Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 235 of 356
Found at i:77217871 original size:28 final size:28
Alignment explanation
Indices: 77217808--77217961 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
77217798 ATATTAAGTC
* * *
77217808 CGCACACTCAATGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
77217835 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
77217863 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
77217891 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
77217919 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
77217947 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77217962 GTACAATTTA
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 20 0.17
28 101 0.83
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:77220882 original size:10 final size:10
Alignment explanation
Indices: 77220869--77220916 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
77220859 TTATTTTCAT
77220869 TTATCTTTAA
1 TTATCTTTAA
77220879 TTATCTTTAA
1 TTATCTTTAA
*
77220889 TTATCTTTAT
1 TTATCTTTAA
*
77220899 TTAT-TTGTAT
1 TTATCTT-TAA
77220909 TTATCTTT
1 TTATCTTT
77220917 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:77230868 original size:7 final size:6
Alignment explanation
Indices: 77230848--77230889 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
77230838 TTTATTTCTC
*
77230848 TTTATT TTTATT TTTATT TTT-TAT TTTATT TTAATT ATTTAT
1 TTTATT TTTATT TTTATT TTTAT-T TTTATT TTTATT -TTTAT
77230890 ATCTTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 1 0.03
6 25 0.81
7 5 0.16
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:77230876 original size:18 final size:18
Alignment explanation
Indices: 77230848--77230927 Score: 64
Period size: 15 Copynumber: 4.7 Consensus size: 18
77230838 TTTATTTCTC
* *
77230848 TTTATTTTTATTTTTATTT
1 TTTA-TTTTATTTTAATTA
77230867 TTTATTTTATTTTAATTA
1 TTTATTTTATTTTAATTA
*
77230885 TTTA---TATCTTAATTA
1 TTTATTTTATTTTAATTA
* *
77230900 TTTA--TTA-CTTAATTT
1 TTTATTTTATTTTAATTA
77230915 TTTATTTTATTTT
1 TTTATTTTATTTT
77230928 TGATATTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
15 25 0.48
16 2 0.04
17 3 0.06
18 18 0.35
19 4 0.08
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTTATTTTAATTA
Found at i:77230926 original size:12 final size:12
Alignment explanation
Indices: 77230848--77230928 Score: 60
Period size: 12 Copynumber: 6.8 Consensus size: 12
77230838 TTTATTTCTC
77230848 TTTA-TTTTTATT
1 TTTATTTTTTA-T
77230860 TTTATTTTTTAT
1 TTTATTTTTTAT
77230872 TTTATTTTAATTA-
1 TTTATTTT--TTAT
* *
77230885 TTTATATCTTA-
1 TTTATTTTTTAT
* * *
77230896 ATTATTTATTAC
1 TTTATTTTTTAT
*
77230908 TTAATTTTTTAT
1 TTTATTTTTTAT
77230920 TTTATTTTT
1 TTTATTTTT
77230929 GATATTAATA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
11 11 0.20
12 29 0.53
13 12 0.22
14 3 0.05
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:77233674 original size:96 final size:97
Alignment explanation
Indices: 77233506--77233687 Score: 294
Period size: 96 Copynumber: 1.9 Consensus size: 97
77233496 TTTAAGAATA
* * *
77233506 TGTTGGGCTGAGTAACCAAGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAAT
1 TGTTGGGCTAAGTAACCAAGGTGAGGTGCTTAGCTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
*
77233571 ATGTTCTTAAG-AAAAATAAAAATTAGGAGTG
66 ATATTCTTAAGTAAAAATAAAAATTAGGAGTG
**
77233602 TGTTGGGCTAAGTAACCGGGGTGAGGTGCTTAGCTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
1 TGTTGGGCTAAGTAACCAAGGTGAGGTGCTTAGCTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
*
77233667 ATATTCTTAAGTAAAACTAAA
66 ATATTCTTAAGTAAAAATAAA
77233688 TAAATAAATA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
96 70 0.90
97 8 0.10
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (97 bp):
TGTTGGGCTAAGTAACCAAGGTGAGGTGCTTAGCTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
ATATTCTTAAGTAAAAATAAAAATTAGGAGTG
Found at i:77234305 original size:14 final size:13
Alignment explanation
Indices: 77234286--77234323 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
77234276 ATTTAATGTT
77234286 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
77234300 TAATTATTAAGGA
1 TAATTATTTAGGA
77234313 TAATTATTTAG
1 TAATTATTTAG
77234324 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:77234352 original size:10 final size:10
Alignment explanation
Indices: 77234337--77234386 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
77234327 TAATTTTAGA
77234337 ATTTAT-TTT
1 ATTTATCTTT
77234346 CATTTATCTTT
1 -ATTTATCTTT
*
77234357 AATTATCTTT
1 ATTTATCTTT
77234367 ATTTAT-TTGT
1 ATTTATCTT-T
77234377 ATTTATCTTT
1 ATTTATCTTT
77234387 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:77235181 original size:41 final size:43
Alignment explanation
Indices: 77235127--77235206 Score: 112
Period size: 41 Copynumber: 1.9 Consensus size: 43
77235117 TAAAATTCCA
*
77235127 ATCAAAACTTTTAATTCA-ATTTTTA-TTT-TATTTTTTCCAAG
1 ATCAAAACGTTTAATT-ATATTTTTATTTTGTATTTTTTCCAAG
*
77235168 ATCAAAACGTTTAATTATGTTTTTATTTTGTATTTTTTC
1 ATCAAAACGTTTAATTATATTTTTATTTTGTATTTTTTC
77235207 AAGTACGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 1 0.03
41 21 0.62
42 3 0.09
43 9 0.26
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (43 bp):
ATCAAAACGTTTAATTATATTTTTATTTTGTATTTTTTCCAAG
Found at i:77235715 original size:30 final size:30
Alignment explanation
Indices: 77235681--77235742 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
77235671 GTGCTAAAGA
77235681 TAATTAAATGGGTACAAATTAACCAATAAG
1 TAATTAAATGGGTACAAATTAACCAATAAG
77235711 TAATTAAATGGGTACAAATTAACCAATAAG
1 TAATTAAATGGGTACAAATTAACCAATAAG
77235741 TA
1 TA
77235743 GGGAGAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (30 bp):
TAATTAAATGGGTACAAATTAACCAATAAG
Found at i:77242846 original size:20 final size:20
Alignment explanation
Indices: 77242823--77242887 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
77242813 TGCCCCTATT
77242823 TGCACTTCAGTACCCCTGAA
1 TGCACTTCAGTACCCCTGAA
* * **
77242843 TGCACAT-ATGTGCCCCTGTT
1 TGCACTTCA-GTACCCCTGAA
* *
77242863 TGTACTTCAGTACCCTTGAA
1 TGCACTTCAGTACCCCTGAA
77242883 TGCAC
1 TGCAC
77242888 ATACGTGCCC
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.31
Consensus pattern (20 bp):
TGCACTTCAGTACCCCTGAA
Found at i:77243060 original size:40 final size:40
Alignment explanation
Indices: 77242796--77243049 Score: 286
Period size: 40 Copynumber: 6.4 Consensus size: 40
77242786 AAGCAAATGT
* * *
77242796 CCCTGAATGCACATACATGCCCCTATTTGCACTTCAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
*
77242836 CCCTGAATGCACATATGTGCCCCTGTTTGTACTTCAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* *
77242876 CCTTGAATGCACATACGTGCCCCTGTTTGTACTT-TGATAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAG-TAC
* **
77242916 CCCTGAATGCACAT---TG-CCCTATTTGTACACCAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* * **
77242952 CCCTGAATGCACATACGTGCCCCTGATTGTACTTTGATGCCC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTAC-TTCA-GTAC
* * *
77242994 CCCTAAATGCACATATGTGCCCTTGTTTGTACTTCAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
77243034 CCC-GAATTGCACATAC
1 CCCTGAA-TGCACATAC
77243050 ATGCTCTTGT
Statistics
Matches: 177, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
36 28 0.16
37 3 0.02
39 5 0.03
40 107 0.60
41 4 0.02
42 30 0.17
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.30
Consensus pattern (40 bp):
CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
Found at i:77249902 original size:27 final size:27
Alignment explanation
Indices: 77249872--77250048 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
77249862 AAATTGTACA
* *
77249872 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
77249899 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
77249926 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
77249953 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
77249981 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
77250008 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
77250035 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
77250049 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:77249985 original size:82 final size:81
Alignment explanation
Indices: 77249872--77250027 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
77249862 AAATTGTACA
* * * *
77249872 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
77249936 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
77249953 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
77250018 TGCGAGTTGA
65 TGCGAATTGA
77250028 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:77250039 original size:82 final size:81
Alignment explanation
Indices: 77249868--77250048 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
77249858 GATTAAATTG
* * * * *
77249868 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
77249933 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
77249949 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
77250013 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
77250031 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
77250049 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:77257969 original size:82 final size:81
Alignment explanation
Indices: 77257857--77258011 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 81
77257847 AAATTGTACA
* * * *
77257857 CACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTGT
1 CACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTGT
77257921 GCGAATTGACCATGCGG
65 GCGAATTGACCATGCGG
* ** *
77257938 CACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGT
1 CACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
*
77258003 GCGAGTTGA
65 GCGAATTGA
77258012 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 14 0.22
82 49 0.78
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
CACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGTG
CGAATTGACCATGCGG
Found at i:77258014 original size:27 final size:27
Alignment explanation
Indices: 77257857--77258011 Score: 159
Period size: 27 Copynumber: 5.7 Consensus size: 27
77257847 AAATTGTACA
* * *
77257857 CACTAAGGGTGCGATTTGACTATGTTG
1 CACTAAGTGTGCGAATTGACTATGTGG
* * *
77257884 CACTCAGTGTGCGAAATGAATATGAT-G
1 CACTAAGTGTGCGAATTGACTATG-TGG
* *
77257911 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGAATTGACTATGTGG
* *
77257938 CACTAAGTGTGCGAGTCTGACTATGTAG
1 CACTAAGTGTGCGAAT-TGACTATGTGG
* * *
77257966 CACTAAGTGTGCGATTTGATTACGTGG
1 CACTAAGTGTGCGAATTGACTATGTGG
