Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 229 of 297
Found at i:78120850 original size:93 final size:93
Alignment explanation
Indices: 78120691--78120862 Score: 344
Period size: 93 Copynumber: 1.8 Consensus size: 93
78120681 GTTATTGTGA
78120691 GCTAGTGTAAGACATGTCTAGGACATACATCGGCCACATTATGAAGCCAGTGTAAGACCATGTCT
1 GCTAGTGTAAGACATGTCTAGGACATACATCGGCCACATTATGAAGCCAGTGTAAGACCATGTCT
78120756 GGGACATGGCATCGGTATCGAGACGAAT
66 GGGACATGGCATCGGTATCGAGACGAAT
78120784 GCTAGTGTAAGACATGTCTAGGACATACATCGGCCACATTATGAAGCCAGTGTAAGACCATGTCT
1 GCTAGTGTAAGACATGTCTAGGACATACATCGGCCACATTATGAAGCCAGTGTAAGACCATGTCT
78120849 GGGACATGGCATCG
66 GGGACATGGCATCG
78120863 ACACCTTACC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 79 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTAGGACATACATCGGCCACATTATGAAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGGTATCGAGACGAAT
Found at i:78125245 original size:28 final size:29
Alignment explanation
Indices: 78125177--78125251 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
78125167 CATGAGATTG
* *
78125177 GCACTAAGTGTGCGGGTTTAAATTGTTCA
1 GCACTAAGTGTGCGAGTTTAAATTATTCA
*
78125206 GCACTAAGTGTGCGAGTTT-GATTATAT-A
1 GCACTAAGTGTGCGAGTTTAAATTAT-TCA
78125234 GCACTAAGTGTGCGAGTT
1 GCACTAAGTGTGCGAGTT
78125252 NGCTTAAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 23 0.55
29 19 0.45
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.33
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAATTATTCA
Found at i:78125341 original size:42 final size:42
Alignment explanation
Indices: 78125294--78125397 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
78125284 TATCGGGATG
* * *
78125294 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
*
78125336 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
78125378 TGAGATTCGTGTAAGACCAT
1 TGAGATTCGTGTAAGACCAT
78125398 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
Found at i:78125411 original size:42 final size:42
Alignment explanation
Indices: 78125294--78125419 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
78125284 TATCGGGATG
* * ** *
78125294 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
*
78125336 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
78125378 TGAGATTCGTGTAAGACCATAG-CTAAG-CTATTGG-ATCGATA
1 TGAGATTCGTGTAAGACCAT-GTCTAAGAC-ATTGGCATCGATA
78125419 T
1 T
78125420 ACTATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
41 9 0.12
42 67 0.87
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
Found at i:78126332 original size:21 final size:21
Alignment explanation
Indices: 78126306--78126362 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
78126296 ATGGTATAAG
78126306 GTTGATGAATTGGTACATTTT
1 GTTGATGAATTGGTACATTTT
*
78126327 GTTGATGATGAATTGGTATATTTT
1 G-T--TGATGAATTGGTACATTTT
*
78126351 GTGGCATGAATT
1 GTTG-ATGAATT
78126363 ATATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 1 0.03
24 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTGATGAATTGGTACATTTT
Found at i:78132652 original size:29 final size:28
Alignment explanation
Indices: 78132616--78132693 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
78132606 TCATGAGATT
78132616 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
78132646 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
78132673 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
78132694 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:78132911 original size:174 final size:174
Alignment explanation
Indices: 78132646--78132973 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
78132636 AAATTGTACA
*
78132646 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
78132711 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
78132776 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
78132820 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
78132885 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
78132950 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
78132974 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:78135523 original size:47 final size:43
Alignment explanation
Indices: 78135416--78135721 Score: 190
Period size: 47 Copynumber: 6.7 Consensus size: 43
78135406 TATGAGTGCT
* * *
78135416 GATGCATGTCCCAGACATTTCTTACACTAGCAAAACTCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC--ATCTCTTAGGCC
* * *
78135460 GATGCCTGTCCTAGACACGTCTTACACTGGCTATCTCTGCTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ATCTCT--T-AGGCC
* *
78135507 GATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCT-GTACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCA-TC-TCT-TAG-GCC
* *
78135553 GTTGCCATGTCCCAG-CATGGTCTTACACTGGCA-CTCATAATATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCATCTC-T--TA-GGCC
* * * * * *
78135600 GATGCATGTCCCAGACATGTCTTACTCTAGCCCTCGTCTGGATGTC
1 GATGCATGTCCCAGACATGTCTTACACT-GGCATC-TCT-TAGGCC
* *
78135646 GATGCCATGTCCCAAACATGGTCTTACACTGGC-TCTCATAATATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCATCTC-T--TA-GGCC
78135694 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
78135722 AGCGCACAAA
Statistics
Matches: 205, Mismatches: 35, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
43 5 0.02
44 28 0.14
45 6 0.03
46 48 0.23
47 96 0.47
48 20 0.10
49 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (43 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCATCTCTTAGGCC
Found at i:78135702 original size:94 final size:91
Alignment explanation
Indices: 78135362--78135724 Score: 382
Period size: 94 Copynumber: 3.9 Consensus size: 91
78135352 TGGGATAAAT
*
78135362 TGTCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCAT-ATATGAGTGCTGATGCATGTC
1 TGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATAT--G-GCTGATGCATGTC
*
78135426 CCAGACATTTCTTACACTAGCAAAACTCT-TA
63 CCAGACATGTCTTACACTAGC---ACTCTCTA
* * * * ** *
78135457 -GCCGATGCC-TGTCCTAGACA-CGTCTTACACTGGCTATCTC-TGCTGA-GGCCGATGCATGTC
1 TGTCGATGCCATGTCCCAAACATGGTCTTACACTGGC--TCTCATAAT-ATGGCTGATGCATGTC
* * *
78135517 CCAGACATGTCTTACTCTGGCACTCATCTC
63 CCAGACATGTCTTACACTAGCACTC-TCTA
* * *
78135547 TGTACCGTTGCCATGTCCC-AGCATGGTCTTACACTGGCACTCATAATATGGCTGATGCATGTCC
1 TGT--CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCC
* *
78135611 CAGACATGTCTTACTCTAGCCCTCGTCTGGA
64 CAGACATGTCTTACACTAGCACTC-TCT--A
78135642 TGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCCA
1 TGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCCA
78135707 GACATGTCTTACACTAGC
66 GACATGTCTTACACTAGC
78135725 GCACAAATCA
Statistics
Matches: 223, Mismatches: 29, Indels: 33
0.78 0.10 0.12
Matches are distributed among these distances:
88 4 0.02
89 1 0.00
90 1 0.00
91 31 0.14
92 17 0.08
93 72 0.32
94 93 0.42
95 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (91 bp):
TGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACTCTCTA
Found at i:78135702 original size:140 final size:136
Alignment explanation
Indices: 78135362--78135724 Score: 369
Period size: 140 Copynumber: 2.6 Consensus size: 136
78135352 TGGGATAAAT
*
78135362 TGTCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATATATGAGTGCTGATGCATGTCC
1 TGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAT--GTGCTGATGCATGTCC
* * * * *
78135427 CAGACATTTCTTACACTAGCAAAACTCTTAGCCGATGCCTGTCCTAGACACGTCTTACACTGGCT
64 CAGACATGTCTTACACTAGC--AACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTAGCC
78135492 ATCTCTGCTGA
127 ATCTCTGC-GA
* * * * * * * * * *
78135503 GGCCGATG-CATGTCCCAGACAT-GTCTTACTCTGGCACTCATCTCTGTACCGTTGCCATGTCCC
1 TGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATGTGCTGATG-CATGTCCC
* * * *
78135566 AG-CATGGTCTTACACTGGC-ACTCATAATATGGCTGATGCATGTCCCAGACATGTCTTACTCTA
65 AGACAT-GTCTTACACTAGCAACTC-T--TA--GCCGATGCATGTCCCAGACACGTCTTACACTA
*
78135629 GCCCTCGTCTG-GA
124 GCCATC-TCTGCGA
78135642 TGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATG-GCTGATGCATGTCCC
1 TGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ATATGTGCTGATGCATGTCCC
78135706 AGACATGTCTTACACTAGC
65 AGACATGTCTTACACTAGC
78135725 GCACAAATCA
Statistics
Matches: 178, Mismatches: 32, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
135 4 0.02
136 1 0.01
137 9 0.05
138 23 0.13
139 26 0.15
140 78 0.44
141 34 0.19
142 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (136 bp):
TGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATGTGCTGATGCATGTCCCA
GACATGTCTTACACTAGCAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTAGCCATCT
CTGCGA
Found at i:78136102 original size:30 final size:30
Alignment explanation
Indices: 78136066--78136126 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
78136056 ATTTATAACT
* *
78136066 TTGGTAAAATGACCGTTTTGCCCCTAGGCC
1 TTGGTAAAATGACCATTTTACCCCTAGGCC
* *
78136096 TTGGTAAAATGACTATTTTACCCCTATGCC
1 TTGGTAAAATGACCATTTTACCCCTAGGCC
78136126 T
1 T
78136127 GAAAATCAAT
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:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (30 bp):
TTGGTAAAATGACCATTTTACCCCTAGGCC
Found at i:78147742 original size:94 final size:92
Alignment explanation
Indices: 78147493--78147853 Score: 385
Period size: 94 Copynumber: 3.9 Consensus size: 92
78147483 GATAAATTCT
78147493 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATATGCATGCTGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATG---GCTGATGCATGTCCCA
* * *
78147557 AACATGTCTTACACTAGCACAACT-TTTAGC
63 GACATGTCTTACACTAGCACATCTCTGT-GC
* * * *** *
78147587 CGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-TGCCGA-GGCCGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC--TCTCAT-AATATGGCTGATGCATGTCCCA
* *
78147648 GACATGTCTTACTCTGGCACGTATCTCTGTGC
63 GACATGTCTTACACTAGCAC--ATCTCTGTGC
* * *
78147680 CGATGCCATGTCCCAGTCATGGTCTTACACTAGCTCTTATAATATGGCTGATGCATGCCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCTGATGCATGTCCCAGAC
* *
78147745 ATGTCTTACACTAGC-CCTCGTCTGGATGT
66 ATGTCTTACACTAGCACATC-TCT-G-TGC
* * *
78147774 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGTTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCTGATGCATGTCCCAGAC
78147839 ATGTCTTACACTAGC
66 ATGTCTTACACTAGC
78147854 GCACAAATCA
Statistics
Matches: 222, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
91 34 0.15
92 15 0.07
93 29 0.13
94 131 0.59
95 13 0.06
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCTGATGCATGTCCCAGAC
ATGTCTTACACTAGCACATCTCTGTGC
Found at i:78147834 original size:47 final size:47
Alignment explanation
Indices: 78147494--78147853 Score: 192
Period size: 47 Copynumber: 7.7 Consensus size: 47
78147484 ATAAATTCTC
*
78147494 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATATGCATGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATATG---GTT
* * * * * **
78147544 GATG-CATGTCCCAAACATGTCTTACACTAG--CACA-ACTTTTAGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATA-ATATGGTT
* * * *** **
78147588 GATG-CGTGTCCCAGACACGTCTTACACTGGCTATCTC-TGCCGA-GGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGC--TCTCAT-AATATGGTT
* * * * * **
78147635 GATG-CATGTCCCAGACATGTCTTACTCTGGCACGT-AT-CTCTGTGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTC-TCATAATATG-GTT
* * *
78147681 GATGCCATGTCCCAGTCATGGTCTTACACTAGCTCTTATAATATGGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATATGGTT
* * * * *
78147729 GATG-CATGCCCCAGACATGTCTTACACTAGCCCTCGT-CTGGAT-GTC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAAT--ATGGTT
