 95925484--95925549 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 32
95925474 GAGGCAAACC
95925484 AATTTTTATTTTTATTTTTATTTTATTTTTATT
1 AATTTTTA-TTTTATTTTTATTTTATTTTTATT
95925517 AATTTTTATTTTATTATTTATTTTA-TTTTATT
1 AATTTTTATTTTATT-TTTATTTTATTTTTATT
95925549 A
1 A
95925550 TTACTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (32 bp):
AATTTTTATTTTATTTTTATTTTATTTTTATT
Found at i:95925890 original size:3 final size:3
Alignment explanation
Indices: 95925882--95925921 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
95925872 TTGCTGCCCA
95925882 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
95925922 TAAGAATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:95926616 original size:6 final size:6
Alignment explanation
Indices: 95926607--95926666 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
95926597 TAATAGTGAT
* * * *
95926607 AAAAAG AAAAAG AAAAAC AAAAAG GAAAA- AAATAG -AAAA- AAACAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
95926652 AAAAAG AAAAA- AAAA
1 AAAAAG AAAAAG AAAA
95926667 GTGATGTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
5 13 0.30
6 30 0.70
ACGTcount: A:0.83, C:0.03, G:0.12, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:95927307 original size:10 final size:10
Alignment explanation
Indices: 95927292--95927340 Score: 66
Period size: 10 Copynumber: 4.9 Consensus size: 10
95927282 CATTTAATTT
95927292 TTTATCTTTA
1 TTTATCTTTA
95927302 TTTATCTTT-
1 TTTATCTTTA
95927311 TATTATCTTTA
1 T-TTATCTTTA
95927322 TTTAT-TTGTA
1 TTTATCTT-TA
95927332 TTTATCTTT
1 TTTATCTTT
95927341 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 3 0.09
10 29 0.83
11 3 0.09
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:95927316 original size:20 final size:19
Alignment explanation
Indices: 95927283--95927340 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
95927273 TGTTATTTAC
*
95927283 ATTTAATTTT-TTATCTTT
1 ATTTATTTTTATTATCTTT
95927301 ATTTATCTTTTATTATCTTT
1 ATTTAT-TTTTATTATCTTT
*
95927321 ATTTATTTGTATTTATCTTT
1 ATTTATTTTTA-TTATCTTT
95927341 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.14
19 8 0.23
20 22 0.63
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTATTTTTATTATCTTT
Found at i:95929323 original size:3 final size:3
Alignment explanation
Indices: 95929315--95929348 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
95929305 CAAATAGGCA
*
95929315 AAT AAT AAT AAT AAT AAT AAT AAT TA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
95929349 CGAATATCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 27 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:95932260 original size:22 final size:20
Alignment explanation
Indices: 95932234--95932276 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
95932224 ATAAACTAAG
*
95932234 ATAAAATGAAATAATAATAATA
1 ATAAAATAAAATAA-AA-AATA
95932256 ATAAAATAAAATAAAAAATA
1 ATAAAATAAAATAAAAAATA
95932276 A
1 A
95932277 AGAAAATGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (20 bp):
ATAAAATAAAATAAAAAATA
Found at i:95932263 original size:5 final size:5
Alignment explanation
Indices: 95932223--95932271 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
95932213 TTAGTAAATC
* * *
95932223 AATAA ACTAA GATAA AATGA AATAA TAATAA TAATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA -AATAA -AATAA AATAA AATAA AA
95932272 AATAAAGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
5 26 0.70
6 11 0.30
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:95932275 original size:17 final size:17
Alignment explanation
Indices: 95932236--95932277 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
95932226 AAACTAAGAT
*
95932236 AAAATGAAATAATAATA
1 AAAATAAAATAATAATA
*
95932253 ATAATAAAATAA-AATAA
1 AAAATAAAATAATAAT-A
95932270 AAAATAAA
1 AAAATAAA
95932278 GAAAATGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAATAAAATAATAATA
Found at i:95944690 original size:175 final size:181
Alignment explanation
Indices: 95944395--95944752 Score: 649
Period size: 176 Copynumber: 2.0 Consensus size: 181
95944385 TGTAATTCAA
95944395 AAATTTAATAACAAGATCCATCATAGGTTTCATCTTCCCTAGGTATCTAGGGAATTTAGTTCATA
1 AAATTTAATAACAAGATCCATCATAGGTTTCATCTTCCCTAGGTATCTAGGGAATTTAGTTCATA
95944460 TTTTGGAAGGAAAACATCTCAAAATTAGGAAAACAACAAAACATAAAGAAACCC-AAAACTTCTA
66 TTTTGGAAGGAAAACATCTCAAAATTAGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCTA
95944524 GAGAAGTTGACTAGAGATCTTCAATCTTGAAGGAGATCCT-TTCTAAGTTG
131 GAGAAGTTGACTAGAGATCTTCAATCTTGAAGGAGATCCTCTTCTAAGTTG
95944574 AAATTTAAT-ACAAGATCCATCATAGGTTTTCATCTTCCCTAGGTATCTAGGG-ATTTA-TTCAT
1 AAATTTAATAACAAGATCCATCATAGG-TTTCATCTTCCCTAGGTATCTAGGGAATTTAGTTCAT
95944636 ATTTTGGAAGG-AAA-ATCTCAAAATTAGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCT
65 ATTTTGGAAGGAAAACATCTCAAAATTAGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCT
95944699 AGAGAAGTTGACTAGAGATCTTCAATCTTGAAGGAGATCCTGCTTCTAAGTTG
130 AGAGAAGTTGACTAGAGATCTTCAATCTTGAAGGAGATCCT-CTTCTAAGTTG
95944752 A
1 A
95944753 TTCCGACGGT
Statistics
Matches: 175, Mismatches: 0, Indels: 9
0.95 0.00 0.05
Matches are distributed among these distances:
175 39 0.22
176 53 0.30
177 16 0.09
178 33 0.19
179 34 0.19
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (181 bp):
AAATTTAATAACAAGATCCATCATAGGTTTCATCTTCCCTAGGTATCTAGGGAATTTAGTTCATA
TTTTGGAAGGAAAACATCTCAAAATTAGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCTA
GAGAAGTTGACTAGAGATCTTCAATCTTGAAGGAGATCCTCTTCTAAGTTG
Found at i:95949224 original size:26 final size:25
Alignment explanation
Indices: 95949195--95949245 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
95949185 TTATTTTTAT
*
95949195 TTTTATTAAAATATATTTAACAATAA
1 TTTTATTAAAATATA-ATAACAATAA
*
95949221 TTTTATTAAAATTTAATAACAATAA
1 TTTTATTAAAATATAATAACAATAA
95949246 CAATAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTATTAAAATATAATAACAATAA
Found at i:95950329 original size:16 final size:16
Alignment explanation
Indices: 95950308--95950347 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
