Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 22 of 50
Found at i:10107393 original size:14 final size:13
Alignment explanation
Indices: 10107339--10107406 Score: 66
Period size: 14 Copynumber: 5.0 Consensus size: 13
10107329 TTGCTTATGA
10107339 AAAAATATAATAAT
1 AAAAATAT-ATAAT
*
10107353 AATAAAAATATAA-
1 AA-AAATATATAAT
* *
10107366 AAATATATAAAAT
1 AAAAATATATAAT
10107379 AAAAATAGTATAAT
1 AAAAATA-TATAAT
10107393 AAAAAATATATAAT
1 -AAAAATATATAAT
10107407 TTTTGTTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
12 7 0.16
13 8 0.18
14 17 0.39
15 12 0.27
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (13 bp):
AAAAATATATAAT
Found at i:10107569 original size:18 final size:20
Alignment explanation
Indices: 10107498--10107563 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 20
10107488 GTAAAGTATG
*
10107498 AAAAAATAATAAAAAAAAATAT
1 AAAAAATAAT--AATAAAATAT
*
10107520 AGAAAAAT-ATGAT--AATAT
1 A-AAAAATAATAATAAAATAT
10107538 AAAAAATAATAATAAAATA-
1 AAAAAATAATAATAAAATAT
10107557 AAAAAAT
1 AAAAAAT
10107564 TAAATATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
17 6 0.16
18 10 0.27
19 7 0.19
20 5 0.14
22 3 0.08
23 6 0.16
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAAATAATAATAAAATAT
Found at i:10122341 original size:18 final size:19
Alignment explanation
Indices: 10122315--10122350 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10122305 NNNNNNNNAT
10122315 AATAATATAA-AAAATAAA
1 AATAATATAATAAAATAAA
*
10122333 AATAGTATAATAAAATAA
1 AATAATATAATAAAATAA
10122351 TATAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
AATAATATAATAAAATAAA
Found at i:10122499 original size:12 final size:12
Alignment explanation
Indices: 10122450--10122512 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 12
10122440 GTAAAGTATG
*
10122450 AAAAAATAATTA
1 AAAAAATAATAA
10122462 AAAAAAT-ATAGA
1 AAAAAATAATA-A
10122474 AAAATATGATAATAA
1 AAAA-A--ATAATAA
10122489 AAAAAATAATAA
1 AAAAAATAATAA
10122501 AATAAAA-AATAA
1 AA-AAAATAATAA
10122513 TTAAATATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
11 2 0.05
12 26 0.59
13 5 0.11
14 1 0.02
15 7 0.16
16 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
AAAAAATAATAA
Found at i:10122512 original size:27 final size:26
Alignment explanation
Indices: 10122450--10122513 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
10122440 GTAAAGTATG
*
10122450 AAAAAATAATTAAAAAAATATAGAAA
1 AAAAAATAATAAAAAAAATATAGAAA
**
10122476 AATATGATAATAAAAAAAATAATA-AAA
1 AA-AAAATAATAAAAAAAAT-ATAGAAA
10122503 TAAAAAATAAT
1 -AAAAAATAAT
10122514 TAAATATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
26 2 0.07
27 23 0.77
28 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (26 bp):
AAAAAATAATAAAAAAAATATAGAAA
Found at i:10122518 original size:15 final size:15
Alignment explanation
Indices: 10122489--10122519 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10122479 ATGATAATAA
10122489 AAAAAATAATAAAAT
1 AAAAAATAATAAAAT
*
10122504 AAAAAATAATTAAAT
1 AAAAAATAATAAAAT
10122519 A
1 A
10122520 TTAATAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAATAATAAAAT
Found at i:10126751 original size:2 final size:2
Alignment explanation
Indices: 10126744--10126780 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
10126734 TTTATAGCGT
10126744 TA TA TA TA TA TA TA TA TA TA TA TA TA GTA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA T
10126781 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10128003 original size:23 final size:23
Alignment explanation
Indices: 10127977--10128053 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
10127967 GTTCAGAGTT
10127977 TGTGACACGCCATGGAGAGAATC
1 TGTGACACGCCATGGAGAGAATC
* ** * *
10128000 TGTGACATGCCA-GCGTTTAGAGTT
1 TGTGACACGCCATG-G-AGAGAATC
* *
10128024 TGTGACACGCCATGAAGGGAATC
1 TGTGACACGCCATGGAGAGAATC
10128047 TGTGACA
1 TGTGACA
10128054 TGGCAGGGTT
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 1 0.03
23 22 0.56
24 15 0.38
25 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (23 bp):
TGTGACACGCCATGGAGAGAATC
Found at i:10128084 original size:47 final size:47
Alignment explanation
Indices: 10127966--10128073 Score: 171
Period size: 47 Copynumber: 2.3 Consensus size: 47
10127956 NNNACCCCAA
*
10127966 CGTTCAGAGTTTGTGACACGCCATGGAGAGAATCTGTGACATGCCAG
1 CGTTCAGAGTTTGTGACACGCCATGAAGAGAATCTGTGACATGCCAG
* * *
10128013 CGTTTAGAGTTTGTGACACGCCATGAAGGGAATCTGTGACATGGCAG
1 CGTTCAGAGTTTGTGACACGCCATGAAGAGAATCTGTGACATGCCAG
*
10128060 GGTTCAGAGTTTGT
1 CGTTCAGAGTTTGT
10128074 CAGACTCCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (47 bp):
CGTTCAGAGTTTGTGACACGCCATGAAGAGAATCTGTGACATGCCAG
Found at i:10128792 original size:31 final size:31
Alignment explanation
Indices: 10128754--10129019 Score: 327
Period size: 31 Copynumber: 8.5 Consensus size: 31
10128744 GTGTCAGCGT
* * *
10128754 TGGCGTGTTCCAACATTTGAC-TTGATACGCA
1 TGGCGTGTTACAACATTTTACATT-ATATGCA
*
10128785 TGGCGTGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACATTATATGCA
* * *
10128816 TAGCGTGTTATAACATTTTACATCATATGCA
1 TGGCGTGTTACAACATTTTACATTATATGCA
*
10128847 TGGCGTGTTACCACATTTTACATTATATGCA
1 TGGCGTGTTACAACATTTTACATTATATGCA
* *
10128878 TGGCATGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACATTATATGCA
* * *
10128909 TGGTGTGCTACCACATTTTACATTTATATGCA
1 TGGCGTGTTACAACATTTTACA-TTATATGCA
*
10128941 TGGCGTGTTACAATATTTTACATTATATGCA
1 TGGCGTGTTACAACATTTTACATTATATGCA
* * **
10128972 TGGCATGTTACCACATTTTATGTTATATGCA
1 TGGCGTGTTACAACATTTTACATTATATGCA
* *
10129003 TGACGTGTTACCACATT
1 TGGCGTGTTACAACATT
10129020 ATAGGTTAAC
Statistics
Matches: 203, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
31 174 0.86
32 29 0.14
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (31 bp):
TGGCGTGTTACAACATTTTACATTATATGCA
Found at i:10128974 original size:94 final size:93
Alignment explanation
Indices: 10128754--10129019 Score: 372
Period size: 94 Copynumber: 2.8 Consensus size: 93
10128744 GTGTCAGCGT
* * * * *
10128754 TGGCGTGTTCCAACATTTGAC-TTGATACGCATGGCGTGTTACAACATTTTACGTTATATGCATA
1 TGGCGTGTTACAACATTTTACATT-ATATGCATGGCATGTTACAACATTTTACGTTATATGCATG
**
10128818 GCGTGTTATAACATTTTACATCATATGCA
65 GCGTGTTACCACATTTTACATCATATGCA
*
10128847 TGGCGTGTTACCACATTTTACATTATATGCATGGCATGTTACAACATTTTACGTTATATGCATGG
1 TGGCGTGTTACAACATTTTACATTATATGCATGGCATGTTACAACATTTTACGTTATATGCATGG
* * *