* *
78147775 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGTT
1 GATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATATGGTT
78147823 GATG-CATGTCCCAGACATGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGTCTTACACTAGC
78147854 GCACAAATCA
Statistics
Matches: 242, Mismatches: 46, Indels: 48
0.72 0.14 0.14
Matches are distributed among these distances:
44 29 0.12
45 3 0.01
46 45 0.19
47 88 0.36
48 56 0.23
49 17 0.07
50 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAATATGGTT
Found at i:78158922 original size:37 final size:37
Alignment explanation
Indices: 78158872--78158950 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
78158862 TTATTACGAA
* * *
78158872 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
78158909 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
78158946 GTCTT
1 GTCTT
78158951 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:78159147 original size:47 final size:47
Alignment explanation
Indices: 78159069--78159479 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
78159059 CCCTTCGGGA
* * * * * *
78159069 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78159116 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78159163 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78159210 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78159257 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78159304 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78159351 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78159398 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78159445 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
78159480 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78164158 original size:56 final size:56
Alignment explanation
Indices: 78164072--78164247 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
78164062 TATTAGTTTA
*
78164072 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
78164128 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
78164184 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
78164240 TTGCCCAT
1 TTGCCCAT
78164248 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:78177981 original size:23 final size:22
Alignment explanation
Indices: 78177951--78178004 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
78177941 GCTGATGGAT
*
78177951 AGTAAGCTCT-ATTGAGCTGAAAC
1 AGTAAGCTCTGA-CGAGCTG-AAC
*
78177974 AGTAAGCTTTGACGAGCTGAAC
1 AGTAAGCTCTGACGAGCTGAAC
78177996 AGTAAGCTC
1 AGTAAGCTC
78178005 ATAGTAGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.41
23 15 0.56
24 1 0.04
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (22 bp):
AGTAAGCTCTGACGAGCTGAAC
Found at i:78196751 original size:33 final size:34
Alignment explanation
Indices: 78196708--78196773 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
78196698 AGCCTATTTA
* *
78196708 AGTAATAGTAGCAGTCTGGGCC-GAGCCCGTTTT
1 AGTAACAGTAGCAGTCTGGGCCTAAGCCCGTTTT
78196741 AGTAACAGTAGCAGTCTGGGCCTAAGCCCGTTT
1 AGTAACAGTAGCAGTCTGGGCCTAAGCCCGTTT
78196774 AACATTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 21 0.70
34 9 0.30
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (34 bp):
AGTAACAGTAGCAGTCTGGGCCTAAGCCCGTTTT
Found at i:78200371 original size:46 final size:46
Alignment explanation
Indices: 78200304--78200396 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
78200294 ATGGATGAGT
*
78200304 ATGAGATTGATATGAGCTTGTACAGGTACGTACGTGAATTATACTA
1 ATGAGATTGATATGAGCTTGTACAAGTACGTACGTGAATTATACTA
* *
78200350 ATGAGATTGATATGAGCTTGTACAAGTATGTATGTGAATTATACTA
1 ATGAGATTGATATGAGCTTGTACAAGTACGTACGTGAATTATACTA
78200396 A
1 A
78200397 GCTTTATAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (46 bp):
ATGAGATTGATATGAGCTTGTACAAGTACGTACGTGAATTATACTA
Found at i:78211670 original size:20 final size:21
Alignment explanation
Indices: 78211645--78211683 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
78211635 GGTAGCAAGA
78211645 TTGAACAAAAG-ATAACCCTT
1 TTGAACAAAAGAATAACCCTT
*
78211665 TTGAACAATAGAATAACCC
1 TTGAACAAAAGAATAACCC
78211684 ATAAAAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (21 bp):
TTGAACAAAAGAATAACCCTT
Found at i:78212795 original size:313 final size:313
Alignment explanation
Indices: 78212221--78212833 Score: 1138
Period size: 313 Copynumber: 2.0 Consensus size: 313
78212211 CTCCAAATTA
78212221 AAAACTATAAATTTTACTTGAAACTATATTCACGTACATTTTTACCATAAAATTTTCATAATTTT
1 AAAACTATAAATTTTACTTGAAACTATATTCACGTACATTTTTACCATAAAATTTTCATAATTTT
78212286 TGGTCTAGCCAATTAGTACAGTTTATTCATTCAAGTTACCCCTGTTTCACTGCTCAACTTCCCTG
66 TGGTCTAGCCAATTAGTACAGTTTATTCATTCAAGTTACCCCTGTTTCACTGCTCAACTTCCCTG
*
78212351 ATCACTCTTCACTAAAAATAAATTTTCTCTTCGTACAGAACTCATATGATGTTATCGTTTATTTT
131 ATCACTCTTCACTAAAAATAAATTTTCTCTTCGTACAGAACTCATATGATGTTATAGTTTATTTT
78212416 ATTTGAAACTAGACTCATTAAGGATTTCAAAAATATAAATTATATCCCATAATTATTTTTTAAAA
196 ATTTGAAACTAGACTCATTAAGGATTTCAAAAATATAAATTATATCCCATAATTATTTTTTAAAA
* *
78212481 TTTTTAATGATTTTTCAAAGTTAGAATAGGGGATCACGTAGTCATTCTGAACC
261 TTTTTAATGATTTTTCAAAGTCAGAATAAGGGATCACGTAGTCATTCTGAACC
*
78212534 AAAACTATAAATTTTACTTGAAACTATATTCACGTATATTTTTACCATAAAATTTTCATAATTTT
1 AAAACTATAAATTTTACTTGAAACTATATTCACGTACATTTTTACCATAAAATTTTCATAATTTT
78212599 TGGTCTAGCCAATTAGTACAGTTTATTCATTCAAGTTACCCCTGTTTCACTGCTCAACTTCCCTG
66 TGGTCTAGCCAATTAGTACAGTTTATTCATTCAAGTTACCCCTGTTTCACTGCTCAACTTCCCTG
* *
78212664 ATCACTCTTCACTACAAATAAATTTTCTCTTTGTACAGAACTCATATGATGTTATAGTTTATTTT
131 ATCACTCTTCACTAAAAATAAATTTTCTCTTCGTACAGAACTCATATGATGTTATAGTTTATTTT
* *
78212729 A-TTGAAACTATACTCATTAAGGATTTCAAAAATATAAATTATATTCCATAATTATTTTTGTAAA
196 ATTTGAAACTAGACTCATTAAGGATTTCAAAAATATAAATTATATCCCATAATTATTTTT-TAAA
78212793 ATTTTTAATGATTTTTCAAAGTCAGAATAAGGGATCACGTA
260 ATTTTTAATGATTTTTCAAAGTCAGAATAAGGGATCACGTA
78212834 TTACATATCT
Statistics
Matches: 291, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
312 56 0.19
313 235 0.81
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.40
Consensus pattern (313 bp):
AAAACTATAAATTTTACTTGAAACTATATTCACGTACATTTTTACCATAAAATTTTCATAATTTT
TGGTCTAGCCAATTAGTACAGTTTATTCATTCAAGTTACCCCTGTTTCACTGCTCAACTTCCCTG
ATCACTCTTCACTAAAAATAAATTTTCTCTTCGTACAGAACTCATATGATGTTATAGTTTATTTT
ATTTGAAACTAGACTCATTAAGGATTTCAAAAATATAAATTATATCCCATAATTATTTTTTAAAA
TTTTTAATGATTTTTCAAAGTCAGAATAAGGGATCACGTAGTCATTCTGAACC
Found at i:78213545 original size:68 final size:68
Alignment explanation
Indices: 78213398--78213553 Score: 171
Period size: 68 Copynumber: 2.4 Consensus size: 68
78213388 TTCACTTGGA
* * *
78213398 ACCACACATGCAACCTAGCTACAT--T--TATCTCGTAGCTCTCTTGTCTACATGGTGTACACAT
1 ACCACACATGCGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTGTCTACATGATGTACACAT
*
78213459 AGT
66 AGC
* * *
78213462 ATCACCCATGCGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTGTAC-ACATGATGTGCAC-
1 ACCACACATGCGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTGT-CTACATGATGTACACA
78213525 TCAGC
65 T-AGC
* *
78213530 ACCATACATGTGACCTAGCTACAT
1 ACCACACATGCGACCTAGCTACAT
78213554 ACCATCTGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
64 21 0.28
66 1 0.01
67 1 0.01
68 51 0.68
69 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (68 bp):
ACCACACATGCGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTGTCTACATGATGTACACAT
AGC
Found at i:78214053 original size:30 final size:30
Alignment explanation
Indices: 78214019--78214079 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78214009 TCCTTAACTC
78214019 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
78214049 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
78214079 A
1 A
78214080 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:78224727 original size:48 final size:48
Alignment explanation
Indices: 78224498--78224725 Score: 370
Period size: 48 Copynumber: 4.8 Consensus size: 48
78224488 TCTCATATTG
* * * * *
78224498 ATGCCATGTCCTAAACATGGTCTTACAT-GAATCACATAACGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
* *
78224545 ACGCCATATCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
78224593 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
78224641 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA-ATTCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATA-TCAATGCCA
78224689 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
78224726 ATGCTATAGC
Statistics
Matches: 170, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
47 25 0.15
48 145 0.85
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
Found at i:78224772 original size:37 final size:37
Alignment explanation
Indices: 78224687--78224789 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 37
78224677 AATTCAATGC
*
78224687 CAATGCCAT-GTCCCAGAC-ATGGTCTTACATGGGATCA
1 CAATGCCATAG-CCCAG-CTATGGTCTTACATGGCATCA
* * * *
78224724 CAATGCTATAGCCCAGCTTTGGTCTTACATGTCATTA
1 CAATGCCATAGCCCAGCTATGGTCTTACATGGCATCA
* *
78224761 CGATGCCATAGCCCAGCTATGGTCATACA
1 CAATGCCATAGCCCAGCTATGGTCTTACA
78224790 CGTACTCACA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 1 0.02
37 53 0.96
38 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (37 bp):
CAATGCCATAGCCCAGCTATGGTCTTACATGGCATCA
Found at i:78231105 original size:49 final size:49
Alignment explanation
Indices: 78231033--78231164 Score: 237
Period size: 49 Copynumber: 2.7 Consensus size: 49
78231023 GGGATAAGTT
78231033 GCCGATGCCATGTCCCAGACATGGTCTTATACTACCTATCATCATAGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTACCTATCATCATAGAG
* *
78231082 GCCGATGCCATGTCCCAGACATGGTATTATACTGCCTATCATCATAGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTACCTATCATCATAGAG
*
78231131 GCCGATGCCATGTCCCAGACATGGTCTTACACTA
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTA
78231165 GCTCTTATTT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 78 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTATACTACCTATCATCATAGAG
Found at i:78231281 original size:91 final size:93
Alignment explanation
Indices: 78231032--78231402 Score: 263
Period size: 98 Copynumber: 3.9 Consensus size: 93
78231022 TGGGATAAGT
* * * ** * *
78231032 TGCCGATGCCATGTCCCAGACATGGTCTTATACTACCTA-TCATCATAGAGGCCGATGCCATGTC
1 TGCCGATCCCATGTCCCAGACATCGTCTTACACTGGC-ACTCAT-AAAGAGGCTGATG-CATGTC
* * *
78231096 CCAGACATGGTATTATACT-GC-CTATCATCATAGA
63 CCAGACAT-GTCTTACACTGGCACAATC-TC-T--A
* * * * * * ** *
78231130 GGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATTTATACGTGCTGATGCATGTCC
1 TGCCGATCCCATGTCCCAGACATCGTCTTACACTGGCACTCATAAAGA-G-GCTGATGCATGTCC
* *
78231195 CAGACATGCCTTACACTAGCACAAT-TCTCA
64 CAGACATGTCTTACACTGGCACAATCTCT-A
* * **
78231225 -GCCGAT-GCATGTCCCAGGCA-CGTCTTACACTGGCTA-TCATCATCGAGGCTGATGCATGTCC
1 TGCCGATCCCATGTCCCAGACATCGTCTTACACTGGC-ACTCAT-AAAGAGGCTGATGCATGTCC
** *
78231286 TGGACATGTCTTACACTGGCACTCATCTCTA
64 CAGACATGTCTTACACTGGCAC-AATCTCTA
* * * * *
78231317 TGCCGATCCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAAGTGGCCGATGCCTCTCCCA
1 TGCCGATCCCATGTCCCAGACATCGTCTTACACTGGCACTCATAAAGAGGCTGATGCATGTCCCA
78231382 GACATGTCTTACACTGGCACA
66 GACATGTCTTACACTGGCACA
78231403 TAAGTAATCC
Statistics
Matches: 221, Mismatches: 39, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
91 32 0.14
92 19 0.09
93 23 0.10
94 53 0.24
95 18 0.08
96 1 0.00
97 12 0.05
98 54 0.24
99 9 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (93 bp):
TGCCGATCCCATGTCCCAGACATCGTCTTACACTGGCACTCATAAAGAGGCTGATGCATGTCCCA
