Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 155 of 199
Found at i:45710083 original size:52 final size:51
Alignment explanation
Indices: 45710011--45710154 Score: 141
Period size: 52 Copynumber: 2.7 Consensus size: 51
45710001 CTTACATTAC
*
45710011 ACACAACTTACATAACTTACAT-TCATAACTTGA-ATAAAATTTATATATAAACTT
1 ACACAAC-TACATAACTTACATAT-ATAACTT-ACAT--AACTTATATATAAACTT
45710065 ACACAAC-ACATAACTTACATATATAACTTACATAACTTATATATAAACTTAT
1 ACACAACTACATAACTTACATATATAACTTACATAACTTATATATAAAC-T-T
* * * *
45710117 ATATAACTTTCATAACTTACTTATTATAACTTACATAA
1 ACACAAC-TACATAACTTACATA-TATAACTTACATAA
45710155 TACATAGCCT
Statistics
Matches: 78, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
50 14 0.18
51 2 0.03
52 28 0.36
53 1 0.01
54 19 0.24
55 14 0.18
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (51 bp):
ACACAACTACATAACTTACATATATAACTTACATAACTTATATATAAACTT
Found at i:45710092 original size:13 final size:13
Alignment explanation
Indices: 45710074--45710098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45710064 TACACAACAC
45710074 ATAACTTACATAT
1 ATAACTTACATAT
45710087 ATAACTTACATA
1 ATAACTTACATA
45710099 ACTTATATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAACTTACATAT
Found at i:45710099 original size:61 final size:62
Alignment explanation
Indices: 45709999--45710122 Score: 148
Period size: 61 Copynumber: 2.0 Consensus size: 62
45709989 CATAATACAT
** * *
45709999 AACTTACATTACACACAACTTACATAACTTACATTCATAACTTGA-ATA-AAATTTATATATA
1 AACTTACACAACACACAACTTACATAACTAACATTCATAACTT-ATATATAAACTTATATATA
*
45710060 AACTTACACAACACATAACTTACATATA-TAAC-TTACATAACTTATATATAAACTTATATATA
1 AACTTACACAACACACAACTTACATA-ACTAACATT-CATAACTTATATATAAACTTATATATA
45710122 A
1 A
45710123 CTTTCATAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
60 3 0.06
61 37 0.69
62 14 0.26
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.34
Consensus pattern (62 bp):
AACTTACACAACACACAACTTACATAACTAACATTCATAACTTATATATAAACTTATATATA
Found at i:45710119 original size:10 final size:11
Alignment explanation
Indices: 45710083--45710125 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 11
45710073 CATAACTTAC
45710083 ATATATAAC-T
1 ATATATAACTT
*
45710093 -TACATAACTT
1 ATATATAACTT
45710103 ATATATAAACTT
1 ATATAT-AACTT
45710115 ATATATAACTT
1 ATATATAACTT
45710126 TCATAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 7 0.25
10 1 0.04
11 9 0.32
12 11 0.39
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATATAACTT
Found at i:45710148 original size:34 final size:31
Alignment explanation
Indices: 45710074--45710149 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 31
45710064 TACACAACAC
45710074 ATAACTTACATATATAACTTACATAACTTATAT
1 ATAACTT--ATATATAACTTACATAACTTATAT
*
45710107 ATAAACTTATATATAACTTTCATAACTTACTTATT
1 AT-AACTTATATATAACTTACATAACTTA--TA-T
45710142 ATAACTTA
1 ATAACTTA
45710150 CATAATACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
32 20 0.53
33 2 0.05
34 13 0.34
35 3 0.08
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.42
Consensus pattern (31 bp):
ATAACTTATATATAACTTACATAACTTATAT
Found at i:45710148 original size:220 final size:218
Alignment explanation
Indices: 45709803--45710253 Score: 753
Period size: 220 Copynumber: 2.1 Consensus size: 218
45709793 AAACTTATAT
45709803 ATAACTTACATATATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACACAA
1 ATAACTTACATATATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACACAA
45709868 TAACTTACATAACTTATATATAAACTTATATATAACTTTCACAACTTACTTATAATAACTTACAT
66 TAACTTACATAACTTATATATAAACTTATATATAACTTTCACAACTTACTTATAATAACTTACAT
45709933 AACACATAGCCTACATGACTTACATAATACACAACTTAAATAACTTAAACAACTTACATAA-TAC
131 AACACATAGCCTACATGACTTACATAATACACAACTTAAATAACTTAAACAA--TACATAACTAC
45709997 ATAACTTACATTACACACAACTTAC
194 ATAACTTACATTACACACAACTTAC
* *
45710022 ATAACTTACAT-TCATAACTTGAATAAAATTTATATATAAACTTACACAACACATAACTTACATA
1 ATAACTTACATAT-ATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACACA
* *
45710086 TATAACTTACATAACTTATATATAAACTTATATATAACTTTCATAACTTACTTATTATAACTTAC
65 -ATAACTTACATAACTTATATATAAACTTATATATAACTTTCACAACTTACTTATAATAACTTAC
* * * *
45710151 ATAATACATAGCCTACATGACTTACATAATACACAACTTAAATAACTTACATAATACATAACTTT
129 ATAACACATAGCCTACATGACTTACATAATACACAACTTAAATAACTTAAACAATACATAAC-TA
* *
45710216 CATAACTTACATTATACACAACTTAT
193 CATAACTTACATTACACACAACTTAC
45710242 ATAACTTACATA
1 ATAACTTACATA
45710254 ACTTACATAG
Statistics
Matches: 217, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
218 8 0.04
219 60 0.28
220 149 0.69
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (218 bp):
ATAACTTACATATATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACACAA
TAACTTACATAACTTATATATAAACTTATATATAACTTTCACAACTTACTTATAATAACTTACAT
AACACATAGCCTACATGACTTACATAATACACAACTTAAATAACTTAAACAATACATAACTACAT
AACTTACATTACACACAACTTAC
Found at i:45710174 original size:25 final size:25
Alignment explanation
Indices: 45710142--45710254 Score: 145
Period size: 25 Copynumber: 4.5 Consensus size: 25
45710132 CTTACTTATT
* *
45710142 ATAACTTACATAATACATAGCCTAC
1 ATAACTTACATAATACATAACTTAC
* * *
45710167 ATGACTTACATAATACACAACTTAA
1 ATAACTTACATAATACATAACTTAC
*
45710192 ATAACTTACATAATACATAACTTTC
1 ATAACTTACATAATACATAACTTAC
* * *
45710217 ATAACTTACATTATACACAACTTAT
1 ATAACTTACATAATACATAACTTAC
45710242 ATAACTTACATAA
1 ATAACTTACATAA
45710255 CTTACATAGC
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 74 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATACATAACTTAC
Found at i:45710200 original size:50 final size:50
Alignment explanation
Indices: 45710142--45710264 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 50
45710132 CTTACTTATT
*
45710142 ATAACTTACATAATACATAGCCTACATGACTTACATAATACACAACTTAA
1 ATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTAA
* * * * *
45710192 ATAACTTACATAATACATAACTTTCATAACTTACATTATACACAACTTAT
1 ATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTAA
45710242 ATAACTTACATAACTTACATAGC
1 ATAACTTACATAA--TACATAGC
45710265 TTAATTATAC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
50 57 0.89
52 7 0.11
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (50 bp):
ATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTAA
Found at i:45712698 original size:21 final size:21
Alignment explanation
Indices: 45712674--45712732 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
45712664 GCAGATGCGA
*
45712674 CAGCGAGAGAAGTAGAGGCTG
1 CAGCGAGGGAAGTAGAGGCTG
45712695 CAGCGAGGGAAGTAGAGGCTG
1 CAGCGAGGGAAGTAGAGGCTG
*
45712716 CAGCGAGGGAAGCAGAG
1 CAGCGAGGGAAGTAGAG
45712733 CACCGTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.32, C:0.15, G:0.46, T:0.07
Consensus pattern (21 bp):
CAGCGAGGGAAGTAGAGGCTG
Found at i:45713128 original size:43 final size:43
Alignment explanation
Indices: 45713084--45713319 Score: 282
Period size: 43 Copynumber: 5.5 Consensus size: 43
45713074 AACGCCACTA
* *
45713084 AAAG-TCATAGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
1 AAAGATCATGGTCTTTAGCGGCGTTTGTTGGAAAAGCGCCGCT
*
45713126 AAAGATCATGGTCTTCAGCGGCGTTTGTTGG-AAAGACGCCGCT
1 AAAGATCATGGTCTTTAGCGGCGTTTGTTGGAAAAG-CGCCGCT
* * *
45713169 AACGATCAGGGTCTTTAGCGGCGTTT-TCTGGAGAAGCGCCGCT
1 AAAGATCATGGTCTTTAGCGGCGTTTGT-TGGAAAAGCGCCGCT
* * *
45713212 AAAGATCAGGGTCTTTAGCGGCGTTTGTTGGAGAAGTGCCGCT
1 AAAGATCATGGTCTTTAGCGGCGTTTGTTGGAAAAGCGCCGCT
* ** *
45713255 AAAGACCATGACCTTTAGCGGCGTTTG-TGGTGAAAGCGCCGCT
1 AAAGATCATGGTCTTTAGCGGCGTTTGTTGG-AAAAGCGCCGCT
* *
45713298 AAAGGTCTTGGTCTTTAGCGGC
1 AAAGATCATGGTCTTTAGCGGC
45713320 ATTTATTTCT
Statistics
Matches: 167, Mismatches: 21, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
42 12 0.07
43 151 0.90
44 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (43 bp):
AAAGATCATGGTCTTTAGCGGCGTTTGTTGGAAAAGCGCCGCT
Found at i:45713407 original size:22 final size:22
Alignment explanation
Indices: 45713379--45713422 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
45713369 ATTTATTTCT
*
45713379 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
*
45713401 AAAAAGCGCTGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
45713423 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:45714398 original size:17 final size:17
Alignment explanation
Indices: 45714376--45714408 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45714366 ATGACTAAAT
45714376 TATAAAATTTTAATTAC
1 TATAAAATTTTAATTAC
*
45714393 TATAAATTTTTAATTA
1 TATAAAATTTTAATTA
45714409 GAAAATTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TATAAAATTTTAATTAC
Found at i:45715104 original size:27 final size:27
Alignment explanation
Indices: 45715063--45715142 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
45715053 TAGTATTGGC
* *
45715063 GCCTATCTGGAAGGCACCAATGGTGAT
1 GCCTATCTGGGAGGCGCCAATGGTGAT
*
45715090 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGAT
45715117 GCCTATCTGGGAGGCGCCAAT-GTGAT
1 GCCTATCTGGGAGGCGCCAATGGTGAT
45715143 TTTTCTCTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 4 0.08
27 45 0.92
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.23
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGAT
Found at i:45715251 original size:22 final size:21
Alignment explanation
Indices: 45715197--45715250 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 21
45715187 GAAACAGAAG
45715197 AAAGAAGAAAAGAAGGAAGGA
1 AAAGAAGAAAAGAAGGAAGGA
*
45715218 AGCAGAAGAAAAGAAGGAAGGA
1 A-AAGAAGAAAAGAAGGAAGGA
45715240 AAAGAAGAAAA
1 AAAGAAGAAAA
45715251 AAATTAGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (21 bp):
AAAGAAGAAAAGAAGGAAGGA
Found at i:45720254 original size:16 final size:15
Alignment explanation
Indices: 45720223--45720264 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
45720213 ACAAAATCAA
*
45720223 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
45720238 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
45720254 ATAAAAATTAA
1 ATAAAAGTTAA
45720265 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:45720430 original size:38 final size:38
Alignment explanation
Indices: 45720376--45720449 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
45720366 TAAAAAACCC
*
45720376 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
1 AAACTTTTAATAAAATGATTTTAAATTTTTTTATAATT
*
45720414 AAACTTTTAATGAAATGATTTTAAATTTTTTTATAA
1 AAACTTTTAATAAAATGATTTTAAATTTTTTTATAA