10128912 TGTGCTACCACATTTTACATTTATATGCA
66 CGTGTTACCACATTTTACA-TCATATGCA
* * * *
10128941 TGGCGTGTTACAATATTTTACATTATATGCATGGCATGTTACCACATTTTATGTTATATGCATGA
1 TGGCGTGTTACAACATTTTACATTATATGCATGGCATGTTACAACATTTTACGTTATATGCATGG
10129006 CGTGTTACCACATT
66 CGTGTTACCACATT
10129020 ATAGGTTAAC
Statistics
Matches: 153, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
93 71 0.46
94 82 0.54
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (93 bp):
TGGCGTGTTACAACATTTTACATTATATGCATGGCATGTTACAACATTTTACGTTATATGCATGG
CGTGTTACCACATTTTACATCATATGCA
Found at i:10130691 original size:145 final size:146
Alignment explanation
Indices: 10130427--10130745 Score: 369
Period size: 145 Copynumber: 2.2 Consensus size: 146
10130417 GGTAAGGACA
* * *
10130427 GTTCTAACGA-TTTGTGTTCAACAATTTCATATGTGATTATCAAAAAACATATTTGTGTTTGCAA
1 GTTCTAACGAGTTTGTGTTCAACAATTCCATATGTGATTATCAAAAAACATATCTGTATTTGCAA
* * * * * * *
10130491 TTGGACCATTCGAAGACAACTCTACAACTACCGAGAGGTCCTCTTCAGACTCACAGTGCTAATGA
66 TTGGACCATGCGAAGACAACTCTACAACCACCGAGAGGTCATCCTCAAACGCACAGTGCTAACGA
* *
10130556 CGAATCGGTAAGAACG
131 CCAATCGATAAGAACG
* *
10130572 GTTAC-AAC-AGTTTGTGTTCAACAATTCCATATGTGATTATCGAATAACATATCTGTATTTGCA
1 GTT-CTAACGAGTTTGTGTTCAACAATTCCATATGTGATTATCAAAAAACATATCTGTATTTGCA
* * * * **
10130635 GTTGGACCATGCGACGATAGCTCCT-CAACCATTGAGAGGTCATCCTCAAACGCACAGTGCTAAC
65 ATTGGACCATGCGAAGACAACT-CTACAACCACCGAGAGGTCATCCTCAAACGCACAGTGCTAAC
* *
10130699 GACCCATCGATAAGATCG
129 GACCAATCGATAAGAACG
* *
10130717 GTTCTAACGATTTTG-GTTCAACATTTCCA
1 GTTCTAACGAGTTTGTGTTCAACAATTCCA
10130746 CATATGTTTA
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
144 2 0.01
145 135 0.93
146 8 0.06
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (146 bp):
GTTCTAACGAGTTTGTGTTCAACAATTCCATATGTGATTATCAAAAAACATATCTGTATTTGCAA
TTGGACCATGCGAAGACAACTCTACAACCACCGAGAGGTCATCCTCAAACGCACAGTGCTAACGA
CCAATCGATAAGAACG
Found at i:10133113 original size:118 final size:118
Alignment explanation
Indices: 10132867--10133113 Score: 329
Period size: 118 Copynumber: 2.1 Consensus size: 118
10132857 CTGGAACAAG
* * * *
10132867 TCAGCATGTCACGCCAAGTATTTGGTTCCACTCAGCGTGTCACGACAAGATGGGGCGTATGGTGT
1 TCAGCATGTCACGCCAACTATCTGGTTCCACTCAGCGTGTCACCACAAGATGGAGCGTATGGTGT
* * *
10132932 CACCCCACAATACTGTAAGAAGTCAGCATGTCACCACAGAAATCTGCATGCAC
66 CACCCCACAATAATGCAAGAAGTCAGCATATCACCACAGAAATCTGCATGCAC
*** *
10132985 TCAATGTGTCACGCCAACTATCTGGTTCCACTCAAG-GTGTCACCACAAGAT-GAG-GTCTGCCG
1 TCAGCATGTCACGCCAACTATCTGGTTCCACTC-AGCGTGTCACCACAAGATGGAGCGTATG--G
* *
10133047 TGTCACCCCAGAATAATGCAAGAAGTCAGCATATCACCACAGAAATCTGTATGCAC
63 TGTCACCCCACAATAATGCAAGAAGTCAGCATATCACCACAGAAATCTGCATGCAC
10133103 TCAGCATGTCA
1 TCAGCATGTCA
10133114 GCTTAGCATA
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
116 4 0.04
117 2 0.02
118 102 0.93
119 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (118 bp):
TCAGCATGTCACGCCAACTATCTGGTTCCACTCAGCGTGTCACCACAAGATGGAGCGTATGGTGT
CACCCCACAATAATGCAAGAAGTCAGCATATCACCACAGAAATCTGCATGCAC
Found at i:10137039 original size:31 final size:31
Alignment explanation
Indices: 10137001--10137091 Score: 130
Period size: 31 Copynumber: 2.9 Consensus size: 31
10136991 GCCCGTGACA
* *
10137001 CATATAACATAAAATGTTGTAACACGCCATG
1 CATATAACGTAAAATGTTGTAACATGCCATG
10137032 CATATAACGTAAAATGTTGTAACATGCCATG
1 CATATAACGTAAAATGTTGTAACATGCCATG
* *
10137063 CGTATCAA-GTCAAATGTTGTAACATGCCA
1 CATAT-AACGTAAAATGTTGTAACATGCCA
10137092 ACGCTGACAC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 53 0.96
32 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (31 bp):
CATATAACGTAAAATGTTGTAACATGCCATG
Found at i:10138234 original size:72 final size:72
Alignment explanation
Indices: 10138152--10138295 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
10138142 AATATATGTG
*
10138152 AATATCCATTGTATTTCATAATATCTAATGTATCTCCCCATATTTAATGTACATATTTATATAGA
1 AATATCCATTGTATTTCATAATATCTAATGTATCTCCCCATATCTAATGTACATATTTATATAGA
10138217 TTTCATA
66 TTTCATA
*
10138224 AATATCCATTGTATTTCATAATATCTAATGTATCTCCCCATATCTAATGTACATATTTATGTAGA
1 AATATCCATTGTATTTCATAATATCTAATGTATCTCCCCATATCTAATGTACATATTTATATAGA
10138289 TTTCATA
66 TTTCATA
10138296 GCATAGCACA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (72 bp):
AATATCCATTGTATTTCATAATATCTAATGTATCTCCCCATATCTAATGTACATATTTATATAGA
TTTCATA
Found at i:10138255 original size:19 final size:20
Alignment explanation
Indices: 10138216--10138256 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
10138206 ATTTATATAG
*
10138216 ATTTCATAAATATCCATTGT
1 ATTTCATAAATATCCAATGT
*
10138236 ATTTCAT-AATATCTAATGT
1 ATTTCATAAATATCCAATGT
10138255 AT
1 AT
10138257 CTCCCCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (20 bp):
ATTTCATAAATATCCAATGT
Found at i:10154424 original size:33 final size:33
Alignment explanation
Indices: 10154382--10154452 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
10154372 ATAGTTGGCT
*
10154382 ATCACATTTATGACCTCCTCCTTGTGGAATTGC
1 ATCACATTTATGACCACCTCCTTGTGGAATTGC
* * *
10154415 ATCACATTTATGACCACCTTCTTGTGGCATTGG
1 ATCACATTTATGACCACCTCCTTGTGGAATTGC
10154448 ATCAC
1 ATCAC
10154453 TTATCTCTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (33 bp):
ATCACATTTATGACCACCTCCTTGTGGAATTGC
Found at i:10167201 original size:21 final size:22
Alignment explanation
Indices: 10167161--10167202 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10167151 TTTTAACTTT
*
10167161 TTAATTAATCTGCTAGTAATAA
1 TTAATTAATCTGCTACTAATAA
*
10167183 TTAATTACT-TGCTACTAATA
1 TTAATTAATCTGCTACTAATA
10167203 CTAAACTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (22 bp):
TTAATTAATCTGCTACTAATAA
Found at i:10168981 original size:23 final size:21
Alignment explanation
Indices: 10168955--10169020 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 21
10168945 ACTTCAAAAA
10168955 ATTATAAGTTTTAAAAATTACAT
1 ATTATAA-TTTTAAAAATTA-AT
* *
10168978 ATTATATATTATAAAAAATAAT
1 ATTATA-ATTTTAAAAATTAAT
10169000 ATT-TGAATTTTAAAAATTAAT
1 ATTAT-AATTTTAAAAATTAAT
10169021 TAAAATTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 14 0.38
22 6 0.16
23 16 0.43
24 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTATAATTTTAAAAATTAAT
Found at i:10169255 original size:155 final size:155
Alignment explanation
Indices: 10168978--10169257 Score: 361
Period size: 155 Copynumber: 1.8 Consensus size: 155
10168968 AAAATTACAT
*