GACATGTCTTACACTGGCACAATCTCTA
Found at i:78231370 original size:141 final size:142
Alignment explanation
Indices: 78231032--78231399 Score: 361
Period size: 141 Copynumber: 2.6 Consensus size: 142
78231022 TGGGATAAGT
* * *
78231032 TGCCGATGCCATGTCCCAGACATGGTCTTATACTACCTATCATCATAGAGGCCGATGCCATGTCC
1 TGCCGAT-CCATGTCCCAGACATGGTCTTACACTAGC-ATCAT-ATAGTGGCCGATG-CATGTCC
* * * *
78231097 CAGACATGGTATTATACTGCCTATCATCATAGAGGCCGATGCCATGTCCCAGACATGGTCTTACA
62 CAGACA-CGTCTTACACTGGCTATCATCATAGAGGCCGATGCCATGTCCCAGACATGGTCTTACA
* * *
78231162 CTAGCTCTTATTTATAC
126 CTAGCACTCATCTATAC
* * * ** *
78231179 GTGCTGATGCATGTCCCAGACAT-GCCTTACACTAGCA-CA-ATTCTCAGCCGATGCATGTCCCA
1 -TGCCGATCCATGTCCCAGACATGGTCTTACACTAGCATCATATAGT-GGCCGATGCATGTCCCA
* * * ** *
78231241 GGCACGTCTTACACTGGCTATCATCATCGAGGCTGATG-CATGTCCTGGACAT-GTCTTACACTG
64 GACACGTCTTACACTGGCTATCATCATAGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTA
*
78231304 GCACTCATCTCTA-
129 GCACTCATCTATAC
* * * *
78231317 TGCCGATCCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAAGTGGCCGATGCCTCTCCCA
1 TGCCGAT-CCATGTCCCAGACATGGTCTTACACTAGCA-TCATATAGTGGCCGATGCATGTCCCA
*
78231382 GACATGTCTTACACTGGC
64 GACACGTCTTACACTGGC
78231400 ACATAAGTAA
Statistics
Matches: 179, Mismatches: 35, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
137 6 0.03
138 14 0.08
139 31 0.17
140 12 0.07
141 60 0.34
142 16 0.09
143 7 0.04
144 2 0.01
145 1 0.01
146 10 0.06
147 14 0.08
148 6 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (142 bp):
TGCCGATCCATGTCCCAGACATGGTCTTACACTAGCATCATATAGTGGCCGATGCATGTCCCAGA
CACGTCTTACACTGGCTATCATCATAGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
ACTCATCTATAC
Found at i:78231383 original size:47 final size:46
Alignment explanation
Indices: 78231288--78231401 Score: 142
Period size: 48 Copynumber: 2.4 Consensus size: 46
78231278 GCATGTCCTG
** *
78231288 GACATGTCTTACACTGGCACTCATCTCTATGCCGATCCCATGTCCCA
1 GACATGTCTTACACTGGCACTCA-CTAAATGCCGATCCCATCTCCCA
*
78231335 GACATGGTCTTACACTGGCACTCA-TAAAGTGGCCGATGCC-TCTCCCA
1 GACAT-GTCTTACACTGGCACTCACTAAA-T-GCCGATCCCATCTCCCA
78231382 GACATGTCTTACACTGGCAC
1 GACATGTCTTACACTGGCAC
78231402 ATAAGTAATC
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
46 17 0.28
47 17 0.28
48 26 0.43
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.25
Consensus pattern (46 bp):
GACATGTCTTACACTGGCACTCACTAAATGCCGATCCCATCTCCCA
Found at i:78238801 original size:47 final size:44
Alignment explanation
Indices: 78238628--78238803 Score: 149
Period size: 47 Copynumber: 3.8 Consensus size: 44
78238618 TTGCCAATGC
* * *
78238628 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATACATGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCACTC--ATCT-CA-GCCGATG
* * *
78238677 CATGTCCCAGACATGTTTTACACTATCAC-AAGTCTCAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCA-TCTCAGCCGATG
* * *
78238721 CATGTCCCAGACACGTCTTGCACTGGCTA-TCATCATCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-ACTCATC-TC-A-GCCGATG
* *
78238768 CATGTCCCAGGCATGTCTTACAATAGCACTCATCTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTC
78238804 TACGTACTGG
Statistics
Matches: 103, Mismatches: 17, Indels: 17
0.75 0.12 0.12
Matches are distributed among these distances:
44 30 0.29
45 7 0.07
46 6 0.06
47 34 0.33
48 12 0.12
49 14 0.14
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAGCCGATG
Found at i:78246603 original size:68 final size:64
Alignment explanation
Indices: 78246493--78246745 Score: 219
Period size: 68 Copynumber: 3.9 Consensus size: 64
78246483 ATACAGATGG
* ** * *
78246493 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGCACACCATGTAG-ACAAGAGAGCTACGAG--
78246556 ATTA
62 A-TA
* *
78246560 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGCACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGCACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
78246625 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGCACACCATGTAGACAAGAGAGCTACGAGA
78246690 TA
63 TA
* * * **
78246692 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGCACACCATGTAG-ACAAGAGAGC
78246746 CAAAATTATG
Statistics
Matches: 155, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 3 0.02
66 22 0.14
67 33 0.21
68 51 0.33
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGCACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:78257178 original size:50 final size:49
Alignment explanation
Indices: 78257071--78257299 Score: 194
Period size: 50 Copynumber: 4.6 Consensus size: 49
78257061 CTAATATGCA
* * * * **
78257071 TAGTAGCCTGCACTTAGTACTATACATGCGAAC-A-ACAATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAGAC-ATTGA-TACACG
* * *
78257120 TAGTAGCCTACACTTAGTACTACACACGTGACCTCGCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAGACAT-TGATACACG
* * ** * * *
78257170 TAGCAGCCTGCACTTAGTACTACACACATGATCGAAGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAGACATTGA-TACACG
* * * *
78257221 TAGTAGCCTGCACTTAGTACTACACATGCGACTTA-ACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAGACA-T-TGATACACG
78257271 TAGTAGCCTGCACTTAGTACTACACACGT
1 TAGTAGCCTGCACTTAGTACTACACACGT
78257300 TATTCACAAT
Statistics
Matches: 143, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
49 30 0.21
50 73 0.51
51 40 0.28
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAGACATTGATACACG
Found at i:78262429 original size:30 final size:30
Alignment explanation
Indices: 78262395--78262457 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
78262385 GCTTCATTCA
78262395 CAGGTTTTCTCTTCTCGTTGCTCAGTTCTT
1 CAGGTTTTCTCTTCTCGTTGCTCAGTTCTT
78262425 CAGGTTTTCTCTTCTCGTTGCTCAGTTCTT
1 CAGGTTTTCTCTTCTCGTTGCTCAGTTCTT
78262455 CAG
1 CAG
78262458 CTTTACAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.08, C:0.27, G:0.17, T:0.48
Consensus pattern (30 bp):
CAGGTTTTCTCTTCTCGTTGCTCAGTTCTT
Found at i:78264726 original size:50 final size:50
Alignment explanation
Indices: 78264605--78264841 Score: 237
Period size: 50 Copynumber: 4.7 Consensus size: 50
78264595 AAGCTGTCTT
* * * *
78264605 ATACACATAATAGCCTGCACTTAGTACTACACATGTGACC-AACAATCCG
1 ATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTG
* ** *
78264654 ATACACGTAGTAGCCTTTACTTAGTACTACACACGTGACCTCACCATCTG
1 ATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTG
* * * *
78264704 ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-TG
1 ATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTG
* * * * * * *
78264754 AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGTCTTAA-TAGTATG
1 A-TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTG
* *
78264805 GTACACATAGTAGCCTGCACTTAGTACTACTCACGTG
1 ATACACATAGTAGCCTGCACTTAGTACTACACACGTG
78264842 TATTCATAAT
Statistics
Matches: 155, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
49 36 0.23
50 80 0.52
51 39 0.25
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
ATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTG
Found at i:78268269 original size:12 final size:12
Alignment explanation
Indices: 78268254--78268292 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 12
78268244 TTCAAAAGAT
78268254 AAATAAAGATAA
1 AAATAAAGATAA
78268266 AAATAAA-AT-A
1 AAATAAAGATAA
78268276 AAA-AAAG-TAA
1 AAATAAAGATAA
78268286 AAATAAA
1 AAATAAA
78268293 TAATAGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 4 0.17
10 8 0.33
11 5 0.21
12 7 0.29
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (12 bp):
AAATAAAGATAA
Found at i:78268288 original size:20 final size:21
Alignment explanation
Indices: 78268252--78268292 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
78268242 ATTTCAAAAG
*
78268252 ATAAATAAAGATAAAAATAAA
1 ATAAAAAAAGATAAAAATAAA
78268273 ATAAAAAAAG-TAAAAATAAA
1 ATAAAAAAAGATAAAAATAAA
78268293 TAATAGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (21 bp):
ATAAAAAAAGATAAAAATAAA
Found at i:78280760 original size:55 final size:55
Alignment explanation
Indices: 78280695--78280829 Score: 144
Period size: 55 Copynumber: 2.5 Consensus size: 55
78280685 TATGTAGGCC
* ** * *
78280695 CATGCCCGTGTTGTTTTGGCAGGTTCACCCACGATTGCTTGGCACGGGTGTGTCG
1 CATGCCCGTGTTGTTTTGGCAGGTTCACCCACCATTGCAAGGCACGGGCGTCTCG
** * ** *
78280750 CATGCCCGTGTTAATTTGACAGGTTCGGCCACCATTTCAAGGCACGGGCGTCTCG
1 CATGCCCGTGTTGTTTTGGCAGGTTCACCCACCATTGCAAGGCACGGGCGTCTCG
* * *
78280805 CACGCCCGTGTTGTTTGGGTAGGTT
1 CATGCCCGTGTTGTTTTGGCAGGTT
78280830 TGTCGTGGTG
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.13, C:0.26, G:0.31, T:0.30
Consensus pattern (55 bp):
CATGCCCGTGTTGTTTTGGCAGGTTCACCCACCATTGCAAGGCACGGGCGTCTCG
Found at i:78285710 original size:28 final size:28
Alignment explanation
Indices: 78285674--78285728 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
78285664 ATTACACTGT
* * *
78285674 ACTGATACTGTATTGGGCTTAGGCCCAC
1 ACTGATACTATATAGGGCTAAGGCCCAC
*
78285702 ACTGTTACTATATAGGGCTAAGGCCCA
1 ACTGATACTATATAGGGCTAAGGCCCA
78285729 GACAATACTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (28 bp):
ACTGATACTATATAGGGCTAAGGCCCAC
Found at i:78289186 original size:12 final size:13
Alignment explanation
Indices: 78289169--78289198 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
78289159 TACTGCAATT
78289169 TAATTTTTATT-C
1 TAATTTTTATTAC
78289181 TAATTTTTATTAC
1 TAATTTTTATTAC
78289194 TAATT
1 TAATT
78289199 CTTCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (13 bp):
TAATTTTTATTAC
Found at i:78296030 original size:31 final size:31
Alignment explanation
Indices: 78295992--78296054 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
78295982 TTGAGAAGGA
78295992 TTTATTTTGATTATAACTTGAGGATTTTGCT
1 TTTATTTTGATTATAACTTGAGGATTTTGCT
78296023 TTTATTTTGATTATAACTTGAGGATTTTGCT
1 TTTATTTTGATTATAACTTGAGGATTTTGCT
78296054 T
1 T
78296055 GAGGACAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.06, G:0.16, T:0.56
Consensus pattern (31 bp):
TTTATTTTGATTATAACTTGAGGATTTTGCT
Found at i:78301468 original size:27 final size:26
Alignment explanation
Indices: 78301420--78301471 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
78301410 GCAAGGCTGC
*
78301420 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
78301446 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
78301472 TTGCAGTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:78307019 original size:48 final size:46
Alignment explanation
Indices: 78306915--78307183 Score: 197
Period size: 47 Copynumber: 5.7 Consensus size: 46
78306905 GATTACTTAT
* * * * * * *
78306915 GTGCCAGTGTAAGACATGTTTGGAACATGCATTGGC-CACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACGTAGA-GATGA
*
78306961 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGATGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACGTAGAGATGA
* * * * *
78307009 GTGCCAGTGTAAGACTTGTTTGGGACATGCATCGGCCTCGATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACGTAGA-GATGA
* * * *
78307056 -TAGCCAGTGTAAGACGTGTCTGGGACATGCATTGAC-T-GAG-CGTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGACGTAGAGATG-A
** * * *
78307100 GTGTTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-G-ACGTAGAGATGA
* *
78307148 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
78307184 GCAACTTATC
Statistics
Matches: 180, Mismatches: 29, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.16
45 4 0.02
46 27 0.15
47 60 0.33
48 36 0.20
49 19 0.11
50 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACGTAGAGATGA
Found at i:78307076 original size:94 final size:92