95950298 TTGAACTACT
95950308 TATTACAGCTCTATTC
1 TATTACAGCTCTATTC
*
95950324 TATTACAACTCTATTC
1 TATTACAGCTCTATTC
*
95950340 CATTACAG
1 TATTACAG
95950348 TGAACCAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (16 bp):
TATTACAGCTCTATTC
Found at i:95957369 original size:26 final size:26
Alignment explanation
Indices: 95957335--95957736 Score: 126
Period size: 26 Copynumber: 16.5 Consensus size: 26
95957325 GAAGAAAGAT
95957335 AATTTAAATGAAAAGAGAAAAAAATA
1 AATTTAAATGAAAAGAGAAAAAAATA
*
95957361 AATTTAAATGAAATGAG--AAAAA-A
1 AATTTAAATGAAAAGAGAAAAAAATA
* * * * *
95957384 AATTAAAATG-GAA-A-T-ATAGAT-
1 AATTTAAATGAAAAGAGAAAAAAATA
*
95957405 AATTTAAAT-AAAATGAGAAAAAATTA
1 AATTTAAATGAAAA-GAGAAAAAAATA
* *
95957431 AATTTAAATGGAAAA-ATTAAATGAAATTA
1 AATTTAAAT-GAAAAGA-GAAA--AAAATA
*** * ** *
95957460 GAAAAAAAATTAAAATTGGAAAAAATA
1 -AATTTAAATGAAAAGAGAAAAAAATA
*
95957487 TAATTTAAATGAAATGAGAAAAAAATA
1 -AATTTAAATGAAAAGAGAAAAAAATA
95957514 AATTTAAATG----GA-AAAAAAGAT-
1 AATTTAAATGAAAAGAGAAAAAA-ATA
* * *
95957535 AATTTAAATGACATGAGAAAAAATTA
1 AATTTAAATGAAAAGAGAAAAAAATA
* ** *
95957561 AATTAAAATGGGAAGAG----AGAT-
1 AATTTAAATGAAAAGAGAAAAAAATA
* *
95957582 AATTTAAATGAAATGATAAAAAAATTA
1 AATTTAAATGAAAAGAGAAAAAAA-TA
*
95957609 AA-TT--A--AAATG-GAAAAAAAT-
1 AATTTAAATGAAAAGAGAAAAAAATA
95957628 AATTTAAATGAAATA-AGAAAAAAATTA
1 AATTTAAATGAAA-AGAGAAAAAAA-TA
* * *
95957655 AATTAAAATG----GA-AATATAGAT-
1 AATTTAAATGAAAAGAGAA-AAAAATA
*
95957676 AATTTAAATGAAATGAGAAAAAAATA
1 AATTTAAATGAAAAGAGAAAAAAATA
* *
95957702 AATTTAAATG-GAA-A-AAAAAGAT-
1 AATTTAAATGAAAAGAGAAAAAAATA
95957724 AATTTAAATGAAA
1 AATTTAAATGAAA
95957737 TAGAAATGAA
Statistics
Matches: 275, Mismatches: 55, Indels: 95
0.65 0.13 0.22
Matches are distributed among these distances:
19 2 0.01
20 3 0.01
21 58 0.21
22 26 0.09
23 23 0.08
24 10 0.04
25 23 0.08
26 71 0.26
27 37 0.13
28 4 0.01
29 12 0.04
30 6 0.02
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (26 bp):
AATTTAAATGAAAAGAGAAAAAAATA
Found at i:95957370 original size:47 final size:47
Alignment explanation
Indices: 95957302--95957736 Score: 330
Period size: 47 Copynumber: 8.9 Consensus size: 47
95957292 AATTTAATAT
* *
95957302 GAAAAAAACTTAAACTAAAATGGGAAGAAAGATAATTTAAATGAAAAGA
1 GAAAAAAA--TAAATTAAAATGGGAAAAAAGATAATTTAAATGAAAAGA
* * * *
95957351 GAAAAAAATAAATTTAAATGAAATGAGAAAAA-A-AATTAAAATGGAAATATA
1 GAAAAAAATAAATTAAAATG---GGA-AAAAAGATAATTTAAAT-GAAA-AGA
* ** * * *
95957402 G-ATAATTTAAA-TAAAATGAGAAAAAA-TTAAATTTAAATGGAAAAATTAAA
1 GAAAAAAATAAATTAAAATGGGAAAAAAGAT-AATTTAAAT-G--AAA--AGA
* * * *
95957452 TGAAATTAGAAAAAAAATTAAAATTGGAAAAAATATAATTTAAATGAAATGA
1 -G-AA--A-AAAATAAATTAAAATGGGAAAAAAGATAATTTAAATGAAAAGA
* * * *
95957504 GAAAAAAATAAATTTAAATGGAAAAAAAGATAATTTAAATGACATGA
1 GAAAAAAATAAATTAAAATGGGAAAAAAGATAATTTAAATGAAAAGA
* * * *
95957551 GAAAAAATTAAATTAAAATGGGAAGAGAGATAATTTAAATGAAATGA
1 GAAAAAAATAAATTAAAATGGGAAAAAAGATAATTTAAATGAAAAGA
*
95957598 TAAAAAAATTAAATTAAAAT-GGAAAAAA-ATAATTTAAATGAAATA-A
1 GAAAAAAA-TAAATTAAAATGGGAAAAAAGATAATTTAAATGAAA-AGA
* *
95957644 GAAAAAAATTAAATTAAAAT-GGAAATATAGATAATTTAAATGAAATGA
1 GAAAAAAA-TAAATTAAAATGGGAAA-AAAGATAATTTAAATGAAAAGA
* *
95957692 GAAAAAAATAAATTTAAATGGAAAAAAAAGATAATTTAAATGAAA
1 GAAAAAAATAAATTAAAATGG-GAAAAAAGATAATTTAAATGAAA
95957737 TAGAAATGAA
Statistics
Matches: 314, Mismatches: 46, Indels: 53
0.76 0.11 0.13
Matches are distributed among these distances:
45 5 0.02
46 42 0.13
47 122 0.39
48 55 0.18
49 28 0.09
50 19 0.06
51 9 0.03
52 1 0.00
53 1 0.00
54 3 0.01
56 6 0.02
57 22 0.07
58 1 0.00
ACGTcount: A:0.63, C:0.01, G:0.12, T:0.24
Consensus pattern (47 bp):
GAAAAAAATAAATTAAAATGGGAAAAAAGATAATTTAAATGAAAAGA
Found at i:95957447 original size:19 final size:20
Alignment explanation
Indices: 95957423--95957496 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 20
95957413 TAAAATGAGA
95957423 AAAAATTAAATTTAAA-TGG
1 AAAAATTAAATTTAAATTGG
* *
95957442 AAAAATTAAA-TGAAATTAG
1 AAAAATTAAATTTAAATTGG
*
95957461 AAAAA--AAATTAAAATTGG
1 AAAAATTAAATTTAAATTGG
*
95957479 AAAAAATATAATTTAAAT
1 AAAAATTA-AATTTAAAT
95957497 GAAATGAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
17 3 0.07
18 16 0.36
19 17 0.38
20 1 0.02
21 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAAATTAAATTTAAATTGG
Found at i:95957500 original size:19 final size:18
Alignment explanation
Indices: 95957421--95957500 Score: 56
Period size: 18 Copynumber: 4.2 Consensus size: 18
95957411 AATAAAATGA
95957421 GAAAAAATTAAATTTAAAT
1 GAAAAAATT-AATTTAAAT
* * *
95957440 GGAAAAATTAAATGAAATT
1 GAAAAAATTAATTTAAA-T
*
95957459 AGAAAAAA--AATTAAAATT
1 -GAAAAAATTAATTTAAA-T
95957477 GGAAAAAATATAATTTAAAT
1 -GAAAAAAT-TAATTTAAAT
95957497 GAAA
1 GAAA
95957501 TGAGAAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
18 21 0.44
19 13 0.27
20 7 0.15
21 7 0.15
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (18 bp):
GAAAAAATTAATTTAAAT
Found at i:95957631 original size:19 final size:21
Alignment explanation
Indices: 95957408--95957719 Score: 96
Period size: 21 Copynumber: 14.0 Consensus size: 21
95957398 TATAGATAAT
95957408 TTAAA-TAAAAT-GAGAAAAAA
1 TTAAATTAAAATGGA-AAAAAA
*
95957428 TTAAATTTAAATGG--AAAAA
1 TTAAATTAAAATGGAAAAAAA
* * *
95957447 TTAAA-TGAAAT-TAGAAAAA
1 TTAAATTAAAATGGAAAAAAA
95957466 --AAATTAAAATTGGAAAAAATATAA
1 TTAAATTAAAA-TGG--AAAA-A-AA
*
95957490 TTTAAA-TGAAATGAGAAAAAAA
1 -TTAAATTAAAATG-GAAAAAAA
*
95957512 -TAAATTTAAATGGAAAAAAA
1 TTAAATTAAAATGGAAAAAAA
* *
95957532 -GATAATTTAAATGACATGAGAAAAAA
1 TTA-AATTAAAATG----GA-AAAAAA
95957558 TTAAATTAAAATGGGAAGAGAGATAA
1 TTAAATTAAAAT-GGAA-A-A-A-AA
* *
95957584 TTTAAA-TGAAATGATAAAAAAA
1 -TTAAATTAAAATG-GAAAAAAA
95957606 TTAAATTAAAATGGAAAAAAATAA
1 TTAAATTAAAATGG--AAAAA-AA
* *
95957630 TTTAAA-TGAAATAAGAAAAAAA
1 -TTAAATTAAAAT-GGAAAAAAA
95957652 TTAAATTAAAATGGAAATATAGATAA
1 TTAAATTAAAATGG-AA-A-A-A-AA
*
95957678 TTTAAA-TGAAATGAGAAAAAAA
1 -TTAAATTAAAATG-GAAAAAAA
*
95957700 -TAAATTTAAATGGAAAAAAA
1 TTAAATTAAAATGGAAAAAAA
95957720 AGATAATTTA
Statistics
Matches: 226, Mismatches: 21, Indels: 90