10168978 ATTATATATTATAAAAAATAATATTTGAATTTTAAAAATTAATTAAAATTATTAATATTTGAACC
1 ATTATATATTATAAAAAATAACATTTGAATTTTAAAAATTAATTAAAATTATTAATATTTGAACC
* ** * *
10169043 ATAATAATGTTTAAATTATAAATAAAATATTAATATTTAAATTATCAATTATTAATATTATTATA
66 ATAATAATATAAAAATTATAAATAAAATATTAATATTTAAATTATCAAATATAAATATTATTATA
10169108 AAAAAGAAAAAAGTTTAAATGATCA
131 AAAAAGAAAAAAGTTTAAATGATCA
* * * * *
10169133 ATTATATATTATGAAAAATAACATTTTAATTTTAAAAATTAATTAAAATTATTTATATTTTAATC
1 ATTATATATTATAAAAAATAACATTTGAATTTTAAAAATTAATTAAAATTATTAATATTTGAACC
** * *
10169198 ATAATAA-ATAAAATATTAATATTTTCAAATGTTAATGA-TTAAATTAT-AAATA-AAATATTA
66 ATAATAATATAAAA-ATT-ATA-AATAAAATATTAAT-ATTTAAATTATCAAATATAAATATTA
10169258 ATATTTAAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
154 3 0.03
155 76 0.72
156 7 0.07
157 19 0.18
158 1 0.01
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (155 bp):
ATTATATATTATAAAAAATAACATTTGAATTTTAAAAATTAATTAAAATTATTAATATTTGAACC
ATAATAATATAAAAATTATAAATAAAATATTAATATTTAAATTATCAAATATAAATATTATTATA
AAAAAGAAAAAAGTTTAAATGATCA
Found at i:10169286 original size:42 final size:43
Alignment explanation
Indices: 10169192--10169286 Score: 124
Period size: 42 Copynumber: 2.2 Consensus size: 43
10169182 TATTTATATT
* *
10169192 TTAATCATAATAAATAAAATATTAATATTTTCAAATGTTAATGA
1 TTAAT-ATTATAAATAAAATATTAATATTTTCAAATATTAATGA
*
10169236 TTAA-ATTATAAATAAAATATTAATA-TTT-AAATAATTAATTA
1 TTAATATTATAAATAAAATATTAATATTTTCAAAT-ATTAATGA
10169277 TTAATATTAT
1 TTAATATTAT
10169287 TATGAAAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
40 4 0.09
41 13 0.28
42 25 0.54
44 4 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (43 bp):
TTAATATTATAAATAAAATATTAATATTTTCAAATATTAATGA
Found at i:10169549 original size:30 final size:29
Alignment explanation
Indices: 10169515--10169583 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
10169505 TAAATTATCA
* *
10169515 ATTAAATATTACTATTTGAAAATATTAATT
1 ATTAAATATTAATATTT-AAAATATAAATT
**
10169545 ATTAAAATATTAATATTTAAGTTATAAATT
1 ATT-AAATATTAATATTTAAAATATAAATT
10169575 A-TAAATATT
1 ATTAAATATT
10169584 TTAAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 7 0.21
29 1 0.03
30 13 0.38
31 13 0.38
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (29 bp):
ATTAAATATTAATATTTAAAATATAAATT
Found at i:10169564 original size:15 final size:15
Alignment explanation
Indices: 10169518--10169564 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
10169508 ATTATCAATT
*
10169518 AAATATTACTATTTGA
1 AAATATTAATATTT-A
10169534 AAATATTAAT-TATTA
1 AAATATTAATAT-TTA
10169549 AAATATTAATATTTA
1 AAATATTAATATTTA
10169564 A
1 A
10169565 GTTATAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (15 bp):
AAATATTAATATTTA
Found at i:10169572 original size:22 final size:22
Alignment explanation
Indices: 10169534--10169584 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
10169524 TACTATTTGA
10169534 AAATA-TTAATTATTAAAATAT
1 AAATATTTAATTATTAAAATAT
* *
10169555 TAATATTTAAGTTA-TAAATTAT
1 AAATATTTAA-TTATTAAAATAT
10169577 AAATATTT
1 AAATATTT
10169585 TAAATAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 4 0.16
22 18 0.72
23 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
AAATATTTAATTATTAAAATAT
Found at i:10169606 original size:16 final size:16
Alignment explanation
Indices: 10169587--10169620 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10169577 AAATATTTTA
10169587 AATAATT-AATTATAAT
1 AATAATTAAATT-TAAT
10169603 AATAATTAAATTTAAT
1 AATAATTAAATTTAAT
10169619 AA
1 AA
10169621 ATTATTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATAATTAAATTTAAT
Found at i:10169618 original size:26 final size:25
Alignment explanation
Indices: 10169588--10169665 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 25
10169578 AATATTTTAA
10169588 ATAATTAATTATAATAATAATTAAATT
1 ATAATTAATTAT-ATAAT-ATTAAATT
*
10169615 -TAATAAATTAT-TAATGATTAAATT
1 ATAATTAATTATATAAT-ATTAAATT
* *
10169639 ATAAATAA-AATATTAATATTAAATT
1 ATAATTAATTATA-TAATATTAAATT
10169664 AT
1 AT
10169666 TAATATTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
24 14 0.33
25 15 0.35
26 14 0.33
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (25 bp):
ATAATTAATTATATAATATTAAATT
Found at i:10169661 original size:14 final size:14
Alignment explanation
Indices: 10169618--10169672 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
10169608 TTAAATTTAA
10169618 TAAATTATTAATGAT
1 TAAATTATTAAT-AT
10169633 TAAATTA-TAA-A-
1 TAAATTATTAATAT
*
10169644 TAAAATATTAATAT
1 TAAATTATTAATAT
10169658 TAAATTATTAATAT
1 TAAATTATTAATAT
10169672 T
1 T
10169673 TTAATTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
11 6 0.17
12 4 0.11
13 1 0.03
14 17 0.49
15 7 0.20
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
TAAATTATTAATAT
Found at i:10169665 original size:25 final size:25
Alignment explanation
Indices: 10169602--10169670 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
10169592 TTAATTATAA
*
10169602 TAATAATTAAATT-TAATAAATTAT
1 TAATAATTAAATTATAATAAAATAT
*
10169626 TAATGATTAAATTATAAATAAAATAT
1 TAATAATTAAATTAT-AATAAAATAT
10169652 TAAT-ATTAAATTATTAATA
1 TAATAATTAAATTA-TAATA
10169671 TTTTAATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.30
25 14 0.35
26 14 0.35
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (25 bp):
TAATAATTAAATTATAATAAAATAT
Found at i:10169710 original size:24 final size:26
Alignment explanation
Indices: 10169661--10169710 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
10169651 TTAATATTAA
*
10169661 ATTATTAATATTTTAATTAAATTCTAG
1 ATTATTAATATTTTAA-TAAAATCTAG
10169688 ATTATTAATA-TTTAA-AAAATCTA
1 ATTATTAATATTTTAATAAAATCTA
10169711 CTAAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
26 5 0.23
27 10 0.45
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTATTAATATTTTAATAAAATCTAG
Found at i:10174044 original size:14 final size:14
Alignment explanation
Indices: 10174025--10174051 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10174015 CTTATATTTG
10174025 TTTTTGTTTTTGTT
1 TTTTTGTTTTTGTT
10174039 TTTTTGTTTTTGT
1 TTTTTGTTTTTGT
10174052 GATTAGGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTTGTTTTTGTT
Found at i:10215932 original size:22 final size:22
Alignment explanation
Indices: 10215907--10215984 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
10215897 ATTATTTATT
10215907 TTTAAATATTAATAATTAATAA
1 TTTAAATATTAATAATTAATAA
*
10215929 TTTAAATATTAATACTT--T-A