Alignment explanation
Indices: 78306915--78307183 Score: 289
Period size: 94 Copynumber: 2.9 Consensus size: 92
78306905 GATTACTTAT
* *
78306915 GTGCCAGTGTAAGACATGTTTGGAACATGCATTGGCCAC-ATTATGAGT-GCCAGTGTAAGACCA
1 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACGA-TATGA-TAGCCAGTGTAAGACCA
78306978 TGTCTGGGACATGGCATCGA-TGTAGAGATGA
64 TGTCTGGGACATGGCATCGACTG-AGAG-T-A
* * *
78307009 GTGCCAGTGTAAGACTTGTTTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGA-CGT
1 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACGAT-ATGATAGCCAGTGTAAGACCAT
* * *
78307073 GTCTGGGACAT-GCATTGACTGAGCGTT
65 GTCTGGGACATGGCATCGACTGAGAGTA
** * * * *
78307100 GTGTTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTATATACGAGAGCTAGTGTAAGACC
1 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACG-ATAT--GATAGCCAGTGTAAGACC
78307164 ATGTCTGGGACATGGCATCG
63 ATGTCTGGGACATGGCATCG
78307184 GCAACTTATC
Statistics
Matches: 148, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
90 5 0.03
91 32 0.22
92 15 0.10
93 22 0.15
94 57 0.39
95 17 0.11
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (92 bp):
GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACGATATGATAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGACTGAGAGTA
Found at i:78308563 original size:31 final size:32
Alignment explanation
Indices: 78308528--78308591 Score: 121
Period size: 31 Copynumber: 2.0 Consensus size: 32
78308518 ATAGTGATAG
78308528 TCTGACGATTCCTGATGATTATAAATT-TTTT
1 TCTGACGATTCCTGATGATTATAAATTGTTTT
78308559 TCTGACGATTCCTGATGATTATAAATTGTTTT
1 TCTGACGATTCCTGATGATTATAAATTGTTTT
78308591 T
1 T
78308592 TTTTCATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 27 0.84
32 5 0.16
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.48
Consensus pattern (32 bp):
TCTGACGATTCCTGATGATTATAAATTGTTTT
Found at i:78313728 original size:12 final size:12
Alignment explanation
Indices: 78313711--78313735 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78313701 ATGTAAGTGA
78313711 TCTTGATGATTT
1 TCTTGATGATTT
78313723 TCTTGATGATTT
1 TCTTGATGATTT
78313735 T
1 T
78313736 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:78314506 original size:47 final size:48
Alignment explanation
Indices: 78314431--78314657 Score: 157
Period size: 47 Copynumber: 4.8 Consensus size: 48
78314421 GATTACTTAT
* * **
78314431 GTGCTAGTGTAAGA-CATGTCTGGAACATGCATTGGCCAC-ATTATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCACGATTATGA
** ** *
78314477 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGTGTA-GA-GATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAG-CCACGATTATGA
* * * * *
78314525 GTGCCCGTGTAAGA-CATATCTAGGACATGCATCAGCCTCGATAATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCACGATTATGA
*
78314572 -TAGCCAGTGTAAGACGC--GTCTGGGACATGCATCAG-CACGTATATACGA
1 GT-GCCAGTGTAAGAC-CATGTCTGGGACATGCATCAGCCACG-AT-TATGA
* * * *
78314620 GAGCTAATGTAAGACCATGTCTGGGACACGACATCAGC
1 GTGCCAGTGTAAGACCATGTCTGGGACATG-CATCAGC
78314658 AACTTATCCC
Statistics
Matches: 141, Mismatches: 24, Indels: 27
0.73 0.12 0.14
Matches are distributed among these distances:
46 24 0.17
47 59 0.42
48 38 0.27
49 14 0.10
50 6 0.04
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCACGATTATGA
Found at i:78317098 original size:15 final size:15
Alignment explanation
Indices: 78317078--78317107 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
78317068 TGCTCAACTG
*
78317078 TTCTGACCACTCTTC
1 TTCTGACCACACTTC
78317093 TTCTGACCACACTTC
1 TTCTGACCACACTTC
78317108 ACTACGAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.40, G:0.07, T:0.37
Consensus pattern (15 bp):
TTCTGACCACACTTC
Found at i:78318515 original size:30 final size:30
Alignment explanation
Indices: 78318481--78318541 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78318471 TCCTTAACTC
78318481 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
78318511 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
78318541 A
1 A
78318542 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:78319484 original size:14 final size:14
Alignment explanation
Indices: 78319465--78319492 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
78319455 AAAATTAATT
78319465 GAAATAAACTTTTC
1 GAAATAAACTTTTC
78319479 GAAATAAACTTTTC
1 GAAATAAACTTTTC
78319493 TATCTCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
GAAATAAACTTTTC
Found at i:78322330 original size:30 final size:30
Alignment explanation
Indices: 78322296--78322356 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78322286 TCCTTAACTC
*
78322296 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
* * * *
78322326 AAACTTTTACATATTTACACTTTTTCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
78322356 A
1 A
78322357 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTTACAAAATTACAATTTTGCCCCT
Found at i:78324986 original size:39 final size:39
Alignment explanation
Indices: 78324942--78325019 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
78324932 TCTGCCCATG
*
78324942 ATTGAAGATTTGTTTGATTAGTTATCTGGGCCTACAGTT
1 ATTGAAGATTTGTTTGATCAGTTATCTGGGCCTACAGTT
78324981 ATTGAAGATTTGTTTGATCAGTTATCTGGGCCTACAGTT
1 ATTGAAGATTTGTTTGATCAGTTATCTGGGCCTACAGTT
78325020 TACTCCAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (39 bp):
ATTGAAGATTTGTTTGATCAGTTATCTGGGCCTACAGTT
Found at i:78328777 original size:49 final size:50
Alignment explanation
Indices: 78328642--78328815 Score: 212
Period size: 49 Copynumber: 3.5 Consensus size: 50
78328632 TTTTGCATTT
* *
78328642 AATAACGTCATGCATTATGTAACTTTCATGTTAGTT-AGTATGCATCATA
1 AATAATGTCATGCATTATGTAACTCTCATGTTAGTTAAGTATGCATCATA
*
78328691 AATAATGACATGCATTATGTAACTCTCATGTTAGTTAAG-ATGCATCATA
1 AATAATGTCATGCATTATGTAACTCTCATGTTAGTTAAGTATGCATCATA
* * * * * *
78328740 AATTATGTCATGTATTATGTAACTCCCATGTTAGTTAAAATTTGCATCTTTA
1 AATAATGTCATGCATTATGTAACTCTCATGTTAGTT-AAGTATGCATC-ATA
78328792 AATGAA-GTCATGCATTA-GTAACTC
1 AAT-AATGTCATGCATTATGTAACTC
78328816 ATTTGTTCAT
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
49 75 0.69
50 4 0.04
51 13 0.12
52 15 0.14
53 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (50 bp):
AATAATGTCATGCATTATGTAACTCTCATGTTAGTTAAGTATGCATCATA
Found at i:78334089 original size:22 final size:22
Alignment explanation
Indices: 78334057--78334098 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
78334047 TAATTTGGTG
78334057 TAATTTGATTTTGTT-TTTAAAT
1 TAATTTGATTTT-TTATTTAAAT
*
78334079 TAATTTTATTTTTTATTTAA
1 TAATTTGATTTTTTATTTAA
78334099 TTTAGTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TAATTTGATTTTTTATTTAAAT
Found at i:78336498 original size:28 final size:28
Alignment explanation
Indices: 78336458--78336515 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
78336448 AAGAATAAAG
78336458 AATACTGAGCCATTAACTTGATAGAAAC
1 AATACTGAGCCATTAACTTGATAGAAAC
78336486 AATACTGAGCCATTAACTTGATAGAAAC
1 AATACTGAGCCATTAACTTGATAGAAAC
78336514 AA
1 AA
78336516 CAATGGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (28 bp):
AATACTGAGCCATTAACTTGATAGAAAC
Found at i:78351020 original size:40 final size:40
Alignment explanation
Indices: 78350946--78351127 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
78350936 AACCCAAGTA
* *
78350946 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
78350985 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
78351025 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
78351065 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
78351105 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
78351128 CATCCGAATA
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.09
40 121 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:78353356 original size:20 final size:20
Alignment explanation
Indices: 78353328--78353365 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78353318 CTAGGAACTA
78353328 TGTGATCTGAATTCATGAGT
1 TGTGATCTGAATTCATGAGT
* *
78353348 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAATTCATGA
78353366 TATATGTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (20 bp):
TGTGATCTGAATTCATGAGT
Found at i:78376504 original size:27 final size:27
Alignment explanation
Indices: 78376471--78376950 Score: 852
Period size: 27 Copynumber: 17.6 Consensus size: 27
78376461 TAAATTGTGC
*
78376471 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
78376498 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
78376525 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
78376552 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
78376579 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
78376606 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
78376633 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
78376661 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
78376688 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
78376715 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
78376743 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
78376771 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
78376799 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
78376827 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
78376854 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
78376881 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
78376909 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
78376936 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78376951 GACTTAATAT
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:78376711 original size:82 final size:82
Alignment explanation
Indices: 78376471--78376950 Score: 874
Period size: 82 Copynumber: 5.9 Consensus size: 82
78376461 TAAATTGTGC
*
78376471 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
78376535 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
78376552 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
78376616 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
*
78376633 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
78376698 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
78376715 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAG
78376780 TGTGCGAGTTTGACTATGT
65 TGTGCGAG-TTGACTATGT
78376799 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
78376864 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
* * * *
78376881 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
78376946 GTGCG
66 GTGCG
78376951 GACTTAATAT
Statistics
Matches: 389, Mismatches: 6, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
81 97 0.25
82 183 0.47
83 54 0.14
84 55 0.14
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATGT
Found at i:78383683 original size:58 final size:58
Alignment explanation
Indices: 78383593--78383706 Score: 228
Period size: 58 Copynumber: 2.0 Consensus size: 58
78383583 ATTAAGCATA
78383593 TAGTTGGTATTAATTCAAATGGTCATAACGTTTATGTAATGATGCTGAATGGAATGTC
1 TAGTTGGTATTAATTCAAATGGTCATAACGTTTATGTAATGATGCTGAATGGAATGTC
78383651 TAGTTGGTATTAATTCAAATGGTCATAACGTTTATGTAATGATGCTGAATGGAATG
1 TAGTTGGTATTAATTCAAATGGTCATAACGTTTATGTAATGATGCTGAATGGAATG
78383707 AATAAATATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.38
Consensus pattern (58 bp):
TAGTTGGTATTAATTCAAATGGTCATAACGTTTATGTAATGATGCTGAATGGAATGTC
Found at i:78383874 original size:27 final size:28
Alignment explanation
Indices: 78383835--78383898 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