*
77257993 CACTAAGTGTGCGAGTTGA
1 CACTAAGTGTGCGAATTGA
77258012 TTATATAGCA
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
27 82 0.77
28 24 0.23
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (27 bp):
CACTAAGTGTGCGAATTGACTATGTGG
Found at i:77258022 original size:27 final size:27
Alignment explanation
Indices: 77257857--77258031 Score: 156
Period size: 27 Copynumber: 6.5 Consensus size: 27
77257847 AAATTGTACA
* * *
77257857 CACTAAGGGTGCGATTTGACTATGTTG
1 CACTAAGTGTGCGAATTGACTATGTAG
* * *
77257884 CACTCAGTGTGCGAAATGAATATG-ATG
1 CACTAAGTGTGCGAATTGACTATGTA-G
* **
77257911 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGAATTGACTATGTAG
*
77257938 CACTAAGTGTGCGAGTCTGACTATGTAG
1 CACTAAGTGTGCGAAT-TGACTATGTAG
* * * *
77257966 CACTAAGTGTGCGATTTGATTACGTGG
1 CACTAAGTGTGCGAATTGACTATGTAG
* * *
77257993 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGAATTGACTATGTAG
*
77258020 CACTGAGT-TGCG
1 CACTAAGTGTGCG
77258032 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 24, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
26 4 0.03
27 94 0.78
28 23 0.19
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
CACTAAGTGTGCGAATTGACTATGTAG
Found at i:77259535 original size:93 final size:93
Alignment explanation
Indices: 77259372--77259665 Score: 366
Period size: 93 Copynumber: 3.1 Consensus size: 93
77259362 GGGTTCGGGG
* * * *
77259372 TGTT-ACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACAT
1 TGTTCACATTCATCACATTGGCTATTCGGCCTTATCACATATATACA-CTTCACATTCATCACAT
77259436 TGGCCATTCGCCTTATCACACATACACA-
65 TGGCCATTCGCCTTATCACACATACACAC
77259464 TGTTCACATTCATCACATTGGCTATTCGG-CTTATCACATATATATACACTTCACATTCATCACA
1 TGTTCACATTCATCACATTGGCTATTCGGCCTTATCAC--ATATATACACTTCACATTCATCACA
* *
77259528 TTGGCCATTCGGCCTTATCACATATATACAC
64 TTGGCCATTC-GCCTTATCACACATACACAC
* *
77259559 T-TTCACA-TCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 TGTTCACATTCATCACATTGGCTATTCGGCCTTATCACATATATACAC-TTCACATTCATCACAT
* * * *
77259622 CGGCCATTAGGCCTTATCACATATATATACAC
65 TGGCCATT-CGCCTTATCAC--ACATACACAC
77259654 T-TTCACATTCAT
1 TGTTCACATTCAT
77259666 TCAAATATAC
Statistics
Matches: 181, Mismatches: 10, Indels: 18
0.87 0.05 0.09
Matches are distributed among these distances:
92 21 0.12
93 99 0.55
94 39 0.22
95 18 0.10
96 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (93 bp):
TGTTCACATTCATCACATTGGCTATTCGGCCTTATCACATATATACACTTCACATTCATCACATT
GGCCATTCGCCTTATCACACATACACAC
Found at i:77259648 original size:47 final size:47
Alignment explanation
Indices: 77259376--77259665 Score: 394
Period size: 46 Copynumber: 6.2 Consensus size: 47
77259366 TCGGGGTGTT
* *
77259376 ACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA-TGTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTC
* *
77259423 ACATTCATCACATTGGCCATTC-GCCTTATCACACATACACA-TGTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTC
*
77259469 ACATTCATCACATTGGCTATTCGG-CTTATCACATATATATACAC-TTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTC
77259516 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
* * *
77259563 ACA-TCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
* *
77259609 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTC
77259658 ACATTCAT
1 ACATTCAT
77259666 TCAAATATAC
Statistics
Matches: 222, Mismatches: 12, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
46 102 0.46
47 83 0.37
48 15 0.07
49 22 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
Found at i:77262911 original size:40 final size:40
Alignment explanation
Indices: 77262879--77263222 Score: 490
Period size: 40 Copynumber: 8.6 Consensus size: 40
77262869 CCAGCATGAT
* * *
77262879 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
77262919 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
77262959 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
77262999 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
77263039 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
77263079 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
77263119 TGCTCTTCGGGACTTACCCCGGACACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
77263159 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
77263199 TGCTCTTCGGGACTTAGCTCGGAT
1 TGCTCTTCGGGACTTAGCCCGGAT
77263223 CATCGTCGAG
Statistics
Matches: 276, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 276 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:77263715 original size:39 final size:40
Alignment explanation
Indices: 77263598--77263821 Score: 262
Period size: 39 Copynumber: 5.7 Consensus size: 40
77263588 GCTACTCGTT
* *
77263598 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
77263638 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
77263678 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
77263717 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
77263756 CAAATGCCTTC-GGATCTTAGTCC-GAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
77263797 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
77263822 CATCATTCGA
Statistics
Matches: 162, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.45
40 72 0.44
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:77263767 original size:78 final size:80
Alignment explanation
Indices: 77263598--77263821 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 80
77263588 GCTACTCGTT
*
77263598 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
77263663 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * * * *
77263678 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTTGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
77263740 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * * * *
77263756 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
77263819 GGA
64 GGA
77263822 CATCATTCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
77 2 0.02
78 33 0.27
79 54 0.44
80 33 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:77263805 original size:118 final size:120
Alignment explanation
Indices: 77263598--77263821 Score: 278
Period size: 118 Copynumber: 1.9 Consensus size: 120
77263588 GCTACTCGTT
* *
77263598 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
* * *
77263663 ATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
77263717 CAAATGCCTTTGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
77263779 GAATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
64 GAATATAGTAAC-TAGCACCAAAGCCTTCGGGACTTAGCCCGGA
77263822 CATCATTCGA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
117 4 0.04
118 57 0.64
119 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:77266158 original size:22 final size:22
Alignment explanation
Indices: 77266130--77266251 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
77266120 TTCCACATCC
77266130 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
77266152 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
77266176 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
77266199 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
77266223 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
77266246 ATCACA
1 ATCACA
77266252 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:77266165 original size:47 final size:47
Alignment explanation
Indices: 77266102--77266464 Score: 541
Period size: 47 Copynumber: 7.6 Consensus size: 47
77266092 CCCTTCGGGA
* * *
77266102 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
77266149 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
77266196 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
77266243 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
77266290 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
77266339 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
77266386 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
77266433 CTTATCACATATATATACACTTTCACATTCAT
1 CTTATCAC--ATATATACACTTTCACATTCAT
77266465 TCAAATATAC
Statistics
Matches: 293, Mismatches: 17, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 227 0.77
49 64 0.22
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:77266362 original size:143 final size:143
Alignment explanation
Indices: 77266102--77266464 Score: 545
Period size: 143 Copynumber: 2.6 Consensus size: 143
77266092 CCCTTCGGGA
** * * *
77266102 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
1 CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
* *
77266165 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACA
* *
77266230 TTGGCCATTCGGC
131 TCGGCCATTAGGC
*
77266243 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCGGCCTTATCACATATATATA
1 CTTATCACACATACACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
77266307 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCA
65 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCA
*
77266371 CATCGGCTATTAGGC
129 CATCGGCCATTAGGC
* * * *
77266386 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
77266451 ACTTTCACATTCAT
66 ACTTTCACATTCAT
77266465 TCAAATATAC
Statistics
Matches: 201, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
140 1 0.00
141 47 0.23
143 151 0.75
144 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (143 bp):
CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:77269252 original size:48 final size:48
Alignment explanation
Indices: 77269181--77269356 Score: 178
Period size: 48 Copynumber: 3.7 Consensus size: 48
77269171 ATGTGTGTTG
* *
77269181 GTGTAAGACCATGTCTGGGACATGGAATCGGCCACATTAAAAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAAGAGAGCTA
* * *
77269229 GTGTAAGACCATGTTTGGGACATGGCAT---CCGCATTGAGACGAGACCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-A-A-GAGAGCTA
* * * ** * * *
77269277 GTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAACATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAAGAGAGCTA
*
77269325 GTGTAAGACCATGTCTAGGACATGGCATCGGC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC
77269357 AATTTACCCT
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 6 0.06
46 1 0.01
47 1 0.01
48 94 0.88
50 1 0.01
51 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAAGAGAGCTA
Found at i:77277150 original size:39 final size:33
Alignment explanation
Indices: 77277076--77277142 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
77277066 TTGCACTGTA
77277076 CTGATACTAAATAGGGCTTTGGCCCAGACCGTG
1 CTGATACTAAATAGGGCTTTGGCCCAGACCGTG
* *
77277109 CTGATACTGAATAGGGCTTTGGCCCAGACTGTG
1 CTGATACTAAATAGGGCTTTGGCCCAGACCGTG
77277142 C
1 C