1 TTTAAATATTAATAATTAATAA
* *
10215948 TTTATAAT-TTAATCATTAATAT
1 TTTA-AATATTAATAATTAATAA
*
10215970 TTTAAAATACTAATA
1 TTT-AAATATTAATA
10215985 TTTTATTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
19 12 0.27
20 4 0.09
21 1 0.02
22 22 0.50
23 5 0.11
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTAAATATTAATAATTAATAA
Found at i:10215959 original size:26 final size:25
Alignment explanation
Indices: 10215898--10215971 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 25
10215888 TTATATATGA
*
10215898 TTATTTAT-TTTTAAATATTAATA-
1 TTATTTATAATTTAAATATTAATAT
*
10215921 --ATTAATAATTTAAATATTAATACT
1 TTATTTATAATTTAAATATTAATA-T
10215945 TTATTTATAATTT-AATCATTAATAT
1 TTATTTATAATTTAAAT-ATTAATAT
10215970 TT
1 TT
10215972 TAAAATACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
21 5 0.12
22 14 0.33
25 6 0.14
26 17 0.40
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (25 bp):
TTATTTATAATTTAAATATTAATAT
Found at i:10216030 original size:42 final size:42
Alignment explanation
Indices: 10215901--10216031 Score: 133
Period size: 42 Copynumber: 3.1 Consensus size: 42
10215891 TATATGATTA
* * * *
10215901 TTTATTTTTAAATATTAATAATTAATA-ATTTAAATATTAATAC
1 TTTATTTAT-AAT-TTAATCATTAATATATTAAAATATTAATAT
* *
10215944 TTTATTTATAATTTAATCATTAATATTTTAAAATACTAATAT
1 TTTATTTATAATTTAATCATTAATATATTAAAATATTAATAT
* *
10215986 TTTATTTATAATTT-GT-ATTATTATGATTAAAATATTAATAAT
1 TTTATTTATAATTTAATCATTAATAT-ATTAAAATATTAAT-AT
10216028 TTTA
1 TTTA
10216032 ATTAATTCCT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
40 7 0.09
41 25 0.33
42 35 0.47
43 8 0.11
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (42 bp):
TTTATTTATAATTTAATCATTAATATATTAAAATATTAATAT
Found at i:10216430 original size:23 final size:23
Alignment explanation
Indices: 10216389--10216432 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10216379 TAACATACTA
*
10216389 ATAATTTTAAATATTAATTTTTT
1 ATAATTTTAAATATAAATTTTTT
10216412 ATAATTTATAAATA-AAATTTT
1 ATAATTT-TAAATATAAATTTT
10216433 AATTTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATAATTTTAAATATAAATTTTTT
Found at i:10222530 original size:42 final size:42
Alignment explanation
Indices: 10222471--10222593 Score: 210
Period size: 42 Copynumber: 2.9 Consensus size: 42
10222461 GTTGATTTGA
10222471 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
10222513 ACCCGACTATGTGCGAGTAGGAGTGCATATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
10222555 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
10222594 TTGCCCCCAT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:10222864 original size:26 final size:26
Alignment explanation
Indices: 10222828--10222889 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
10222818 TTGCATATGA
10222828 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10222854 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10222880 GTTGATGATG
1 GATGATGATG
10222890 GGTATATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:10231586 original size:20 final size:20
Alignment explanation
Indices: 10231563--10231603 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
10231553 ATCGAATCTC
*
10231563 ATTTCATTTCATATAAATCA
1 ATTTCATTTCATAAAAATCA
10231583 ATTTCATTTCATAAAAATCA
1 ATTTCATTTCATAAAAATCA
10231603 A
1 A
10231604 CAAGACTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTCATTTCATAAAAATCA
Found at i:10234173 original size:36 final size:36
Alignment explanation
Indices: 10234128--10234250 Score: 120
Period size: 36 Copynumber: 3.4 Consensus size: 36
10234118 ATACGATAAT
* * * * *
10234128 TAAAACCCAAATATGGGGGAAAAAATGCCACATGAA
1 TAAAGCCCAAATGTGGGGGAAAGAATACCACAAGAA
** *
10234164 TAAAGCCCAAATGTGAAGGTAAGAATACCACAAGAA
1 TAAAGCCCAAATGTGGGGGAAAGAATACCACAAGAA
* * * *
10234200 TAAGGCCCAAACGTAGGGGAAAGAATACCACACGAA
1 TAAAGCCCAAATGTGGGGGAAAGAATACCACAAGAA
* *
10234236 TAAGGCCCAGATGTG
1 TAAAGCCCAAATGTG
10234251 AAGGTAAAAT
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.13
Consensus pattern (36 bp):
TAAAGCCCAAATGTGGGGGAAAGAATACCACAAGAA
Found at i:10236078 original size:73 final size:74
Alignment explanation
Indices: 10235959--10236108 Score: 187
Period size: 73 Copynumber: 2.0 Consensus size: 74
10235949 ATGCTATTAA
* * * ** *
10235959 TTCTCAACTATTTTTTCTATTTCTAATCAATTAATGGTAATATGTATTTAATCATTTCCAAC-AG
1 TTCTCAACTATTTCTTCTATTTCCAATCAACTAACCGTAAGATGTATTTAATCATTTCCAACAAG
*
10236023 TTATTTTTT
66 TTATTTTAT
* *
10236032 TTCTC-ACTTATTTCTTCTATTTCCAATCAACTAACCTTAAGATGTATTTAATGATTTCCAACAA
1 TTCTCAAC-TATTTCTTCTATTTCCAATCAACTAACCGTAAGATGTATTTAATCATTTCCAACAA
*
10236096 TTTATTTTAT
65 GTTATTTTAT
10236106 TTC
1 TTC
10236109 CAATATATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
72 2 0.03
73 51 0.78
74 12 0.18
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.50
Consensus pattern (74 bp):
TTCTCAACTATTTCTTCTATTTCCAATCAACTAACCGTAAGATGTATTTAATCATTTCCAACAAG
TTATTTTAT
Found at i:10240813 original size:21 final size:22
Alignment explanation
Indices: 10240759--10240837 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
10240749 TAATCATCGT
*
10240759 GTGACTAGTTTTTAGTCATTAC
1 GTGACTAGTTTTTAGACATTAC
* * * *
10240781 ATGA-TTGGTTTTAGGCATTAC
1 GTGACTAGTTTTTAGACATTAC
* * *
10240802 GTGACTATTTTTTATACATTGC
1 GTGACTAGTTTTTAGACATTAC
10240824 GTGACT-GATTTTTA
1 GTGACTAG-TTTTTA
10240838 AGCAATGCGT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 17 0.40
22 26 0.60
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (22 bp):
GTGACTAGTTTTTAGACATTAC
Found at i:10240919 original size:26 final size:25
Alignment explanation
Indices: 10240856--10241052 Score: 175
Period size: 26 Copynumber: 8.2 Consensus size: 25
10240846 GTAAAGCACA
* *
10240856 CAATGCCTTA-C-TAACAAGTCACG
1 CAATGCCTTATCAAAACTAGTCACG
*
10240879 CAATGCC-TATC--AACTAGTCATG
1 CAATGCCTTATCAAAACTAGTCACG
10240901 CAATGCCTTATCAGAAACTAGTCACG
1 CAATGCCTTATCA-AAACTAGTCACG
* *
10240927 TAATGCCTTATCAAAAACTAGTCACA
1 CAATGCCTTATC-AAAACTAGTCACG
* **
10240953 TAATGCC----CAAAGTTAGTCACG
1 CAATGCCTTATCAAAACTAGTCACG
*
10240974 GAATG-CTTATC--AACTAGTCACG
1 CAATGCCTTATCAAAACTAGTCACG
* *
10240996 CAATGCCTTATTAGAAACTAGTCATG
1 CAATGCCTTATCA-AAACTAGTCACG
10241022 CAATGCCTTATCAAAAACTAGTCACG
1 CAATGCCTTATC-AAAACTAGTCACG
10241048 CAATG
1 CAATG
10241053 TCCAAAGTCA
Statistics
Matches: 143, Mismatches: 16, Indels: 27
0.77 0.09 0.15