78383825 ACCACGAGAT
* *
78383835 TAGCGCTACGTGTGCGA-ATTGACTATG
1 TAGCACTAAGTGTGCGAGATTGACTATG
*
78383862 TAGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGAGATTGACTATG
78383890 TAGCACTAA
1 TAGCACTAA
78383899 TGGCGCTACG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 15 0.45
28 18 0.55
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (28 bp):
TAGCACTAAGTGTGCGAGATTGACTATG
Found at i:78383990 original size:28 final size:27
Alignment explanation
Indices: 78383929--78384139 Score: 287
Period size: 27 Copynumber: 7.6 Consensus size: 27
78383919 TAAATTGTGC
*
78383929 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
78383956 AGCACTAAGTGTGCGAGTTTACCTATGT
1 AGCACTAAGTGTGCGAGTTGA-CTATGT
*
78383984 AGCACTAAGTGTTAGTGCGAATTGACTATGT
1 AGCACTAA--G-T-GTGCGAGTTGACTATGT
78384015 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
*
78384043 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
78384070 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
78384098 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
78384125 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78384140 GACTTAATAT
Statistics
Matches: 167, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
27 74 0.44
28 67 0.40
29 1 0.01
30 1 0.01
31 15 0.09
32 9 0.05
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:78383995 original size:55 final size:55
Alignment explanation
Indices: 78383929--78384139 Score: 325
Period size: 55 Copynumber: 3.8 Consensus size: 55
78383919 TAAATTGTGC
78383929 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTT-ACCTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGA-CTATGT
78383984 AGCACTAAGTGTTAGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAA--G-T-GTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
78384043 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
78384098 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
78384140 GACTTAATAT
Statistics
Matches: 146, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
55 90 0.62
56 1 0.01
57 2 0.01
58 1 0.01
59 51 0.35
60 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:78386661 original size:30 final size:30
Alignment explanation
Indices: 78386627--78386687 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
78386617 TTCCCGAGCC
78386627 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
78386657 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
78386687 T
1 T
78386688 GAGTTAAGGA
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:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:78391068 original size:30 final size:30
Alignment explanation
Indices: 78391034--78391094 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78391024 TTCCCGAGCC
*
78391034 TAGGGTCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
78391064 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
78391094 T
1 T
78391095 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:78395968 original size:6 final size:6
Alignment explanation
Indices: 78395957--78395986 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
78395947 AAATCTGCTA
78395957 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
78395987 TAGTTTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:78403764 original size:27 final size:27
Alignment explanation
Indices: 78403733--78403814 Score: 121
Period size: 27 Copynumber: 3.0 Consensus size: 27
78403723 CTGCCAGAAT
* *
78403733 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGATAC
78403760 AGATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGGCAGAGCCACCAGATAC
78403786 AGATATTTGTGGCAGAGCCACCAGTATAC
1 AGATA-TTGTGGCAGAGCCACCAG-ATAC
78403815 TCCCTCCATC
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.14
27 40 0.80
28 1 0.02
29 2 0.04
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:78409770 original size:45 final size:46
Alignment explanation
Indices: 78409703--78409801 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 46
78409693 GAGCTGAATA
* * *
78409703 GTAAGCTCTGTAGAGCTGGAACGGTAAGCCCCTAAG-GACTAAAACG
1 GTAAGCTCTGAAAAGCTGGAACGGTAAGCCCATAAGAG-CTAAAACG
* *
78409749 GTAAGCTCTGAAAAGCT-GAACGGTAAGCTCATAAGAGCTAAAATG
1 GTAAGCTCTGAAAAGCTGGAACGGTAAGCCCATAAGAGCTAAAACG
78409794 GTAAGCTC
1 GTAAGCTC
78409802 ATACGAGCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
45 31 0.66
46 16 0.34
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (46 bp):
GTAAGCTCTGAAAAGCTGGAACGGTAAGCCCATAAGAGCTAAAACG
Found at i:78409811 original size:45 final size:43
Alignment explanation
Indices: 78409677--78409811 Score: 105
Period size: 45 Copynumber: 3.0 Consensus size: 43
78409667 TAAGCCGATA
* * *
78409677 AACGGTAAGCTCA-ATTGAGCT-GAATAGTAAGCTCTGTAGAGCTGG
1 AACGGTAAGCTCATA-AGAGCTAAAATGGTAAGCTC--TAGAGCT-G
* * * *
78409722 AACGGTAAGCCCCTAAG-GACTAAAACGGTAAGCTCTGAAAAGCTG
1 AACGGTAAGCTCATAAGAG-CTAAAATGGTAAGCTCT--AGAGCTG
78409767 AACGGTAAGCTCATAAGAGCTAAAATGGTAAGCTCATACGAGCTG
1 AACGGTAAGCTCATAAGAGCTAAAATGGTAAGCTC-TA-GAGCTG
78409812 TGGTTAGTCT
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
44 3 0.04
45 50 0.70
46 18 0.25
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (43 bp):
AACGGTAAGCTCATAAGAGCTAAAATGGTAAGCTCTAGAGCTG
Found at i:78417433 original size:23 final size:23
Alignment explanation
Indices: 78417405--78417512 Score: 107
Period size: 23 Copynumber: 4.7 Consensus size: 23
78417395 TAGGCTGCAT
78417405 GTAAGCTCCATAA-AGCTGAAACG
1 GTAAGCT-CATAAGAGCTGAAACG
* **
78417428 GTAAGCCCCGAAG-GACTGAAACG
1 GTAAGCTCATAAGAG-CTGAAACG
78417451 GTAAGCTC-TGAAGAGCTGAAA-G
1 GTAAGCTCAT-AAGAGCTGAAACG
*
78417473 GTAAGCTCATAAGAGTTGAAACG
1 GTAAGCTCATAAGAGCTGAAACG
* *
78417496 GTAAGGTCATACGAGCT
1 GTAAGCTCATAAGAGCT
78417513 ATGGTGAGTC
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
22 23 0.33
23 46 0.66
24 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.18
Consensus pattern (23 bp):
GTAAGCTCATAAGAGCTGAAACG
Found at i:78422102 original size:25 final size:25
Alignment explanation
Indices: 78422073--78422130 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
78422063 TTAAATGCTT
78422073 TACTATTGCATGTATGGTAAATACA
1 TACTATTGCATGTATGGTAAATACA
78422098 TACTATTGCATGTATGGTAAATACA
1 TACTATTGCATGTATGGTAAATACA
78422123 TACATATT
1 TAC-TATT
78422131 TAATGTGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (25 bp):
TACTATTGCATGTATGGTAAATACA
Found at i:78427666 original size:40 final size:40
Alignment explanation
Indices: 78427586--78427693 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 40
78427576 CTTCCAAACC
* *
78427586 CAAATACCTTCGGGAT-TTAG-CCGGATATAGCAACTCGCA
1 CAAATGCCTTCGGG-TCTTAGCCCGGATATAGCAACTAGCA
*
78427625 CATATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCA
* *
78427665 CAAATGCCTTCGGGACGTAGCCCGGATAT
1 CAAATGCCTTCGGGTCTTAGCCCGGATAT
78427694 CATCTGAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.02
39 16 0.27
40 42 0.70
41 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCA
Found at i:78428159 original size:101 final size:101
Alignment explanation
Indices: 78428037--78428239 Score: 397
Period size: 101 Copynumber: 2.0 Consensus size: 101
78428027 CGGCTATTCG
*
78428037 ATCAGTTTTTCCTTTCCCCTTTCCAACTTTGATCCTCTAAGCTCTTGAGCTAAATCAAACAATTT
1 ATCACTTTTTCCTTTCCCCTTTCCAACTTTGATCCTCTAAGCTCTTGAGCTAAATCAAACAATTT
78428102 ACTTCCCAATCAAACACAATCATACGGCATTCATAT
66 ACTTCCCAATCAAACACAATCATACGGCATTCATAT
78428138 ATCACTTTTTCCTTTCCCCTTTCCAACTTTGATCCTCTAAGCTCTTGAGCTAAATCAAACAATTT
1 ATCACTTTTTCCTTTCCCCTTTCCAACTTTGATCCTCTAAGCTCTTGAGCTAAATCAAACAATTT
78428203 ACTTCCCAATCAAACACAATCATACGGCATTCATAT
66 ACTTCCCAATCAAACACAATCATACGGCATTCATAT
78428239 A
1 A
78428240 CATTTTAGAA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (101 bp):
ATCACTTTTTCCTTTCCCCTTTCCAACTTTGATCCTCTAAGCTCTTGAGCTAAATCAAACAATTT
ACTTCCCAATCAAACACAATCATACGGCATTCATAT
Found at i:78436063 original size:40 final size:40
Alignment explanation
Indices: 78435983--78436090 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
78435973 ACTCCAAACC
* * *
78435983 CAAATACCTTCGGGAT-TTAG-CCAGATATAGCAACTCGCA
1 CAAATGCCTTCGGG-TCTTAGCCCGGATATAGCAACTAGCA
*
78436022 CACATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCA
* *
78436062 CAAATGCCTTCAGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGTCTTAGCCCGGATAT
78436091 CATCCGAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.02
39 16 0.27
40 41 0.69
41 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCA
Found at i:78436230 original size:40 final size:40
Alignment explanation
Indices: 78436175--78436368 Score: 259
Period size: 40 Copynumber: 4.8 Consensus size: 40
78436165 ACAAGACACA
78436175 CACAAATGCCTTCGGGACTTCA-CCCGAATATAGTCACTAG
1 CACAAATGCCTTCGGGACTT-AGCCCGAATATAGTCACTAG
**
78436215 CACAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCG
1 CACAAATGCCTTCGGGACTTAGCCCGAATATAGTC-ACTA---G
* *
78436258 CACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAG
1 CACAAATGCCTTCGGGACTTAGCCCGAATATAGTCACTAG
78436298 CACAAATGCCTTCGGGACTTAGCCC-AGATATAGTCACTAG
1 CACAAATGCCTTCGGGACTTAGCCCGA-ATATAGTCACTAG
* *
78436338 CACAAATGCCTTCAGGACTTAGCCCGGATAT
1 CACAAATGCCTTCGGGACTTAGCCCGAATAT
78436369 CATCCGAATA
Statistics
Matches: 138, Mismatches: 8, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
39 2 0.01
40 99 0.72
43 36 0.26
44 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
CACAAATGCCTTCGGGACTTAGCCCGAATATAGTCACTAG
Found at i:78436314 original size:83 final size:80
Alignment explanation
Indices: 78436175--78436368 Score: 291
Period size: 83 Copynumber: 2.4 Consensus size: 80
78436165 ACAAGACACA
* *
78436175 CACAAATGCCTTCGGGACTTCACCCGAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 CACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
* *
78436240 GGGTATAG-CAACTACTCG
66 AGATATAGTC-ACTA---G
78436258 CACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 CACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
78436323 AGATATAGTCACTAG
66 AGATATAGTCACTAG
* *
78436338 CACAAATGCCTTCAGGACTTAGCCCGGATAT
1 CACAAATGCCTTCGGGACTTCGCCCGGATAT
78436369 CATCCGAATA
Statistics
Matches: 104, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
80 30 0.29
83 73 0.70
84 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (80 bp):
CACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
AGATATAGTCACTAG
Found at i:78438846 original size:17 final size:17
Alignment explanation
Indices: 78438824--78438860 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
78438814 TGAAAAGGAG
78438824 AACAAATGAATCTTAAA
1 AACAAATGAATCTTAAA
78438841 AACAAATGAATCTTAAA
1 AACAAATGAATCTTAAA
78438858 AAC
1 AAC
78438861 TTAATAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (17 bp):
AACAAATGAATCTTAAA
Found at i:78443079 original size:6 final size:6
Alignment explanation
Indices: 78443061--78443154 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
78443051 AAGAAACATT
* *
78443061 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATCAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
78443110 ATTAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
78443155 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 5 0.07
6 56 0.80
7 6 0.09
8 3 0.04
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:78443111 original size:37 final size:37
Alignment explanation