77277143 GGATGCTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (33 bp):
CTGATACTAAATAGGGCTTTGGCCCAGACCGTG
Found at i:77280516 original size:40 final size:40
Alignment explanation
Indices: 77280471--77280546 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
77280461 ACTATGTTTG
* *
77280471 GCACTTATTGTGCG-TTTCAAAATAGCTTCGGCTATAAATA
1 GCACTTAGTGTGCGAATT-AAAATAGCTTCGGCTATAAATA
**
77280511 GCACTTAGTGTGCGAATTGGAATAGCTTCGGCTATA
1 GCACTTAGTGTGCGAATTAAAATAGCTTCGGCTATA
77280547 TGAGGCACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 29 0.94
41 2 0.06
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (40 bp):
GCACTTAGTGTGCGAATTAAAATAGCTTCGGCTATAAATA
Found at i:77280555 original size:40 final size:39
Alignment explanation
Indices: 77280491--77280582 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 39
77280481 TGCGTTTCAA
* *
77280491 AATAGCTTCGGCTATAAATAGCACTTAGTGTGCGA-ATTGG
1 AATAGCTTCGGCTAT-AATAGCACTAAGTGTGCGATACT-G
77280531 AATAGCTTCGGCTAT-ATGAGGCACTAAGTGTGCGATACTG
1 AATAGCTTCGGCTATAAT-A-GCACTAAGTGTGCGATACTG
77280571 AGATAGCTTCGG
1 A-ATAGCTTCGG
77280583 TTTAAATGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 31 0.67
41 12 0.26
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (39 bp):
AATAGCTTCGGCTATAATAGCACTAAGTGTGCGATACTG
Found at i:77284586 original size:19 final size:18
Alignment explanation
Indices: 77284551--77284592 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
77284541 CTGCAAAATA
77284551 TTTTTTATTGTTTTCTTT
1 TTTTTTATTGTTTTCTTT
77284569 TTTTCTTATT-TTTCTCTTT
1 TTTT-TTATTGTTT-TCTTT
77284588 TTTTT
1 TTTTT
77284593 GAACTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTTTATTGTTTTCTTT
Found at i:77291809 original size:47 final size:47
Alignment explanation
Indices: 77291758--77292313 Score: 898
Period size: 47 Copynumber: 11.7 Consensus size: 47
77291748 TTAGGATTCT
* * * *
77291758 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTATTGGCTG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
77291805 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
77291852 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
77291899 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
77291948 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
77291995 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
77292042 ATGTGATGAGTGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCG
* *
77292091 ATGTGATGAGTGTGAAAGTGTATATATGTGATAAGGCCTAATGACCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
77292138 ATGTGATGAATGTGAAAGTGTATATATGTGAAAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
77292185 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
77292232 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
77292279 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
77292314 TCCCGAAGGG
Statistics
Matches: 484, Mismatches: 20, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 390 0.81
49 93 0.19
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:77291937 original size:143 final size:143
Alignment explanation
Indices: 77291779--77292313 Score: 912
Period size: 143 Copynumber: 3.8 Consensus size: 143
77291769 GTGAACATGC
* *
77291779 ATATATGTGATAAGGCCTATTGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
77291844 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
77291909 TGTGAAAGTGTAT
131 TGTGAAAGTGTAT
77291922 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
77291987 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAG
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
77292052 TGTGAAAGCGTAT
131 TGTGAAAGTGTAT
*
77292065 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAGTGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* *
77292130 AATGACCGATGTGATGAATGTGAAAGTGTATATATGTGAAAAGGCCTAATGGCCGATGTGATGAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
77292195 TGTGAAAGTG--T
131 TGTGAAAGTGTAT
* * * *
77292206 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* * * * *
77292271 AGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
77292314 TCCCGAAGGG
Statistics
Matches: 371, Mismatches: 21, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 97 0.26
143 274 0.74
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTAT
Found at i:77292213 original size:25 final size:25
Alignment explanation
Indices: 77292185--77292263 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
77292175 CTAATGGCCG
77292185 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
77292210 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
77292232 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
77292257 ATGTGAT
1 ATGTGAT
77292264 AGGGCCGAGT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 15 0.38
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:77293647 original size:68 final size:68
Alignment explanation
Indices: 77293527--77293653 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
77293517 GCTACATCTA
* * * *
77293527 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCGTGCGACCTAGCTACCTCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
77293592 ATG
66 ATG
* * *
77293595 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCTAGCTAC
77293654 ATACCATCTG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
68 48 0.96
69 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
ATG
Found at i:77294152 original size:30 final size:30
Alignment explanation
Indices: 77294118--77294178 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
77294108 TCCTTAACTC
*
77294118 AAACTTTGGGAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * *
77294148 AAACTTTTGCAAATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
77294178 A
1 A
77294179 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:77297491 original size:39 final size:40
Alignment explanation
Indices: 77297370--77297592 Score: 241
Period size: 39 Copynumber: 5.7 Consensus size: 40
77297360 GCTCCTCGTT
* * * *
77297370 CAAATGTCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* *
77297410 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTATCTCGCA
77297450 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
77297489 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
77297528 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
77297569 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
77297593 CATCATTCAA
Statistics
Matches: 162, Mismatches: 11, Indels: 21
0.84 0.06 0.11
Matches are distributed among these distances:
38 2 0.01
39 87 0.54
40 63 0.39
41 10 0.06
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:77297547 original size:79 final size:81
Alignment explanation
Indices: 77297409--77297592 Score: 240
Period size: 79 Copynumber: 2.3 Consensus size: 81
77297399 AGTAATTCGT
*
77297409 ACAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCG
1 ACAAATGCCTTCGGGACTTAGCCCGGAATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCG
*
77297473 GA-ATTAGT-A-TCTCGC
66 GATATT-GTCACT-TAGC
* * *
77297488 ACAAATGCCTTCGGG-CTTAGCCCGGAA-TTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAATGCCTTCGGGACTTAGCCCGGAATTTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCC
77297551 GGATATTGTCACTTAGC
65 GGATATTGTCACTTAGC
77297568 AC-AA-GCCTTCGGGACTTAGCCCGGA
1 ACAAATGCCTTCGGGACTTAGCCCGGA
77297593 CATCATTCAA
Statistics
Matches: 94, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
78 41 0.44
79 43 0.46
80 9 0.10
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (81 bp):
ACAAATGCCTTCGGGACTTAGCCCGGAATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCG
GATATTGTCACTTAGC
Found at i:77300316 original size:40 final size:40
Alignment explanation
Indices: 77300261--77300426 Score: 237
Period size: 40 Copynumber: 4.2 Consensus size: 40
77300251 GGACTAAGAT
* *
77300261 CCGAAGGCAATTGTGCTAGTGTCTATATCCGGGCTAATTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAATTC
*
77300301 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAATTT
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAATTC
* * *
77300341 TCGAAGGCATTTGTGCTAGTGACTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAATTC
* *
77300381 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAATTC
77300420 CCGAAGG
1 CCGAAGG
77300427 TACTTGGGTT
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 15 0.13
40 97 0.85
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAATTC
Found at i:77318368 original size:40 final size:40
Alignment explanation
Indices: 77318278--77318537 Score: 262
Period size: 40 Copynumber: 6.5 Consensus size: 40
77318268 CTCAAGAAAT
* * * *
77318278 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
77318316 CTTCGGGTCTTAGCCCAGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
77318356 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
77318396 CTTCGGGTCTTAGTCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
77318436 CTTCAGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
77318476 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAG-ACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
77318516 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
77318538 CATTCGAATA
Statistics
Matches: 184, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
38 11 0.06
39 17 0.09
40 149 0.81
41 7 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:77318408 original size:80 final size:80
Alignment explanation
Indices: 77318278--77318537 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
77318268 CTCAAGAAAT
* * * * * * * *
77318278 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCAGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGTCCGGATATAGT
*
77318341 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* *
77318356 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGTCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGTCCGGATATAG
*
77318420 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
77318436 CTTCAGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGTCCGGATATAGT
*
77318501 CACCTAG-ACAAAAGC
66 CA-CTAGCACAAATGC
77318516 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
77318538 CATTCGAATA
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 122 0.79
81 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGTCCGGATATAGT
CACTAGCACAAATGC
Found at i:77318528 original size:120 final size:118
Alignment explanation
Indices: 77318278--77318537 Score: 296
Period size: 120 Copynumber: 2.2 Consensus size: 118
77318268 CTCAAGAAAT
* * * *
77318278 CTTCGGGATTTAGCCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCAGATATGGTCA
1 CTTCGGGACTTAGCCGGATATAACTACTAGCACAAGGCCTTCAGGTCTTAGCCCAGATATAGTCA
* *
77318343 CTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
66 CTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCCCTAGCACAAAAGC
* * * *
77318396 CTTCGGGTCTTAGTCCGGATATAA-TCGCTAGCACAAATGCCTTCAGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAG-CCGGATATAACT-ACTAGCAC-AAGGCCTTCAGGTCTTAGCCCAGATATAG
* * *
77318460 -CAACTCGCAC-GAATGCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAG-ACAAAAGC
63 TC-ACTAGCACAG-ATGCCTTCGGGA-CTTAGCCCGGATATAGTC-CCTAGCACAAAAGC
77318516 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATAT
77318538 CATTCGAATA
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
118 12 0.10
119 21 0.17
120 83 0.69
121 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (118 bp):
CTTCGGGACTTAGCCGGATATAACTACTAGCACAAGGCCTTCAGGTCTTAGCCCAGATATAGTCA
CTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCCCTAGCACAAAAGC
Found at i:77330574 original size:46 final size:46
Alignment explanation
Indices: 77330507--77330681 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
77330497 TGTAACCCGC
*
77330507 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
77330553 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
77330603 --TTCAG-GAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
77330646 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
77330682 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 4 0.04
46 61 0.56
47 27 0.25
48 4 0.04
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:77330622 original size:93 final size:93
Alignment explanation
Indices: 77330515--77330685 Score: 324
Period size: 93 Copynumber: 1.8 Consensus size: 93
77330505 GCCCATAAGT
*
77330515 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77330580 CGAGTTCGGATGCCTAGTTACATTTCAG
66 CGAGTTCGGATGCCTAGTTACATTTCAG
*
77330608 GAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77330673 CGAGTTCGGATGC
66 CGAGTTCGGATGC
77330686 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAG
Found at i:77331140 original size:30 final size:29
Alignment explanation
Indices: 77331106--77331164 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
77331096 ATTTAATACG
77331106 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTT-GAAAAATTACACTTTTGCCCCTA
** *
77331136 AACTTTTCATAATTACACTTTTGCCCCTA
1 AACTTTGAAAAATTACACTTTTGCCCCTA
77331165 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTGAAAAATTACACTTTTGCCCCTA
Found at i:77339269 original size:21 final size:20
Alignment explanation
Indices: 77339240--77339279 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
77339230 CTTTCACGGT
*
77339240 AAGTTGGGCCTCAAGGGGCTG
1 AAGTAGGGCCT-AAGGGGCTG
*
77339261 AAGTAGGGCCTAATGGGCT
1 AAGTAGGGCCTAAGGGGCT
77339280 TTCGGGCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (20 bp):
AAGTAGGGCCTAAGGGGCTG
Found at i:77341461 original size:11 final size:11
Alignment explanation
Indices: 77341447--77341502 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
77341437 CATGATTTAT
77341447 ATGATATGCAC
1 ATGATATGCAC
*
77341458 ATGATATG--T
1 ATGATATGCAC
77341467 ATGATATGCAC
1 ATGATATGCAC
* *
77341478 ATGATCTG--T
1 ATGATATGCAC
77341487 ATGATATGCAC
1 ATGATATGCAC
77341498 ATGAT
1 ATGAT
77341503 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:77341461 original size:20 final size:20
Alignment explanation
Indices: 77341436--77341502 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
77341426 ATTTTGATAT
* *
77341436 ACATGATTTATATGATATGC
1 ACATGATATGTATGATATGC
77341456 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
77341476 ACATGATCTGTATGATATGC
1 ACATGATATGTATGATATGC
77341496 ACATGAT
1 ACATGAT
77341503 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:77341641 original size:23 final size:24
Alignment explanation
Indices: 77341552--77341670 Score: 188
Period size: 24 Copynumber: 5.0 Consensus size: 24
77341542 GAGGAAGTAC
77341552 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
77341576 GAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
77341600 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
77341624 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
77341647 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
77341671 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
23 19 0.21
24 62 0.70
25 8 0.09
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:77355620 original size:29 final size:29
Alignment explanation
Indices: 77355557--77355624 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
77355547 TAATCAACCG
77355557 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
77355586 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
77355615 CGCACACTTA
1 CGCACACTTA
77355625 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:77355794 original size:29 final size:29
Alignment explanation
Indices: 77355731--77355798 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
77355721 TAATCAACCA
77355731 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
77355760 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
77355789 CGCACACTTA
1 CGCACACTTA
77355799 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:77355939 original size:29 final size:30
Alignment explanation
Indices: 77355900--77355978 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
77355890 CTTAATAATC
77355900 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
77355930 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
77355959 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
77355979 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:77355972 original size:174 final size:174
Alignment explanation
Indices: 77355446--77355947 Score: 932
Period size: 174 Copynumber: 2.9 Consensus size: 174
77355436 AACTCAAGGT
* *
77355446 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
77355511 GAAAATATATATTGGGTTCGCACACATAGTTCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
77355576 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
77355620 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
77355685 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
77355750 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
77355794 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
77355859 GAAAATATATATTGGGTTTGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
77355924 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
77355948 TGTACAATTT
Statistics
Matches: 318, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 318 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:77376025 original size:18 final size:18
Alignment explanation
Indices: 77376002--77376036 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
77375992 TGGCCTAATT
77376002 TAGTAACAGTAAACAGTG
1 TAGTAACAGTAAACAGTG
77376020 TAGTAACAGTAAACAGT
1 TAGTAACAGTAAACAGT
77376037 ATGCAAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (18 bp):
TAGTAACAGTAAACAGTG
Found at i:77376423 original size:27 final size:27
Alignment explanation
Indices: 77376349--77376619 Score: 310
Period size: 27 Copynumber: 10.0 Consensus size: 27
77376339 AAACATACAT
* * *
77376349 CACACAAGGGTAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
77376376 CATAAAAAGGGGCAAAACAATCATTTTAC
1 CA-CATAA-GGGCAAAACAGTCATTTTAC
*
77376405 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
77376432 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
77376459 CTCATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* **
77376486 CTCATAAGGGCAAAACAACCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
77376513 CCCACAAGGGCAAAACAGGCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
77376540 CCCATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
**
77376567 CTTATAAGGGCAAAACAGGT-ATTTTAC
1 CACATAAGGGCAAAACA-GTCATTTTAC
* * *
77376594 CCCATAAGGGCAAAATAGTTATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
77376620 TCGATTAAGG
Statistics
Matches: 214, Mismatches: 26, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 185 0.86
28 8 0.04
29 19 0.09
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:77380450 original size:27 final size:27
Alignment explanation
Indices: 77380412--77380568 Score: 165
Period size: 27 Copynumber: 5.9 Consensus size: 27
77380402 CATACATCAC
* * * *
77380412 ATAAGGGTAAAATAATCATCTTACCAT
1 ATAAGGGCAAAACAGTCATTTTACCAT
* * *
77380439 AAAAGGGCAAAACAGTTATTTTACCAC
1 ATAAGGGCAAAACAGTCATTTTACCAT
*
77380466 ATAAGGGCAAAACAATCATTTTACC-T
1 ATAAGGGCAAAACAGTCATTTTACCAT
* *
77380492 CAT-AGGGGAAAACAGTCATTTTACCTT
1 -ATAAGGGCAAAACAGTCATTTTACCAT
* * *
77380519 ATAAGGGCAAAATAGCCATTTTACCCT
1 ATAAGGGCAAAACAGTCATTTTACCAT
*
77380546 ATAAGGGCAAAACAGTTATTTTA
1 ATAAGGGCAAAACAGTCATTTTA
77380569 TCGATTAAGG
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 22 0.21
27 85 0.79
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (27 bp):
ATAAGGGCAAAACAGTCATTTTACCAT
Found at i:77380483 original size:54 final size:53
Alignment explanation
Indices: 77380409--77380568 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 53
77380399 AAACATACAT
* *
77380409 CACATAAGGGTAAAATAATCATCTTACCATAAAAGGGCAAAACAGTTATTTTAC
1 CACATAAGGGCAAAATAATCATTTTACC-TAAAAGGGCAAAACAGTTATTTTAC
* * * * *
77380463 CACATAAGGGCAAAACAATCATTTTACCTCATAGGGGAAAACAGTCATTTTAC
1 CACATAAGGGCAAAATAATCATTTTACCTAAAAGGGCAAAACAGTTATTTTAC
** ** *
77380516 CTTATAAGGGCAAAATAGCCATTTTACCCTATAAGGGCAAAACAGTTATTTTA
1 CACATAAGGGCAAAATAATCATTTTA-CCTAAAAGGGCAAAACAGTTATTTTA
77380569 TCGATTAAGG
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 42 0.48
54 46 0.52
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (53 bp):
CACATAAGGGCAAAATAATCATTTTACCTAAAAGGGCAAAACAGTTATTTTAC
Found at i:77380523 original size:53 final size:53
Alignment explanation
Indices: 77380409--77380568 Score: 187
Period size: 53 Copynumber: 3.0 Consensus size: 53
77380399 AAACATACAT
* * * *
77380409 CACATAAGGGTAAAATAATCATCTTACCATAAAAGGGCAAAACAGTTATTTTAC
1 CACATAAGGGCAAAATAATCATTTTACC-TCATAGGGCAAAACAGTTATTTTAC
* * *
77380463 CACATAAGGGCAAAACAATCATTTTACCTCATAGGGGAAAACAGTCATTTTAC
1 CACATAAGGGCAAAATAATCATTTTACCTCATAGGGCAAAACAGTTATTTTAC
** **
77380516 CTTATAAGGGCAAAATAGCCATTTTACC-CTATAAGGGCAAAACAGTTATTTTA
1 CACATAAGGGCAAAATAATCATTTTACCTC-AT-AGGGCAAAACAGTTATTTTA
77380569 TCGATTAAGG
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.01
53 46 0.51
54 43 0.48