Matches are distributed among these distances:
20 1 0.01
21 14 0.10
22 32 0.22
23 17 0.12
24 1 0.01
26 76 0.53
27 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (25 bp):
CAATGCCTTATCAAAACTAGTCACG
Found at i:10240979 original size:47 final size:47
Alignment explanation
Indices: 10240919--10241119 Score: 178
Period size: 47 Copynumber: 4.3 Consensus size: 47
10240909 TATCAGAAAC
* **
10240919 TAGTCACGTAATGCCTTATCAAAAACTAGTCACATAATGCCCAAAGT
1 TAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCCAAAGT
* * **
10240966 TAGTCACGGAATG-CTTATC---AACTAGTCACGCAATGCCTTATTAGAAAC
1 TAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCC----CA-AAGT
* *
10241014 TAGTCATGCAATGCCTTATCAAAAACTAGTCACGCAATGTCCAAAGT
1 TAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCCAAAGT
* * * *
10241061 CAGTCACGCAATGCTTTA-CAAAAACTCAGTCACGTAATGTCCAAAGT
1 TAGTCACGCAATGCCTTATCAAAAACT-AGTCACGCAATGCCCAAAGT
* *
10241108 CAGTCACACAAT
1 TAGTCACGCAAT
10241120 ATCCAAAGTC
Statistics
Matches: 127, Mismatches: 17, Indels: 20
0.77 0.10 0.12
Matches are distributed among these distances:
43 16 0.13
46 14 0.11
47 60 0.47
48 14 0.11
49 6 0.05
52 17 0.13
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (47 bp):
TAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCCAAAGT
Found at i:10241035 original size:95 final size:95
Alignment explanation
Indices: 10240872--10241076 Score: 320
Period size: 95 Copynumber: 2.2 Consensus size: 95
10240862 CTTACTAACA
* * *
10240872 AGTCACGCAATGCCTATCAACTAGTCATGCAATGCCTTATCAGAAACTAGTCACGTAATGCCTTA
1 AGTCACGCAATGCTTATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTA
* *
10240937 TCAAAAACTAGTCACATAATGCCCAAAGTT
66 TCAAAAACTAGTCACACAATGCCCAAAGTC
* * *
10240967 AGTCACGGAATGCTTATCAACTAGTCACGCAATGCCTTATTAGAAACTAGTCATGCAATGCCTTA
1 AGTCACGCAATGCTTATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTA
* *
10241032 TCAAAAACTAGTCACGCAATGTCCAAAGTC
66 TCAAAAACTAGTCACACAATGCCCAAAGTC
10241062 AGTCACGCAATGCTT
1 AGTCACGCAATGCTT
10241077 TACAAAAACT
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 99 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (95 bp):
AGTCACGCAATGCTTATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTA
TCAAAAACTAGTCACACAATGCCCAAAGTC
Found at i:10241065 original size:21 final size:21
Alignment explanation
Indices: 10241041--10241134 Score: 98
Period size: 21 Copynumber: 4.2 Consensus size: 21
10241031 ATCAAAAACT
10241041 AGTCACGCAATGTCCAAAGTC
1 AGTCACGCAATGTCCAAAGTC
* *
10241062 AGTCACGCAATGCTTTACAAAAACTC
1 AGTCACGCAATG---T-C-CAAAGTC
*
10241088 AGTCACGTAATGTCCAAAGTC
1 AGTCACGCAATGTCCAAAGTC
* *
10241109 AGTCACACAATATCCAAAGTC
1 AGTCACGCAATGTCCAAAGTC
10241130 AGTCA
1 AGTCA
10241135 TGTAATACCT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
21 40 0.67
22 1 0.02
23 1 0.02
24 1 0.02
25 1 0.02
26 16 0.27
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (21 bp):
AGTCACGCAATGTCCAAAGTC
Found at i:10241141 original size:21 final size:21
Alignment explanation
Indices: 10241086--10241141 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
10241076 TTACAAAAAC
*
10241086 TCAGTCACGTAATGTCCAAAG
1 TCAGTCACGTAATATCCAAAG
**
10241107 TCAGTCACACAATATCCAAAG
1 TCAGTCACGTAATATCCAAAG
*
10241128 TCAGTCATGTAATA
1 TCAGTCACGTAATA
10241142 CCTAAAAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (21 bp):
TCAGTCACGTAATATCCAAAG
Found at i:10243725 original size:14 final size:13
Alignment explanation
Indices: 10243708--10243778 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 13
10243698 TATTAATTAA
*
10243708 TTATTATTTTTATT
1 TTATTATATTT-TT
10243722 TTATTATATTTTT
1 TTATTATATTTTT
10243735 TTATTATCATATTTT
1 TTATTAT-AT-TTTT
* *
10243750 CTATTCTTATTTCTT
1 TTATT-ATATTT-TT
10243765 ATTATTAT-TTTTT
1 -TTATTATATTTTT
10243778 T
1 T
10243779 CATACTTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 1 0.02
13 11 0.23
14 17 0.36
15 13 0.28
16 5 0.11
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATTATATTTTT
Found at i:10243733 original size:16 final size:17
Alignment explanation
Indices: 10243697--10243773 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 17
10243687 TTTTTAGTTA
10243697 TTATTAATTAATTATTATTT
1 TTATT-ATT-ATTA-TATTT
10243717 TTATT-TTATTATATTT
1 TTATTATTATTATATTT
*
10243733 TT-TTATTATCATATTT
1 TTATTATTATTATATTT
* * *
10243749 TCTATTCTTATT-TCTTA
1 T-TATTATTATTATATTT
10243766 TTATTATT
1 TTATTATT
10243774 TTTTTCATAC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
15 2 0.04
16 24 0.50
17 9 0.19
18 8 0.17
20 5 0.10
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTATTATTATATTT
Found at i:10245918 original size:9 final size:9
Alignment explanation
Indices: 10245889--10245945 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 9
10245879 CCCTCCCCTC
*
10245889 TTTTTTCAT
1 TTTTTTTAT
10245898 TTCTTCTTTAT
1 TT-TT-TTTAT
10245909 TTTTTTTAT
1 TTTTTTTAT
*
10245918 TTTTATTAT
1 TTTTTTTAT
10245927 TTTTATTATAT
1 TTTT-TT-TAT
10245938 ATTTTTTT
1 -TTTTTTT
10245946 TAATTCATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
9 19 0.47
10 6 0.15
11 11 0.28
12 4 0.10
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:10245922 original size:15 final size:15
Alignment explanation
Indices: 10245904--10245960 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
10245894 TCATTTCTTC
10245904 TTTATTTTTTTTATT
1 TTTATTTTTTTTATT
*
10245919 TTTATTATTTTTATT
1 TTTATTTTTTTTATT
* *
10245934 ATATATTTTTTTTA-A
1 -TTTATTTTTTTTATT
*
10245949 TTCATTTTTTTT
1 TTTATTTTTTTT
10245961 GTTTATGATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
14 10 0.29
15 14 0.40
16 11 0.31
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTTTTTATT
Found at i:10246907 original size:48 final size:48
Alignment explanation
Indices: 10246831--10246966 Score: 236
Period size: 48 Copynumber: 2.8 Consensus size: 48
10246821 GTCTCAATTC
*
10246831 ACCAGAAAATGGTTGTTACGATTCTGTTCCTTCTTCTAAGCTCCATTT
1 ACCAGAAAATGGCTGTTACGATTCTGTTCCTTCTTCTAAGCTCCATTT
* *
10246879 ACCACAAAATGGCTGTAACGATTCTGTTCCTTCTTCTAAGCTCCATTT
1 ACCAGAAAATGGCTGTTACGATTCTGTTCCTTCTTCTAAGCTCCATTT
*
10246927 ACCAGAAAATGGCTGTTACGATTCTGTTTCTTCTTCTAAG
1 ACCAGAAAATGGCTGTTACGATTCTGTTCCTTCTTCTAAG
10246967 TTCTATATTG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (48 bp):
ACCAGAAAATGGCTGTTACGATTCTGTTCCTTCTTCTAAGCTCCATTT
Found at i:10263019 original size:6 final size:6