Indices: 78443070--78443154 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
78443060 TATCAGAACT
* * *
78443070 AGAATCAGAATTAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* *
78443107 AGAATTAGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
*
78443144 AAAATCAGAAT
1 AGAATCAGAAT
78443155 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:78443724 original size:27 final size:27
Alignment explanation
Indices: 78443676--78443922 Score: 266
Period size: 27 Copynumber: 9.3 Consensus size: 27
78443666 GGGGTAAAAT
* * * *
78443676 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78443703 GATAATTCTACTCTACAGGGGTATTT-
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
78443729 AGTAATTCTA-TTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
78443755 GGTATTTCTACCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78443782 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
**
78443809 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
78443836 GGTATTTC-ACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
78443862 GGTATTTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
78443889 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
78443916 GGTAATT
1 GGTAATT
78443923 TTGTAAATCA
Statistics
Matches: 187, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
25 14 0.07
26 42 0.22
27 131 0.70
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:78443734 original size:53 final size:54
Alignment explanation
Indices: 78443677--78443914 Score: 241
Period size: 53 Copynumber: 4.5 Consensus size: 54
78443667 GGGTAAAATG
* * * * *
78443677 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACTCTACAGGGGTATTT-A
1 GTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* ** * * *
78443730 GTAATTCTA-TTTACAGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCA
1 GTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* ** * *
78443783 GTAATTCTACCCTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* * * * *
78443837 GT-ATTTCACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAAGGTATTTCG
1 GTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
*
78443890 GT-ATTTCTACCCTACAAGGGTATTT
1 GTAATTT-TACCCTACAGGGGTATTT
78443915 TGGTAATTTT
Statistics
Matches: 152, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
52 32 0.21
53 67 0.44
54 53 0.35
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
Found at i:78443861 original size:80 final size:81
Alignment explanation
Indices: 78443680--78443919 Score: 274
Period size: 80 Copynumber: 3.0 Consensus size: 81
78443670 TAAAATGGTA
* * * * **
78443680 ATTT-TACCCCACAAGGGTATCTC-GATAATTCTACTCTACAGGGGTA-TTTAGTAATTCTA-TT
1 ATTTCTACCCTACAAGAGTATTTCAG-TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCC
78443741 TACAGGGGTATTTCGGT
65 TACAGGGGTATTTCGGT
*
78443758 ATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAATAATTCTACCCT
1 ATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
78443823 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* * * * ** ** *
78443839 ATTTC-ACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAAGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
* *
78443903 ACAAGGGTATTTTGGT
66 ACAGGGGTATTTCGGT
78443919 A
1 A
78443920 ATTTTGTAAA
Statistics
Matches: 139, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
78 4 0.03
79 36 0.26
80 77 0.55
81 22 0.16
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:78443922 original size:107 final size:106
Alignment explanation
Indices: 78443680--78443922 Score: 321
Period size: 107 Copynumber: 2.3 Consensus size: 106
78443670 TAAAATGGTA
* * * * **
78443680 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACTCTACAGGGGTATTTAGTAATTCTATTTAC
1 ATTTCTACCCTACAAGGGTATTTTGATAATTCTACCCTACAGGGGTATTTAGTAATTCTACCTAC
78443744 AGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGT
66 AGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGT
* * * * *
78443785 AATTCTACCCTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCGGTATTTC-ACCCT
1 ATTTCTACCCTACAAGGGTATTTTGATAATTCTACCCTACAGGGGTATTT-AGTAATTCTA-CCT
*
78443849 ACAGGGGTATTTCGGTATTTCTACCCTACAA-AGGTATTTCGGT
64 ACAGGGGTATTTCGGTATTTCTACCCTACAAGA-GTATTTCAGT
*
78443892 ATTTCTACCCTACAAGGGTATTTTGGTAATT
1 ATTTCTACCCTACAAGGGTATTTTGATAATT
78443923 TTGTAAATCA
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
105 3 0.03
106 41 0.35
107 74 0.63
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (106 bp):
ATTTCTACCCTACAAGGGTATTTTGATAATTCTACCCTACAGGGGTATTTAGTAATTCTACCTAC
AGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGT
Found at i:78443946 original size:107 final size:107
Alignment explanation
Indices: 78443741--78443946 Score: 256
Period size: 107 Copynumber: 1.9 Consensus size: 107
78443731 TAATTCTATT
*
78443741 TACAGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTAT
1 TACAGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAAGGGTAT
** * ***
78443806 TTTAATAATTCTACCCTACAGGGGTATTTCGGTATTTCACCC
66 TTTAATAATTCTACAATACAAGGGTAAAACGGTATTTCACCC
* *
78443848 TACAGGGGTATTTCGGTATTTCTACCCTACAA-AGGTATTTCGGTATTTCTACCCTACAAGGGTA
1 TACAGGGGTATTTCGGTATTTCTACCCTACAAGA-GTATTTCAGTAATTCTACCCTACAAGGGTA
** *
78443912 TTTTGGTAATTTTGTA-AAT-CAAGGGTAAAACGGTA
65 TTTTAATAA--TTCTACAATACAAGGGTAAAACGGTA
78443947 ATTTTATAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
106 1 0.01
107 78 0.93
108 1 0.01
109 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (107 bp):
TACAGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAAGGGTAT
TTTAATAATTCTACAATACAAGGGTAAAACGGTATTTCACCC
Found at i:78443977 original size:54 final size:54
Alignment explanation
Indices: 78443907--78445057 Score: 1530
Period size: 54 Copynumber: 21.3 Consensus size: 54
78443897 TACCCTACAA
* * **** * *
78443907 GGGTATTTTGGTAATTTTGTAAATCAAGGGTAAAACGGTAATTTTATAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * **** *** ***
78443961 AGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAATAATTTTACAGGTC-G
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
** * * * * * *
78444014 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATATTGGTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * * *
78444069 GGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
78444123 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
78444177 GGTTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
78444231 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
78444285 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * * *
78444339 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACCAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* **
78444393 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * **
78444447 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTACTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
78444501 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * *
78444555 GGGTATTTTGGTGATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
78444609 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * *
78444663 GGGTATTTTGGTGATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
78444717 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * *
78444771 GGGTATTTTGGTGATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
78444825 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * *
78444879 GGGTATTTTGGTGATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
78444933 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* **
78444987 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTATTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
78445041 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
78445058 GGTAAACTAA
Statistics
Matches: 957, Mismatches: 138, Indels: 4
0.87 0.13 0.00
Matches are distributed among these distances:
53 1 0.00
54 955 1.00
55 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
Found at i:78444018 original size:81 final size:81
Alignment explanation
Indices: 78443933--78444089 Score: 183
Period size: 81 Copynumber: 1.9 Consensus size: 81
78443923 TTGTAAATCA
* * * * *
78443933 AGGGTAAAACGGTAATTTTATAAATCAGAGGTACT-TTGGTAATTTTAC-AAGTTGAGGGTATTT
1 AGGGTAAAACAGTAATTTCACAAATCAGAGGTA-TATTGGTAATTTTACAAACTAG-GGGTATTT
78443996 CAATAATTTTACAGGTCG
64 CAATAATTTTACAGGTCG
*** * **
78444014 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATATTGGTAATTTTACAAACTAGGGGTATTTTG
1 AGGGTAAAACAGTAATTTCACAAATCAGAGGTATATTGGTAATTTTACAAACTAGGGGTATTTCA
78444079 ATAATTTTACA
66 ATAATTTTACA
78444090 AACTAGGGGT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 1 0.02
81 58 0.92
82 4 0.06
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (81 bp):
AGGGTAAAACAGTAATTTCACAAATCAGAGGTATATTGGTAATTTTACAAACTAGGGGTATTTCA
ATAATTTTACAGGTCG
Found at i:78444100 original size:108 final size:108
Alignment explanation
Indices: 78444042--78445067 Score: 1755
Period size: 108 Copynumber: 9.5 Consensus size: 108
78444032 CACAAATCAG
* * * ** *
78444042 GGGTATATTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
* * *
78444107 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
66 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
* *
78444150 GGGTATTTTAGTAATTTTACAAACCAGGGTTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
78444215 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
* * * *
78444258 GGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
78444323 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
* * * * *
78444366 GGGTATTCTAGTAATTTTACCAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
**
78444431 TAATTTTACAAATTAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
* * *
78444474 GGGTATTCTACTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
78444539 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
*
78444582 TGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
78444647 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
*
78444690 TGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
78444755 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
*
78444798 TGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
78444863 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
*
78444906 TGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
*
78444971 TAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
* * *
78445014 GGGTATTTTATTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTAA
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAA
78445068 AGTATTCTAA
Statistics
Matches: 883, Mismatches: 35, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 883 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (108 bp):
GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
Found at i:78447061 original size:18 final size:18
Alignment explanation
Indices: 78447038--78447072 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
78447028 GGGTAAATTG
78447038 CATAAATTTCATTTTCCA
1 CATAAATTTCATTTTCCA
78447056 CATAAATTTCATTTTCC
1 CATAAATTTCATTTTCC
78447073 GAGCCTAGGG
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:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (18 bp):
CATAAATTTCATTTTCCA
Found at i:78447426 original size:7 final size:7
Alignment explanation
Indices: 78447414--78447440 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
78447404 AATAATGCCC
78447414 GATAAAT
1 GATAAAT
78447421 GATAAAT
1 GATAAAT