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (53 bp):
CACATAAGGGCAAAATAATCATTTTACCTCATAGGGCAAAACAGTTATTTTAC
Found at i:77395228 original size:40 final size:40
Alignment explanation
Indices: 77395182--77395262 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
77395172 AACAGGACTT
77395182 CTAGCACTAACGGTTATATTTGTGTATTTGTGGCTTGAGA
1 CTAGCACTAACGGTTATATTTGTGTATTTGTGGCTTGAGA
* *
77395222 CTAGCACTAACGGTTATATTTTTGTATTTGTGTCTTGAGA
1 CTAGCACTAACGGTTATATTTGTGTATTTGTGGCTTGAGA
77395262 C
1 C
77395263 GAGTTGTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (40 bp):
CTAGCACTAACGGTTATATTTGTGTATTTGTGGCTTGAGA
Found at i:77407554 original size:40 final size:40
Alignment explanation
Indices: 77407358--77407544 Score: 284
Period size: 40 Copynumber: 4.7 Consensus size: 40
77407348 CAATTGAGGA
* * *
77407358 TTATATCAGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTA
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
77407398 TTATACCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
77407438 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * * *
77407478 TTATATCCGGGATAAGTCCCAAAGGCATTCTTGTTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
77407518 TTATATCCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
77407545 ATTGGGTTGG
Statistics
Matches: 135, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:77410512 original size:46 final size:46
Alignment explanation
Indices: 77410459--77410627 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
77410449 TGAGCATCCA
*
77410459 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCTG
* * * * *
77410505 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCTG
* * *
77410552 AACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCTG
*
77410598 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
77410628 GGGGTGGGTT
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 56 0.55
47 28 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCTG
Found at i:77410611 original size:93 final size:93
Alignment explanation
Indices: 77410452--77410622 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
77410442 GGATGGTTGA
* *
77410452 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTGAACTCGTTGAGT
77410517 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
77410545 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTGAACTCGTTGAGT
77410610 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
77410623 ACTTAGGGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:77411174 original size:40 final size:40
Alignment explanation
Indices: 77411129--77411310 Score: 274
Period size: 40 Copynumber: 4.5 Consensus size: 40
77411119 ATACCTATTT
* *
77411129 TCCGGGTTAAGTCCCAAAGGCATTCGTGCTAGTTGTTATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATA
* *
77411169 TCCGGGTTAAGTTCCAAAGGCATTCGTGCTGGTTGTTATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATA
*
77411209 TCCGGGTTAAGTCCCGATGGCATTCGTGCTGGTTGTTATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATA
* *
77411249 TCCGGGATAAGTCTCGAAGGCATTCGTGCTGGTTGTTATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATA
* * *
77411289 TCCGAGCTAAATCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
77411311 ATTGGGTTAG
Statistics
Matches: 130, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATA
Found at i:77414034 original size:19 final size:19
Alignment explanation
Indices: 77414012--77414057 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
77414002 GAAGCACATC
77414012 CTGGCACACAAAAAGCATA
1 CTGGCACACAAAAAGCATA
* **
77414031 CTGGCAGACAAAGTGCATA
1 CTGGCACACAAAAAGCATA
*
77414050 TTGGCACA
1 CTGGCACA
77414058 TGAAGTGCAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
CTGGCACACAAAAAGCATA
Found at i:77421709 original size:48 final size:49
Alignment explanation
Indices: 77421588--77421746 Score: 137
Period size: 48 Copynumber: 3.3 Consensus size: 49
77421578 AACCGATTTC
* ** * * * *
77421588 GCACACATAGTGCTAAACAAG-TTCGCACACATAGTGCCATTCTACA-CC
1 GCACACATAGTGCCATTCAAGATTCACACACATAGTGACATTC-AAATCA
* * ** *
77421636 GCACACATAGTGCC-TTGAAGATTCACTCATGTATTGACATTCAAATCA
1 GCACACATAGTGCCATTCAAGATTCACACACATAGTGACATTCAAATCA
* * *
77421684 GCACACATAGTGCCATTCAA-TTTCACACACATAGTGCCATTCAAATCC
1 GCACACATAGTGCCATTCAAGATTCACACACATAGTGACATTCAAATCA
*
77421732 GCACACTTAGTGCCA
1 GCACACATAGTGCCA
77421747 ATGTTGACCC
Statistics
Matches: 87, Mismatches: 21, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
47 5 0.06
48 78 0.90
49 4 0.05
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.25
Consensus pattern (49 bp):
GCACACATAGTGCCATTCAAGATTCACACACATAGTGACATTCAAATCA
Found at i:77421712 original size:24 final size:24
Alignment explanation
Indices: 77421585--77421746 Score: 123
Period size: 24 Copynumber: 6.8 Consensus size: 24
77421575 ATCAACCGAT
* ** *
77421585 TTCGCACACATAGTGCTAAACAAG
1 TTCGCACACATAGTGCCATTCAAA
*
77421609 TTCGCACACATAGTGCCATTCTACA
1 TTCGCACACATAGTGCCATTC-AAA
* *
77421634 -CCGCACACATAGTGCC-TTGAAGA
1 TTCGCACACATAGTGCCATTCAA-A
* * ** * *
77421657 TTCACTCATGTATTGACATTCAAA
1 TTCGCACACATAGTGCCATTCAAA
*
77421681 -TCAGCACACATAGTGCCATTCAAT
1 TTC-GCACACATAGTGCCATTCAAA
*
77421705 TTCACACACATAGTGCCATTCAAA
1 TTCGCACACATAGTGCCATTCAAA
* *
77421729 TCCGCACACTTAGTGCCA
1 TTCGCACACATAGTGCCA
77421747 ATGTTGACCC
Statistics
Matches: 104, Mismatches: 28, Indels: 12
0.72 0.19 0.08
Matches are distributed among these distances:
22 1 0.01
23 5 0.05
24 91 0.88
25 7 0.07
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (24 bp):
TTCGCACACATAGTGCCATTCAAA
Found at i:77431026 original size:30 final size:30
Alignment explanation
Indices: 77430990--77431059 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
77430980 GTGTGTCTAG
* *
77430990 CTGTGTGTGTCACACCACCAAGTCACACGT
1 CTGTGTGTCTCACACCACCAAGTCACACGC
* **
77431020 CTGTGTGTCTTACACTGCCAAGTCACACGC
1 CTGTGTGTCTCACACCACCAAGTCACACGC
*
77431050 CCGTGTGTCT
1 CTGTGTGTCT
77431060 GGCTGTGTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.33, G:0.21, T:0.27
Consensus pattern (30 bp):
CTGTGTGTCTCACACCACCAAGTCACACGC
Found at i:77432360 original size:16 final size:16
Alignment explanation
Indices: 77432339--77432372 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
77432329 CCAATATCCA
*
77432339 ATTATCATATTTACAC
1 ATTATCACATTTACAC
*
77432355 ATTATCACATTTGCAC
1 ATTATCACATTTACAC
77432371 AT
1 AT
77432373 ATATTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:77436013 original size:24 final size:24
Alignment explanation
Indices: 77436001--77436092 Score: 139
Period size: 24 Copynumber: 3.8 Consensus size: 24
77435991 TTGACATTCC
77436001 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
*
77436025 AATCCGCATACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* *
77436049 AATTCGCACACATAGTGCCATTCA
1 AATCCGCACACATAGTGCCATACA
* *
77436073 AATTCGCACACATAATGCCA
1 AATCCGCACACATAGTGCCA
77436093 AAATCATTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.21
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:77436035 original size:48 final size:48
Alignment explanation
Indices: 77435956--77436086 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
77435946 CCATGTTAAC
* ** * * * * *
77435956 CCGCACACATAGTGCCTTAGTAGTTCACATACATATTGACATTCCAAT
1 CCGCACACATAGTGCCATACAAATTCGCATACATAGTGACATACAAAT
* *
77436004 CCGCACACATAGTGCCATACAAATCCGCATACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATACAAATTCGCATACATAGTGACATACAAAT
* * *
77436052 TCGCACACATAGTGCCATTCAAATTCGCACACATA
1 CCGCACACATAGTGCCATACAAATTCGCATACATA
77436087 ATGCCAAAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (48 bp):
CCGCACACATAGTGCCATACAAATTCGCATACATAGTGACATACAAAT
Found at i:77437298 original size:17 final size:17
Alignment explanation
Indices: 77437266--77437299 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
77437256 CCCCACTTAA
* *
77437266 TATATTATAGCTTATTT
1 TATATTATAACATATTT
77437283 TATATTATAACATATTT
1 TATATTATAACATATTT
77437300 CAATTATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:77440527 original size:27 final size:26
Alignment explanation
Indices: 77440496--77440670 Score: 172
Period size: 27 Copynumber: 6.5 Consensus size: 26
77440486 TAAATTGTAC
77440496 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
77440523 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
77440549 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
77440577 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
77440605 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
77440632 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
77440659 AGCACTGAGTGT
1 AGCACTAAGTGT
77440671 ACGGGCTCAA
Statistics
Matches: 125, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:77440612 original size:82 final size:81
Alignment explanation
Indices: 77440497--77440652 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
77440487 AAATTGTACA
* * *
77440497 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
77440561 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
77440578 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
77440643 TGCGAGTTGA
65 TGCGAATTGA
77440653 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.73
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:77440664 original size:82 final size:81
Alignment explanation
Indices: 77440493--77440670 Score: 214
Period size: 82 Copynumber: 2.2 Consensus size: 81
77440483 GATTAAATTG
* * *
77440493 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
77440558 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
77440574 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
77440638 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
77440656 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
77440671 ACGGGCTCAA
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.25
82 60 0.75
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:77448550 original size:27 final size:26
Alignment explanation
Indices: 77448519--77448696 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
77448509 TAAATTGTAC
77448519 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
77448546 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
77448572 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
77448600 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
77448628 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
77448655 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
77448682 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