Alignment explanation
Indices: 10263008--10263033 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10262998 CCATTTGCAA
10263008 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
10263034 AATCGTGGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:10263537 original size:75 final size:75
Alignment explanation
Indices: 10263409--10263872 Score: 347
Period size: 87 Copynumber: 5.8 Consensus size: 75
10263399 CCACCTTACG
* * *
10263409 AGTACAAGTCTCC-CCCTCCTCCTCCCCCAGTTTACAAGTACAAGTCTCCTCCACCTCCACCAAA
1 AGTACAAGTCTCCTCCC-CCACCTCCTCCAGTTTACAAGTACAAGTCCCCTCCACCTCCACCAAA
*
10263473 GCACCCCTACA
65 GCACCCATACA
* * *
10263484 AGTATAAGTCTCCTCCCCCACCACCTCCAGTTTACAAGTATAAGTCCCCTCCACCACCACCACCA
1 AGTACAAGTCTCCTCCCCCACCTCCTCCAGTTTACAAGTACAAGTCCCCT---------CCACC-
* *
10263549 TCACCACCCAAGCACCCATACC
56 T--CCACCAAAGCACCCATACA
* * * *
10263571 AGTACAAGTCTCCACCTCCACCACCCCCAGTTTACAAGTACAAGTCCCCTCCACCACCACCACCA
1 AGTACAAGTCTCCTCCCCCACCTCCTCCAGTTTACAAGTACAAGTCCCCT---------CCACC-
*
10263636 TCACCACCCAAGCACCCATACA
56 T--CCACCAAAGCACCCATACA
* * * * * * *
10263658 AGTACAAGTCTCCTCCACCACCTCCTCCAGTCTACAAATACAAGTCTCCTCCTCCTCCCCCTAAG
1 AGTACAAGTCTCCTCCCCCACCTCCTCCAGTTTACAAGTACAAGTCCCCTCCACCTCCACCAAAG
* * *
10263723 GAGCCTTACA
66 CACCCATACA
* * * *
10263733 AGTATAAGTCTCCTCCACCACCTCCTCCAGTTTACAAGTACAAGTCTCCTCCTCCTCCTCCTCCA
1 AGTACAAGTCTCCTCCCCCACCTCCTCCAGTTTACAAGTACAAG--TCC-CCTCCACCTCCACCA
* *
10263798 AAGGAGCCATACA
63 AAGCACCCATACA
* * * *
10263811 AGTACAAGTCTCC-CCCACCACCCCCTCCAGTCTACAAGTACAAGTCTCCTCCACCACCACCA
1 AGTACAAGTCTCCTCCC-CCACCTCCTCCAGTTTACAAGTACAAGTCCCCTCCACCTCCACCA
10263873 CCCCATTACG
Statistics
Matches: 329, Mismatches: 43, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
75 107 0.33
76 5 0.02
77 5 0.02
78 66 0.20
84 5 0.02
85 1 0.00
87 140 0.43
ACGTcount: A:0.27, C:0.45, G:0.08, T:0.19
Consensus pattern (75 bp):
AGTACAAGTCTCCTCCCCCACCTCCTCCAGTTTACAAGTACAAGTCCCCTCCACCTCCACCAAAG
CACCCATACA
Found at i:10263580 original size:87 final size:87
Alignment explanation
Indices: 10263465--10263874 Score: 403
Period size: 87 Copynumber: 5.0 Consensus size: 87
10263455 TCCTCCACCT
* * * * *
10263465 CCACCAAAGCACCCCTACAAGTATAAGTCTCCTCCCCCACCACCTCCAGTTTACAAGTATAAGTC
1 CCACCCAAGCACCCATACAAGTACAAGTCTCCTCCACCACCACCTCCAGTTTACAAGTACAAGTC
10263530 CCCTCCACCACCACCACCATCA
66 CCCTCCACCACCACCACCATCA
* * * *
10263552 CCACCCAAGCACCCATACCAGTACAAGTCTCCACCTCCACCACCCCCAGTTTACAAGTACAAGTC
1 CCACCCAAGCACCCATACAAGTACAAGTCTCCTCCACCACCACCTCCAGTTTACAAGTACAAGTC
10263617 CCCTCCACCACCACCACCATCA
66 CCCTCCACCACCACCACCATCA
* * *
10263639 CCACCCAAGCACCCATACAAGTACAAGTCTCCTCCACCACCTCCTCCAGTCTACAAATACAAGT-
1 CCACCCAAGCACCCATACAAGTACAAGTCTCCTCCACCACCACCTCCAGTTTACAAGTACAAGTC
* *
10263703 --CT------CCTCCTCC-TC-
66 CCCTCCACCACCACCACCATCA
* * * * * *
10263715 CC-CCTAAGGAGCCTTACAAGTATAAGTCTCCTCCACCACCTCCTCCAGTTTACAAGTACAAGT-
1 CCACCCAAGCACCCATACAAGTACAAGTCTCCTCCACCACCACCTCCAGTTTACAAGTACAAGTC
* * * *
10263778 --CTCCTCCTCCTCCTCC-T--
66 CCCTCCACCACCACCACCATCA
* * * * *
10263795 CCA---AAGGAGCCATACAAGTACAAGTCTCCCCCACCACCCCCTCCAGTCTACAAGTACAAGTC
1 CCACCCAAGCACCCATACAAGTACAAGTCTCCTCCACCACCACCTCCAGTTTACAAGTACAAGTC
*
10263857 TCCTCCACCACCACCACC
66 CCCTCCACCACCACCACC
10263875 CCATTACGTC
Statistics
Matches: 280, Mismatches: 33, Indels: 26
0.83 0.10 0.08
Matches are distributed among these distances:
75 56 0.20
76 2 0.01
77 2 0.01
78 59 0.21
80 2 0.01
81 21 0.08
84 2 0.01
87 136 0.49
ACGTcount: A:0.28, C:0.46, G:0.08, T:0.18
Consensus pattern (87 bp):
CCACCCAAGCACCCATACAAGTACAAGTCTCCTCCACCACCACCTCCAGTTTACAAGTACAAGTC
CCCTCCACCACCACCACCATCA
Found at i:10263584 original size:48 final size:48
Alignment explanation
Indices: 10263532--10263679 Score: 140
Period size: 48 Copynumber: 3.3 Consensus size: 48
10263522 TATAAGTCCC
*
10263532 CTCCACCACCACCACCATCACCACCCAAGCACCCATACCAGTACAAGT
1 CTCCACCACCACCACCATCACCACCCAAGCACCCATACAAGTACAAGT
* **
10263580 CT---CCACCTCCA-C--CACC-CCC-AG----TTTACAAGTACAAGT
1 CTCCACCACCACCACCATCACCACCCAAGCACCCATACAAGTACAAGT
10263616 CCCCTCCACCACCACCACCATCACCACCCAAGCACCCATACAAGTACAAGT
1 ---CTCCACCACCACCACCATCACCACCCAAGCACCCATACAAGTACAAGT
*
10263667 CTCCTCCACCACC
1 CTCCACCACCACC
10263680 TCCTCCAGTC
Statistics
Matches: 77, Mismatches: 8, Indels: 30
0.67 0.07 0.26
Matches are distributed among these distances:
36 12 0.16
39 2 0.03
40 2 0.03
41 3 0.04
42 12 0.16
43 1 0.01
44 1 0.01
45 12 0.16
46 3 0.04
47 2 0.03
48 14 0.18
51 13 0.17
ACGTcount: A:0.30, C:0.51, G:0.06, T:0.13
Consensus pattern (48 bp):
CTCCACCACCACCACCATCACCACCCAAGCACCCATACAAGTACAAGT
Found at i:10263694 original size:36 final size:36
Alignment explanation
Indices: 10263654--10263868 Score: 223
Period size: 36 Copynumber: 5.7 Consensus size: 36
10263644 CAAGCACCCA
10263654 TACAAGTACAAGTCTCCTCCACCACCTCCTCCAGTC
1 TACAAGTACAAGTCTCCTCCACCACCTCCTCCAGTC
* * * * ** *
10263690 TACAAATACAAGTCTCCTCCTCCTCCCCCTAAGGAGCC
1 TACAAGTACAAGTCTCCTCCACCACCTCCT--CCAGTC
* *
10263728 TTACAAGTATAAGTCTCCTCCACCACCTCCTCCAGTT
1 -TACAAGTACAAGTCTCCTCCACCACCTCCTCCAGTC
* * *
10263765 TACAAGTACAAGTCTCCTCCTCCTCCTCCTCCAAAGGAGCC
1 TACAAGTACAAGTCTCCTCCACCACCTCCTCC-----AGTC
* *
10263806 ATACAAGTACAAGTCTCCCCCACCACCCCCTCCAGTC
1 -TACAAGTACAAGTCTCCTCCACCACCTCCTCCAGTC
10263843 TACAAGTACAAGTCTCCTCCACCACC
1 TACAAGTACAAGTCTCCTCCACCACC
10263869 ACCACCCCAT
Statistics
Matches: 143, Mismatches: 27, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
36 80 0.56
37 5 0.03
38 3 0.02
39 25 0.17
41 2 0.01
42 28 0.20
ACGTcount: A:0.26, C:0.43, G:0.09, T:0.22
Consensus pattern (36 bp):
TACAAGTACAAGTCTCCTCCACCACCTCCTCCAGTC
Found at i:10271134 original size:2 final size:2
Alignment explanation
Indices: 10271129--10271162 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10271119 TACCACACAC
10271129 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10271163 TAAATTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10272267 original size:2 final size:2
Alignment explanation
Indices: 10272262--10272295 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10272252 TCTCTCTCTC
10272262 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10272296 CATACATCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10282298 original size:12 final size:12
Alignment explanation
Indices: 10282281--10282305 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10282271 ATACATATAG