78447428 GATAAAT
1 GATAAAT
78447435 GATAAA
1 GATAAA
78447441 AATGTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:78452250 original size:15 final size:16
Alignment explanation
Indices: 78452230--78452264 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
78452220 TGAGAGATTT
78452230 ATGATATAA-TATTGC
1 ATGATATAATTATTGC
*
78452245 ATGATATAATTTTTGC
1 ATGATATAATTATTGC
78452261 ATGA
1 ATGA
78452265 CATATGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (16 bp):
ATGATATAATTATTGC
Found at i:78463250 original size:80 final size:79
Alignment explanation
Indices: 78463166--78463337 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
78463156 GGACTAAGAT
*
78463166 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
78463230 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
78463246 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
78463311 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
78463325 CCGAAGGCATTTG
1 CCGAAGGCATTTG
78463338 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:78463317 original size:39 final size:39
Alignment explanation
Indices: 78463113--78463335 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
78463103 TTGAATGCTG
* * * * *
78463113 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
78463153 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
78463192 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
78463233 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
78463273 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
78463312 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
78463336 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:78463355 original size:79 final size:80
Alignment explanation
Indices: 78463193--78463370 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
78463183 AGATACAAAT
* * * *
78463193 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
78463258 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
78463273 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
78463337 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
78463352 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
78463371 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:78471116 original size:40 final size:40
Alignment explanation
Indices: 78471085--78471374 Score: 422
Period size: 40 Copynumber: 7.3 Consensus size: 40
78471075 GGACTAAGAT
* * * *
78471085 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
78471125 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
78471165 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
78471205 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
78471245 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
78471285 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
78471325 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
78471364 CCGAAGGCATT
1 CCGAAGGCATT
78471375 TGAACGAGGA
Statistics
Matches: 235, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.14
40 198 0.84
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:78471169 original size:80 final size:80
Alignment explanation
Indices: 78471032--78471374 Score: 424
Period size: 80 Copynumber: 4.3 Consensus size: 80
78471022 TTGAATGCTG
* * * * * * **
78471032 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
78471095 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * * *
78471111 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
78471176 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
78471192 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
78471257 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* *
78471272 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
78471336 GTGTGAGTTACTAAA
66 GTGCGAGTTATTAAA
* * *
78471351 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
78471375 TGAACGAGGA
Statistics
Matches: 236, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
79 35 0.15
80 191 0.81
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:78471248 original size:120 final size:118
Alignment explanation
Indices: 78471032--78471376 Score: 424
Period size: 120 Copynumber: 2.9 Consensus size: 118
78471022 TTGAATGCTG
* * * * * * **
78471032 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCA-
* * * *
78471095 TTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
63 TTGTGCGAGTTATAAA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
78471152 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
* * *
78471217 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
65 GTGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
78471272 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
* * * *
78471337 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
66 TGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTG
78471377 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
119 38 0.19
120 151 0.76
121 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTATAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:78485435 original size:40 final size:40
Alignment explanation
Indices: 78485358--78485579 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
78485348 AACCCAAGTA
* *
78485358 CCTTCGGGAGTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
78485397 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
78485437 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
78485477 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
78485517 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
78485557 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
78485580 CATCCGAATA
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.07
40 157 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:78487256 original size:13 final size:13
Alignment explanation
Indices: 78487238--78487264 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
78487228 TTAATAATTG
78487238 CACACGGGCGTGT
1 CACACGGGCGTGT
78487251 CACACGGGCGTGT
1 CACACGGGCGTGT
78487264 C
1 C
78487265 CATGTCGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:78490102 original size:4 final size:4
Alignment explanation
Indices: 78490093--78490118 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
78490083 GTAAGTGTAT
78490093 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
78490119 AGTATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:78490874 original size:16 final size:16
Alignment explanation
Indices: 78490853--78490891 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
78490843 GTAGATCGGC
78490853 AAAAGCCAAAATGCCG
1 AAAAGCCAAAATGCCG
*
78490869 AAAAGCCAAAATGCTG
1 AAAAGCCAAAATGCCG
78490885 AAAAGCC
1 AAAAGCC
78490892 CAAAGTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.23, G:0.18, T:0.08
Consensus pattern (16 bp):
AAAAGCCAAAATGCCG
Found at i:78491152 original size:29 final size:28
Alignment explanation
Indices: 78491108--78491197 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
78491098 TGAGCATGAC
78491108 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTGATGGGCCA
* *
78491137 TATAAATGTGATTTGGACCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTGATGGGCCA
*
78491166 TATAAATGTGATTAGGCCTCG-TGGGCCA
1 TATAAATGTGATTGGGCCT-GATGGGCCA
78491194 TATA
1 TATA
78491198 CAGGTATGTG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 18 0.33
29 36 0.67
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTGATGGGCCA
Found at i:78497885 original size:39 final size:40
Alignment explanation
Indices: 78497785--78497969 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
78497775 TCGAATGATG
* * *
78497785 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
** *
78497824 ATCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
78497865 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
78497904 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
78497943 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
78497970 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:78497991 original size:79 final size:79
Alignment explanation
Indices: 78497838--78498002 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
78497828 GAACTAAGAT
* **
78497838 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
78497903 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
78497917 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
78497980 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
78497996 CCGAAGG
1 CCGAAGG
78498003 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:78514528 original size:37 final size:37
Alignment explanation
Indices: 78514478--78514556 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
78514468 TTATTACGAA
* *
78514478 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
78514515 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
78514552 GTCTT
1 GTCTT
78514557 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:78514753 original size:47 final size:47
Alignment explanation
Indices: 78514675--78515148 Score: 840
Period size: 47 Copynumber: 10.1 Consensus size: 47
78514665 CCCTTCGGGA
* * * * * * *
78514675 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
78514722 CCCGTCACATATATACACTTTCACACTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78514769 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78514816 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78514863 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78514910 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78514957 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78515004 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78515051 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78515098 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78515145 CTTA
1 CTTA
78515149 CTATCATTTC
Statistics
Matches: 410, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 410 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78519065 original size:17 final size:17
Alignment explanation
Indices: 78519043--78519080 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
78519033 GGGCTGAAAT
78519043 CGGGCCCAATAGGCTTC
1 CGGGCCCAATAGGCTTC
*
78519060 CGGGCCCAATGGGCTTC
1 CGGGCCCAATAGGCTTC
78519077 CGGG
1 CGGG
78519081 TCCATTTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.34, G:0.37, T:0.16
Consensus pattern (17 bp):
CGGGCCCAATAGGCTTC
Found at i:78519478 original size:17 final size:18
Alignment explanation
Indices: 78519445--78519480 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
78519435 ATTTGATACG
78519445 ATATGCACATGATATGTAT
1 ATATGCACATGA-ATGTAT
78519464 ATATGCACATG-ATGTAT
1 ATATGCACATGAATGTAT
78519481 TCATTTATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (18 bp):
ATATGCACATGAATGTAT
Found at i:78519575 original size:25 final size:26
Alignment explanation
Indices: 78519523--78519618 Score: 126
Period size: 26 Copynumber: 3.8 Consensus size: 26
78519513 GAGGAAGTGC
*
78519523 AAAAGGGC-TATGCCCCAG-TTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
78519547 AAAAGGGC-TTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
* * *
78519572 AAAAGGGCTTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTACCG
*
78519598 AAAAGGGCTTTTTCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
78519619 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 17 0.27
25 14 0.22