77448697 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:77448635 original size:82 final size:81
Alignment explanation
Indices: 77448520--77448675 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
77448510 AAATTGTACA
* * *
77448520 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
77448584 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
77448601 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
77448666 TGCGAGTTGA
65 TGCGAATTGA
77448676 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.73
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:77448687 original size:82 final size:81
Alignment explanation
Indices: 77448516--77448696 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
77448506 GATTAAATTG
* * *
77448516 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
77448581 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
77448597 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
77448661 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
77448679 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
77448697 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:77448707 original size:27 final size:27
Alignment explanation
Indices: 77448601--77448707 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
77448591 TGACCATGCG
* * *
77448601 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
77448629 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
77448656 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
77448683 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
77448708 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:77467996 original size:28 final size:28
Alignment explanation
Indices: 77467933--77468086 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
77467923 ATATTAAGTC
* *
77467933 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
77467960 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
77467988 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
77468016 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
77468044 CGCACACTTAGTGCTACATAATCAAAAT
1 CGCACACTTAGTGCTACATAATCAAACT
77468072 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77468087 GTACAATTTA
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.18
28 99 0.82
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:77468024 original size:56 final size:55
Alignment explanation
Indices: 77467933--77468111 Score: 250
Period size: 56 Copynumber: 3.2 Consensus size: 55
77467923 ATATTAAGTC
* *
77467933 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
* *
77467988 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAA-CTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
77468044 CGCACACTTAGTGCTACATAATCAAAATCGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTATATAA-TCAAACT
77468101 CGCACACTTAG
1 CGCACACTTAG
77468112 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.21
56 70 0.64
57 17 0.15
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:77474369 original size:26 final size:25
Alignment explanation
Indices: 77474330--77474423 Score: 109
Period size: 25 Copynumber: 3.6 Consensus size: 25
77474320 CCCTAATTGA
*
77474330 TAAAATGTCTTTTTTGCCCTTGTGG
1 TAAAATGACTTTTTTGCCCTTGTGG
*
77474355 TAAAATGACTGTTTTT-CCCTTATGTG
1 TAAAATGACT-TTTTTGCCCTTGTG-G
*
77474381 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTTTTTTGCCC-T-TGTGG
*
77474408 TAAAATGACTATTTTG
1 TAAAATGACTTTTTTG
77474424 TGCTTATATG
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
25 20 0.33
26 19 0.32
27 18 0.30
28 3 0.05
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (25 bp):
TAAAATGACTTTTTTGCCCTTGTGG
Found at i:77474380 original size:27 final size:27
Alignment explanation
Indices: 77474330--77474459 Score: 128
Period size: 27 Copynumber: 5.0 Consensus size: 27
77474320 CCCTAATTGA
*
77474330 TAAAATGTCT-TTTTTGCCC-T-TGTGG
1 TAAAATGACTATTTTT-CCCTTATGTGG
*
77474355 TAAAATGACTGTTTTTCCCTTATGT-G
1 TAAAATGACTATTTTTCCCTTATGTGG
*
77474381 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTTCCCTTATGTGG
* *
77474408 TAAAATGACTATTTTGT-GCTTATATGG
1 TAAAATGACTATTTT-TCCCTTATGTGG
* * *
77474435 TAAGATAACTATTTTGCCC-TATGTG
1 TAAAATGACTATTTTTCCCTTATGTG
77474460 ATGTATATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.14
26 35 0.40
27 41 0.47
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (27 bp):
TAAAATGACTATTTTTCCCTTATGTGG
Found at i:77474430 original size:53 final size:53
Alignment explanation
Indices: 77474330--77474459 Score: 158
Period size: 53 Copynumber: 2.5 Consensus size: 53
77474320 CCCTAATTGA
* * * *
77474330 TAAAATGTCTTTTTTGCCCT-TGTGGTAAAATGACTGTTTTTCCCTTATGT-G
1 TAAAATGACTATTTTGCCCTATGTGGTAAAATGACTATTTTTCCCTTATATGG
*
77474381 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGT-GCTTATATGG
1 TAAAATGACTATTTTGCCC-TATGTGGTAAAATGACTATTTT-TCCCTTATATGG
* *
77474435 TAAGATAACTATTTTGCCCTATGTG
1 TAAAATGACTATTTTGCCCTATGTG
77474460 ATGTATATAT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
51 17 0.25
52 1 0.01
53 31 0.46
54 19 0.28
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (53 bp):
TAAAATGACTATTTTGCCCTATGTGGTAAAATGACTATTTTTCCCTTATATGG
Found at i:77490414 original size:18 final size:18
Alignment explanation
Indices: 77490391--77490427 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
77490381 TAGTGTGTCT
77490391 CACACGGCCAAAGACACA
1 CACACGGCCAAAGACACA
77490409 CACACGGCCAAAGACACA
1 CACACGGCCAAAGACACA
77490427 C
1 C
77490428 TCGTGTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.41, G:0.16, T:0.00
Consensus pattern (18 bp):
CACACGGCCAAAGACACA
Found at i:77492926 original size:18 final size:17
Alignment explanation
Indices: 77492899--77492965 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
77492889 CAAATTTATA
*
77492899 TTTTTCTTTTCTTTTCT
1 TTTTTCTTTTCTCTTCT
77492916 TTTTTCATTTTCTCTTCT
1 TTTTTC-TTTTCTCTTCT
* *
77492934 TCTAT-TTTTCTTCTTCTT
1 TTTTTCTTTTC-TCTTC-T
77492952 GTTTTTCTTTTCTC
1 -TTTTTCTTTTCTC
77492966 CCCTATAGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 14 0.35
19 5 0.12
20 5 0.12
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTTCTCTTCT
Found at i:77492947 original size:14 final size:13
Alignment explanation
Indices: 77492897--77492964 Score: 61
Period size: 14 Copynumber: 5.1 Consensus size: 13
77492887 TGCAAATTTA
77492897 TATTTTTCTTTTC
1 TATTTTTCTTTTC
77492910 T-TTTCTT-TTTTC
1 TATTT-TTCTTTTC
77492922 -ATTTTCTCTTCTTC
1 TATTTT-TCTT-TTC
77492936 TATTTTTCTTCTTC
1 TATTTTTCTT-TTC
*
77492950 TTGTTTTTCTTTTC
1 -TATTTTTCTTTTC
77492964 T
1 T
77492965 CCCCTATAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
11 1 0.02
12 12 0.26
13 6 0.13
14 14 0.30
15 14 0.30
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.75
Consensus pattern (13 bp):
TATTTTTCTTTTC
Found at i:77501228 original size:40 final size:40
Alignment explanation
Indices: 77501086--77501213 Score: 215
Period size: 40 Copynumber: 3.2 Consensus size: 40
77501076 ATATATTATA
77501086 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
*
77501126 TATATCCGGGTCAAATCTCGCAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
* *
77501166 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-AT-
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
77501204 TATATCCGGG
1 TATATCCGGG
77501214 CTTAAAGTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
38 10 0.12
39 2 0.02
40 72 0.86
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (40 bp):
TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
Found at i:77506901 original size:47 final size:47
Alignment explanation
Indices: 77506829--77507191 Score: 498
Period size: 47 Copynumber: 7.6 Consensus size: 47
77506819 CCCTTCGAGA
* * *
77506829 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
77506876 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
77506923 CTTATCTCATTTATGCA-TGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
77506970 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
77507017 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
77507066 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
***
77507113 CTTATCACATATATACACTTTCACATTCATCACATCAACCATTAC-GC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATT-CGGC
77507160 CTTATCACATATATATACACTTTCACATTCAT
1 CTTATCAC--ATATATACACTTTCACATTCAT
77507192 TCAAATATAC
Statistics
Matches: 285, Mismatches: 24, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.00
47 219 0.77
49 64 0.22
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:77506976 original size:22 final size:22
Alignment explanation
Indices: 77506857--77506978 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
77506847 TTCCACATCC
*
77506857 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCAGCCTT
** * *
77506879 ATCACATATATACACTTTCA-CATT
1 ATCACAT-T-GGC-CATTCAGCCTT
*
77506903 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
* * *
77506926 ATCTCATTTATG-CATGTTCA-CATT
1 ATCACA-TT-GGCCA--TTCAGCCTT
77506950 CATCACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCAGCCTT
77506973 ATCACA
1 ATCACA
77506979 CATACACATG
Statistics
Matches: 71, Mismatches: 17, Indels: 24
0.63 0.15 0.21
Matches are distributed among these distances:
22 26 0.37
23 13 0.18
24 13 0.18
25 19 0.27
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:77507089 original size:143 final size:143
Alignment explanation
Indices: 77506829--77507191 Score: 504
Period size: 143 Copynumber: 2.6 Consensus size: 143
77506819 CCCTTCGAGA
** * * *
77506829 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
1 CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
* * *
77506892 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATTTATGCATGTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACA
*
77506957 TTGGCCATTCA-GC
131 TCGGCCATT-AGGC
*
77506970 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCGGCCTTATCACATATATATA
1 CTTATCACACATACACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
77507034 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCA
65 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCA
*
77507098 CATCGGCTATTAGGC
129 CATCGGCCATTAGGC
* * ***
77507113 CTTATCACATATATACACTTTCACATTCATCACATCAACCATTAC-GCCTTATCACATATATATA
1 CTTATCACACATACACACTTTCACATTCATCACATTGGCCATT-CGGCCTTATCACATATATATA
77507177 CACTTTCACATTCAT
65 CACTTTCACATTCAT
77507192 TCAAATATAC
Statistics
Matches: 198, Mismatches: 17, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
140 1 0.01
141 47 0.24