0.67 0.06 0.27
Matches are distributed among these distances:
17 3 0.01
18 9 0.04
19 16 0.07
20 30 0.13
21 38 0.17
22 26 0.12
23 18 0.08
24 17 0.08
25 15 0.07
26 38 0.17
27 16 0.07
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (21 bp):
TTAAATTAAAATGGAAAAAAA
Found at i:95957742 original size:47 final size:47
Alignment explanation
Indices: 95957351--95957742 Score: 444
Period size: 47 Copynumber: 8.7 Consensus size: 47
95957341 AATGAAAAGA
*
95957351 GAAAAAAATA-AATTTAAATGAAATGAG--AAAAA-AAATTAAAATG
1 GAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTAAAATG
* * * * *
95957394 GAAATATAGATAATTTAAATAAAATGAGAAAAAATTAAATTTAAATG
1 GAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTAAAATG
*
95957441 G-----AA-A-AA-TTAAATGAAATTAG--AAAAA-AAATTAAAATTG
1 GAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTAAAA-TG
* *
95957478 G-AAAAAATATAATTTAAATGAAATGAGAAAAAAATAAATTTAAATG
1 GAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTAAAATG
* *
95957524 GAAAAAAAGATAATTTAAATGACATGAGAAAAAATTAAATTAAAATG
1 GAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTAAAATG
* * * *
95957571 GGAAGAGAGATAATTTAAATGAAATGATAAAAAAATTAAATTAAAATG
1 GAAAAAAAGATAATTTAAATGAAATGAGAAAAAAA-TAAATTAAAATG
*
95957619 G-AAAAAA-ATAATTTAAATGAAATAAGAAAAAAATTAAATTAAAATG
1 GAAAAAAAGATAATTTAAATGAAATGAGAAAAAAA-TAAATTAAAATG
* * *
95957665 GAAATATAGATAATTTAAATGAAATGAGAAAAAAATAAATTTAAATG
1 GAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTAAAATG
95957712 GAAAAAAAAGATAATTTAAATGAAAT-AGAAA
1 G-AAAAAAAGATAATTTAAATGAAATGAGAAA
95957743 TGAAATGAAA
Statistics
Matches: 296, Mismatches: 33, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
36 8 0.03
37 7 0.02
39 12 0.04
40 2 0.01
41 3 0.01
42 2 0.01
43 9 0.03
44 29 0.10
46 50 0.17
47 114 0.39
48 60 0.20
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (47 bp):
GAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTAAAATG
Found at i:95957747 original size:5 final size:5
Alignment explanation
Indices: 95957729--95957821 Score: 114
Period size: 5 Copynumber: 17.6 Consensus size: 5
95957719 AAGATAATTT
* *
95957729 AAATG AAATAG AAATG AAATG AAACG AAATG AAATG AAATG AAATGG AAATAC
1 AAATG AAAT-G AAATG AAATG AAATG AAATG AAATG AAATG AAAT-G AAAT-G
*
95957782 AAATG AAATG AAATG AAATGG AAATAT AAATG AAATG AAA
1 AAATG AAATG AAATG AAAT-G AAAT-G AAATG AAATG AAA
95957822 AAAAAAAAGA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
5 54 0.70
6 23 0.30
ACGTcount: A:0.61, C:0.02, G:0.18, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:95957792 original size:27 final size:27
Alignment explanation
Indices: 95957729--95957821 Score: 138
Period size: 27 Copynumber: 3.5 Consensus size: 27
95957719 AAGATAATTT
95957729 AAATGAAATAGAAATGAAAT-G-AA-AC
1 AAATGAAAT-GAAATGAAATGGAAATAC
95957754 GAAATGAAATGAAATGAAATGGAAATAC
1 -AAATGAAATGAAATGAAATGGAAATAC
*
95957782 AAATGAAATGAAATGAAATGGAAATAT
1 AAATGAAATGAAATGAAATGGAAATAC
95957809 AAATGAAATGAAA
1 AAATGAAATGAAA
95957822 AAAAAAAAGA
Statistics
Matches: 63, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
25 10 0.16
26 10 0.16
27 41 0.65
28 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.18, T:0.18
Consensus pattern (27 bp):
AAATGAAATGAAATGAAATGGAAATAC
Found at i:95958221 original size:17 final size:16
Alignment explanation
Indices: 95958195--95958244 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
95958185 TGTATATTAG
95958195 GAAA-AAAATTTTAAAT
1 GAAATAAAA-TTTAAAT
95958211 GAAATAAAA-TT-AAT
1 GAAATAAAATTTAAAT
95958225 GAAATAAAATGTTAAAT
1 GAAATAAAAT-TTAAAT
95958242 GAA
1 GAA
95958245 TATGAAATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 12 0.40
15 2 0.07
16 6 0.20
17 10 0.33
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (16 bp):
GAAATAAAATTTAAAT
Found at i:95958278 original size:11 final size:11
Alignment explanation
Indices: 95958238--95958306 Score: 58
Period size: 11 Copynumber: 6.6 Consensus size: 11
95958228 ATAAAATGTT
95958238 AAATGAATATG
1 AAATGAATATG
*
95958249 AAATGTAATTTG
1 AAATG-AATATG
* *
95958261 TAATGAATATA
1 AAATGAATATG
95958272 AAATGAA-ATG
1 AAATGAATATG
95958282 AAATG--T-T-
1 AAATGAATATG
*
95958289 AAATGATTATG
1 AAATGAATATG
95958300 AAATGAA
1 AAATGAA
95958307 ATTATGATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
7 5 0.11
8 1 0.02
9 1 0.02
10 8 0.18
11 21 0.47
12 9 0.20
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (11 bp):
AAATGAATATG
Found at i:95958278 original size:28 final size:28
Alignment explanation
Indices: 95958222--95958308 Score: 85
Period size: 28 Copynumber: 3.3 Consensus size: 28
95958212 AAATAAAATT
* *
95958222 AATGAAATAAAATGTTAAATGAATATGA
1 AATGAAATGAAATGTTAAATGAATATAA
* *
95958250 AATGTAAT---TTG-T-AATGAATATAA
1 AATGAAATGAAATGTTAAATGAATATAA
* *
95958273 AATGAAATGAAATGTTAAATGATTATGA
1 AATGAAATGAAATGTTAAATGAATATAA
95958301 AATGAAAT
1 AATGAAAT
95958309 TATGATTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
23 17 0.36
24 1 0.02
25 2 0.04
26 2 0.04
27 1 0.02
28 24 0.51
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (28 bp):
AATGAAATGAAATGTTAAATGAATATAA
Found at i:95958282 original size:5 final size:5
Alignment explanation
Indices: 95958207--95958308 Score: 53
Period size: 5 Copynumber: 18.8 Consensus size: 5
95958197 AAAAAATTTT
* * *
95958207 AAATG AAATA AAAT- TAATG AAATA AAATG TTAAATG AATATG AAATG
1 AAATG AAATG AAATG AAATG AAATG AAATG --AAATG AA-ATG AAATG
* * * *
95958254 TAATTTG TAATG AATATA AAATG AAATG AAATG TTAAATG ATTATG AAATG
1 -AA-ATG AAATG AA-ATG AAATG AAATG AAATG --AAATG A-AATG AAATG
95958305 AAAT
1 AAAT
95958309 TATGATTATA
Statistics
Matches: 74, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
4 3 0.04
5 43 0.58
6 16 0.22
7 12 0.16
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (5 bp):
AAATG
Found at i:95958300 original size:23 final size:23
Alignment explanation
Indices: 95958223--95958308 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 23
95958213 AATAAAATTA
* *
95958223 ATGAAATAAAATGTTAAATGAAT
1 ATGAAATGAAATGTTAAATGATT