45720450 ACTTTATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (38 bp):
AAACTTTTAATAAAATGATTTTAAATTTTTTTATAATT
Found at i:45720672 original size:19 final size:20
Alignment explanation
Indices: 45720672--45720958 Score: 134
Period size: 21 Copynumber: 13.0 Consensus size: 20
45720662 AAATTATAAT
45720672 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC-AAAA
*
45720693 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC---A--A-AA
45720719 TATTACAATATTCATACAAAA
1 -ATTACAATATTCATACAAAA
* * *
45720740 AATATAATATTCATATAAAATTACAAA
1 ATTACAATATTC--AT---A-CA-AAA
45720767 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC-AAAA
*
45720788 ATTGCAATATTCATACAAAACTATAA
1 ATTACAATATTCATAC---A--A-AA
45720814 TATTACAATATTCATACAAAA
1 -ATTACAATATTCATACAAAA
* * * *
45720835 ATTACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-AAAA
45720856 A-TACAAATTTAATT-ATA-AAATA
1 ATTAC-AA--T-ATTCATACAAA-A
*
45720878 ATTACAATATTCATAC-AAC
1 ATTACAATATTCATACAAAA
*
45720897 ATTACAATATTCATAAAAAA
1 ATTACAATATTCATACAAAA
*
45720917 ATTATAATATTCATACAAAAA
1 ATTACAATATTCATAC-AAAA
*
45720938 ATTTAAAATATTCATACAAAA
1 A-TTACAATATTCATACAAAA
45720959 TTCTAATCTA
Statistics
Matches: 208, Mismatches: 24, Indels: 68
0.69 0.08 0.23
Matches are distributed among these distances:
19 21 0.10
20 44 0.21
21 53 0.25
22 24 0.12
23 9 0.04
24 2 0.01
25 7 0.03
26 5 0.02
27 43 0.21
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.32
Consensus pattern (20 bp):
ATTACAATATTCATACAAAA
Found at i:45720681 original size:27 final size:27
Alignment explanation
Indices: 45720645--45720843 Score: 193
Period size: 27 Copynumber: 8.0 Consensus size: 27
45720635 ATATCCCCAC
45720645 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTATAAT
45720672 ATTACAATATTCATAC--AA--A-AA-
1 ATTACAATATTCATACAAAATTATAAT
*
45720693 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTATAAT
45720720 ATTACAATATTCATAC-AAA--A-AAT
1 ATTACAATATTCATACAAAATTATAAT
* * *
45720743 A-T--AATATTCATATAAAATTACAAA
1 ATTACAATATTCATACAAAATTATAAT
45720767 ATTACAATATTCATAC--AA--A-AA-
1 ATTACAATATTCATACAAAATTATAAT
* *
45720788 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTATAAT
45720815 ATTACAATATTCATACAAAAATTACTAAT
1 ATTACAATATTCATAC-AAAATTA-TAAT
45720844 CCAAAACTAT
Statistics
Matches: 143, Mismatches: 8, Indels: 40
0.75 0.04 0.21
Matches are distributed among these distances:
20 10 0.07
21 33 0.23
22 5 0.03
23 11 0.08
24 4 0.03
25 7 0.05
26 7 0.05
27 56 0.39
28 6 0.04
29 4 0.03
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTATAAT
Found at i:45720708 original size:95 final size:94
Alignment explanation
Indices: 45720592--45720835 Score: 328
Period size: 95 Copynumber: 2.6 Consensus size: 94
45720582 AATTAATTAT
* * * ** * *
45720592 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATAT-ATCCCCACATTACAATATT
1 AAAA-AATTGCAATATTCATAC--AAAATTATAATATTACAATATCATACAAAAAATACAATATT
* *
45720656 CATACAAAATTATAATATTACAATATTCATAC
63 CATACAAAATTACAAAATTACAATATTCATAC
*
45720688 AAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAATATAATATTCA
1 AAAAAATTGCAATATTCATACAAAATTATAATATTACAATA-TCATACAAAAAATACAATATTCA
*
45720753 TATAAAATTACAAAATTACAATATTCATAC
65 TACAAAATTACAAAATTACAATATTCATAC
*
45720783 AAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATACAAAAA
1 AAAAAATTGCAATATTCATACAAAATTATAATATTACAATA-TCATACAAAAA
45720836 TTACTAATCC
Statistics
Matches: 134, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
93 19 0.14
94 1 0.01
95 110 0.82
96 4 0.03
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (94 bp):
AAAAAATTGCAATATTCATACAAAATTATAATATTACAATATCATACAAAAAATACAATATTCAT
ACAAAATTACAAAATTACAATATTCATAC
Found at i:45720712 original size:48 final size:48
Alignment explanation
Indices: 45720592--45720839 Score: 326
Period size: 48 Copynumber: 5.2 Consensus size: 48
45720582 AATTAATTAT
*
45720592 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAA-AATTACAATATTCATAC--AAAATTATAATATTACAATATTCATAC
*** *
45720640 CCCACATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
*
45720688 AAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
* * * *
45720736 AAAAAA-TATAATATTCATATAAAATTACAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
* *
45720783 AAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
45720831 -AAAAATTAC
1 AAAAAATTAC
45720840 TAATCCAAAA
Statistics
Matches: 174, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
45 19 0.11
46 1 0.01
47 68 0.39
48 86 0.49
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (48 bp):
AAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
Found at i:45720925 original size:20 final size:20
Alignment explanation
Indices: 45720590--45720958 Score: 129
Period size: 21 Copynumber: 16.4 Consensus size: 20
45720580 CAAATTAATT
*
45720590 ATAAAATAATTACAATATTC
1 ATAAAAAAATTACAATATTC
45720610 ATACAAAAAATTACAATATTAC
1 ATA-AAAAAATTACAATATT-C
** *
45720632 AATATATCCCCACATTACAATATTC
1 -ATA-A---AAAAATTACAATATTC
45720657 ATACAAAATTATAATATTACAATATTC
1 AT---AAA--A-AA-ATTACAATATTC
*
45720684 ATACAAAAAATTGCAATATTC
1 ATA-AAAAAATTACAATATTC
45720705 ATACAAAATTATAATATTACAATATTC
1 AT---AAA--A-AA-ATTACAATATTC
*
45720732 ATACAAAAAA-TATAATATTC
1 ATA-AAAAAATTACAATATTC
45720752 ATATAAAATTACAAAATTACAATATTC
1 --AT--AA--A-AAAATTACAATATTC
*
45720779 ATACAAAAAATTGCAATATTC
1 ATA-AAAAAATTACAATATTC
45720800 ATACAAAACTATAATATTACAATATTC
1 AT---AAA--A-AA-ATTACAATATTC
* * *
45720827 ATACAAAAATTACTA-ATCC
1 ATAAAAAAATTACAATATTC
45720846 A-AAACTATAAA-TACAAATTTAATT-
1 ATAAA--A-AAATTAC-AA--T-ATTC
*
45720870 ATAAAATAATTACAATATTC
1 ATAAAAAAATTACAATATTC
* *
45720890 AT-ACAACATTACAATATTC
1 ATAAAAAAATTACAATATTC
*
45720909 ATAAAAAAATTATAATATTC
1 ATAAAAAAATTACAATATTC
*
45720929 ATACAAAAAATTTAAAATATTC
1 ATA-AAAAAA-TTACAATATTC
45720951 ATACAAAA
1 ATA-AAAA
45720959 TTCTAATCTA
Statistics
Matches: 269, Mismatches: 28, Indels: 102
0.67 0.07 0.26
Matches are distributed among these distances:
18 2 0.01
19 23 0.09
20 42 0.16
21 57 0.21
22 31 0.12
23 16 0.06
24 11 0.04
25 15 0.06
26 22 0.08
27 50 0.19
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (20 bp):
ATAAAAAAATTACAATATTC
Found at i:45720947 original size:22 final size:21
Alignment explanation
Indices: 45720872--45720958 Score: 99
Period size: 20 Copynumber: 4.2 Consensus size: 21
45720862 ATTTAATTAT
*
45720872 AAAATAATTACAATATTCATAC
1 AAAA-AATTAAAATATTCATAC
* *
45720894 --AACATTACAATATTCATA-
1 AAAAAATTAAAATATTCATAC
*
45720912 AAAAAATTATAATATTCATAC
1 AAAAAATTAAAATATTCATAC
45720933 AAAAAATTTAAAATATTCATAC
1 AAAAAA-TTAAAATATTCATAC
45720955 AAAA
1 AAAA
45720959 TTCTAATCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
19 15 0.26
20 18 0.32
21 6 0.11
22 18 0.32
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAAATTAAAATATTCATAC
Found at i:45721132 original size:3 final size:3
Alignment explanation
Indices: 45721126--45721169 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
45721116 TTTTTTTTCT
*
45721126 TTC TTC TTC TTC TTC -TC TTC TTC TTC TTC TCC TTC -TC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
45721170 CCTTTCTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:45721146 original size:14 final size:14
Alignment explanation
Indices: 45721122--45721170 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
45721112 ACCTTTTTTT
45721122 TTCTT-TCTTCTTC
1 TTCTTCTCTTCTTC
45721135 TTCTTCTCTTCTTC
1 TTCTTCTCTTCTTC
45721149 TTCTTCTCCTTC-TC
1 TTCTTCT-CTTCTTC
45721163 TTCTTCTC
1 TTCTTCTC
45721171 CTTTCTCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.18
14 24 0.71
15 4 0.12
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (14 bp):
TTCTTCTCTTCTTC
Found at i:45721151 original size:20 final size:20
Alignment explanation
Indices: 45721126--45721169 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
45721116 TTTTTTTTCT
*
45721126 TTCTTCTTCTTCTTCTCTTC
1 TTCTTCTTCTCCTTCTCTTC
45721146 TTCTTCTTCTCCTTCTCTTC
1 TTCTTCTTCTCCTTCTCTTC
45721166 TTCT
1 TTCT
45721170 CCTTTCTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTCTTCTCCTTCTCTTC
Found at i:45721171 original size:14 final size:15
Alignment explanation
Indices: 45721128--45721173 Score: 78
Period size: 14 Copynumber: 3.2 Consensus size: 15
45721118 TTTTTTCTTT
45721128 CTTCTTCTTCTTCT-
1 CTTCTTCTTCTTCTC
45721142 CTTCTTCTTCTTCTC
1 CTTCTTCTTCTTCTC
45721157 CTTC-TCTTCTTCTC
1 CTTCTTCTTCTTCTC
45721171 CTT
1 CTT
45721174 TCTCTCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 27 0.87
15 4 0.13
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (15 bp):
CTTCTTCTTCTTCTC
Found at i:45721179 original size:17 final size:16
Alignment explanation
Indices: 45721124--45721181 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 16
45721114 CTTTTTTTTT
*
45721124 CTTTCTTCTTCTTCTT
1 CTTTCTTCTTCTTCTC
45721140 CTCTTCTTCTTCTTCTC
1 CT-TTCTTCTTCTTCTC
45721157 C-TTC-TCTTCTTCTC
1 CTTTCTTCTTCTTCTC
45721171 CTTTCTCTCTT
1 CTTTCT-TCTT
45721182 TTTTTTTCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 11 0.30
15 6 0.16
16 2 0.05
17 18 0.49
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
CTTTCTTCTTCTTCTC
Found at i:45721181 original size:14 final size:13
Alignment explanation
Indices: 45721132--45721181 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 13
45721122 TTCTTTCTTC
*
45721132 TTCTTCTTCTCTT
1 TTCTTCTTCTCCT
45721145 CTTCTTCTTCTCCT
1 -TTCTTCTTCTCCT
45721159 TCTCTTCTTCTCCT
1 T-TCTTCTTCTCCT
45721173 TTCTCTCTT
1 TTCT-TCTT
45721182 TTTTTTTCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
13 4 0.12
14 29 0.88
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTTCTTCTCCT
Found at i:45727690 original size:17 final size:18
Alignment explanation
Indices: 45727668--45727704 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
45727658 TGAAAATATT
*
45727668 AATTTTCAATTGATT-TA
1 AATTTTCAATGGATTGTA
45727685 AATTTTCAATGGATTGTA
1 AATTTTCAATGGATTGTA
45727703 AA
1 AA
45727705 AGTGATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (18 bp):
AATTTTCAATGGATTGTA
Found at i:45730707 original size:27 final size:28
Alignment explanation
Indices: 45730677--45730734 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
45730667 AAAGATTTTT
*
45730677 AAAACTCTTCTAAAAG-AAAACTC-AAGA
1 AAAACTCTT-GAAAAGAAAAACTCAAAGA
*
45730704 AAAATTCTTGAAAAGAAAAACTCAAAGA