142 1 0.01
143 146 0.74
144 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.34
Consensus pattern (143 bp):
CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:77510195 original size:24 final size:24
Alignment explanation
Indices: 77510144--77510312 Score: 250
Period size: 24 Copynumber: 7.0 Consensus size: 24
77510134 GATTTATCAT
*
77510144 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
77510169 ATAACTGGGGAAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
77510193 ATAACCGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77510217 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
77510242 ATAACTGAGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
77510266 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77510290 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
77510313 GCACTTCCTC
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
24 96 0.73
25 35 0.27
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:77510245 original size:49 final size:48
Alignment explanation
Indices: 77510144--77510312 Score: 250
Period size: 49 Copynumber: 3.5 Consensus size: 48
77510134 GATTTATCAT
* * *
77510144 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
77510193 ATAACCGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTTA
* *
77510242 ATAACTGAGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
77510290 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
77510313 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
48 54 0.49
49 56 0.51
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:77510263 original size:73 final size:73
Alignment explanation
Indices: 77510164--77510312 Score: 253
Period size: 73 Copynumber: 2.0 Consensus size: 73
77510154 GCCTAGCCTC
* *
77510164 TTTTAATAACTGGGGAAAAAGCCCTTTTAATAACCGGGGCATAAGCCCTTTTAATAACTGGGGCA
1 TTTTAATAACTGAGGAAAAAGCCCTTTTAATAACCAGGGCATAAGCCCTTTTAATAACTGGGGCA
77510229 TAAGCCCT
66 TAAGCCCT
* * *
77510237 TTTTAATAACTGAGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCA
1 TTTTAATAACTGAGGAAAAAGCCCTTTTAATAACCAGGGCATAAGCCCTTTTAATAACTGGGGCA
77510302 TAAGCCCT
66 TAAGCCCT
77510310 TTT
1 TTT
77510313 GCACTTCCTC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (73 bp):
TTTTAATAACTGAGGAAAAAGCCCTTTTAATAACCAGGGCATAAGCCCTTTTAATAACTGGGGCA
TAAGCCCT
Found at i:77510387 original size:20 final size:20
Alignment explanation
Indices: 77510362--77510428 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
77510352 TTATGAATAC
77510362 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
77510382 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
77510402 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
77510422 ACCATGT
1 ATCATGT
77510429 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:77510393 original size:11 final size:11
Alignment explanation
Indices: 77510362--77510417 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
77510352 TTATGAATAC
77510362 ATCATGTGCAT
1 ATCATGTGCAT
*
77510373 ATCA--TACAT
1 ATCATGTGCAT
77510382 ATCATGTGCAT
1 ATCATGTGCAT
*
77510393 ATCA--TACAT
1 ATCATGTGCAT
*
77510402 GTCATGTGCAT
1 ATCATGTGCAT
77510413 ATCAT
1 ATCAT
77510418 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:77514354 original size:37 final size:39
Alignment explanation
Indices: 77514278--77514368 Score: 89
Period size: 39 Copynumber: 2.4 Consensus size: 39
77514268 TTTCTTATAT
* * *
77514278 TATATACATATAATATGCATTTTATTATTATAACACATA
1 TATATACATATAATATACATTTTAATATTAAAACACATA
*
77514317 TATATACATA-AATGTACATATTTAATA-TAAAAC-CATA
1 TATATACATATAATATACAT-TTTAATATTAAAACACATA
* *
77514354 TTTATCCTATATAAT
1 TATATAC-ATATAAT
77514369 GTCACCCACT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
37 9 0.21
38 15 0.35
39 19 0.44
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (39 bp):
TATATACATATAATATACATTTTAATATTAAAACACATA
Found at i:77516180 original size:16 final size:16
Alignment explanation
Indices: 77516156--77516190 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
77516146 GTAGCCAAGC
*
77516156 TTTCGGCTTTTCAGCA
1 TTTCAGCTTTTCAGCA
*
77516172 TTTCAGCTTTTCAGGA
1 TTTCAGCTTTTCAGCA
77516188 TTT
1 TTT
77516191 GCCGATCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.20, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCAGCA
Found at i:77520832 original size:27 final size:27
Alignment explanation
Indices: 77520802--77521089 Score: 235
Period size: 27 Copynumber: 10.4 Consensus size: 27
77520792 TAATAAAGAG
*
77520802 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
77520829 AAATTACCGAAATACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
77520856 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
77520883 AAATTACCGAAATACCC-CTATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
77520909 AAATTA-TCGAAATACCCTCGATTT-TG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * * * *
77520935 AAATTATTGAAATACCCCCAATTTTTG
1 AAATTACTGAAATACCCTCGATTTGTA
** * *
77520962 AAATTACCAAAACACCCTCAATTTGTAA
1 AAATTACTGAAATACCCTCGATTTGT-A
* * *
77520990 ATAATTTGTAAAATTACCGAAATACCCTCGA-TTGTG
1 A-AA--T-T--ACTGA----AATACCCTCGATTTGTA
77521026 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
77521053 AAATTACTGAAATACCC-CTAATTTGTG
1 AAATTACTGAAATACCCTC-GATTTGTA
77521080 AAATTACTGA
1 AAATTACTGA
77521090 TGTGATCCAG
Statistics
Matches: 216, Mismatches: 28, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
26 56 0.26
27 132 0.61
28 1 0.00
29 2 0.01
30 3 0.01
31 1 0.00
32 2 0.01
33 1 0.00
34 2 0.01
35 2 0.01
36 1 0.00
37 4 0.02
38 9 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:77520928 original size:53 final size:52
Alignment explanation
Indices: 77520801--77521086 Score: 261
Period size: 53 Copynumber: 5.2 Consensus size: 52
77520791 ATAATAAAGA
*
77520801 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGT
1 GAAATTAC-GAAATACCCTCGATTTGTAAAATTACCGAAATA-CCCCGATTTGT
* *
77520855 AAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCTATTTGT
1 GAAATTA-CGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCGATTTGT
* * ** * *
77520908 AAAATTATCGAAATACCCTCGATTT-TGAAATTATTGAAATACCCCCAATTTTT
1 GAAATTA-CGAAATACCCTCGATTTGTAAAATTACCGAAATA-CCCCGATTTGT
* *
77520961 GAAATTACCAAAACACCCTCAATTTGTAAATAATTTGTAAAATTACCGAAATACCCTCGA-TTGT
1 GAAATTA-CGAAATACCCTC-----G------ATTTGTAAAATTACCGAAATACCC-CGATTTGT
* *
77521025 GAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCCTAATTTGT
1 GAAATTAC-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCC-GATTTGT
77521079 GAAATTAC
1 GAAATTAC
77521087 TGATGTGATC
Statistics
Matches: 192, Mismatches: 22, Indels: 36
0.77 0.09 0.14
Matches are distributed among these distances:
52 14 0.07
53 83 0.43
54 50 0.26
55 1 0.01
58 1 0.01
59 1 0.01
63 1 0.01
64 26 0.14
65 15 0.08
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (52 bp):
GAAATTACGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCGATTTGT
Found at i:77521076 original size:91 final size:92
Alignment explanation
Indices: 77520902--77521083 Score: 253
Period size: 91 Copynumber: 2.0 Consensus size: 92
77520892 AAATACCCCT
* * * * *
77520902 ATTTGTAAAATTATCGAAATACCCTCGATTTTGAAATTATTGAAATACCCCCAATTTTTGAAATT
1 ATTTGTAAAATTACCGAAATACCCTCGATTGTGAAATTACTGAAATACCCCCAATTTGTAAAATT
77520967 ACCAAAACACCCTCAATTTGT-AAATA
66 ACCAAAACACCCTCAATTTGTGAAATA
* *
77520993 ATTTGTAAAATTACCGAAATACCCTCGATTGTGAAATTACTGAAATACCCTCGATTTGTAAAATT
1 ATTTGTAAAATTACCGAAATACCCTCGATTGTGAAATTACTGAAATACCCCCAATTTGTAAAATT
*
77521058 ACTGAAATAC-CCCT-AATTTGTGAAAT
66 AC-CAAA-ACACCCTCAATTTGTGAAAT
77521084 TACTGATGTG
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
91 67 0.84
92 11 0.14
93 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (92 bp):
ATTTGTAAAATTACCGAAATACCCTCGATTGTGAAATTACTGAAATACCCCCAATTTGTAAAATT
ACCAAAACACCCTCAATTTGTGAAATA
Found at i:77522413 original size:10 final size:10
Alignment explanation
Indices: 77522395--77522445 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
77522385 AAATGAAAAA
*
77522395 GAAATGAGCT
1 GAAACGAGCT
77522405 GAAACGAGCT
1 GAAACGAGCT
*
77522415 AAAATCGAGCT
1 GAAA-CGAGCT
*
77522426 TAAACGAGCT
1 GAAACGAGCT
*
77522436 GAAAAGAGCT
1 GAAACGAGCT
77522446 CAAGTGAGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
10 26 0.74
11 9 0.26
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (10 bp):
GAAACGAGCT
Found at i:77522424 original size:21 final size:21
Alignment explanation
Indices: 77522396--77522445 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
77522386 AATGAAAAAG
77522396 AAATGAGCTGAAACGAGCT-A
1 AAATGAGCTGAAACGAGCTGA
*
77522416 AAATCGAGCTTAAACGAGCTGA
1 AAAT-GAGCTGAAACGAGCTGA
77522438 AAA-GAGCT
1 AAATGAGCT
77522446 CAAGTGAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 14 0.52
22 4 0.15
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (21 bp):
AAATGAGCTGAAACGAGCTGA
Found at i:77522744 original size:27 final size:27
Alignment explanation
Indices: 77522706--77522830 Score: 178
Period size: 27 Copynumber: 4.6 Consensus size: 27
77522696 TGCTTACATC
* *
77522706 AATTATCGAAACACCCTCAATTTGTAA
1 AATTACCGAAACACCCTCGATTTGTAA
* *
77522733 AATTACCGAAACACCTTTGATTTGTAA
1 AATTACCGAAACACCCTCGATTTGTAA
* *
77522760 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACCGAAACACCCTCGATTTGTAA
*
77522787 AATTACCTAAACACCCTCGATTTGTAA
1 AATTACCGAAACACCCTCGATTTGTAA
*
77522814 AATTACCGAAATACCCT
1 AATTACCGAAACACCCT
77522831 TGTAGTGTAA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCGAAACACCCTCGATTTGTAA
Found at i:77522839 original size:27 final size:27
Alignment explanation
Indices: 77522706--77522856 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
77522696 TGCTTACATC
* * **
77522706 AATTATCGAAACACCCTCAATTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
77522733 AATTACCGAAACACCTTTGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
77522760 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
77522787 AATTACCTAAACACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
*
77522814 AATTACCGAAATACCCTTG-TAGTGTAA
1 AATTACCGAAATACCCTTGAT-TTGTAA
* *
77522841 AATGACCGATATACCC
1 AATTACCGAAATACCC
77522857 CTGTAGGGTA
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 105 0.99
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGTAA
Found at i:77522861 original size:27 final size:27
Alignment explanation
Indices: 77522809--77522873 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
77522799 ACCCTCGATT
* *
77522809 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCCTGTAG
*
77522836 TGTAAAATGACCGATATACCCCTGTAG