* *
95958246 ATGAAATGTAAT-TTGTAATGAATAT
1 ATGAAATGAAATGTT-AAATG-AT-T
95958271 AAAATGAAATGAAATGTTAAATGATT
1 ---ATGAAATGAAATGTTAAATGATT
95958297 ATGAAATGAAAT
1 ATGAAATGAAAT
95958309 TATGATTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
22 2 0.04
23 26 0.52
24 1 0.02
25 1 0.02
26 1 0.02
27 2 0.04
28 15 0.30
29 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (23 bp):
ATGAAATGAAATGTTAAATGATT
Found at i:95958338 original size:47 final size:48
Alignment explanation
Indices: 95958222--95958371 Score: 169
Period size: 47 Copynumber: 3.0 Consensus size: 48
95958212 AAATAAAATT
* * *
95958222 AATGAAATAAAATGTTAAATGAATATGAAATGTAATTTGTAATGAATATAA
1 AATGAAATGAAATGTTAAATGATTATGAAATG-AA-AT-TAATGAATATAA
*
95958273 AATGAAATGAAATGTTAAATGATTATGAAATGAAATT-ATGATTATAA
1 AATGAAATGAAATGTTAAATGATTATGAAATGAAATTAATGAATATAA
* * *
95958320 AATGGAATGAAA-GTTTAAATGATTATGAAATTAAATTGAAATGAAAATAA
1 AATGAAATGAAATG-TTAAATGATTATGAAATGAAATT--AATGAATATAA
95958370 AA
1 AA
95958372 ATAAAAATTG
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
46 1 0.01
47 42 0.48
48 1 0.01
49 1 0.01
50 12 0.14
51 30 0.34
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (48 bp):
AATGAAATGAAATGTTAAATGATTATGAAATGAAATTAATGAATATAA
Found at i:95958458 original size:6 final size:6
Alignment explanation
Indices: 95958449--95958486 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
95958439 AATTTAAATT
*
95958449 AAATGG AAATGA AAATGG AAATGG AAAT-G AAAT-G AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
95958487 AAAAACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.58, C:0.00, G:0.24, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:95964200 original size:104 final size:107
Alignment explanation
Indices: 95964078--95964268 Score: 228
Period size: 104 Copynumber: 1.8 Consensus size: 107
95964068 CCCAAAACCA
* * * * * **
95964078 AAAAAAAAAATTGTATTGGGAGACAAAAAATGTATTTGGTGTTGCCCAT-TACATGCCCA-AACC
1 AAAAAAAAAATTGCATTGGAAGACAAAAAATGAACTTAGTGCCGCCCATCTAC-TGCCCAGAACC
95964141 C-AATTTTTTTTTAAATACACTGATGCCGATCATCAGTGTTCC
65 CAAATTTTTTTTTAAATACACTGATGCCGATCATCAGTGTTCC
* * * * * *
95964183 AAAAAACAAA-TGCATTGGAAGCCAAAAATTGAACTTAGTGCCGGCCATCTACTGGCCAGCACCC
1 AAAAAAAAAATTGCATTGGAAGACAAAAAATGAACTTAGTGCCGCCCATCTACTGCCCAGAACCC
95964247 AAATTTTTTTTTAAATACACTG
66 AAATTTTTTTTTAAATACACTG
95964269 GTGCTTGCCA
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
104 33 0.47
105 16 0.23
106 21 0.30
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (107 bp):
AAAAAAAAAATTGCATTGGAAGACAAAAAATGAACTTAGTGCCGCCCATCTACTGCCCAGAACCC
AAATTTTTTTTTAAATACACTGATGCCGATCATCAGTGTTCC
Found at i:95964263 original size:106 final size:106
Alignment explanation
Indices: 95964075--95964519 Score: 416
Period size: 107 Copynumber: 4.1 Consensus size: 106
95964065 TATCCCAAAA
* * * * ** * * *
95964075 CCAAAAAAAAAAATTGTATTGGGAGACAAAAAATGTATTTGGTGTTGCCCATTACATGCCCA-AA
1 CCAAAAAAAAAAA-TGCATT-GGAGCCAAAAATTGTACTTGGTGCCGGCCATTACATGGCCAGCA
* ** *
95964139 CCC-AATTTTTTTTTAAATACACTGATGCCGATCATCAGTGTT
64 CCCAAATTTTTTTTTAAATACACTGGTGCCGGCCATCAGTGTC
* * *
95964181 CC-AAAAAACAAATGCATTGGAAGCCAAAAATTGAACTTAGTGCCGGCCATCTAC-TGGCCAGCA
1 CCAAAAAAAAAAATGCATTGG-AGCCAAAAATTGTACTTGGTGCCGGCCAT-TACATGGCCAGCA
**
95964244 CCCAAATTTTTTTTTAAATACACTGGTGCTTGCCATCAGTGTC
64 CCCAAATTTTTTTTTAAATACACTGGTGCCGGCCATCAGTGTC
* ** * * * **
95964287 CCAAAGTAAAAAAAAAAATTCCCCTGGGGACCGAAAATTGTACCTGGTGCCAACCATTACATGGC
1 CC-----AAAAAAAAAAA-TGCATTGGAG-CCAAAAATTGTACTTGGTGCCGGCCATTACATGGC
* * * * * *
95964352 CA--ACACTAATTTTTTTTTAAATACACTGGTGTCGGCCATCAATATT
59 CAGCACCCAAATTTTTTTTTAAATACACTGGTGCCGGCCATCAGTGTC
* *
95964398 CCAAAATAAAAAAATGCATTAGAGCCAAAAATTGTACTTGGTGCCGGCCATTACATGGCAAGCAC
1 CCAAAA-AAAAAAATGCATTGGAGCCAAAAATTGTACTTGGTGCCGGCCATTACATGGCCAGCAC
95964463 CCAAATTTTTTTTTAAATACACTGGTGCCGGCCATCAGTGTC
65 CCAAATTTTTTTTTAAATACACTGGTGCCGGCCATCAGTGTC
95964505 CCAAAGTAAAAAAAA
1 CCAAA--AAAAAAAA
95964520 AAAAGTGCAT
Statistics
Matches: 268, Mismatches: 53, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
103 2 0.01
104 31 0.12
105 48 0.18
106 46 0.17
107 50 0.19
108 7 0.03
109 1 0.00
111 38 0.14
112 13 0.05
113 32 0.12
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (106 bp):
CCAAAAAAAAAAATGCATTGGAGCCAAAAATTGTACTTGGTGCCGGCCATTACATGGCCAGCACC
CAAATTTTTTTTTAAATACACTGGTGCCGGCCATCAGTGTC
Found at i:95964304 original size:218 final size:218
Alignment explanation
Indices: 95964049--95964543 Score: 597
Period size: 218 Copynumber: 2.3 Consensus size: 218
95964039 ATGATAAAGT
* * ** * **
95964049 TGGTACCGGCCATCAGTATCCCAAAACCAAAAAAAAAAATTGTATTGGGAGACAAAAAATGTATT
1 TGGTGCCGGCCATCAGTGTCCC-AAAGTAAAAAAAAAAATTGCATTGGGAGACAAAAAATGTACC
**** * *
95964114 TGGTGTTGCCCATTACATGCCCAA-ACCCAATTTTTTTTTAAATACACTGATGCCGATCATCAGT
65 TGGTGCCAACCATTACATGCCCAACA-CCAATTTTTTTTTAAATACACTGATGCCGACCATCAAT
* * * *
95964178 GTTCC-AAA-AAACAAATGCATTGGAAGCCAAAAATTGAACTTAGTGCCGGCCATCTAC-TGGCC
129 ATTCCAAAATAAAAAAATGCATTAG-AGCCAAAAATTGAACTTAGTGCCGGCCAT-TACATGGCA
95964240 AGCACCCAAATTTTTTTTTAAATACAC
192 AGCACCCAAATTTTTTTTTAAATACAC
** * ** * *
95964267 TGGTGCTTGCCATCAGTGTCCCAAAGTAAAAAAAAAAATTCCCCTGGG-GACCGAAAATTGTACC
1 TGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAATTGCATTGGGAGA-CAAAAAATGTACC
* * * * *
95964331 TGGTGCCAACCATTACATGGCCAACACTAATTTTTTTTTAAATACACTGGTGTCGGCCATCAATA
65 TGGTGCCAACCATTACATGCCCAACACCAATTTTTTTTTAAATACACTGATGCCGACCATCAATA
* *
95964396 TTCCAAAATAAAAAAATGCATTAGAGCCAAAAATTGTACTTGGTGCCGGCCATTACATGGCAAGC
130 TTCCAAAATAAAAAAATGCATTAGAGCCAAAAATTGAACTTAGTGCCGGCCATTACATGGCAAGC
95964461 ACCCAAATTTTTTTTTAAATACAC
195 ACCCAAATTTTTTTTTAAATACAC
* *
95964485 TGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAAAGTGCATTGGGA-ACCAAAAAT
1 TGGTGCCGGCCATCAGTGTCCCAAAGT-AAAAAAAAAAATTGCATTGGGAGACAAAAAAT
95964544 TGAATCTGGT
Statistics
Matches: 231, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
216 2 0.01
217 87 0.38
218 111 0.48
219 31 0.13
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (218 bp):
TGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAATTGCATTGGGAGACAAAAAATGTACCT
GGTGCCAACCATTACATGCCCAACACCAATTTTTTTTTAAATACACTGATGCCGACCATCAATAT
TCCAAAATAAAAAAATGCATTAGAGCCAAAAATTGAACTTAGTGCCGGCCATTACATGGCAAGCA
CCCAAATTTTTTTTTAAATACAC
Found at i:95964518 original size:217 final size:217
Alignment explanation
Indices: 95964123--95964522 Score: 608
Period size: 218 Copynumber: 1.8 Consensus size: 217
95964113 TTGGTGTTGC
* * *
95964123 CCATTACATGCCCAAACCCAATTTTTTTTTAAATACACTGATGCCGATCATCAGTGTTCCAAAAA
1 CCATTACATGCCCAAACCCAATTTTTTTTTAAATACACTGATGCCGACCATCAATATTCCAAAAA
* * *
95964188 ACAAATGCATTGGAAGCCAAAAATTGAACTTAGTGCCGGCCATCTACTGGCCAGCACCCAAATTT
66 AAAAATGCATTAGAAGCCAAAAATTGAACTTAGTGCCGGCCATCTACTGGCAAGCACCCAAATTT
**
95964253 TTTTTTAAATACACTGGTGCTTGCCATCAGTGTCCCAAAGTAAAAAAAAAAATTCCCCTGGGGAC
131 TTTTTTAAATACACTGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAATTCCCCTGGGGAC
95964318 CGAAAATTGTACCTGGTGCCAA
196 CGAAAATTGTACCTGGTGCCAA
* * * * *
95964340 CCATTACATGGCC-AACACTAATTTTTTTTTAAATACACTGGTGTCGGCCATCAATATTCCAAAA
1 CCATTACATGCCCAAAC-CCAATTTTTTTTTAAATACACTGATGCCGACCATCAATATTCC-AAA
* *
95964404 TAAAAAAATGCATTAG-AGCCAAAAATTGTACTTGGTGCCGGCCAT-TACATGGCAAGCACCCAA
64 -AAAAAAATGCATTAGAAGCCAAAAATTGAACTTAGTGCCGGCCATCTAC-TGGCAAGCACCCAA
95964467 ATTTTTTTTTAAATACACTGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAA
127 ATTTTTTTTTAAATACACTGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAA
95964523 AGTGCATTGG
Statistics
Matches: 164, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
216 3 0.02
217 51 0.31
218 97 0.59
219 13 0.08
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (217 bp):
CCATTACATGCCCAAACCCAATTTTTTTTTAAATACACTGATGCCGACCATCAATATTCCAAAAA
AAAAATGCATTAGAAGCCAAAAATTGAACTTAGTGCCGGCCATCTACTGGCAAGCACCCAAATTT
TTTTTTAAATACACTGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAATTCCCCTGGGGAC
CGAAAATTGTACCTGGTGCCAA
Found at i:95966350 original size:110 final size:109
Alignment explanation
Indices: 95966039--95966515 Score: 390
Period size: 109 Copynumber: 4.4 Consensus size: 109
95966029 CCCAAAACCA
* * ** ***
95966039 AAAAAAAAAATTGTATTGGGAGA-CAAAAAATGTATTTGGTGTTGACCATTACATGCCCAA--AC
1 AAAAAAAAAA-TGCATTGGG-GACCAAAAATTGTACCTGGTGCCAACCATTACATG-CCAAGCAC
* * * * *
95966101 CCAATTTTTTTTTAAATACACTGATGCCGACCATCAGTATTCC-----
63 CAAATTTTTTTTTAAATACACTGGTG-CGGCCATCAGTGTCCCAAAGT
* * * * **
95966144 AAAAAACAAATGCATT-GGAAGCCAAAAATTGAACTTGGTGCCGGCCATCTAC-TGGCC-AGCAC
1 AAAAAAAAAATGCATTGGGGA-CCAAAAATTGTACCTGGTGCCAACCAT-TACAT-GCCAAGCA-
*
95966206 CCAAATTTTTTTTTAAATACACTGGTGCTTGCCATCAGTGTCCCAAAGT
62 CCAAATTTTTTTTTAAATACACTGGTGC-GGCCATCAGTGTCCCAAAGT
* ** *
95966255 AAAAAAAAAATTCCCCTGGGGACCGAAAATTGTACCTGGTGCCAACCATTACATGTCCAA-CA-C
1 AAAAAAAAAA-TGCATTGGGGACCAAAAATTGTACCTGGTGCCAACCATTACATG-CCAAGCACC
* * * * * *
95966318 TAATTTTTTTTTAAATACACAGGTGTCGGCCATCAATATTCCAAAAT
64 AAATTTTTTTTTAAATACACTGGTG-CGGCCATCAGTGTCCCAAAGT
* * ** *
95966365 -AAAAAAAAATGCATTGGAG-CCAAAAATTGTACTTGGTGCCGGCCATTACATGGCAAGCACCCA
1 AAAAAAAAAATGCATTGGGGACCAAAAATTGTACCTGGTGCCAACCATTACATGCCAAGCA-CCA
95966428 AATTTTTTTTTAAATACACTGGTGCCGGCCATCAGTGTCCCAAAGT
65 AATTTTTTTTTAAATACACTGGTG-CGGCCATCAGTGTCCCAAAGT
* *
95966474 AAAAAAAAAAGTGCATTGGGAACCAAAAATTGTATCTGGTGC
1 AAAAAAAAAA-TGCATTGGGGACCAAAAATTGTACCTGGTGC
95966516 AGGCTATCTA
Statistics
Matches: 295, Mismatches: 52, Indels: 43
0.76 0.13 0.11
Matches are distributed among these distances:
102 1 0.00
103 3 0.01
104 28 0.09
105 15 0.05
106 39 0.13
107 31 0.11
108 6 0.02
109 50 0.17
110 48 0.16
111 22 0.07
112 48 0.16
113 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (109 bp):
AAAAAAAAAATGCATTGGGGACCAAAAATTGTACCTGGTGCCAACCATTACATGCCAAGCACCAA
ATTTTTTTTTAAATACACTGGTGCGGCCATCAGTGTCCCAAAGT
Found at i:95966435 original size:219 final size:216
Alignment explanation
Indices: 95966083--95966515 Score: 620
Period size: 219 Copynumber: 2.0 Consensus size: 216
95966073 TTTGGTGTTG
* *
95966083 ACCATTACATGCCCAAACCCAATTTTTTTTTAAATACACTGATGCCGACCATCAGTATTCCAAAA
1 ACCATTACATGCCCAAACCCAATTTTTTTTTAAATACACAGATGCCGACCATCAATATTCCAAAA
* *
95966148 AACAAATGCATTGGAAGCCAAAAATTGAACTTGGTGCCGGCCATCTACTGGCCAGCACCCAAATT
66 AAAAAATGCATTGGAAGCCAAAAATTGAACTTGGTGCCGGCCATCTACTGGCAAGCACCCAAATT
** * * *
95966213 TTTTTTTAAATACACTGGTGCTTGCCATCAGTGTCCCAAAGTAAAAAAAAAATTCCCCTGGGGAC
131 TTTTTTTAAATACACTGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAGTCCACTGGGAAC
*
95966278 CGAAAATTGTACCTGGTGCCA
196 CAAAAATTGTACCTGGTGCCA
* * * * *
95966299 ACCATTACATGTCC-AACACTAATTTTTTTTTAAATACACAGGTGTCGGCCATCAATATTCCAAA
1 ACCATTACATGCCCAAAC-CCAATTTTTTTTTAAATACACAGATGCCGACCATCAATATTCC---
*
95966363 ATAAAAAAAAATGCATTGG-AGCCAAAAATTGTACTTGGTGCCGGCCAT-TACATGGCAAGCACC
62 A-AAAAAAAAATGCATTGGAAGCCAAAAATTGAACTTGGTGCCGGCCATCTAC-TGGCAAGCACC
* *
95966426 CAAATTTTTTTTTAAATACACTGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAGTGCATT
125 CAAATTTTTTTTTAAATACACTGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAGTCCACT
*
95966491 GGGAACCAAAAATTGTATCTGGTGC
190 GGGAACCAAAAATTGTACCTGGTGC
95966516 AGGCTATCTA
Statistics
Matches: 192, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
215 3 0.02
216 50 0.26
218 3 0.02
219 120 0.62
220 16 0.08
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (216 bp):
ACCATTACATGCCCAAACCCAATTTTTTTTTAAATACACAGATGCCGACCATCAATATTCCAAAA
AAAAAATGCATTGGAAGCCAAAAATTGAACTTGGTGCCGGCCATCTACTGGCAAGCACCCAAATT
TTTTTTTAAATACACTGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAGTCCACTGGGAAC
CAAAAATTGTACCTGGTGCCA
Found at i:95966543 original size:109 final size:108
Alignment explanation
Indices: 95966010--95966567 Score: 428
Period size: 112 Copynumber: 5.1 Consensus size: 108
95966000 ATGATAAAGT
* * ** * * *
95966010 TGGTACCGACCATCAGTATCCCAAAACCAAAAAAAAAAATTGTATTGGGAGA-CAAAAAATGTAT
1 TGGTGCCGGCCATCAGTATCCC-AAA-GTAAAAAAAAAA-TGCATT-GGA-ACCAAAAATTGTAC
** * * *
95966074 TTGGTGTTGACCATTACATGCCCAA-ACCCAATTTTTTTTTAAATACAC
61 TTGGTGCAGGCCATTACATGGCCAACA-CAAATTTTTTTTTAAATACAC
* * * * *