1 AAAACTCTTGAAAAGAAAAACTCAAAGA
45730732 AAA
1 AAA
45730735 TATATTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 5 0.19
27 15 0.56
28 7 0.26
ACGTcount: A:0.60, C:0.14, G:0.09, T:0.17
Consensus pattern (28 bp):
AAAACTCTTGAAAAGAAAAACTCAAAGA
Found at i:45733475 original size:42 final size:42
Alignment explanation
Indices: 45733423--45733528 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
45733413 TAATGATATT
* *
45733423 TGATTCGCATGTTAAGCTTGCCGATTATGATGAAT-TAAGATC
1 TGATTCGCATGTTAAGCATGCCGATTATGATG-ATCTAAGATA
* * * * *
45733465 TGATTTGCATGTTAAGCAGGTCGATTATGTTGATCTTAGATA
1 TGATTCGCATGTTAAGCATGCCGATTATGATGATCTAAGATA
*
45733507 TGATTCGCATGTTAAGCGTGCC
1 TGATTCGCATGTTAAGCATGCC
45733529 TACTGATAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 2 0.04
42 50 0.96
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (42 bp):
TGATTCGCATGTTAAGCATGCCGATTATGATGATCTAAGATA
Found at i:45733693 original size:24 final size:24
Alignment explanation
Indices: 45733616--45733729 Score: 85
Period size: 24 Copynumber: 4.8 Consensus size: 24
45733606 TTACTGTAAA
*
45733616 ATTGAGTGGCTTGTCCACAACAAT
1 ATTGAGTGGCTTGACCACAACAAT
* *
45733640 A-TGAGTAGCTTG-CCTACAA-AGCT
1 ATTGAGTGGCTTGACC-ACAACA-AT
** *
45733663 AACGAGTGACTTGACCACAACAAT
1 ATTGAGTGGCTTGACCACAACAAT
*
45733687 ATTGAGTGGCTTGGA-CACAAC-GT
1 ATTGAGTGGCTT-GACCACAACAAT
*
45733710 AATTGAGTGGTTTGACCACA
1 -ATTGAGTGGCTTGACCACA
45733730 CCATGCAGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
22 3 0.04
23 19 0.27
24 44 0.62
25 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (24 bp):
ATTGAGTGGCTTGACCACAACAAT
Found at i:45733718 original size:48 final size:48
Alignment explanation
Indices: 45733615--45733729 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 48
45733605 TTTACTGTAA
* *
45733615 AATTGAGTGGCTTGTCCACAACAATATGAGTAGCTTGCCTACAAAGCT
1 AATTGAGTGGCTTGACCACAACAATATGAGTAGCTTGACTACAAAGCT
* * * *
45733663 AA-CGAGTGACTTGACCACAACAATATTGAGTGGCTTGGAC-ACAACG-T
1 AATTGAGTGGCTTGACCACAACAATA-TGAGTAGCTT-GACTACAAAGCT
*
45733710 AATTGAGTGGTTTGACCACA
1 AATTGAGTGGCTTGACCACA
45733730 CCATGCAGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
47 23 0.42
48 30 0.55
49 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (48 bp):
AATTGAGTGGCTTGACCACAACAATATGAGTAGCTTGACTACAAAGCT
Found at i:45734872 original size:15 final size:15
Alignment explanation
Indices: 45734852--45734881 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45734842 AACTTTGTTA
45734852 GGTCAAATGAAAACT
1 GGTCAAATGAAAACT
45734867 GGTCAAATGAAAACT
1 GGTCAAATGAAAACT
45734882 AACACAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
GGTCAAATGAAAACT
Found at i:45737107 original size:25 final size:24
Alignment explanation
Indices: 45737067--45737115 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
45737057 ATATATATAT
45737067 TCTAAAAAAGAAAAAGGAATACCTAA
1 TCTAAAAAAGAAAAA-GAA-ACCTAA
*
45737093 TCTAAAAATG-AAAAGAAACCTAA
1 TCTAAAAAAGAAAAAGAAACCTAA
45737116 CTTAAAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 3 0.14
25 4 0.18
26 9 0.41
ACGTcount: A:0.61, C:0.12, G:0.10, T:0.16
Consensus pattern (24 bp):
TCTAAAAAAGAAAAAGAAACCTAA
Found at i:45740689 original size:24 final size:24
Alignment explanation
Indices: 45740638--45740689 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
45740628 CAAAATAATG
*
45740638 GGAAAGGTTGAAAAGGATAACAAT
1 GGAAAGGTTGAAAAGGATAACAAC
*
45740662 GGAAAGGTTGAAAATGG-TAGCAAC
1 GGAAAGGTTGAAAA-GGATAACAAC
45740686 GGAA
1 GGAA
45740690 TGGATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.46, C:0.06, G:0.33, T:0.15
Consensus pattern (24 bp):
GGAAAGGTTGAAAAGGATAACAAC
Found at i:45744607 original size:26 final size:26
Alignment explanation
Indices: 45744571--45744631 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
45744561 ATATATTTTC
*
45744571 TCAAAATTTTAC-CAGGGGTAAAATCG
1 TCAAAATTTTACTCA-GGGTAAAATCA
* *
45744597 TCAAACTTTTACTTAGGGTAAAATCA
1 TCAAAATTTTACTCAGGGTAAAATCA
45744623 TCAAAATTT
1 TCAAAATTT
45744632 GTTGGGGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 29 0.97
27 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACTCAGGGTAAAATCA
Found at i:45746354 original size:14 final size:13
Alignment explanation
Indices: 45746335--45746364 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
45746325 CTTGATTAGG
45746335 AATTAATTAATCTT
1 AATTAATTAA-CTT
45746349 AATTAATTAACTT
1 AATTAATTAACTT
45746362 AAT
1 AAT
45746365 CATGACTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTAATTAACTT
Found at i:45754485 original size:20 final size:20
Alignment explanation
Indices: 45754460--45754513 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
45754450 TAGGGAATTT
** *
45754460 GGGGAAAATAAATTTTTTTA
1 GGGGAAAATAAAAGTTTTAA
*
45754480 GGGGAAAGTAAAAGTTTTAA
1 GGGGAAAATAAAAGTTTTAA
*
45754500 AGGGAAAATAAAAG
1 GGGGAAAATAAAAG
45754514 GAAAAAAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (20 bp):
GGGGAAAATAAAAGTTTTAA
Found at i:45757200 original size:18 final size:18
Alignment explanation
Indices: 45757177--45757219 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
45757167 TGCCAGGTGC
*
45757177 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
45757195 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
45757213 GTTTCCT
1 GTATCCT
45757220 TTTCCCAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:45757481 original size:21 final size:21
Alignment explanation
Indices: 45757457--45757497 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
45757447 CCAACACCCA
45757457 CAACCACAACCCCCACCGGAG
1 CAACCACAACCCCCACCGGAG
*
45757478 CAACCACAACCCCCGCCGGA
1 CAACCACAACCCCCACCGGA
45757498 AGCTTAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.54, G:0.15, T:0.00
Consensus pattern (21 bp):
CAACCACAACCCCCACCGGAG
Found at i:45760954 original size:126 final size:126
Alignment explanation
Indices: 45760717--45760981 Score: 349
Period size: 126 Copynumber: 2.1 Consensus size: 126
45760707 GCCAAACAGT
* * *
45760717 AACTACTGTAGAATAAGAGCGCCCACGTGGGAGCTTTTTTTAGTATTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAATAAGAGCGCCCACGTGGAAGCTTCTTTTAGTAATTTTGCTGACAGTGCATCC
* * * * *
45760782 TGCTTGAAGTGTTTTTGACACTATTTGTTCAGAATAGTCTTCTCAAAATTATTTTTTTAGG
66 TGCTTAAAGCGTTTTTGACACTATTTGTTCAGAACAGTCTTATCAAAATTAATTTTTTAGG
* **
45760843 AACTATTGTAGTAA-AAGAGCGGTCACGTGGAAGCTTCTTTTAGTAATTTTGCTGACAGTGCATC
1 AACTACTGTAG-AATAAGAGCGCCCACGTGGAAGCTTCTTTTAGTAATTTTGCTGACAGTGCATC
* *
45760907 CTGCTTAAAGCGTTTTTGACATTATCTT-TTCAGAACCA-TCTTATCAAAATTAATTTTTCT-GA
65 CTGCTTAAAGCGTTTTTGACACTAT-TTGTTCAGAA-CAGTCTTATCAAAATTAATTTTT-TAGG
45760969 AACTACTGTAGAA
1 AACTACTGTAGAA
45760982 AAAAAACAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
125 2 0.02
126 113 0.93
127 6 0.05
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (126 bp):
AACTACTGTAGAATAAGAGCGCCCACGTGGAAGCTTCTTTTAGTAATTTTGCTGACAGTGCATCC
TGCTTAAAGCGTTTTTGACACTATTTGTTCAGAACAGTCTTATCAAAATTAATTTTTTAGG
Found at i:45761273 original size:29 final size:28
Alignment explanation
Indices: 45761227--45761291 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 28
45761217 ACAAAAGCTT
45761227 AAACCCT-AAACCTAAATTATTTTAACA
1 AAACCCTAAAACCTAAATTATTTTAACA
*
45761254 AAATCCTAAAACCATAAATTATTTTAACA
1 AAACCCTAAAACC-TAAATTATTTTAACA
45761283 AAACCCTAA
1 AAACCCTAA
45761292 CACTAAACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 6 0.18
28 5 0.15
29 23 0.68
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.28
Consensus pattern (28 bp):
AAACCCTAAAACCTAAATTATTTTAACA
Found at i:45762534 original size:4 final size:4
Alignment explanation
Indices: 45762525--45762556 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
45762515 TTCTGCAACA
*
45762525 CCTC CCTC CCTC TCTC CCTC CCTC CCTC CCTC
1 CCTC CCTC CCTC CCTC CCTC CCTC CCTC CCTC
45762557 TCTCTCTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.72, G:0.00, T:0.28
Consensus pattern (4 bp):
CCTC
Found at i:45762543 original size:12 final size:12
Alignment explanation
Indices: 45762526--45762564 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
45762516 TCTGCAACAC
45762526 CTCCCTCCCTCT
1 CTCCCTCCCTCT
*
45762538 CTCCCTCCCTCC
1 CTCCCTCCCTCT
*
45762550 CTCCCTCTCTCT
1 CTCCCTCCCTCT
45762562 CTC
1 CTC
45762565 TCTCTGCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (12 bp):
CTCCCTCCCTCT
Found at i:45762569 original size:12 final size:12
Alignment explanation
Indices: 45762526--45762569 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
45762516 TCTGCAACAC
*
45762526 CTCCCTCCCTCT
1 CTCCCTCTCTCT
* *
45762538 CTCCCTCCCTCC
1 CTCCCTCTCTCT
45762550 CTCCCTCTCTCT
1 CTCCCTCTCTCT
*
45762562 CTCTCTCT
1 CTCCCTCT
45762570 GCAACCATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (12 bp):
CTCCCTCTCTCT
Found at i:45762694 original size:93 final size:94
Alignment explanation
Indices: 45762583--45762816 Score: 301
Period size: 99 Copynumber: 2.4 Consensus size: 94
45762573 ACCATGACTG
* *
45762583 CCACGATGGGTCCACCGCC-TCCCAGT-AACCCTAACCCCTCGACCGAACCCGAGTCGATAGCCC
1 CCACGATGGGTCCTCCGCCTTCCCA-TAAACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCC
*
45762646 AAGAAGAATCCGAACCCAGAACAGCCAAAA
65 AAGAAGAATCCGAACCCAGAAAAGCCAAAA
45762676 CCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAACCCCGCGACCGAACCCGAGTCGATA
1 CCACGATGGGTCCTCCG----C-CTTCCCATAAACCCTAACCCCGCGACCGAACCCGAGTCGATA
* * *
45762741 GCCCTAGAAGAATCCGAACTCATAAAAGCCAAAA
61 GCCCAAGAAGAATCCGAACCCAGAAAAGCCAAAA
45762775 CCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAACC
1 CCACGATGGGTCCTCCG----C-CTTCCCATAAACCCTAACC
45762817 TGCAAAATCC
Statistics
Matches: 128, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
93 16 0.12
97 1 0.01
98 2 0.02
99 109 0.85
ACGTcount: A:0.30, C:0.41, G:0.16, T:0.13
Consensus pattern (94 bp):
CCACGATGGGTCCTCCGCCTTCCCATAAACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCCA
AGAAGAATCCGAACCCAGAAAAGCCAAAA
Found at i:45762750 original size:99 final size:99
Alignment explanation
Indices: 45762609--45762816 Score: 371
Period size: 99 Copynumber: 2.1 Consensus size: 99
45762599 GCCTCCCAGT
* *
45762609 AACCCTAACCCCTCGACCGAACCCGAGTCGATAGCCCAAGAAGAATCCGAACCCAGAACAGCCAA
1 AACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCCAAGAAGAATCCGAACCCAGAAAAGCCAA
45762674 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