10282281 TATAATTACCCT
1 TATAATTACCCT
10282293 TATAATTACCCT
1 TATAATTACCCT
10282305 T
1 T
10282306 TAGCCACCTC
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:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (12 bp):
TATAATTACCCT
Found at i:10284457 original size:11 final size:11
Alignment explanation
Indices: 10284441--10284465 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10284431 GTATTAGAAC
10284441 AAAAAGAAAAT
1 AAAAAGAAAAT
10284452 AAAAAGAAAAT
1 AAAAAGAAAAT
10284463 AAA
1 AAA
10284466 CAGCTGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAGAAAAT
Found at i:10293593 original size:26 final size:26
Alignment explanation
Indices: 10293554--10293674 Score: 102
Period size: 26 Copynumber: 4.5 Consensus size: 26
10293544 AAAATATTTA
* * *
10293554 ATAATATTATAATTAAAATAATATAT
1 ATAATATAAAAATTAAAATAATAAAT
10293580 ATAATATAAAAATTAAAA-AATAAAAT
1 ATAATATAAAAATTAAAATAAT-AAAT
* *
10293606 AAAATATAAAAAATTAAAATTTATACAAT
1 ATAATAT-AAAAATTAAAA-TAATA-AAT
* *
10293635 ATAAGTAAAAGAAATAAAAATAA-AATAT
1 ATAA-TATAA-AAATTAAAATAATAA-AT
10293663 ATAATATAAAAA
1 ATAATATAAAAA
10293675 NAGATAAAGA
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
25 3 0.04
26 28 0.36
27 16 0.21
28 8 0.10
29 12 0.16
30 10 0.13
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.30
Consensus pattern (26 bp):
ATAATATAAAAATTAAAATAATAAAT
Found at i:10293602 original size:19 final size:19
Alignment explanation
Indices: 10293588--10293771 Score: 62
Period size: 20 Copynumber: 9.4 Consensus size: 19
10293578 ATATAATATA
10293588 AAAAT-TAAAAAATAAAAT
1 AAAATATAAAAAATAAAAT
10293606 AAAATATAAAAAAT----T
1 AAAATATAAAAAATAAAAT
* * * *
10293621 AAAATTTATACAATATAAGT
1 AAAATATAAAAAATA-AAAT
* *
10293641 AAAAGAAATAAAAATAAAAT
1 AAAATATA-AAAAATAAAAT
* *
10293661 ATATAATAT-AAAAA-NAGAT
1 A-A-AATATAAAAAATAAAAT
*
10293680 AAAGAAAT-AAAAATAAAAAT
1 AAA-ATATAAAAAAT-AAAAT
* * *
10293700 AATTAATATAAAAATTATATT
1 AA--AATATAAAAAATAAAAT
*
10293721 AAAAAAT-AAAAATAAATAT
1 AAAATATAAAAAATAAA-AT
10293740 AATATTATAATAAAAAATAAAAAT
1 AA-A--AT-ATAAAAAAT-AAAAT
10293764 AAAATATA
1 AAAATATA
10293772 TGACATTAAA
Statistics
Matches: 119, Mismatches: 25, Indels: 42
0.64 0.13 0.23
Matches are distributed among these distances:
15 12 0.10
17 1 0.01
18 21 0.18
19 19 0.16
20 24 0.20
21 16 0.13
22 10 0.08
23 3 0.03
24 10 0.08
25 3 0.03
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAATATAAAAAATAAAAT
Found at i:10293657 original size:6 final size:6
Alignment explanation
Indices: 10293646--10293767 Score: 59
Period size: 6 Copynumber: 19.3 Consensus size: 6
10293636 TAAGTAAAAG
* * * *
10293646 AAATAA AAATAA AATATATA ATATAA AAANAGA TAA-AG AAATAA AAATAA
1 AAATAA AAATAA AA-ATA-A AAATAA AAATA-A AAATAA AAATAA AAATAA
* * * * * *
10293696 AAATAA TTAATATAA AAATTA TATTAAA AAATAA AAATAA ATAT-A ATATTA
1 AAATAA --AA-ATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA AAATAA
*
10293747 TAATAAA AAATAA AAATAA AA
1 AAAT-AA AAATAA AAATAA AA
10293768 TATATGACAT
Statistics
Matches: 88, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
5 7 0.08
6 55 0.62
7 18 0.20
8 4 0.05
9 4 0.05
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.25
Consensus pattern (6 bp):
AAATAA
Found at i:10293694 original size:44 final size:44
Alignment explanation
Indices: 10293646--10293757 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 44
10293636 TAAGTAAAAG
*
10293646 AAATAAAAATAAAATATATAATATAAAAA-NAGA-TAAAGAAATAA
1 AAATAAAAAT-AAATATATAATATAAAAATTAGATTAAA-AAATAA
*
10293690 AAATAAAAAT--A-AT-TAATATAAAAATTATATTAAAAAATAA
1 AAATAAAAATAAATATATAATATAAAAATTAGATTAAAAAATAA
*
10293730 AAATAAATAT-AATATTATAATA-AAAAAT
1 AAATAAAAATAAATA-TATAATATAAAAAT
10293758 AAAAATAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
39 11 0.19
40 19 0.32
41 6 0.10
42 1 0.02
43 7 0.12
44 15 0.25
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (44 bp):
AAATAAAAATAAATATATAATATAAAAATTAGATTAAAAAATAA
Found at i:10293700 original size:39 final size:41
Alignment explanation
Indices: 10293642--10293755 Score: 130
Period size: 39 Copynumber: 2.8 Consensus size: 41
10293632 AATATAAGTA
*
10293642 AAAGAAATAAAAAT-AAAATATATAATATAAAAA-NAGA-T
1 AAAGAAATAAAAATAAAAATATATAATATAAAAATTAGATT
*
10293680 AAAGAAATAAAAATAAAAATA-ATTAATATAAAAATTATATT
1 AAAGAAATAAAAATAAAAATATA-TAATATAAAAATTAGATT
* *
10293721 AAA-AAATAAAAATAAATATAATATTATAATAAAAA
1 AAAGAAATAAAAATAAAAAT-ATATAAT-ATAAAAA
10293756 ATAAAAATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
38 15 0.23
39 17 0.26
40 17 0.26
41 8 0.12
42 8 0.12
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (41 bp):
AAAGAAATAAAAATAAAAATATATAATATAAAAATTAGATT
Found at i:10293737 original size:23 final size:24
Alignment explanation
Indices: 10293707--10293765 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
10293697 AATAATTAAT
* *
10293707 ATAAAAATTATATTAAAAAATAAAA
1 ATAAATATAATATTAAAAAA-AAAA
* *
10293732 ATAAATATAATATTATAATAAAAA
1 ATAAATATAATATTAAAAAAAAAA
*
10293756 ATAAAAATAA
1 ATAAATATAA
10293766 AATATATGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
ATAAATATAATATTAAAAAAAAAA
Found at i:10293754 original size:30 final size:31
Alignment explanation
Indices: 10293688--10293771 Score: 116
Period size: 30 Copynumber: 2.6 Consensus size: 31
10293678 ATAAAGAAAT
*
10293688 AAAAATAAAAATAATTAATATAAAAATTATATTA
1 AAAAATAAAAATAA--AATAT-AAAATTATAATA
*
10293722 AAAAATAAAAAT-AAATATAATATTATAATA
1 AAAAATAAAAATAAAATATAAAATTATAATA
10293752 AAAAATAAAAATAAAATATA
1 AAAAATAAAAATAAAATATA
10293772 TGACATTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
30 22 0.47
31 12 0.26
33 1 0.02
34 12 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (31 bp):
AAAAATAAAAATAAAATATAAAATTATAATA
Found at i:10294024 original size:15 final size:15
Alignment explanation
Indices: 10294006--10294048 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
10293996 ATAACATTGC
10294006 TTGCAATCACATTAT
1 TTGCAATCACATTAT
*
10294021 TTGCAATTACATTAT
1 TTGCAATCACATTAT
* *
10294036 CTGTAATCACATT
1 TTGCAATCACATT
10294049 GTATTGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.42
Consensus pattern (15 bp):
TTGCAATCACATTAT
Found at i:10298869 original size:24 final size:22
Alignment explanation
Indices: 10298842--10298886 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
10298832 AACTTAACCT