95966122 TGATGCCGACCATCAGTATTCC-----AAAAAACAAATGCATTGGAAGCCAAAAATTGAACTTGG
1 TGGTGCCGGCCATCAGTATCCCAAAGTAAAAAAAAAATGCATTGGAA-CCAAAAATTGTACTTGG
* *
95966182 TGCCGGCCATCTAC-TGGCCAGCACCCAAATTTTTTTTTAAATACAC
65 TGCAGGCCAT-TACATGGCCA--ACACAAATTTTTTTTTAAATACAC
** * * * * * * *
95966228 TGGTGCTTGCCATCAGTGTCCCAAAGTAAAAAAAAAATTCCCCTGGGGACCGAAAATTGTACCTG
1 TGGTGCCGGCCATCAGTATCCCAAAGTAAAAAAAAAA-T-GCATTGGAACCAAAAATTGTACTTG
* * *
95966293 GTGCCA-ACCATTACATGTCCAACACTAATTTTTTTTTAAATACAC
64 GTG-CAGGCCATTACATGGCCAACACAAATTTTTTTTTAAATACAC
* * * * * *
95966338 AGGTGTCGGCCATCAATATTCCAAAAT-AAAAAAAAATGCATTGGAGCCAAAAATTGTACTTGGT
1 TGGTGCCGGCCATCAGTATCCCAAAGTAAAAAAAAAATGCATTGGAACCAAAAATTGTACTTGGT
*
95966402 GCCGGCCATTACATGG-CAAGCACCCAAATTTTTTTTTAAATACAC
66 GCAGGCCATTACATGGCCAA-CA--CAAATTTTTTTTTAAATACAC
*
95966447 TGGTGCCGGCCATCAGTGTCCCAAAGTAAAAAAAAAAGTGCATTGGGAACCAAAAATTGTA-TCT
1 TGGTGCCGGCCATCAGTATCCCAAAGTAAAAAAAAAA-TGCATT-GGAACCAAAAATTGTACT-T
* * * *
95966511 GGTGCAGGCTATCTAC-TGGCTAACAC--ATTTTTTTTT-AATGTCTC
63 GGTGCAGGCCAT-TACATGGCCAACACAAATTTTTTTTTAAAT-ACAC
95966555 TGGTGCCGGCCAT
1 TGGTGCCGGCCAT
95966568 TACATGGCCA
Statistics
Matches: 356, Mismatches: 64, Indels: 56
0.75 0.13 0.12
Matches are distributed among these distances:
102 1 0.00
103 3 0.01
104 30 0.08
105 12 0.03
106 41 0.12
107 36 0.10
108 26 0.07
109 50 0.14
110 51 0.14
111 19 0.05
112 76 0.21
113 11 0.03
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (108 bp):
TGGTGCCGGCCATCAGTATCCCAAAGTAAAAAAAAAATGCATTGGAACCAAAAATTGTACTTGGT
GCAGGCCATTACATGGCCAACACAAATTTTTTTTTAAATACAC
Found at i:95967133 original size:22 final size:22
Alignment explanation
Indices: 95967086--95967131 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
95967076 ATAGATTTAT
95967086 AAAACTTATATATAAAATCATA
1 AAAACTTATATATAAAATCATA
*
95967108 AAAACTTATA-A-AAATTCATA
1 AAAACTTATATATAAAATCATA
95967128 AAAA
1 AAAA
95967132 AAGAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 1 0.04
22 10 0.43
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAACTTATATATAAAATCATA
Found at i:95967693 original size:17 final size:18
Alignment explanation
Indices: 95967661--95967703 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
95967651 GTTTCTCTAC
*
95967661 TTTTATAAATTTATATAA
1 TTTTATAAAATTATATAA
95967679 TTTTA-AAAATTATATAA
1 TTTTATAAAATTATATAA
*
95967696 ATTTATAA
1 TTTTATAA
95967704 TACTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTATAAAATTATATAA
Found at i:95975508 original size:75 final size:75
Alignment explanation
Indices: 95975426--95975739 Score: 294
Period size: 75 Copynumber: 4.2 Consensus size: 75
95975416 TTCTCAAAAA
* *
95975426 TCAAACAATTAACTTCCTCAAACATATACTCCCACTTAGTTGAAAGAGTATAATCCCTCAAGAGA
1 TCAAACAATTAACTTCCTCAAACATATACTCCCACTTAGTTGAAAGAGCATAATCCCTCAAGGGA
*
95975491 AAACATCAAA
66 AAACATCAAG
* * * ** * ** *
95975501 TCAAACAATTGACTTCCTCAAACATATACTCCCACTTAATCGGTAGAACATAATCTTTC-AGGGT
1 TCAAACAATTAACTTCCTCAAACATATACTCCCACTTAGTTGAAAGAGCATAATCCCTCAAGGGA
95975565 AAACATCAAG
66 AAACATCAAG
* * * * * **
95975575 TCAAACAATTAGCTTCCTAAAAAATCTGC-CACCACTTAGTTGGTAGAGCATAATCCC-CAAAGG
1 TCAAACAATTAACTTCCTCAAACATATACTC-CCACTTAGTTGAAAGAGCATAATCCCTC-AAGG
95975638 GAAAACATCAAG
64 GAAAACATCAAG
* * ** * * * * * * * *
95975650 CCAAATAACCAACTTTCTCAAAGATCTACTCCCATTTA-ATCAATAAAGCATAATCCTTCAAGGG
1 TCAAACAATTAACTTCCTCAAACATATACTCCCACTTAGTTGAA-AGAGCATAATCCCTCAAGGG
95975714 AAAACATCAAG
65 AAAACATCAAG
95975725 TCAAACAATTAACTT
1 TCAAACAATTAACTT
95975740 TGTCAAAAAC
Statistics
Matches: 189, Mismatches: 44, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
73 2 0.01
74 57 0.30
75 128 0.68
76 2 0.01
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (75 bp):
TCAAACAATTAACTTCCTCAAACATATACTCCCACTTAGTTGAAAGAGCATAATCCCTCAAGGGA
AAACATCAAG
Found at i:95975556 original size:174 final size:171
Alignment explanation
Indices: 95975252--95975584 Score: 370
Period size: 174 Copynumber: 1.9 Consensus size: 171
95975242 AAATATTGAG
* * * * *
95975252 TCAAATAATTAACTTCCTCCAAAATATGCTCCCACTTAATCATTAATAATTCATAATCTCTAAAG
1 TCAAACAATTAACTTCCTCCAAAATATACTCCCACTTAAT-ATGAATAAGTCATAATCCCTAAAG
* * * * * *** * *
95975317 GAAAACTTCAAATCAAACAGTTGACTTCCTCATATTTATTTTTACTTAATCGATATAAGATAATC
65 GAAAACATCAAATCAAACAATTGACTTCCTCACATATACTCCCACTTAATCGATAGAACATAATC
*
95975382 TCTT-AGGGAAAAACATTAAGTCAAAACAATTGACTTCTCAAAAA
130 T-TTCAGGG-AAAACATCAAGTC-AAACAATTGACTTCTCAAAAA
* *
95975426 TCAAACAATTAACTTCCT-CAAACATATACTCCCACTTAGT-TGAA-AGAGT-ATAATCCCTCAA
1 TCAAACAATTAACTTCCTCCAAA-ATATACTCCCACTTAATATGAATA-AGTCATAATCCCTAAA
*
95975487 GAGAAAACATCAAATCAAACAATTGACTTCCTCAAACATATACTCCCACTTAATCGGTAGAACAT
64 G-GAAAACATCAAATCAAACAATTGACTTCCTC--ACATATACTCCCACTTAATCGATAGAACAT
*
95975552 AATCTTTCAGGGTAAACATCAAGTCAAACAATT
126 AATCTTTCAGGGAAAACATCAAGTCAAACAATT
95975585 AGCTTCCTAA
Statistics
Matches: 133, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
171 12 0.09
172 42 0.32
173 17 0.13
174 62 0.47
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (171 bp):
TCAAACAATTAACTTCCTCCAAAATATACTCCCACTTAATATGAATAAGTCATAATCCCTAAAGG
AAAACATCAAATCAAACAATTGACTTCCTCACATATACTCCCACTTAATCGATAGAACATAATCT
TTCAGGGAAAACATCAAGTCAAACAATTGACTTCTCAAAAA
Found at i:95975702 original size:149 final size:150
Alignment explanation
Indices: 95975426--95975739 Score: 366
Period size: 149 Copynumber: 2.1 Consensus size: 150
95975416 TTCTCAAAAA
* * *
95975426 TCAAACAATTAACTTCCTCAAACATATACTCCCACTTAGTTGAAAGAGTATAATCCCTCAAGAGA
1 TCAAACAATTAACTTCCTAAAAAATATACTCCCACTTAGTTGAAAGAGCATAATCCCTCAAGAGA
* *** **
95975491 AAACATCAAATCAAACAATTGACTTCCTCAAACATATACTCCCACTTAATCGGTAGAACATAATC
66 AAACATCAAACCAAACAACCAACTTCCTCAAACATATACTCCCACTTAATCAATAGAACATAATC
* *
95975556 TTTC-AGGGTAAACATCAAG
131 CTTCAAGGGAAAACATCAAG
* * * ** *
95975575 TCAAACAATTAGCTTCCTAAAAAATCTGC-CACCACTTAGTTGGTAGAGCATAATCCC-CAAAGG
1 TCAAACAATTAACTTCCTAAAAAATATACTC-CCACTTAGTTGAAAGAGCATAATCCCTC-AAGA
* * * * * *
95975638 GAAAACATCAAGCCAAATAACCAACTTTCTCAAAGATCTACTCCCATTTAATCAATA-AAGCATA