66 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
* * *
45762708 AACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCCTAGAAGAATCCGAACTCATAAAAGCCAA
1 AACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCCAAGAAGAATCCGAACCCAGAAAAGCCAA
45762773 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
66 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
45762807 AACCCTAACC
1 AACCCTAACC
45762817 TGCAAAATCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 104 1.00
ACGTcount: A:0.32, C:0.40, G:0.15, T:0.13
Consensus pattern (99 bp):
AACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCCAAGAAGAATCCGAACCCAGAAAAGCCAA
AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
Found at i:45771721 original size:22 final size:24
Alignment explanation
Indices: 45771695--45771738 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
45771685 GAAAAATATT
45771695 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
45771717 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
45771739 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:45771849 original size:9 final size:9
Alignment explanation
Indices: 45771835--45771871 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
45771825 TTTTGTTACA
45771835 ACAATTAAT
1 ACAATTAAT
45771844 ACAATTAAT
1 ACAATTAAT
45771853 ACAATTAAT
1 ACAATTAAT
45771862 ACAATTAAT
1 ACAATTAAT
45771871 A
1 A
45771872 ATTTGATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:45771893 original size:77 final size:77
Alignment explanation
Indices: 45771805--45772005 Score: 316
Period size: 68 Copynumber: 2.8 Consensus size: 77
45771795 TCAAGTTTGT
45771805 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATACAATTAA
1 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATACAATTAA
45771870 TAATTTGATAAA
66 TAATTTGATAAA
45771882 TTTACTAATCAAATGTTAGATTTTGTT---AC-----A-ACAATTAATACAATTAATACAATTAA
1 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATACAATTAA
45771938 TAATTTGATAAA
66 TAATTTGATAAA
*
45771950 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATA
1 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATA
45772006 ATTTGATAAT
Statistics
Matches: 114, Mismatches: 1, Indels: 20
0.84 0.01 0.15
Matches are distributed among these distances:
68 64 0.56
69 1 0.01
71 2 0.02
74 2 0.02
75 10 0.09
76 2 0.02
77 33 0.29
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.39
Consensus pattern (77 bp):
TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATACAATTAA
TAATTTGATAAA
Found at i:45771920 original size:68 final size:68
Alignment explanation
Indices: 45771844--45772023 Score: 328
Period size: 68 Copynumber: 2.7 Consensus size: 68
45771834 AACAATTAAT
*
45771844 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTGTT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
45771909 ACA
66 ACA
45771912 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
45771977 ACA
66 ACA
*
45771980 ACAATTAATACAATT-A-ACAATTAATAATTTGATAATTTTACTAA
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAA
45772024 CAATTAATTT
Statistics
Matches: 110, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
66 27 0.25
67 1 0.01
68 82 0.75
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.39
Consensus pattern (68 bp):
ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
ACA
Found at i:45771926 original size:9 final size:9
Alignment explanation
Indices: 45771912--45771939 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
45771902 TTTTGTTACA
45771912 ACAATTAAT
1 ACAATTAAT
45771921 ACAATTAAT
1 ACAATTAAT
45771930 ACAATTAAT
1 ACAATTAAT
45771939 A
1 A
45771940 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:45772033 original size:16 final size:16
Alignment explanation
Indices: 45772012--45772053 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
45772002 AATAATTTGA
*
45772012 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
45772028 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
45772044 TATTTTTAAT
1 TAATTTTAAT
45772054 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:45772037 original size:22 final size:23
Alignment explanation
Indices: 45772027--45772082 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
45772017 TTACTAACAA
* * *
45772027 TTAATTTTAAT-AACAATTATTT
1 TTAATTTTAATAAAAAAATAATT
*
45772049 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
45772072 TTAATTTTAAT
1 TTAATTTTAAT
45772083 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:45772042 original size:59 final size:65
Alignment explanation
Indices: 45771844--45772045 Score: 281
Period size: 68 Copynumber: 3.1 Consensus size: 65
45771834 AACAATTAAT
*
45771844 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTGTT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGA-TTT-TA
45771909 ACA
63 ACA
45771912 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA--
45771977 ACA
63 ACA
* *
45771980 ACAATTAATACAATT-A-ACAATTAATAATTTGATAATTTTACTAA-C-AA-TTA-ATTTTAATA
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTAACA
45772039 ACAATTA
1 ACAATTA
45772046 TTTTTAATTT
Statistics
Matches: 129, Mismatches: 3, Indels: 13
0.89 0.02 0.09
Matches are distributed among these distances:
59 9 0.07
61 6 0.05
62 3 0.02
64 2 0.02
65 1 0.01
66 28 0.22
67 4 0.03
68 76 0.59
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (65 bp):
ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTAACA
Found at i:45778316 original size:22 final size:23
Alignment explanation
Indices: 45778291--45778337 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
45778281 AGTTAAAAAA
45778291 TTAAAAATATTATTTTTA-ATTT
1 TTAAAAATATTATTTTTACATTT
* * *
45778313 TTAAAATTTTTTTTTTTACATTT
1 TTAAAAATATTATTTTTACATTT
45778336 TT
1 TT
45778338 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TTAAAAATATTATTTTTACATTT
Found at i:45782243 original size:22 final size:22
Alignment explanation
Indices: 45782218--45782259 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45782208 ATAGACATAA
*
45782218 AAATTAAAATATATTTAGATTT
1 AAATTAAAATAAATTTAGATTT
*
45782240 AAATTATAATAAATTTAGAT
1 AAATTAAAATAAATTTAGAT
45782260 AAAATCCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTAAAATAAATTTAGATTT
Found at i:45786600 original size:19 final size:19
Alignment explanation
Indices: 45786576--45786633 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
45786566 TTCAATTTCT
45786576 CAATTTATTCTTTATAGAA
1 CAATTTATTCTTTATAGAA
45786595 CAA--T-TTC--TATA-AA
1 CAATTTATTCTTTATAGAA
*
45786608 GAATTTATTCTTTATAGAA
1 CAATTTATTCTTTATAGAA
45786627 CAATTTA
1 CAATTTA
45786634 GGAACGTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
13 4 0.13
14 4 0.13
15 1 0.03
16 6 0.19
17 1 0.03
18 4 0.13
19 11 0.35
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (19 bp):
CAATTTATTCTTTATAGAA
Found at i:45789010 original size:21 final size:21
Alignment explanation
Indices: 45788986--45789026 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45788976 TGATTAACTA
*
45788986 AAATTATAATAAACTTAAAAT
1 AAATTATAATAAACATAAAAT
*
45789007 AAATTATAATATACATAAAA
1 AAATTATAATAAACATAAAA
45789027 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATTATAATAAACATAAAAT
Found at i:45790992 original size:36 final size:36
Alignment explanation
Indices: 45790952--45791021 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 36
45790942 TGTGGAGCTC
45790952 GATGA-TTAGTGTTTG-TTTTAGGTGTTGGTCTTTTTT
1 GATGACTT-GTGTTTGTTTTTAGGTGTTGG-CTTTTTT
45790988 GATGACTTGTGTTTGTTTTTAGGTGTTGGCTTTT
1 GATGACTTGTGTTTGTTTTTAGGTGTTGGCTTTT
45791022 CTATAACTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
36 17 0.53
37 15 0.47
ACGTcount: A:0.10, C:0.04, G:0.29, T:0.57
Consensus pattern (36 bp):
GATGACTTGTGTTTGTTTTTAGGTGTTGGCTTTTTT
Found at i:45791297 original size:22 final size:22
Alignment explanation
Indices: 45791267--45791310 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
45791257 CACACAAAAA
* *
45791267 TAGGTTTTTAGCGGCGTTTTTT
1 TAGGCTTTTAGCGGCGCTTTTT
45791289 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCTTTTAGCGGCGCTTTTT
45791311 AGCGCCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.14, G:0.27, T:0.50
Consensus pattern (22 bp):
TAGGCTTTTAGCGGCGCTTTTT
Found at i:45791402 original size:43 final size:43
Alignment explanation
Indices: 45791341--45791553 Score: 322
Period size: 43 Copynumber: 5.0 Consensus size: 43
45791331 CGGCACTTAC
* *
45791341 CCCACAAACGCCGCTATAGATCATGACCTTTAGCAGCGCTTTT
1 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
**
45791384 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGTACTTTT
1 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
* * *
45791427 CCCGCAAATGCTGCTATAGATCATGACTTTTAGCGGCGCTTTT
1 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
* * *
45791470 CCCACAAACGCCGCTAAAGGTCATGACTTTTAACGGCGC-TTT
1 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
45791512 CCC-CAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
1 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
45791554 TCTATAAACT
Statistics
Matches: 151, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
41 32 0.21
42 9 0.06
43 110 0.73
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (43 bp):
CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
Found at i:45794553 original size:28 final size:28
Alignment explanation
Indices: 45794516--45794616 Score: 150
Period size: 28 Copynumber: 3.6 Consensus size: 28
45794506 TGATAATGAG
* *
45794516 ATTAA-CACTAAGTGTGCAAGTTTAATT
1 ATTAAGCACTAAGTGTGCAAGATTGATT
* * *
45794543 GTAAAGCACTAAGTGTGCGAGATTGATT
1 ATTAAGCACTAAGTGTGCAAGATTGATT
45794571 ATTAAGCACTAAGTGTGCAAGATTGATT
1 ATTAAGCACTAAGTGTGCAAGATTGATT
45794599 ATTAAGCACTAAGTGTGC
1 ATTAAGCACTAAGTGTGC
45794617 GAACTTATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 3 0.05
28 62 0.95
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (28 bp):
ATTAAGCACTAAGTGTGCAAGATTGATT
Found at i:45795393 original size:70 final size:70
Alignment explanation
Indices: 45795319--45795816 Score: 744
Period size: 70 Copynumber: 7.1 Consensus size: 70
45795309 TTTGATGCTT
* * * * * *
45795319 AAATGCTGCCCAATTCGTTGTATTTATGCTGCCTAAATTGTTGTATATATGCTATCCAATTTTGA
1 AAATGTTGCTCAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
45795384 TGTAA
66 TGTAA
* * *