26 33 0.52
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:78519631 original size:25 final size:26
Alignment explanation
Indices: 78519533--78519631 Score: 84
Period size: 25 Copynumber: 3.9 Consensus size: 26
78519523 AAAAGGGCTA
*
78519533 TGCCCCAG-TTACCGAAAAG-GGC-TT
1 TGCCCCAGTTTATC-AAAAGAGGCTTT
*
78519557 TGCCCCAGTTTACCGAAAAG-GGCTTT
1 TGCCCCAGTTTATC-AAAAGAGGCTTT
*
78519583 TGCCCTAGTTTATCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
* *
78519609 TTCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGAGGCT
78519632 AGGCCTCTAG
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
24 8 0.12
25 30 0.46
26 27 0.42
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCTTT
Found at i:78519874 original size:31 final size:31
Alignment explanation
Indices: 78519838--78519982 Score: 229
Period size: 31 Copynumber: 4.7 Consensus size: 31
78519828 ATGTTACAGT
* *
78519838 AAAGGCTTCGGCCTAGTGATACGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
78519869 AAAGGCTTCGACCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
78519900 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
78519931 AAAGGCTTCAGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
78519962 AAAGGCTTCGACCCAGT-ATAT
1 AAAGGCTTCGGCCCAGTGATAT
78519983 ACTGAGATTG
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 4 0.04
31 102 0.96
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:78523266 original size:28 final size:28
Alignment explanation
Indices: 78523235--78523377 Score: 171
Period size: 28 Copynumber: 5.0 Consensus size: 28
78523225 TACTTGTATC
* *
78523235 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
78523263 TGGCCCATTCGGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
78523291 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
78523320 CGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
78523349 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
78523377 T
1 T
78523378 TCATGCTCAC
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
28 53 0.52
29 47 0.47
30 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:78523324 original size:29 final size:29
Alignment explanation
Indices: 78523236--78523364 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
78523226 ACTTGTATCT
* * *
78523236 GGCCCATTAAGCCC-AATCATAT-TCATAT
1 GGCCCATTAGGCCCAAATCACATGT-ATAC
* * *
78523264 GGCCCATTCGGCCC-AATCATAT-TCATAT
1 GGCCCATTAGGCCCAAATCACATGT-ATAC
*
78523292 GGCCCATTAGGCCCAAATCACCTGTATAC
1 GGCCCATTAGGCCCAAATCACATGTATAC
* *
78523321 GGCCCATTAGGCCCAAATCACATTTATAT
1 GGCCCATTAGGCCCAAATCACATGTATAC
*
78523350 GGCCCGTTAGGCCCA
1 GGCCCATTAGGCCCA
78523365 GTCACATTCA
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 39 0.44
29 49 0.55
30 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
GGCCCATTAGGCCCAAATCACATGTATAC
Found at i:78536651 original size:151 final size:151
Alignment explanation
Indices: 78536383--78536807 Score: 559
Period size: 151 Copynumber: 2.8 Consensus size: 151
78536373 AACACATGTA
* * * *
78536383 TAGTACTATGTGCAGGCTACTATGTGT-TTAAAATAGTTTTAGGTCACGTGTGTAGTTCTAAGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATT-AAAT-G-GTTAGGTCACGTGTGTAGTACTAAGTG
* * * * *
78536447 CGGGCTACTACGTG-ACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTATTATACGT
63 CAGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACACGT
* **
78536511 ACTCGA-TAGTTTCAATCACGTGTG
128 AC-CCATTAACTTCAATCACGTGTG
*
78536535 TAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAG
1 TAGTACTAAGTGCAGGCTACTACGTGTATTAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAG
* * *
78536600 GCTACTATGTGTACCGGATTGATAGGTCGCATGTGTAGCACTAAGTGCAGGCTACTACGCGTACC
66 GCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACACGTACC
* *
78536665 CATTAACTTCGATTACGTGTG
131 CATTAACTTCAATCACGTGTG
* * * * * * *
78536686 TAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGATAAGTCAAGTGTGTAGAACTAAGTACAA
1 TAGTACTAAGTGCAGGCTACTACGTGTATTAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAG
*
78536751 GCTATTATGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
66 GCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
78536808 TGTGATGAAT
Statistics
Matches: 241, Mismatches: 29, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
150 39 0.16
151 172 0.71
152 28 0.12
153 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (151 bp):
TAGTACTAAGTGCAGGCTACTACGTGTATTAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAG
GCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACACGTACC
CATTAACTTCAATCACGTGTG
Found at i:78536810 original size:50 final size:50
Alignment explanation
Indices: 78536375--78536811 Score: 337
Period size: 50 Copynumber: 8.7 Consensus size: 50
78536365 GTTGTGAGAA
* * ** * *
78536375 CACATGTATAGTACTATGTGCAGGCTACTATGTGTTTAAAATAGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TACCAGA-TTGATAGGT
* * * * *
78536427 CACGTGTGTAGTTCTAAGTGCGGGCTACTACGTG-ACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGT
* * ** * * *
78536476 CGCATGTGTAGTACTAAGTGCAGGCTATTATACGTACTC-GATAGTTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CAGATTG-AT-AGGT
* * ** * *
78536527 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGT
* *
78536577 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGT
* * * * * * * *
78536627 CGCATGTGTAGCACTAAGTGCAGGCTACTACGCGTACC-CATTAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAGGT
* * * * * * *
78536678 TACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGT
* * * *
78536728 CA-AGTGTGTAGAACTAAGTACAAGCTATTATGTGTACCAGATTGATAGGT
1 CACA-TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGT
*
78536778 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG
78536812 ATGAATAAGT
Statistics
Matches: 301, Mismatches: 72, Indels: 26
0.75 0.18 0.07
Matches are distributed among these distances:
48 2 0.01
49 40 0.13
50 153 0.51
51 74 0.25
52 32 0.11
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGT
Found at i:78537588 original size:178 final size:180
Alignment explanation
Indices: 78537257--78537611 Score: 435
Period size: 178 Copynumber: 2.0 Consensus size: 180
78537247 TCCGAGATCT
* *
78537257 GTACCATGAGATAAATAATTTTTAATGAAAAAAGATCGAAACTGTCAAATAGTGAAATAGGGGTA
1 GTACCATGAGATAAATAATTTTTAATGAAAAAAGATCGAAACTATCAAACAGTGAAATAGGGGTA
* * * * *
78537322 TATTTAATGAATAAACTGTTCTAATTGGATAAACCAAAAATTCTGAAAATTTTATGGTAGGAATT
66 TATGTAATGAATAAACTATACTAATTGGATAAACCAAAAATTCTGAAAATTTTATGGTAAGAATA
* * * *
78537387 TATATGAGTCTAGTTTTTGGGAAAAATAAAGGTTCTTAATTTGGAGTCCC
131 TACATGACTCTAGTTTCTGGGAAAAATAAAGGATCTTAATTTGGAGTCCC
* * * * * ***
78537437 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGGT-GGAATTATTGGACAGTGAAATAGGGGTA
1 GTACCATGAGATAAATAATTTTTAATGAAAAAAGATCGAAACTATCAAACAGTGAAATAGGGGTA
* * * * * * *
78537501 TCTGTAATGAATAAACTATACTAATTTGCTAAA-TAAAATTTTTTAAAATTTTATGGTAAGAATA
66 TATGTAATGAATAAACTATACTAATTGGATAAACCAAAAATTCTGAAAATTTTATGGTAAGAATA
* * *
78537565 TACGTGACTCTAGTTTCTGGGAAAATTAACGGATCTTAATTTGGAGT
131 TACATGACTCTAGTTTCTGGGAAAAATAAAGGATCTTAATTTGGAGT
78537612 TCTGTAGCTC
Statistics
Matches: 146, Mismatches: 29, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
178 65 0.45
179 48 0.33
180 33 0.23
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (180 bp):
GTACCATGAGATAAATAATTTTTAATGAAAAAAGATCGAAACTATCAAACAGTGAAATAGGGGTA
TATGTAATGAATAAACTATACTAATTGGATAAACCAAAAATTCTGAAAATTTTATGGTAAGAATA
TACATGACTCTAGTTTCTGGGAAAAATAAAGGATCTTAATTTGGAGTCCC
Found at i:78539337 original size:45 final size:45
Alignment explanation
Indices: 78539287--78539375 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
78539277 GACTCATGAC
78539287 CGTGTCTCTACCCGTGTGTTTACTACCATACAATCTAACCTAAAT
1 CGTGTCTCTACCCGTGTGTTTACTACCATACAATCTAACCTAAAT
* *
78539332 CGTGTCTCTACCCGTGTGTTTACTACCATGCAATCTGACCTAAA
1 CGTGTCTCTACCCGTGTGTTTACTACCATACAATCTAACCTAAA
78539376 ATTTTAGGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (45 bp):
CGTGTCTCTACCCGTGTGTTTACTACCATACAATCTAACCTAAAT
Found at i:78539606 original size:21 final size:21
Alignment explanation
Indices: 78539577--78539619 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
78539567 ATAAACAATA
78539577 TAATGGTTTTGACTTTTAACT
1 TAATGGTTTTGACTTTTAACT
*
78539598 TAATTGTTTTGACTTTTAACT
1 TAATGGTTTTGACTTTTAACT
78539619 T
1 T
78539620 TAGAAAAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.09, G:0.12, T:0.56
Consensus pattern (21 bp):
TAATGGTTTTGACTTTTAACT
Found at i:78540857 original size:17 final size:17
Alignment explanation
Indices: 78540826--78540877 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
78540816 ACAACTACAA
**
78540826 AAATGAAATTTAAAT-G
1 AAATGAAATGAAAATGG
78540842 AGAATGAAATGAAAATGG
1 A-AATGAAATGAAAATGG
78540860 AAATGGAAATG-AAATGG
1 AAAT-GAAATGAAAATGG
78540877 A
1 A
78540878 TGTTATAGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 1 0.03
17 22 0.71
18 8 0.26
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (17 bp):
AAATGAAATGAAAATGG
Found at i:78540876 original size:11 final size:11
Alignment explanation
Indices: 78540844--78540877 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
78540834 TTTAAATGAG
*
78540844 AATGAAATGAA
1 AATGAAATGGA
78540855 AATGGAAATGGA
1 AAT-GAAATGGA
78540867 AATGAAATGGA
1 AATGAAATGGA
78540878 TGTTATAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (11 bp):
AATGAAATGGA
Found at i:78543956 original size:149 final size:149
Alignment explanation
Indices: 78543678--78543962 Score: 383
Period size: 149 Copynumber: 1.9 Consensus size: 149
78543668 GATAAAGTAG
* * * * * * *
78543678 CTATGATACGTGGGTTGTGTGTGGTAAGTTGTTTTTACTGCAAATGAGTTGATGTTTTATGTTTA
1 CTATGATACGTGAGTTGTGTATGGTAAGTTGTTCTTACAGCAAATGAGTCGATGTGTTATGTCTA
* * * * * *
78543743 GACGTGTGTGGGAGTATGGCCATTGCAAAAACACCCTTCTTGTTGCACGAGCTTGATACTAAAAA
66 GACATGTGTAGGAGTATGGCCACTGCAAAAACACCCTCCTTGTTGCACGAGCCTGATACCAAAAA
78543808 ATTTATGGTTATGAAACTT
131 ATTTATGGTTATGAAACTT
* *
78543827 CTATGATATGTGAGTTGTGTATGGTAAGTTGTTCTTACAGCAAATGAGTCGATGTGTTGTGTCTA
1 CTATGATACGTGAGTTGTGTATGGTAAGTTGTTCTTACAGCAAATGAGTCGATGTGTTATGTCTA
* * *
78543892 GACATGTGTATGAGTATGGCCACTGTAAAAACATCCTCCTTGTTGCACGAGCCT-ACTACCAAAA
66 GACATGTGTAGGAGTATGGCCACTGCAAAAACACCCTCCTTGTTGCACGAGCCTGA-TACCAAAA
*
78543956 AGTTTAT
130 AATTTAT
78543963 AATACGTGAA
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
148 1 0.01
149 115 0.99
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (149 bp):
CTATGATACGTGAGTTGTGTATGGTAAGTTGTTCTTACAGCAAATGAGTCGATGTGTTATGTCTA
GACATGTGTAGGAGTATGGCCACTGCAAAAACACCCTCCTTGTTGCACGAGCCTGATACCAAAAA
ATTTATGGTTATGAAACTT
Found at i:78556551 original size:27 final size:27
Alignment explanation
Indices: 78556513--78556660 Score: 158
Period size: 27 Copynumber: 5.5 Consensus size: 27
78556503 ATTAGTAAAT
*
78556513 GGAAGCCTTTGTTGCAATCTATGAAAA
1 GGAAGCCTTTGTGGCAATCTATGAAAA
* *
78556540 GGAAGCCTTTGTGGCGATTTATGAAAA
1 GGAAGCCTTTGTGGCAATCTATGAAAA
* *
78556567 GAAAGTCC-TTGTGGCAATCTATTG-AAT
1 GGAAG-CCTTTGTGGCAATCTA-TGAAAA
* *
78556594 GGAAGCCTTTGTGGCTATCTATAAAAA
1 GGAAGCCTTTGTGGCAATCTATGAAAA
* * *
78556621 GGAAGCCTCTATGGCAATCTATG-AAG
1 GGAAGCCTTTGTGGCAATCTATGAAAA
78556647 GGAATGCCTTTGTG
1 GGAA-GCCTTTGTG
78556661 ATGTACTTTA
Statistics
Matches: 98, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
26 9 0.09
27 85 0.87
28 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (27 bp):
GGAAGCCTTTGTGGCAATCTATGAAAA
Done.