64 GAAAACATCAAACCAAACAACCAACTTCCTCAAACATATACTCCCACTTAATCAATAGAA-CATA
95975702 ATCCTTCAAGGGAAAACATCAAG
128 ATCCTTCAAGGGAAAACATCAAG
95975725 TCAAACAATTAACTT
1 TCAAACAATTAACTT
95975740 TGTCAAAAAC
Statistics
Matches: 137, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
148 4 0.03
149 105 0.77
150 28 0.20
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (150 bp):
TCAAACAATTAACTTCCTAAAAAATATACTCCCACTTAGTTGAAAGAGCATAATCCCTCAAGAGA
AAACATCAAACCAAACAACCAACTTCCTCAAACATATACTCCCACTTAATCAATAGAACATAATC
CTTCAAGGGAAAACATCAAG
Found at i:95976468 original size:16 final size:17
Alignment explanation
Indices: 95976447--95976479 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
95976437 AGATGAACAC
95976447 AAAATAGAA-AGATAAA
1 AAAATAGAAGAGATAAA
*
95976463 AAAATATAAGAGATAAA
1 AAAATAGAAGAGATAAA
95976480 CCTAGCCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATAGAAGAGATAAA
Found at i:95977956 original size:17 final size:17
Alignment explanation
Indices: 95977927--95977959 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
95977917 AAAAATGATT
95977927 TAATTACTATTTTTTAG
1 TAATTACTATTTTTTAG
95977944 TAATTGACT-TTTTTTA
1 TAATT-ACTATTTTTTA
95977960 TAAAGGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
TAATTACTATTTTTTAG
Found at i:95980192 original size:16 final size:16
Alignment explanation
Indices: 95980163--95980210 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 16
95980153 CAATAGGTAA
**
95980163 ATTATTAAGCTTTTAT
1 ATTATTAAAATTTTAT
95980179 ATTATTAAAATTTT-T
1 ATTATTAAAATTTTAT
95980194 A--ATTAAAATTTTA-
1 ATTATTAAAATTTTAT
95980207 ATTA
1 ATTA
95980211 AAGGTGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 12 0.44
15 3 0.11
16 12 0.44
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
ATTATTAAAATTTTAT
Found at i:95980207 original size:12 final size:13
Alignment explanation
Indices: 95980182--95980212 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
95980172 CTTTTATATT
95980182 ATTAAAATTTTTA
1 ATTAAAATTTTTA
95980195 ATTAAAA-TTTTA
1 ATTAAAATTTTTA
95980207 ATTAAA
1 ATTAAA
95980213 GGTGTAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAAATTTTTA
Found at i:95981497 original size:32 final size:32
Alignment explanation
Indices: 95981456--95981521 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
95981446 GATTTGGTAA
*
95981456 GTGTATTAATGCCTGTTTTTAGTAATTTTTAT
1 GTGTATTAATGCCCGTTTTTAGTAATTTTTAT
*
95981488 GTGTATTAATGCCCGTTTTTATTAATTTTTAT
1 GTGTATTAATGCCCGTTTTTAGTAATTTTTAT
95981520 GT
1 GT
95981522 TTTTGGGTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (32 bp):
GTGTATTAATGCCCGTTTTTAGTAATTTTTAT
Found at i:95994116 original size:126 final size:126
Alignment explanation
Indices: 95993912--95994359 Score: 555
Period size: 126 Copynumber: 3.5 Consensus size: 126
95993902 GTCCAACAAA
* * * * **
95993912 AAATCGAAACCCAGCACGGTAGGGCAC-GATTCCTCAAATTCCCAAACATTGAACATTGCCTTGT
1 AAATCAAAACCCAGCACGATAGGGCACGGTTTCC-CGAATT-CCAAACATCAAACATTGCCTTGT
95993976 TTTAGAATTTAAAGAATACGAATGAAATTCTAAAGGAATATTTGATGATTTTGGATAAACGAG
64 TTTAGAATTTAAAGAATACGAATGAAATTCTAAAGGAATATTTGATGATTTTGGATAAACGAG
* *
95994039 AAATCAAAACCCAGCACGATAGGGCACGGTTTCCCGAATTCCAAGCATCAAACATTGCCTTGTCT
1 AAATCAAAACCCAGCACGATAGGGCACGGTTTCCCGAATTCCAAACATCAAACATTGCCTTGTTT
95994104 TAGAATTTAAAGAATACGAATGAAATTCTAAAGGAATATTTGATGATTTTGGATAAACGAG
66 TAGAATTTAAAGAATACGAATGAAATTCTAAAGGAATATTTGATGATTTTGGATAAACGAG
* * *
95994165 AAATCAAAACCCAGCACGATAGGACACGG-TTCCCTGAATTCCAAGCATCAAACATTGTCTTGTT
1 AAATCAAAACCCAGCACGATAGGGCACGGTTTCCC-GAATTCCAAACATCAAACATTGCCTTGTT
* * * * * ** * * *
95994229 TTAGAATTTAAAAAAAAAATGAGTGAAATTCTAAAAGAAGGTTTGATTATTTTGAACAAAC-AGG
65 TTAGAATTT--AAAGAATACGAATGAAATTCTAAAGGAATATTTGATGATTTTGGATAAACGA-G
* * * * *
95994293 AAGTCAAAACCCAGCACGGTAGGGCACGATTT--CGAATTTCCAAACATCGAACATTACCTTCGT
1 AAATCAAAACCCAGCACGATAGGGCACGGTTTCCCGAA-TTCCAAACATCAAACATTGCCTT-GT
95994356 TTTA
64 TTTA
95994360 AGGAATTTTT
Statistics
Matches: 284, Mismatches: 29, Indels: 15
0.87 0.09 0.05
Matches are distributed among these distances:
125 5 0.02
126 149 0.52
127 51 0.18
128 77 0.27
129 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (126 bp):
AAATCAAAACCCAGCACGATAGGGCACGGTTTCCCGAATTCCAAACATCAAACATTGCCTTGTTT
TAGAATTTAAAGAATACGAATGAAATTCTAAAGGAATATTTGATGATTTTGGATAAACGAG
Found at i:95995850 original size:17 final size:18
Alignment explanation
Indices: 95995828--95995861 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
95995818 GCAAAAAGAG
95995828 AAAAAAT-AAAATAAAAC
1 AAAAAATAAAAATAAAAC
95995845 AAAAAATAAAAATAAAA
1 AAAAAATAAAAATAAAA
95995862 AAATTAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAAAATAAAAATAAAAC
Found at i:95999530 original size:15 final size:16
Alignment explanation
Indices: 95999512--95999544 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
95999502 AAAATTTAAA
95999512 ATATTAAATAT-TTAT
1 ATATTAAATATATTAT
95999527 ATATTAAATATATTAT
1 ATATTAAATATATTAT
95999543 AT
1 AT
95999545 GTCGATAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTAAATATATTAT
Found at i:96018005 original size:22 final size:23
Alignment explanation
Indices: 96017980--96018025 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
96017970 CAACCAAACC
96017980 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
96018002 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
96018025 A
1 A
96018026 TGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:96025778 original size:22 final size:23
Alignment explanation
Indices: 96025753--96025798 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
96025743 CAACCAAACC
96025753 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
96025775 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
96025798 A
1 A
96025799 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:96025804 original size:23 final size:23
Alignment explanation
Indices: 96025760--96025804 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
96025750 ACCAATTCAA
*
96025760 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