45795389 AAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTTTTTTATATATGCTGTCCAATTTTGA
1 AAATGTTGCTCAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
45795454 TGTAA
66 TGTAA
* * * *
45795459 AAATGTTACTCTATTTGGTATATATATACTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
1 AAATGTTGCTCAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
45795524 TGTAA
66 TGTAA
*
45795529 AAATGTTGCTCAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAGTTTTGA
1 AAATGTTGCTCAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
45795594 TGTAA
66 TGTAA
45795599 AAATGTTGCTCAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
1 AAATGTTGCTCAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
45795664 TGTAA
66 TGTAA
* * * *
45795669 AAATGTTGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTATCCAATTTTTG
1 AAATGTTGCTCAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAA-TTTTG
*
45795734 GTGTAA
65 ATGTAA
* * * *
45795740 AAATGCTGTTCAATTTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTT
1 AAATGTTGCTCAA-TTTGTTATATATATGCTGCCTAAATTGTTGTATATATGCTGTCC-AATTTT
* *
45795805 GGTGTGA
64 GATGTAA
45795812 AAATG
1 AAATG
45795817 CTGTCTAGTT
Statistics
Matches: 393, Mismatches: 32, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
70 315 0.80
71 21 0.05
72 55 0.14
73 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (70 bp):
AAATGTTGCTCAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
TGTAA
Found at i:45795733 original size:25 final size:24
Alignment explanation
Indices: 45795321--45795805 Score: 255
Period size: 23 Copynumber: 20.7 Consensus size: 24
45795311 TGATGCTTAA
* * *
45795321 ATGCTGCCCAA-TTCGTTGTATTT
1 ATGCTGTCCAATTTTGTTGTATAT
*
45795344 ATGCTG-CCTAA-ATTGTTGTATAT
1 ATGCTGTCC-AATTTTGTTGTATAT
* * * *
45795367 ATGCTATCCAATTTTGATGTAAAA
1 ATGCTGTCCAATTTTGTTGTATAT
* * *
45795391 ATGTTG-CTCAA-TTTGGTATATAT
1 ATGCTGTC-CAATTTTGTTGTATAT
45795414 ATGCTG-CCTAAATTTT-TT-TATAT
1 ATGCTGTCC--AATTTTGTTGTATAT
* * *
45795437 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAATTTTGTTGTATAT
* * *
45795461 ATG-T-TACTCTA-TTTGGTATATAT
1 ATGCTGT-C-CAATTTTGTTGTATAT
* *
45795484 ATACTG-CCTAA-ATTGTTGTATAT
1 ATGCTGTCC-AATTTTGTTGTATAT
* * *
45795507 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAATTTTGTTGTATAT
* *
45795531 ATGTTG-CTCAA-TTTGTTATATAT
1 ATGCTGTC-CAATTTTGTTGTATAT
*
45795554 ATGCTG-CCTAA-ATTGTTGTATAT
1 ATGCTGTCC-AATTTTGTTGTATAT
* * * *
45795577 ATGCTGTCCAGTTTTGATGTAAAA
1 ATGCTGTCCAATTTTGTTGTATAT
* *
45795601 ATGTTG-CTCAA-TTTGTTATATAT
1 ATGCTGTC-CAATTTTGTTGTATAT
*
45795624 ATGCTG-CCTAA-ATTGTTGTATAT
1 ATGCTGTCC-AATTTTGTTGTATAT
* * *
45795647 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAATTTTGTTGTATAT
* * *
45795671 ATGTTG-CTCAA-TTTGGTATATAT
1 ATGCTGTC-CAATTTTGTTGTATAT
*
45795694 ATGCTGCCCAA-TTTGTTGTATAT
1 ATGCTGTCCAATTTTGTTGTATAT
* * * *
45795717 ATGCTATCCAATTTTTGGTGTAAAA
1 ATGCTGTCCAA-TTTTGTTGTATAT
*
45795742 ATGCTGTTCAATTTTGTTGTATAT
1 ATGCTGTCCAATTTTGTTGTATAT
* *
45795766 ATGCTGCCCAA-ATTGTTGTATAT
1 ATGCTGTCCAATTTTGTTGTATAT
45795789 ATGCTGTCCAAATTTTG
1 ATGCTGTCC-AATTTTG
45795806 GTGTGAAAAT
Statistics
Matches: 348, Mismatches: 83, Indels: 60
0.71 0.17 0.12
Matches are distributed among these distances:
22 13 0.04
23 205 0.59
24 106 0.30
25 24 0.07
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (24 bp):
ATGCTGTCCAATTTTGTTGTATAT
Found at i:45795871 original size:71 final size:72
Alignment explanation
Indices: 45795344--45795871 Score: 407
Period size: 70 Copynumber: 7.5 Consensus size: 72
45795334 CGTTGTATTT
* * * * * * * *
45795344 ATGCTGCCTAAATTGTTGTATATATGCTATCC-AATTTTGATGTAAAAATGTTGCTCAATTT-GG
1 ATGCTGCCCAAATTGATGTATATAGGCTGTCCAAATTTTGGTGTAAAAATGCTGTTCAATTTAGT
*
45795407 TATATAT
66 TATATAA
* ** * * * * ** * *
45795414 ATGCTGCCTAAATTTTTTTATATATGCTGTCC-AATTTTGATGTAAAAATGTTACTCTATTT-GG
1 ATGCTGCCCAAATTGATGTATATAGGCTGTCCAAATTTTGGTGTAAAAATGCTGTTCAATTTAGT
*
45795477 TATATAT
66 TATATAA
* * * * * * *
45795484 ATACTGCCTAAATTGTTGTATATATGCTGTCC-AATTTTGATGTAAAAATGTTGCTCAATTT-GT
1 ATGCTGCCCAAATTGATGTATATAGGCTGTCCAAATTTTGGTGTAAAAATGCTGTTCAATTTAGT
*
45795547 TATATAT
66 TATATAA
* * * * * * *
45795554 ATGCTGCCTAAATTGTTGTATATATGCTGTCC-AGTTTTGATGTAAAAATGTTGCTCAATTT-GT
1 ATGCTGCCCAAATTGATGTATATAGGCTGTCCAAATTTTGGTGTAAAAATGCTGTTCAATTTAGT
*
45795617 TATATAT
66 TATATAA
* * * * * * *
45795624 ATGCTGCCTAAATTGTTGTATATATGCTGTCC-AATTTTGATGTAAAAATGTTGCTCAATTT-GG
1 ATGCTGCCCAAATTGATGTATATAGGCTGTCCAAATTTTGGTGTAAAAATGCTGTTCAATTTAGT
*
45795687 TATATAT
66 TATATAA
* * * * * *
45795694 ATGCTGCCCAATTTGTTGTATATATGCTATCCAATTTTTGGTGTAAAAATGCTGTTCAATTTTGT
1 ATGCTGCCCAAATTGATGTATATAGGCTGTCCAAATTTTGGTGTAAAAATGCTGTTCAATTTAGT
* *
45795759 TGTATAT
66 TATATAA
* * * *
45795766 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTGAAAATGCTG-TCTAGTTTAG
1 ATGCTGCCCAAATTGATGTATATAGGCTGTCCAAATTTTGGTGTAAAAATGCTGTTC-AATTTAG
45795830 -TATATAA
65 TTATATAA
* * *
45795837 ATGTTGTCCAAATTGATGTATA-AGGGTTGTCCAAA
1 ATGCTGCCCAAATTGATGTATATA-GGCTGTCCAAA
45795872 CAGGGTAGAT
Statistics
Matches: 417, Mismatches: 37, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
70 295 0.71
71 60 0.14
72 62 0.15
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (72 bp):
ATGCTGCCCAAATTGATGTATATAGGCTGTCCAAATTTTGGTGTAAAAATGCTGTTCAATTTAGT
TATATAA
Found at i:45800466 original size:25 final size:25
Alignment explanation
Indices: 45800386--45800658 Score: 167
Period size: 25 Copynumber: 11.0 Consensus size: 25
45800376 ATATATTTAT
*
45800386 TTATGCAAGTTATGT-A-TTATGTAA
1 TTATGTAAGTTATGTAAGTTATGT-A
* *
45800410 GTAATGTAAGTTGTGT-A-TTATGTAA
1 -TTATGTAAGTTATGTAAGTTATGT-A
* *
45800435 GTTATGTAAGTTGTGTAAGTTCTGTA
1 -TTATGTAAGTTATGTAAGTTATGTA
* * *
45800461 TGATGTAAGTTTTGTAAGTTGTG-A
1 TTATGTAAGTTATGTAAGTTATGTA
* * * * *
45800485 ATACTGTAATTTACGTAATTTGTGTA
1 TTA-TGTAAGTTATGTAAGTTATGTA
* *
45800511 TTATGGAAGTTATGTAAGTAATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
*
45800536 TTATGTAAGTTATGT-A-TTATATAA
1 TTATGTAAGTTATGTAAGTTATGT-A
*
45800560 GTCT-TGTAACTTATGTAAGTTATGTAAA
1 -T-TATGTAAGTTATGTAAGTTATGT--A
*
45800588 TTATGTAAGTTATG-AAATT-TG-A
1 TTATGTAAGTTATGTAAGTTATGTA
*
45800610 TCT-T-TAAATTATGTAAGTTATGTA
1 T-TATGTAAGTTATGTAAGTTATGTA
* *
45800634 TTATGTAAATTATGTAAATTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
45800659 AGTTAAAATA
Statistics
Matches: 200, Mismatches: 31, Indels: 34
0.75 0.12 0.13
Matches are distributed among these distances:
21 8 0.04
22 7 0.04
23 8 0.04
24 7 0.04
25 135 0.68
26 12 0.06
27 21 0.10
28 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATGTAAGTTATGTA
Found at i:45800480 original size:34 final size:34
Alignment explanation
Indices: 45800402--45800483 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
45800392 AAGTTATGTA
** * *
45800402 TTATGTAAGTAATGTAAGTTGTGTATTATGTAAG
1 TTATGTAAGTTGTGTAAGTTCTGTATGATGTAAG
45800436 TTATGTAAGTTGTGTAAGTTCTGTATGATGTAAG
1 TTATGTAAGTTGTGTAAGTTCTGTATGATGTAAG
*
45800470 TTTTGTAAGTTGTG
1 TTATGTAAGTTGTG
45800484 AATACTGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (34 bp):
TTATGTAAGTTGTGTAAGTTCTGTATGATGTAAG
Found at i:45800548 original size:9 final size:9
Alignment explanation
Indices: 45800386--45800663 Score: 178
Period size: 9 Copynumber: 32.3 Consensus size: 9
45800376 ATATATTTAT
*
45800386 TTATGCAAG
1 TTATGTAAG
45800395 TTATGT-A-
1 TTATGTAAG
45800402 TTATGTAAG
1 TTATGTAAG
*
45800411 TAATGTAAG
1 TTATGTAAG
*
45800420 TTGTGT-A-
1 TTATGTAAG
45800427 TTATGTAAG
1 TTATGTAAG
45800436 TTATGTAAG
1 TTATGTAAG
*
45800445 TTGTGTAAG
1 TTATGTAAG
*
45800454 TTCTGT-A-
1 TTATGTAAG
*
45800461 TGATGTAAG
1 TTATGTAAG
*
45800470 TTTTGTAAG
1 TTATGTAAG
*
45800479 TTGTG-AA-
1 TTATGTAAG
*
45800486 -TACTGTAAT
1 TTA-TGTAAG
* *
45800495 TTACGTAAT
1 TTATGTAAG
*
45800504 TTGTGT-A-
1 TTATGTAAG
*
45800511 TTATGGAAG
1 TTATGTAAG
45800520 TTATGTAAG
1 TTATGTAAG
*
45800529 TAATGT-A-
1 TTATGTAAG
45800536 TTATGTAAG
1 TTATGTAAG
45800545 TTATGT-A-
1 TTATGTAAG
*
45800552 TTATATAAG
1 TTATGTAAG
*
45800561 TCT-TGTAAC
1 T-TATGTAAG
45800570 TTATGTAAG
1 TTATGTAAG
*
45800579 TTATGTAAA
1 TTATGTAAG
45800588 TTATGTAAG
1 TTATGTAAG
* *
45800597 TTATGAAAT
1 TTATGTAAG
* *
45800606 TTGATCTTTAAA
1 TT-A--TGTAAG
45800618 TTATGTAAG
1 TTATGTAAG
45800627 TTATGT-A-
1 TTATGTAAG
*
45800634 TTATGTAAA
1 TTATGTAAG
*
45800643 TTATGTAAA
1 TTATGTAAG
45800652 TTATGTAAG
1 TTATGTAAG
45800661 TTA
1 TTA
45800664 AAATATTTGA
Statistics
Matches: 211, Mismatches: 35, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
6 1 0.00
7 37 0.18
8 19 0.09
9 144 0.68
10 4 0.02
11 1 0.00
12 5 0.02
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:45800549 original size:34 final size:34
Alignment explanation
Indices: 45800511--45800718 Score: 129
Period size: 34 Copynumber: 6.3 Consensus size: 34
45800501 AATTTGTGTA
* *
45800511 TTATGGAAGTTATGTAAGTAATGTATTATGTAAG
1 TTATGGAAATTATGTAAGTTATGTATTATGTAAG
* *
45800545 TTAT-G-TATTATATAAGTCT-TGTAACTTATGTAAG
1 TTATGGAAATTATGTAAGT-TATGT-A-TTATGTAAG
* * **
45800579 TTATGTAAATTATGTAAGTTATGAAATT-TG-ATC
1 TTATGGAAATTATGTAAGTTATG-TATTATGTAAG
*
45800612 TT-T--AAATTATGTAAGTTATGTATTATGTAAA
1 TTATGGAAATTATGTAAGTTATGTATTATGTAAG
* ** *
45800643 TTATGTAAATTATGTAAGTTAAAATATT-TG-ATG
1 TTATGGAAATTATGTAAGTT-ATGTATTATGTAAG
*
45800676 TT-T-G-AATTATGTAAGTTATATAAATTATGTAAG
1 TTATGGAAATTATGTAAGTTATGT--ATTATGTAAG
45800709 TTAT-GAAATT
1 TTATGGAAATT
45800719 TTATCTTTAA
Statistics
Matches: 135, Mismatches: 20, Indels: 37
0.70 0.10 0.19
Matches are distributed among these distances:
29 6 0.04
30 32 0.24
31 6 0.04
32 17 0.13
33 12 0.09
34 37 0.27
35 12 0.09
36 13 0.10
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (34 bp):
TTATGGAAATTATGTAAGTTATGTATTATGTAAG
Found at i:45800620 original size:30 final size:29
Alignment explanation
Indices: 45800584--45800694 Score: 100
Period size: 30 Copynumber: 3.6 Consensus size: 29
45800574 GTAAGTTATG
45800584 TAAATTATGTAAGTTATGAAATTTGATCTT
1 TAAATTATGTAAGTTATGAAATTTGAT-TT
*
45800614 TAAATTATGTAAGTTATG-TATTATGTAAATTAT
1 TAAATTATGTAAGTTATGAAATT-TG---ATT-T
*
45800647 GTAAATTATGTAAGTTA-AAATATTTGATGTT
1 -TAAATTATGTAAGTTATGAA-ATTTGAT-TT
*
45800678 TGAATTATGTAAGTTAT
1 TAAATTATGTAAGTTAT
45800695 ATAAATTATG
Statistics
Matches: 67, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
29 3 0.04
30 35 0.52
31 3 0.04
32 2 0.03