1 TGTAAAATGACCGAAATACCCCTGTAG
*
77522863 GGTAAAATGAC
1 TGTAAAATGAC
77522874 TGTTTTGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCCTGTAG
Found at i:77530563 original size:29 final size:28
Alignment explanation
Indices: 77530500--77530579 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 28
77530490 TATACATGCT
* *
77530500 TATGGCCCACTAGGCCCAATCTCATTTA
1 TATGGCCCACTAGGCCCAATCACATCTA
*
77530528 TGTGGCCCACTAGGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATCTA
* *
77530557 TATGGCCTATTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
77530580 TTTTACAGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Found at i:77530820 original size:16 final size:16
Alignment explanation
Indices: 77530799--77530841 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
77530789 GTAGCCAAAC
*
77530799 TTTTAGCTTTTCGGCA
1 TTTTAGCTTTTCGACA
77530815 TTTTAGCTTTTCGACA
1 TTTTAGCTTTTCGACA
*
77530831 TTTCAGCTTTT
1 TTTTAGCTTTT
77530842 TGAAATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTTAGCTTTTCGACA
Found at i:77532848 original size:40 final size:40
Alignment explanation
Indices: 77532767--77532949 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
77532757 TATTCGGATG
* *
77532767 ATATCCGGCCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
77532808 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
77532848 ATATCCGGGCTAAGTCCCAAAGGAATTTTTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
77532888 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
77532928 ATAT-CTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
77532950 TACTTGGGTT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 14 0.11
40 86 0.69
41 25 0.20
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:77537248 original size:47 final size:47
Alignment explanation
Indices: 77537191--77537494 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
77537181 ATTGATGTAC
* * *
77537191 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
77537238 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
77537287 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
77537334 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
77537381 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
77537428 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
77537475 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
77537495 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 46 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:77541904 original size:13 final size:13
Alignment explanation
Indices: 77541886--77541924 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
77541876 ATATTATAAT
*
77541886 TATTTTGTGTTAA
1 TATTTTATGTTAA
*
77541899 TATTTTATGCTAA
1 TATTTTATGTTAA
77541912 TAATTTTATGTTA
1 T-ATTTTATGTTA
77541925 CAAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:77543390 original size:40 final size:40
Alignment explanation
Indices: 77543313--77543536 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
77543303 TATTCGGATG
* *
77543313 ATATCCGGGCTAAGACCTGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
77543354 ATATCTGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
77543394 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
77543435 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
77543475 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
77543515 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
77543537 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.08
40 91 0.55
41 60 0.36
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:77543449 original size:81 final size:80
Alignment explanation
Indices: 77543312--77543536 Score: 319
Period size: 81 Copynumber: 2.8 Consensus size: 80
77543302 TTATTCGGAT
* *
77543312 GATATCCGGGCTAAGACCTGAAGGCACTTTGTGCTAGTGACTATATCTGGGTTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
*
77543377 CATTTGTGCTAGTGAC
65 CATTTGTGCGAGTGAC
*
77543393 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
*
77543458 CATTTGTGCGAGTTAC
65 CATTTGTGCGAGTGAC
* * * * *
77543474 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CTATATCC-GGTTAAATCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGTTAAGTCCCGAAGG
77543537 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 14 0.11
80 16 0.12
81 101 0.77
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGGC
ATTTGTGCGAGTGAC
Found at i:77549787 original size:48 final size:48
Alignment explanation
Indices: 77549716--77550319 Score: 1055
Period size: 48 Copynumber: 12.6 Consensus size: 48
77549706 AGTGGGAAGA
* *
77549716 AATGGCTAATGTGAAATACGTATGAGATATGTATTTGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77549764 AATGGCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* *
77549812 AATGGCTAATGTGAAATATGTATGAGATATGTACATGTGGTAAAGCCA
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77549860 AATGGCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77549908 AATGGCTAATGTGAAATATGTATGAGATATGTACATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77549956 AATGGCTAATGTGAAATACGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77550004 AATGGCTAATGTGAAATACGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* * *
77550052 AATGGCTAATGTGGAATAGGTATGAGATAGGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77550100 AATGGCTAATGTGAAATAGGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77550148 AATGGCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
77550196 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
77550244 AATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* *
77550292 AATGGCTAGTGTGAAATATGTAGGAGAT
1 AATGGCTAATGTGAAATATGTATGAGAT
77550320 GTGTGTATAT
Statistics
Matches: 531, Mismatches: 25, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 531 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.29
Consensus pattern (48 bp):
AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
Found at i:77550111 original size:22 final size:22
Alignment explanation
Indices: 77550038--77550112 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 22
77550028 AGATATGTAT
77550038 ATGTGGTAAAGCCGAATGGCTA
1 ATGTGGTAAAGCCGAATGGCTA
**
77550060 ATGTGG-AATAGGTATGAGATAGG-TA
1 ATGTGGTAA-A-G-CCGA-AT-GGCTA
77550085 TATGTGGTAAAGCCGAATGGCTA
1 -ATGTGGTAAAGCCGAATGGCTA
77550108 ATGTG
1 ATGTG
77550113 AAATAGGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
21 2 0.05
22 14 0.34
23 5 0.12
24 4 0.10
25 5 0.12
26 9 0.22
27 2 0.05
ACGTcount: A:0.32, C:0.08, G:0.33, T:0.27
Consensus pattern (22 bp):
ATGTGGTAAAGCCGAATGGCTA
Found at i:77553222 original size:47 final size:47
Alignment explanation
Indices: 77553171--77553462 Score: 449
Period size: 47 Copynumber: 6.2 Consensus size: 47
77553161 TTAGGATTTT
* * * * *
77553171 ATGTGATGGATGTGAACATGCCTTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
77553218 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
77553265 ATGTGATAAATGTGAACATGTATATATGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
77553312 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
77553359 ATGTGACGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
77553406 ATGTGATAAATGTGAACATGCATACATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
77553453 ATGTGATGAA
1 ATGTGATGAA
77553463 CATGGATGTG
Statistics
Matches: 224, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 224 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:77553459 original size:22 final size:22
Alignment explanation
Indices: 77553384--77553459 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
77553374 ACATGCATAT
*
77553384 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
77553406 ATGTGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
77553430 CATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
77553453 ATGTGAT
1 ATGTGAT
77553460 GAACATGGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:77553496 original size:141 final size:141
Alignment explanation
Indices: 77553210--77553496 Score: 421
Period size: 141 Copynumber: 2.0 Consensus size: 141
77553200 GATAAGACCG
* * *
77553210 AATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATAAA
1 AATGGCCAATGTGACGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAA
* * * ** *
77553275 TGTGAACATGTATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCATATGTG
66 TGTGAACATGCATACATGTGATAAGGCAGAATGACCAATGTGATGAACATGAACATGCATATATG
* * *
77553340 TGATAAGGCCG
131 TGAGAAAGCCA
77553351 AATGGCCAATGTGACGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAA
1 AATGGCCAATGTGACGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAA
* * ** *
77553416 TGTGAACATGCATACATGTGATAAGGCAGAATGGCCAATGTGATGAACATGGATGTGTATATATG
66 TGTGAACATGCATACATGTGATAAGGCAGAATGACCAATGTGATGAACATGAACATGCATATATG
77553481 TGAGAAAGCCA
131 TGAGAAAGCCA
77553492 AATGG
1 AATGG
77553497 TTAATGCGAA
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
141 129 1.00
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (141 bp):
AATGGCCAATGTGACGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAA
TGTGAACATGCATACATGTGATAAGGCAGAATGACCAATGTGATGAACATGAACATGCATATATG
TGAGAAAGCCA
Found at i:77553535 original size:46 final size:46
Alignment explanation
Indices: 77553476--77553566 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
77553466 GGATGTGTAT
* **
77553476 ATATGTGAGAAAGCCAAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGAGAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* *
77553522 ATATGTG-GTAAAGCCAAATGGCTAATGTGAGACATGTATGAGATG
1 ATATGTGAG-AAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
77553567 TGTATATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 1 0.03
46 38 0.97
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGAGAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:77555975 original size:40 final size:40
Alignment explanation
Indices: 77555927--77556118 Score: 321
Period size: 40 Copynumber: 4.8 Consensus size: 40
77555917 TTATATAGCT
* * *
77555927 GGGCTAAGTCCCGAAGAGCATTTGTGCTGATGCTATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
*
77555967 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGTCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
77556007 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
77556047 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
* * *
77556087 GGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
77556119 ATGTGTATTC
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
Done.