96025783 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
96025805 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:96031383 original size:22 final size:22
Alignment explanation
Indices: 96031358--96031421 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
96031348 ACTATTAAGT
*
96031358 AGAGAGCACTAAAGTGCTATAC
1 AGAGAGCACTAAAGTGCTAAAC
*
96031380 AGAGGGCAC-AAATGTGCTAAAC
1 AGAGAGCACTAAA-GTGCTAAAC
* *
96031402 GGAGAGCACTAATGTGCTAA
1 AGAGAGCACTAAAGTGCTAA
96031422 TAATCGGAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (22 bp):
AGAGAGCACTAAAGTGCTAAAC
Found at i:96040436 original size:27 final size:28
Alignment explanation
Indices: 96040383--96040436 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
96040373 TGTAATTCAA
* *
96040383 TTTTTATTAAAATTTCATCTATTTAATT
1 TTTTTATTAAAATTTAATCTATATAATT
96040411 TTTTTA-TATAAATTTAATCTA-ATAAT
1 TTTTTATTA-AAATTTAATCTATATAAT
96040437 AAAAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTTTATTAAAATTTAATCTATATAATT
Found at i:96043166 original size:33 final size:33
Alignment explanation
Indices: 96043129--96043202 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
96043119 GATTAAATAC
* *
96043129 AAGACCATAGCTGAGCTATGGCATTATG-ATGAT
1 AAGACCATAACTGAGCTATGGCACTATGAATG-T
* * *
96043162 AAGACCATAACTGGGTTATGGTACTATGAATGT
1 AAGACCATAACTGAGCTATGGCACTATGAATGT
96043195 AAGACCAT
1 AAGACCAT
96043203 GGACAGGCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 32 0.91
34 3 0.09
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (33 bp):
AAGACCATAACTGAGCTATGGCACTATGAATGT
Found at i:96045371 original size:29 final size:28
Alignment explanation
Indices: 96045334--96045403 Score: 70
Period size: 30 Copynumber: 2.5 Consensus size: 28
96045324 ATCCTTAACT
*
96045334 ATTA-TATTTTATTTAAACAAGCCTTTAG
1 ATTATTATTTTATTTAAACAAG-CTTTAA
* *
96045362 ATTATTATTTTTAATTAAATAAGCTTTAA
1 ATTATTA-TTTTATTTAAACAAGCTTTAA
* *
96045391 ACTATGATTTTAT
1 ATTATTATTTTAT
96045404 GTGTAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 9 0.26
29 12 0.35
30 13 0.38
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.50
Consensus pattern (28 bp):
ATTATTATTTTATTTAAACAAGCTTTAA
Found at i:96045380 original size:30 final size:30
Alignment explanation
Indices: 96045333--96045389 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
96045323 AATCCTTAAC
*
96045333 TATTATATTTTATTTAAACAAGCCTTTAGAT
1 TATTATATTTTAATTAAACAAG-CTTTAGAT
*
96045364 TATTAT-TTTTAATTAAATAAGCTTTA
1 TATTATATTTTAATTAAACAAGCTTTA
96045390 AACTATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 13 0.54
31 6 0.25
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (30 bp):
TATTATATTTTAATTAAACAAGCTTTAGAT
Found at i:96054838 original size:58 final size:58
Alignment explanation
Indices: 96054748--96054865 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
96054738 CATATGGGTG
96054748 TTATATTATTTAAGGATATCATGATTTAGTGGGAGTTTGTATTTCATTTACTTTATGT
1 TTATATTATTTAAGGATATCATGATTTAGTGGGAGTTTGTATTTCATTTACTTTATGT
96054806 TTATATTATTTAAGGATATCATGATTTAGTGGGAGTTTGTATTTCATTTACTTTATGT
1 TTATATTATTTAAGGATATCATGATTTAGTGGGAGTTTGTATTTCATTTACTTTATGT
96054864 TT
1 TT
96054866 GTTTTCAGAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (58 bp):
TTATATTATTTAAGGATATCATGATTTAGTGGGAGTTTGTATTTCATTTACTTTATGT
Found at i:96055922 original size:20 final size:20
Alignment explanation
Indices: 96055868--96055923 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
96055858 AAAAAATACT
* ** *
96055868 ATTAATTATTATTAAATATA
1 ATTATTTATTATTTGATAAA
*
96055888 ATTATGTT-TTGTTTGATAAA
1 ATTAT-TTATTATTTGATAAA
96055908 ATTATTTATTATTTGA
1 ATTATTTATTATTTGA
96055924 GATGATTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
ATTATTTATTATTTGATAAA
Found at i:96058363 original size:18 final size:18
Alignment explanation
Indices: 96058336--96058372 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
96058326 ATTAATATGT
*
96058336 ATAAAGGTTATAAAAATA
1 ATAAAAGTTATAAAAATA
*
96058354 ATAAAAGTTATAATAATA
1 ATAAAAGTTATAAAAATA
96058372 A
1 A
96058373 AAGAAAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (18 bp):
ATAAAAGTTATAAAAATA
Found at i:96062200 original size:21 final size:20
Alignment explanation
Indices: 96062169--96062238 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 20
96062159 TCAAGTTTTA
96062169 CTTTTCGTTTAGCTCTCACGAG
1 CTTTT-GTTTAGCTCT-ACGAG
* *
96062191 CTTTTGTTTAACTCATATGAG
1 CTTTTGTTTAGCTC-TACGAG
* * *
96062212 TTTTTGTTAAGCTCTATTGAG
1 CTTTTGTTTAGCTCTA-CGAG
96062233 CTTTTG
1 CTTTTG
96062239 ATTAACCCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.05
21 32 0.80
22 6 0.15
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (20 bp):
CTTTTGTTTAGCTCTACGAG
Found at i:96062221 original size:20 final size:21
Alignment explanation
Indices: 96062188--96062244 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
96062178 TAGCTCTCAC
*
96062188 GAGCTTTTGTTTAACTC-ATAT
1 GAGCTTTTGATTAACTCTAT-T
*
96062209 GAGTTTTTG-TTAAGCTCTATT
1 GAGCTTTTGATTAA-CTCTATT
96062230 GAGCTTTTGATTAAC
1 GAGCTTTTGATTAAC
96062245 CCTTATGGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 4 0.13
21 21 0.68
22 6 0.19
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (21 bp):
GAGCTTTTGATTAACTCTATT
Found at i:96062267 original size:42 final size:41
Alignment explanation
Indices: 96062174--96062323 Score: 133
Period size: 42 Copynumber: 3.6 Consensus size: 41
96062164 TTTTACTTTT
* * * *
96062174 CGTTTAGCTCTCACGAGCTTTTGTTTAACTCATATGAGTTTT
1 CGTTTAGCTCTCACGAGCTTTTG-TTAACCCTTATGGGTTTC
* * *
96062216 TGTTAAGCTCT-ATTGAGCTTTTGATTAACCCTTATGGGTTTC
1 CGTTTAGCTCTCA-CGAGCTTTTG-TTAACCCTTATGGGTTTC
* **
96062258 CGTTTAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
1 CGTTTAGCTCTCACGAGCTTTTGTT-AACCCTTATGGGTTTC
** *
96062300 TATTTAG-TCTCATGAGCTTTTGTT
1 CGTTTAGCTCTCACGAGCTTTTGTT
96062324 CAGCCTTCGG
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
41 16 0.19
42 69 0.80
43 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (41 bp):
CGTTTAGCTCTCACGAGCTTTTGTTAACCCTTATGGGTTTC
Done.