33 3 0.04
34 18 0.27
35 3 0.04
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (29 bp):
TAAATTATGTAAGTTATGAAATTTGATTT
Found at i:45800649 original size:64 final size:65
Alignment explanation
Indices: 45800570--45800718 Score: 214
Period size: 64 Copynumber: 2.3 Consensus size: 65
45800560 GTCTTGTAAC
* *
45800570 TTATGTAAGTTATGTAAATTATGTAAGTTATGAA-ATTTGATCTTTAAATTATGTAAGTTATGT-
1 TTATGTAAGTTATGTAAATTATGTAAGTTA-AAATATTTGATCTTTAAATTATGTAAGTTATATA
45800633 A
65 A
* * *
45800634 TTATGTAAATTATGTAAATTATGTAAGTTAAAATATTTGATGTTTGAATTATGTAAGTTATATAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTAAAATATTTGATCTTTAAATTATGTAAGTTATAT-A
45800699 A
65 A
45800700 TTATGTAAGTTATG-AAATT
1 TTATGTAAGTTATGTAAATT
45800719 TTATCTTTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
63 2 0.03
64 55 0.72
65 5 0.07
66 14 0.18
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (65 bp):
TTATGTAAGTTATGTAAATTATGTAAGTTAAAATATTTGATCTTTAAATTATGTAAGTTATATAA
Found at i:45800732 original size:48 final size:48
Alignment explanation
Indices: 45800633--45800740 Score: 148
Period size: 48 Copynumber: 2.2 Consensus size: 48
45800623 TAAGTTATGT
* * * *
45800633 ATTATGTAAATTATGTAAATTATGTAAGTTAAAATATTTGATGTTTGA
1 ATTATGTAAGTTATATAAATTATGTAAGTTAAAATATTTGATCTTTAA
45800681 ATTATGTAAGTTATATAAATTATGTAAGTTATGAAAT-TTT-ATCTTTAA
1 ATTATGTAAGTTATATAAATTATGTAAGTTA--AAATATTTGATCTTTAA
45800729 ATTATGTAAGTT
1 ATTATGTAAGTT
45800741 GTGTATTAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
48 47 0.87
49 3 0.06
50 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (48 bp):
ATTATGTAAGTTATATAAATTATGTAAGTTAAAATATTTGATCTTTAA
Found at i:45800877 original size:30 final size:31
Alignment explanation
Indices: 45800843--45800901 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
45800833 GTATTATATT
*
45800843 TAAATTATGTAATTTATG-AAATTTGAACCG
1 TAAATTATGTAAGTTATGTAAATTTGAACCG
45800873 TAAATTATGTAAGTTATGTAAATTTGAAC
1 TAAATTATGTAAGTTATGTAAATTTGAAC
45800902 TTTAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (31 bp):
TAAATTATGTAAGTTATGTAAATTTGAACCG
Found at i:45806073 original size:45 final size:45
Alignment explanation
Indices: 45806009--45806095 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
45805999 ATAGTTTTGA
*
45806009 ACCCTGATCTATTTGGTGGCATATTATTGACAGATTGTACACCAG
1 ACCCTGATCTAGTTGGTGGCATATTATTGACAGATTGTACACCAG
*
45806054 ACCCTGATCTAGTTGGTGGCATATTGTTGACAGATTGTACAC
1 ACCCTGATCTAGTTGGTGGCATATTATTGACAGATTGTACAC
45806096 TAGAAACAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (45 bp):
ACCCTGATCTAGTTGGTGGCATATTATTGACAGATTGTACACCAG
Found at i:45808522 original size:8 final size:7
Alignment explanation
Indices: 45808471--45808631 Score: 67
Period size: 7 Copynumber: 22.1 Consensus size: 7
45808461 ATCCAATAAC
*
45808471 CCCTAGA
1 CCCTAAA
*
45808478 CCCTAAG
1 CCCTAAA
*
45808485 CCATAAA
1 CCCTAAA
45808492 CCCTAAA
1 CCCTAAA
45808499 CCCTAAA
1 CCCTAAA
**
45808506 CATTAAAA
1 CCCT-AAA
45808514 CCCTTAAA
1 CCC-TAAA
* *
45808522 CTTCTATA
1 C-CCTAAA
* *
45808530 CCATATA
1 CCCTAAA
*
45808537 CACTAAA
1 CCCTAAA
45808544 CCCTAAA
1 CCCTAAA
45808551 CCCTTAAA
1 CCC-TAAA
45808559 CCCGT-AA
1 CCC-TAAA
*
45808566 CCTTAAA
1 CCCTAAA
45808573 CCACT-AA
1 CC-CTAAA
*
45808580 CCCTTAGA
1 CCC-TAAA
45808588 CCCT-AA
1 CCCTAAA
*
45808594 GCCTATAA
1 CCCTA-AA
45808602 CCCCTAAA
1 -CCCTAAA
* *
45808610 CCTTAAG
1 CCCTAAA
* *
45808617 CCCTCAC
1 CCCTAAA
45808624 CCCTAAA
1 CCCTAAA
45808631 C
1 C
45808632 ACTCAACATG
Statistics
Matches: 112, Mismatches: 31, Indels: 22
0.68 0.19 0.13
Matches are distributed among these distances:
6 6 0.05
7 71 0.63
8 29 0.26
9 6 0.05
ACGTcount: A:0.38, C:0.38, G:0.04, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:45808572 original size:29 final size:30
Alignment explanation
Indices: 45808540--45808620 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
45808530 CCATATACAC
45808540 TAAACCCTAAACCCTTAAACCCGTAA-CCT-
1 TAAACCCTAAACCCTTAAACCC-TAAGCCTA
*
45808569 TAAACCACT-AACCCTTAGACCCTAAGCCTA
1 TAAACC-CTAAACCCTTAAACCCTAAGCCTA
* *
45808599 TAACCCCTAAA-CCTTAAGCCCT
1 TAAACCCTAAACCCTTAAACCCT
45808621 CACCCCTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 3 0.07
29 32 0.73
30 9 0.20
ACGTcount: A:0.36, C:0.38, G:0.05, T:0.21
Consensus pattern (30 bp):
TAAACCCTAAACCCTTAAACCCTAAGCCTA
Found at i:45808616 original size:22 final size:21
Alignment explanation
Indices: 45808564--45808631 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
45808554 TTAAACCCGT
* *
45808564 AACCTTAAACCACTAACCCTTA
1 AACCTTAAGCCA-TAACCCCTA
* *
45808586 GACCCTAAGCCTATAACCCCTA
1 AACCTTAAGCC-ATAACCCCTA
* *
45808608 AACCTTAAGCCCTCACCCCTA
1 AACCTTAAGCCATAACCCCTA
45808629 AAC
1 AAC
45808632 ACTCAACATG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 11 0.30
22 25 0.68
23 1 0.03
ACGTcount: A:0.35, C:0.41, G:0.04, T:0.19
Consensus pattern (21 bp):
AACCTTAAGCCATAACCCCTA
Found at i:45808690 original size:13 final size:13
Alignment explanation
Indices: 45808650--45808694 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
45808640 TGTAAATTAA
*
45808650 AAACATACACCAT
1 AAACCTACACCAT
*
45808663 AAACACTAAACCAT
1 AAAC-CTACACCAT
45808677 AAACCTACACCAT
1 AAACCTACACCAT
45808690 AAACC
1 AAACC
45808695 GTAAACACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (13 bp):
AAACCTACACCAT
Found at i:45809617 original size:166 final size:166
Alignment explanation
Indices: 45809298--45809618 Score: 416
Period size: 167 Copynumber: 1.9 Consensus size: 166
45809288 TTGATAAAAG
* * * * *
45809298 CCGCAAATCCTAGATCTTTACCGACGTTTCCATATAAACGCCGCTAGTGTCACTCTAGGTCAAAG
1 CCGCAAATACTAGATCTTTACCGACGTTTCCATATAAACGCCGCTACTGCCACTATAGATCAAAG
** * *
45809363 TTAAACGACGGCGTTCTGCTTAATTATTTACGGAGCAATAGTGGCGTTTTTATTCTAGCGCCGCT
66 TTAAACGACGGCGTTCTGCTTAATTATTTACGGAGCAATAGTGGCGTTTTTATGATAGCGCCACA
* * *
45809428 AATGTACCGATCTTTAGCGGCGTTTCTTGATAAGTA
131 AATGTACAGATATTTACCGGCGTTTCTTGATAAGTA
* * * *
45809464 CCGCAAATACTAGATCTTTACCGGCGTTTTCATATAAAC-CTGCTACTGCCACTAATATTATCAA
1 CCGCAAATACTAGATCTTTACCGACGTTTCCATATAAACGCCGCTACTGCCACT-ATA-GATCAA
* *
45809528 AGTTAAACGACGGCGTTCTGCTTAATTATTTGCGGAGCATTAGTGGCGTTTTT-TGATAAGCGCC
64 AGTTAAACGACGGCGTTCTGCTTAATTATTTACGGAGCAATAGTGGCGTTTTTATGAT-AGCGCC
45809592 ACAAAT-T-CTAGATATTTACCGGCGTTT
128 ACAAATGTAC-AGATATTTACCGGCGTTT
45809619 TCAGATAAAC
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
165 12 0.09
166 56 0.42
167 65 0.49
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (166 bp):
CCGCAAATACTAGATCTTTACCGACGTTTCCATATAAACGCCGCTACTGCCACTATAGATCAAAG
TTAAACGACGGCGTTCTGCTTAATTATTTACGGAGCAATAGTGGCGTTTTTATGATAGCGCCACA
AATGTACAGATATTTACCGGCGTTTCTTGATAAGTA
Found at i:45812314 original size:44 final size:44
Alignment explanation
Indices: 45812251--45812422 Score: 227
Period size: 44 Copynumber: 3.9 Consensus size: 44
45812241 GCTATACACC
* *
45812251 TAAAATGAGTAAGACCATAGCTGAGAGATGTTATGGTATCGGGA
1 TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCGGGA
*
45812295 TAAAATGAGTAAGACCATAGCTGAAAGATATTATGGCATCGGGA
1 TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCGGGA
* * * **
45812339 TAAAATGAGTAAGACCGTAACTGAAAGATGTTATGACATCATGA
1 TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCGGGA
* * * *
45812383 TTGAAATGAGTAAGACCATGGTTGAAAGATGTTCTGGCAT
1 -TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCAT
45812423 AATGAGAAAG
Statistics
Matches: 111, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 79 0.71
45 32 0.29
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCGGGA
Found at i:45812691 original size:27 final size:27
Alignment explanation
Indices: 45812640--45812713 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
45812630 ACATCATATT
* * *
45812640 TAGTCCAATGGGACGTTAAAAACGAGA
1 TAGTCTAACGGGACATTAAAAACGAGA
* *
45812667 TAG-CTCAAGGGGACATTAAACACGAGA
1 TAGTCT-AACGGGACATTAAAAACGAGA
*
45812694 TAGTCTAACGGGACACTAAA
1 TAGTCTAACGGGACATTAAA
45812714 GGGGTAGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 36 0.92
28 2 0.05
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (27 bp):
TAGTCTAACGGGACATTAAAAACGAGA
Found at i:45815497 original size:26 final size:27
Alignment explanation
Indices: 45815468--45815519 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
45815458 TTTGTTTTTC
*
45815468 TATTTCCCA-AAATAAACTTCTCAATG
1 TATTTCCAATAAATAAACTTCTCAATG
*
45815494 TATTTCCAATTAAATAATCTTCTCAA
1 TATTTCCAA-TAAATAAACTTCTCAA
45815520 CTCAATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
28 14 0.64
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (27 bp):
TATTTCCAATAAATAAACTTCTCAATG
Found at i:45815772 original size:57 final size:57
Alignment explanation
Indices: 45815679--45815859 Score: 236
Period size: 57 Copynumber: 3.1 Consensus size: 57
45815669 TTTTTTAGGT
* * * *
45815679 CATTTTCATTTTCGTTTTGGAGAAAACCACATTCATTTTCAAATGTTTCTACTTCTC
1 CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCTATTTCTC
* * * *
45815736 CATTATCATTTTCATTTTTGAGAAAACCATAATCATTTTCAAATGATTCCATTTCTC
1 CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCTATTTCTC
* * * *
45815793 CATTTTTATTTTCATTTTGGACAAAACCATAATTATTTCCAAATGATTTCTCATTTCTC
1 CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATG-TTTCT-ATTTCTC
45815852 CATTTTCA
1 CATTTTCA
45815860 CTATTTCTAT
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
57 88 0.84
58 3 0.03
59 14 0.13
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.46
Consensus pattern (57 bp):
CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCTATTTCTC
Found at i:45817473 original size:18 final size:18
Alignment explanation
Indices: 45817450--45817487 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45817440 TTTTTAAAAA
45817450 TATAAATATTGAAATTTT
1 TATAAATATTGAAATTTT
**
45817468 TATAAATATTTTAATTTT
1 TATAAATATTGAAATTTT
45817486 TA
1 TA
45817488 ATTTTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TATAAATATTGAAATTTT
Found at i:45818850 original size:14 final size:14
Alignment explanation
Indices: 45818831--45818858 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45818821 ATGTTTAAGG
45818831 CTTAATTAATCTAA
1 CTTAATTAATCTAA
45818845 CTTAATTAATCTAA
1 CTTAATTAATCTAA
45818859 TCATGATTTA
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:0.00, T:0.43
Consensus pattern (14 bp):
CTTAATTAATCTAA
Found at i:45821291 original size:24 final size:24
Alignment explanation
Indices: 45821259--45821308 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
45821249 GGGTAGGATA
45821259 TGTGATTGCATTTATATCAGAATT
1 TGTGATTGCATTTATATCAGAATT
* * *
45821283 TGTGTTTGCATTTGTATCTGAATT
1 TGTGATTGCATTTATATCAGAATT
45821307 TG
1 TG
45821309 ATTATGTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.50
Consensus pattern (24 bp):
TGTGATTGCATTTATATCAGAATT
Found at i:45823855 original size:30 final size:30
Alignment explanation
Indices: 45823766--45823858 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
45823756 ACTTAACAAG
* *
45823766 CAAATGTCTCTAAAATAATAACAAAATTAG
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
45823796 CAAATGCATCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
45823826 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
45823856 CAA
1 CAA
45823859 TAAAGTAAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.57, C:0.14, G:0.04, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:45823913 original size:22 final size:22
Alignment explanation
Indices: 45823888--45823934 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
45823878 TATCCAAACA
45823888 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* ** *
45823910 ATAATAGTAAAATGGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
45823932 ATA
1 ATA
45823935 TGGAGAAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:45825534 original size:22 final size:22
Alignment explanation
Indices: 45825491--45825536 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
45825481 GGAGCACCAT
* *
45825491 TAAGGGCCTAGGTATAGGTACC
1 TAAGGCCCTAGGTATAGATACC
45825513 TAAGGCCCTAGGTA-ACGATACC
1 TAAGGCCCTAGGTATA-GATACC
45825535 TA
1 TA
45825537 GTTCAGGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TAAGGCCCTAGGTATAGATACC
Found at i:45825759 original size:13 final size:13
Alignment explanation
Indices: 45825741--45825770 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
45825731 TGTAAAACTC
45825741 CTCATAAAACTTA
1 CTCATAAAACTTA
45825754 CTCATAAAACTTA
1 CTCATAAAACTTA
45825767 CTCA
1 CTCA
45825771 AAATAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (13 bp):
CTCATAAAACTTA
Found at i:45834637 original size:49 final size:48
Alignment explanation
Indices: 45834559--45834727 Score: 135
Period size: 49 Copynumber: 3.5 Consensus size: 48
45834549 CTTAGGATGA
* * *
45834559 AAACCATCGTTGTTAAGCCATCC-GTGATGGTAGAATATGCAAATAGTGG
1 AAACCATCGTTGCTAGGCCA-CCAG-GATGGTAGAATATGAAAATAGTGG
* ** *
45834608 AAACCATCGTTGCTAGGCCACCAAGGATGGTAAAACGTGAAAATAGTGA
1 AAACCATCGTTGCTAGGCCACC-AGGATGGTAGAATATGAAAATAGTGG
* * * * * *
45834657 AAACCCATCATT-TTTGAGCCATCAGGATGGTAGGATATGAAAATACTGG
1 AAA-CCATCGTTGCTAG-GCCACCAGGATGGTAGAATATGAAAATAGTGG
* * *
45834706 AAACCATTGTTTCTGGGCCACC
1 AAACCATCGTTGCTAGGCCACC
45834728 TGGGATGATA
Statistics
Matches: 93, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
48 13 0.14
49 67 0.72
50 13 0.14
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (48 bp):
AAACCATCGTTGCTAGGCCACCAGGATGGTAGAATATGAAAATAGTGG
Found at i:45834725 original size:98 final size:98
Alignment explanation
Indices: 45834556--45834741 Score: 239
Period size: 98 Copynumber: 1.9 Consensus size: 98
45834546 TGCCTTAGGA
* * * *
45834556 TGAAAACCATCGTTGTTAAGCCATCCGTGATGGTAGAATATGCAAATAGTGGAAACCATCGTTGC
1 TGAAAACCATCATTGTTAAGCCATCAGTGATGGTAGAATATGAAAATACTGGAAACCATCGTTGC
*
45834621 TAGGCCACCAAGGATGGTAAAACGTGAAAATAG
66 TAGGCCACCAAGGATGATAAAACGTGAAAATAG
* * * * *
45834654 TGAAAACCCATCATTTTTGAGCCATCAG-GATGGTAGGATATGAAAATACTGGAAACCATTGTTT
1 TGAAAA-CCATCATTGTTAAGCCATCAGTGATGGTAGAATATGAAAATACTGGAAACCATCGTTG
* **
45834718 CTGGGCCACCTGGGATGATAAAAC
65 CTAGGCCACCAAGGATGATAAAAC
45834742 ATTCAAACTC
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
98 57 0.77
99 17 0.23
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (98 bp):
TGAAAACCATCATTGTTAAGCCATCAGTGATGGTAGAATATGAAAATACTGGAAACCATCGTTGC
TAGGCCACCAAGGATGATAAAACGTGAAAATAG
Found at i:45837198 original size:36 final size:36
Alignment explanation
Indices: 45837119--45837199 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
45837109 TACAATTTGG
* * * * *
45837119 AAATTAATACAGTTCGTCATATTATTACAAATCACT
1 AAATTAACACAGTTCGCCATAATAATACAAATCACC
* *
45837155 AAATTAACACAGTTCGCCATAATAATATAATTCACC
1 AAATTAACACAGTTCGCCATAATAATACAAATCACC
*
45837191 AAGTTAACA
1 AAATTAACA
45837200 TGGTTCACAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (36 bp):
AAATTAACACAGTTCGCCATAATAATACAAATCACC
Found at i:45842069 original size:40 final size:41
Alignment explanation
Indices: 45842003--45842087 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 41
45841993 ATTAAACCCT
* *
45842003 TAAAAATCAATAATTACAACAATTTATATGAAATAAATTAA
1 TAAAAATCAACAATTACAACAATTTATATAAAATAAATTAA
* *
45842044 TAAAAATTAACAATT-CAATAATTTATATAAAATAAATTAA
1 TAAAAATCAACAATTACAACAATTTATATAAAATAAATTAA
45842084 TAAA
1 TAAA
45842088 TTAATTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 27 0.68
41 13 0.32
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (41 bp):
TAAAAATCAACAATTACAACAATTTATATAAAATAAATTAA
Found at i:45847526 original size:18 final size:18
Alignment explanation
Indices: 45847503--45847540 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
45847493 CTAAATGTTT
45847503 TTTCGTAAAATGAGTAAG
1 TTTCGTAAAATGAGTAAG
45847521 TTTCGTAAAATGAGTAAG
1 TTTCGTAAAATGAGTAAG
45847539 TT
1 TT
45847541 CTGCGCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (18 bp):
TTTCGTAAAATGAGTAAG
Found at i:45850365 original size:41 final size:41
Alignment explanation
Indices: 45850306--45850400 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
45850296 AATTGGGCTA
*
45850306 TGTAGGGTACACAAGTATGTGTGAGGCCATGTGGTAGGCCG
1 TGTAGGGCACACAAGTATGTGTGAGGCCATGTGGTAGGCCG
* *
45850347 TGTAGGGCACACATGTATGTGTGAGGCCATGTGGTAGGCTG
1 TGTAGGGCACACAAGTATGTGTGAGGCCATGTGGTAGGCCG
45850388 TGTAGGGCACACA
1 TGTAGGGCACACA
45850401 GGCGTGTGTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (41 bp):
TGTAGGGCACACAAGTATGTGTGAGGCCATGTGGTAGGCCG
Found at i:45850409 original size:41 final size:41
Alignment explanation
Indices: 45850306--45850411 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
45850296 AATTGGGCTA
* * *
45850306 TGTAGGGTACACAAGTATGTGTGAGGCCATGTGGTAGGCCG
1 TGTAGGGCACACAGGCATGTGTGAGGCCATGTGGTAGGCCG
* * *
45850347 TGTAGGGCACACATGTATGTGTGAGGCCATGTGGTAGGCTG
1 TGTAGGGCACACAGGCATGTGTGAGGCCATGTGGTAGGCCG
*
45850388 TGTAGGGCACACAGGCGTGTGTGA
1 TGTAGGGCACACAGGCATGTGTGA
45850412 TCACACGGGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.21, C:0.15, G:0.40, T:0.25
Consensus pattern (41 bp):
TGTAGGGCACACAGGCATGTGTGAGGCCATGTGGTAGGCCG
Found at i:45852524 original size:15 final size:15
Alignment explanation
Indices: 45852504--45852534 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45852494 ACTTTTTTAT
45852504 AAGCATAGAGTTGTG
1 AAGCATAGAGTTGTG
45852519 AAGCATAGAGTTGTG
1 AAGCATAGAGTTGTG
45852534 A
1 A
45852535 GTGTTACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (15 bp):
AAGCATAGAGTTGTG
Found at i:45854855 original size:31 final size:31
Alignment explanation
Indices: 45854791--45854861 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
45854781 ATACATTGCT
* *
45854791 GAATTTGATTTGTATATAGACATACATTGTC
1 GAATTTGATTCGTATATAGACATACATTATC
* * *
45854822 GAATTTGATTCGTATATGGATATATATTATC
1 GAATTTGATTCGTATATAGACATACATTATC
45854853 GAA-TTGATT
1 GAATTTGATT
45854862 TGAGCATTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 6 0.17
31 29 0.83
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (31 bp):
GAATTTGATTCGTATATAGACATACATTATC
Found at i:45855090 original size:41 final size:40
Alignment explanation
Indices: 45854984--45855106 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 40
45854974 GAGATGTGAT
*
45854984 TTCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGGA
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATCG-A-T-ATGA
**
45855027 AACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATCG-ATATGA
* * * * *
45855068 TTCGTATAAGACCCTATCTGGGATAGTGGCATCGATATG
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATG
45855107 CGTTAACATG
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 5 0.07
41 30 0.43
42 1 0.01
43 33 0.48
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (40 bp):
TTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
Found at i:45862092 original size:16 final size:15
Alignment explanation
Indices: 45862071--45862105 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45862061 TAAAATCTTG
45862071 TATATCTAGATAAAAA
1 TATATCTAGA-AAAAA
*
45862087 TATATCTATAAAAAA
1 TATATCTAGAAAAAA
45862102 TATA
1 TATA
45862106 GACAATAGAA
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:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (15 bp):
TATATCTAGAAAAAA
Found at i:45870407 original size:3 final size:3
Alignment explanation
Indices: 45870399--45870446 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
45870389 CATTAAATTC
* *
45870399 TAT TAT TAT TAT TAC TAT T-T T-T TAT TTT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45870445 TA
1 TA
45870447 GAATTCGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:45871037 original size:23 final size:24
Alignment explanation
Indices: 45870989--45871037 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
45870979 TGAAAAATAT
* *
45870989 ATTATTTTTTATCCTAGTCTATTC
1 ATTATTTTTTATCCTAGTCAAATC
45871013 ATTATTTTATT-T-CTAGTCAAATC
1 ATTATTTT-TTATCCTAGTCAAATC
45871036 AT
1 AT
45871038 ATCAGAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 11 0.50
24 9 0.41
25 2 0.09
ACGTcount: A:0.27, C:0.14, G:0.04, T:0.55
Consensus pattern (24 bp):
ATTATTTTTTATCCTAGTCAAATC
Found at i:45875538 original size:6 final size:6
Alignment explanation
Indices: 45875529--45875691 Score: 114
Period size: 6 Copynumber: 27.2 Consensus size: 6
45875519 ATTTAGGGTT
* * * * * *
45875529 ATTTCG ATTTCA ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTCG
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG
* * * * * **
45875577 ATTTCG ATTTCG ATTTTG ATTTTG ATTTTG ATTTCA ATTTTG A-AAC-
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG
** * * * *
45875623 ACTCACTG ATTTTG ATTTTG ATTTTG ATTTCA ATTTCG ATTTCG ATTTCG
1 A-TTTC-G ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG
*
45875673 ATTTCG ATTTTG ATTTCG A
1 ATTTCG ATTTCG ATTTCG A
45875692 ATTGGATTTT
Statistics
Matches: 132, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
4 1 0.01
6 129 0.98
7 1 0.01
8 1 0.01
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (6 bp):
ATTTCG
Found at i:45875549 original size:12 final size:12
Alignment explanation
Indices: 45875529--45875691 Score: 155
Period size: 12 Copynumber: 13.1 Consensus size: 12
45875519 ATTTAGGGTT
* *
45875529 ATTTCGATTTCA
1 ATTTTGATTTCG
*
45875541 ATTTTGATTTTG
1 ATTTTGATTTCG
*
45875553 ATTTTGATTTTG
1 ATTTTGATTTCG
45875565 ATTTTGATTTCG
1 ATTTTGATTTCG
*
45875577 ATTTCGATTTCG
1 ATTTTGATTTCG
*
45875589 ATTTTGATTTTG
1 ATTTTGATTTCG
*
45875601 ATTTTGATTTCA
1 ATTTTGATTTCG
**
45875613 ATTTTGAAACACTCACTG
1 ATTTTG----A-TTTC-G
*
45875631 ATTTTGATTTTG
1 ATTTTGATTTCG
*
45875643 ATTTTGATTTCA
1 ATTTTGATTTCG
*
45875655 ATTTCGATTTCG
1 ATTTTGATTTCG
*
45875667 ATTTCGATTTCG
1 ATTTTGATTTCG
45875679 ATTTTGATTTCG
1 ATTTTGATTTCG
45875691 A
1 A
45875692 ATTGGATTTT
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
12 114 0.91
13 1 0.01
14 1 0.01
16 1 0.01
17 2 0.02
18 6 0.05
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (12 bp):
ATTTTGATTTCG
Found at i:45875555 original size:18 final size:18
Alignment explanation
Indices: 45875529--45875704 Score: 154
Period size: 18 Copynumber: 9.4 Consensus size: 18
45875519 ATTTAGGGTT
* *
45875529 ATTTCGATTTCAATTTTG
1 ATTTTGATTTCGATTTTG
*
45875547 ATTTTGATTTTGATTTTG
1 ATTTTGATTTCGATTTTG
*
45875565 ATTTTGATTTCGATTTCG
1 ATTTTGATTTCGATTTTG
* *
45875583 ATTTCGATTTTGATTTTG
1 ATTTTGATTTCGATTTTG
*
45875601 ATTTTGATTTCAATTTTG
1 ATTTTGATTTCGATTTTG
** *
45875619 AAACACTCACTGATTTTGATTTTG
1 ----A-T-TTTGATTTCGATTTTG
* *
45875643 ATTTTGATTTCAATTTCG
1 ATTTTGATTTCGATTTTG
* *
45875661 ATTTCGATTTCGATTTCG
1 ATTTTGATTTCGATTTTG
* *
45875679 ATTTTGATTTCGAATTGG
1 ATTTTGATTTCGATTTTG
45875697 ATTTTGAT
1 ATTTTGAT
45875705 CTAGGGTTAT
Statistics
Matches: 127, Mismatches: 25, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
18 111 0.87
19 1 0.01
20 1 0.01
22 1 0.01
23 1 0.01
24 12 0.09
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.55
Consensus pattern (18 bp):
ATTTTGATTTCGATTTTG
Found at i:45880733 original size:5 final size:5
Alignment explanation
Indices: 45880723--45880752 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
45880713 ATAAATGAAA
45880723 AGAGG AGAGG AGAGG AGAGG AGAGG AGAGG
1 AGAGG AGAGG AGAGG AGAGG AGAGG AGAGG
45880753 GAGAAAACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
AGAGG
Found at i:45907236 original size:22 final size:22
Alignment explanation
Indices: 45907186--45907254 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
45907176 ACTTAAAATT
* *
45907186 TAAGTAAATAT-AT-ATAATAA
1 TAAGTAAATATAATAAAAAAAA
45907206 TAAAGTAAATATAATAAAAAAAA
1 T-AAGTAAATATAATAAAAAAAA
*
45907229 TAAGTAAATGA-AATAAAGAAAGA
1 TAAGTAAAT-ATAATAAA-AAAAA
45907252 TAA
1 TAA
45907255 AAGCAAAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 1 0.02
21 10 0.24
22 16 0.39
23 14 0.34
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.25
Consensus pattern (22 bp):
TAAGTAAATATAATAAAAAAAA
Found at i:45909747 original size:31 final size:31
Alignment explanation
Indices: 45909690--45909748 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
45909680 GTTATACTAG
*
45909690 TAACTAAAATAAAAACTTTTGAATAATTCAA
1 TAACTAAAATAAAAACTTTCGAATAATTCAA
* * *
45909721 TAACTTAAATAAAAAGTTTCGTATAATT
1 TAACTAAAATAAAAACTTTCGAATAATT
45909749 TAATGACCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (31 bp):
TAACTAAAATAAAAACTTTCGAATAATTCAA
Found at i:45910271 original size:20 final size:21
Alignment explanation
Indices: 45910231--45910272 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
45910221 CTATTTTTTA
45910231 TTATATTTTATAATATATTTG
1 TTATATTTTATAATATATTTG
*
45910252 TTATATTTTA-AATTTATTTG
1 TTATATTTTATAATATATTTG
45910272 T
1 T
45910273 AGAGTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
TTATATTTTATAATATATTTG
Found at i:45912280 original size:49 final size:51
Alignment explanation
Indices: 45912206--45912348 Score: 145
Period size: 50 Copynumber: 2.9 Consensus size: 51
45912196 ATATAACGTA
* * * * *
45912206 AAGCTCATGAGAG-C-TGTAATTGGGAAGCTTATGCGAGCC-AATATCAGG
1 AAGCTCGTGAGAGCCATATAATCGGGAAGCTCATGAGAGCCAAATATCAGG
*
45912254 AAGCTCCG-GAGAGCCAT-TAATCGGGAAGCTCATGAGAGCCAAATATCGGG
1 AAGCT-CGTGAGAGCCATATAATCGGGAAGCTCATGAGAGCCAAATATCAGG
* * * *
45912304 AAGCTCGTGAGAGCCATATAAT-GAGATGCTCATAAGAGCTAAATA
1 AAGCTCGTGAGAGCCATATAATCGGGAAGCTCATGAGAGCCAAATA
45912349 ACGGGATGCT
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
48 10 0.12
49 24 0.30
50 42 0.52
51 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.20
Consensus pattern (51 bp):
AAGCTCGTGAGAGCCATATAATCGGGAAGCTCATGAGAGCCAAATATCAGG
Found at i:45912316 original size:50 final size:50
Alignment explanation
Indices: 45912226--45912359 Score: 148
Period size: 50 Copynumber: 2.7 Consensus size: 50
45912216 GAGCTGTAAT
* * *
45912226 TGGGAAGCTTATGCGAGCC-AATATCAGGAAGCTCCG-GAGAGCCAT-TAA
1 TGGGAAGCTCATGAGAGCCAAATATCGGGAAGCT-CGTGAGAGCCATATAA
45912274 TCGGGAAGCTCATGAGAGCCAAATATCGGGAAGCTCGTGAGAGCCATATAA
1 T-GGGAAGCTCATGAGAGCCAAATATCGGGAAGCTCGTGAGAGCCATATAA
* * * * * *
45912325 TGAGATGCTCATAAGAGCTAAATAACGGGATGCTC
1 TGGGAAGCTCATGAGAGCCAAATATCGGGAAGCTC
45912360 TTGCGAGCTG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 1 0.01
49 18 0.25
50 50 0.68
51 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.19
Consensus pattern (50 bp):
TGGGAAGCTCATGAGAGCCAAATATCGGGAAGCTCGTGAGAGCCATATAA
Found at i:45912334 original size:25 final size:26
Alignment explanation
Indices: 45912177--45912359 Score: 123
Period size: 25 Copynumber: 7.4 Consensus size: 26
45912167 AGCATGTAAA
* **
45912177 CGGGAAGCTCTTTTGAGCCATATAA-
1 CGGGAAGCTCATGAGAGCCATATAAT
** *
45912202 CGTAAAGCTCATGAGAG-C-TGTAAT
1 CGGGAAGCTCATGAGAGCCATATAAT
* * *
45912226 TGGGAAGCTTATGCGAGCCA-AT-AT
1 CGGGAAGCTCATGAGAGCCATATAAT
* **
45912250 CAGGAAGCTCCGGAGAGCCAT-TAAT
1 CGGGAAGCTCATGAGAGCCATATAAT
*
45912275 CGGGAAGCTCATGAGAGCCAAAT-AT
1 CGGGAAGCTCATGAGAGCCATATAAT
*
45912300 CGGGAAGCTCGTGAGAGCCATATAAT
1 CGGGAAGCTCATGAGAGCCATATAAT
* * * * *
45912326 -GAGATGCTCATAAGAGCTAAATAA-
1 CGGGAAGCTCATGAGAGCCATATAAT
*
45912350 CGGGATGCTC
1 CGGGAAGCTC
45912360 TTGCGAGCTG
Statistics
Matches: 119, Mismatches: 31, Indels: 16
0.72 0.19 0.10
Matches are distributed among these distances:
23 4 0.03
24 30 0.25
25 82 0.69
26 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.21
Consensus pattern (26 bp):
CGGGAAGCTCATGAGAGCCATATAAT
Found at i:45912708 original size:21 final size:21
Alignment explanation
Indices: 45912684--45912725 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45912674 TGAATTTAGC
* *
45912684 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATACATAT
*
45912705 TCAATTCAATCCAATACATAT
1 TCAATTCAATACAATACATAT
45912726 CTTTGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTCAATACAATACATAT
Found at i:45918274 original size:25 final size:25
Alignment explanation
Indices: 45918158--45918312 Score: 126
Period size: 25 Copynumber: 6.3 Consensus size: 25
45918148 AAACTATTTC
*
45918158 GAGCCATATAAT-GGGAAGCTCATGA
1 GAGCCAT-TAATCGGAAAGCTCATGA
* * *
45918183 GAG--TTGTAATCGGGAAGCTCATGC
1 GAGCCAT-TAATCGGAAAGCTCATGA
* *
45918207 GAGCCAAT-ATCGGGAAGCTTCA-GA
1 GAGCCATTAATCGGAAAGC-TCATGA
* *
45918231 GAGCCATTAAAC-GAGAAGCTCGTGA
1 GAGCCATTAATCGGA-AAGCTCATGA
*
45918256 GAGCCATTAATCGGAAAGCTCGTGA
1 GAGCCATTAATCGGAAAGCTCATGA
*
45918281 GAGCCA-AATATCGGAAAGCTCATGA
1 GAGCCATTA-ATCGGAAAGCTCATGA
45918306 GAGCCAT
1 GAGCCAT
45918313 ATAACGAGAT
Statistics
Matches: 107, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.05
24 37 0.35
25 63 0.59
26 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (25 bp):
GAGCCATTAATCGGAAAGCTCATGA
Found at i:45918310 original size:75 final size:74
Alignment explanation
Indices: 45918158--45918326 Score: 193
Period size: 75 Copynumber: 2.3 Consensus size: 74
45918148 AAACTATTTC
* * * * * * *
45918158 GAGCCATATAATGGGAAGCTCATGAGAG--TTGTAATCGGGAAGCTCATGCGAGCCAATATCGGG
1 GAGCCATATAACGAGAAGCTCGTGAGAGCCAT-TAATCGGAAAGCTCATGAGAGCCAATATCGGA
45918221 AAGCTTCAGA
65 AAGCTTCAGA
*
45918231 GAGCCAT-TAAACGAGAAGCTCGTGAGAGCCATTAATCGGAAAGCTCGTGAGAGCCAAATATCGG
1 GAGCCATAT-AACGAGAAGCTCGTGAGAGCCATTAATCGGAAAGCTCATGAGAGCC-AATATCGG
45918295 AAAGC-TCATGA
64 AAAGCTTCA-GA
*
45918306 GAGCCATATAACGAGATGCTC
1 GAGCCATATAACGAGAAGCTC
45918327 ATAAGAGCTA
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
72 1 0.01
73 23 0.28
74 23 0.28
75 33 0.41
76 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.19
Consensus pattern (74 bp):
GAGCCATATAACGAGAAGCTCGTGAGAGCCATTAATCGGAAAGCTCATGAGAGCCAATATCGGAA
AGCTTCAGA
Found at i:45918326 original size:25 final size:24
Alignment explanation
Indices: 45918158--45918334 Score: 114
Period size: 25 Copynumber: 7.2 Consensus size: 24
45918148 AAACTATTTC
*
45918158 GAGCCATATAATGGGAAGCTCATGA
1 GAGCCATATAA-CGGAAGCTCATGA
* * *
45918183 GAG--TTGTAATCGGGAAGCTCATGC
1 GAGCCATATAA-C-GGAAGCTCATGA
*
45918207 GAGCCA-ATATCGGGAAGCTTCA-GA
1 GAGCCATATAAC-GGAAGC-TCATGA
*
45918231 GAGCCAT-TAAACGAGAAGCTCGTGA
1 GAGCCATAT-AACG-GAAGCTCATGA
*
45918256 GAGCCAT-TAATCGGAAAGCTCGTGA
1 GAGCCATATAA-CGG-AAGCTCATGA
* *
45918281 GAGCCAAATATCGGAAAGCTCATGA
1 GAGCCATATAACGG-AAGCTCATGA
* *
45918306 GAGCCATATAACGAGATGCTCATAA
1 GAGCCATATAACG-GAAGCTCATGA
45918331 GAGC
1 GAGC
45918335 TAAATAATAG
Statistics
Matches: 123, Mismatches: 17, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
23 5 0.04
24 36 0.29
25 79 0.64
26 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (24 bp):
GAGCCATATAACGGAAGCTCATGA
Found at i:45920353 original size:26 final size:27
Alignment explanation
Indices: 45920304--45920375 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
45920294 AATTTATTAG
* *
45920304 TAATAAAATTTTAATTAAGTA-TTTAA
1 TAATAATATTTTAATTGAGTATTTTAA
45920330 TAATAATATTTTAATTGA-TAATTTTTAA
1 TAATAATATTTTAATTGAGT-A-TTTTAA
*
45920358 -AATTATTATTTTAATTGA
1 TAA-TAATATTTTAATTGA
45920376 AAATAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
25 1 0.03
26 17 0.44
27 2 0.05
28 19 0.49
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
TAATAATATTTTAATTGAGTATTTTAA
Done.