10298842 TTTTATTTTAAATTCATTTAAATA
1 TTTTATTTTAAATT--TTTAAATA
* *
10298866 TTTTCTTTTTAATTTTTAAAT
1 TTTTATTTTAAATTTTTAAAT
10298887 TTTAAATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTATTTTAAATTTTTAAATA
Found at i:10311574 original size:24 final size:24
Alignment explanation
Indices: 10311546--10311592 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10311536 AGGGTAGCTA
10311546 GGACCGA-TACTA-GGGTGAGCACTT
1 GGACCGACT-CTAGGGGT-AGCACTT
10311570 GGACCGACTCTAGGGGTAGCACT
1 GGACCGACTCTAGGGGTAGCACT
10311593 AGGAATGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.19
Consensus pattern (24 bp):
GGACCGACTCTAGGGGTAGCACTT
Found at i:10311704 original size:17 final size:17
Alignment explanation
Indices: 10311682--10311714 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10311672 CAAACCTAAG
10311682 AGTTATTAACAAACACT
1 AGTTATTAACAAACACT
*
10311699 AGTTATTGACAAACAC
1 AGTTATTAACAAACAC
10311715 GAAGCCAAGC
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:0.18, G:0.09, T:0.27
Consensus pattern (17 bp):
AGTTATTAACAAACACT
Found at i:10315946 original size:21 final size:20
Alignment explanation
Indices: 10315922--10315973 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
10315912 TGGACAAATT
* *
10315922 TATCGATACATGTTCTTCATG
1 TATCGATACATG-GCGTCATG
*
10315943 TATCGATACATGGGGTCATG
1 TATCGATACATGGCGTCATG
10315963 TATCGATACAT
1 TATCGATACAT
10315974 AAGGTTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (20 bp):
TATCGATACATGGCGTCATG
Found at i:10315984 original size:20 final size:20
Alignment explanation
Indices: 10315938--10315978 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10315928 TACATGTTCT
**
10315938 TCATGTATCGATACATGGGG
1 TCATGTATCGATACATAAGG
10315958 TCATGTATCGATACATAAGG
1 TCATGTATCGATACATAAGG
10315978 T
1 T
10315979 TTTGTACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (20 bp):
TCATGTATCGATACATAAGG
Found at i:10331188 original size:22 final size:23
Alignment explanation
Indices: 10331163--10331209 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
10331153 ATTTTTATGC
10331163 ATTACTA-CAACAACTAAGCT-AA
1 ATTACTATCAA-AACTAAGCTCAA
*
10331185 ATTACTATCAAAATTAAGCTCAA
1 ATTACTATCAAAACTAAGCTCAA
10331208 AT
1 AT
10331210 AACTCTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (23 bp):
ATTACTATCAAAACTAAGCTCAA
Found at i:10343503 original size:16 final size:18
Alignment explanation
Indices: 10343484--10343522 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
10343474 TAAAATAAAA
10343484 AATAATTAAA-TATA-AT
1 AATAATTAAATTATATAT
10343500 AATAA-TAAATTATATAT
1 AATAATTAAATTATATAT
10343517 AA-AATT
1 AATAATT
10343523 TAAAATAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.20
16 11 0.55
17 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAATTAAATTATATAT
Found at i:10343885 original size:22 final size:23
Alignment explanation
Indices: 10343855--10343897 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10343845 ATAATAGTGA
* *
10343855 TTAATATTACTTGATTAATTATT
1 TTAATATTAATTAATTAATTATT
10343878 TTAA-ATTAATTAATTAATTA
1 TTAATATTAATTAATTAATTA
10343898 ATTAATCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAATATTAATTAATTAATTATT
Found at i:10344164 original size:22 final size:22
Alignment explanation
Indices: 10344136--10344213 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
10344126 GATTTTTCTT
10344136 AAAATAGGTAAAAAAGTGTCAA
1 AAAATAGGTAAAAAAGTGTCAA
* *
10344158 AAAATAGGTAAAAAGAGTTTCTTA
1 AAAATAGGTAAAAA-AGTGTC-AA
* * *
10344182 AGAATAGGT-AAGAAGTGTCAT
1 AAAATAGGTAAAAAAGTGTCAA
10344203 AAAATAGGTAA
1 AAAATAGGTAA
10344214 GAAGTGCCAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
21 8 0.18
22 20 0.44
23 8 0.18
24 9 0.20
ACGTcount: A:0.53, C:0.04, G:0.21, T:0.23
Consensus pattern (22 bp):
AAAATAGGTAAAAAAGTGTCAA
Found at i:10344198 original size:45 final size:45
Alignment explanation
Indices: 10344094--10344213 Score: 135
Period size: 45 Copynumber: 2.8 Consensus size: 45
10344084 AGAGGTGCCA
* * *
10344094 TAAG-ATAAGTAAGAAGTGTC-ATAAATAGGT--AAGATTTTTCT
1 TAAGAATAGGTAAGAAGTGTCAAAAAATAGGTAAAAGATGTTTCT
*
10344135 TAA-AATAGGTAAAAAAGTGTCAAAAAATAGGTAAAAAGA-GTTTCT
1 TAAGAATAGGT-AAGAAGTGTCAAAAAATAGGT-AAAAGATGTTTCT
*
10344180 TAAGAATAGGTAAGAAGTGTCATAAAATAGGTAA
1 TAAGAATAGGTAAGAAGTGTCAAAAAATAGGTAA
10344214 GAAGTGCCAT
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
41 8 0.12
42 9 0.14
43 9 0.14
44 2 0.03
45 27 0.41
46 11 0.17
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.28
Consensus pattern (45 bp):
TAAGAATAGGTAAGAAGTGTCAAAAAATAGGTAAAAGATGTTTCT
Found at i:10344214 original size:21 final size:21
Alignment explanation
Indices: 10344081--10344240 Score: 124
Period size: 21 Copynumber: 7.4 Consensus size: 21
10344071 TAAAAAGAAT
* * * *
10344081 GTAAGAGGTGCCATAAGATAA
1 GTAAGAAGTGTCATAAAATAG
10344102 GTAAGAAGTGTCAT-AAATAG
1 GTAAGAAGTGTCATAAAATAG
** * *
10344122 GTAAGATTTTTCTTAAAATAG
1 GTAAGAAGTGTCATAAAATAG
* *
10344143 GTAAAAAAGTGTCAAAAAATAG
1 GT-AAGAAGTGTCATAAAATAG
* * *
10344165 GTAAAAAGAGTTTCTTAAGAATAG
1 GT-AAGA-AGTGTCATAA-AATAG
10344189 GTAAGAAGTGTCATAAAATAG
1 GTAAGAAGTGTCATAAAATAG
* *
10344210 GTAAGAAGTGCCATAAGATATAA
1 GTAAGAAGTGTCATAA-A-ATAG
10344233 GTAAGAAG
1 GTAAGAAG
10344241 CAATGGCAGA
Statistics
Matches: 111, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
20 14 0.13
21 40 0.36
22 29 0.26
23 21 0.19
24 7 0.06
ACGTcount: A:0.47, C:0.06, G:0.23, T:0.25
Consensus pattern (21 bp):
GTAAGAAGTGTCATAAAATAG
Found at i:10347950 original size:28 final size:28
Alignment explanation
Indices: 10347908--10347964 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
10347898 GGACAAATGT
**
10347908 CTTGGTGGTGGAAAATTACTGTTTTACC
1 CTTGGTGGTGGAAAATTACCATTTTACC
10347936 CTTGG-GGTGGCAAAATTACCATTTTACC
1 CTTGGTGGTGG-AAAATTACCATTTTACC
10347964 C
1 C
10347965 CTATGCTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (28 bp):
CTTGGTGGTGGAAAATTACCATTTTACC
Found at i:10348483 original size:21 final size:20
Alignment explanation
Indices: 10348455--10348513 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
10348445 GAAATATGAG
*
10348455 AAAG-GTTGTAAATTAGGTAA
1 AAAGTGTTGTAAA-AAGGTAA
*
10348475 AAAGTGTTGTAAGAAAGGTGA
1 AAAGTGTTGTAA-AAAGGTAA
*
10348496 CAAGTGTTGT-AAAAGGTA
1 AAAGTGTTGTAAAAAGGTA
10348514 TGAAGTCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 6 0.18
20 5 0.15
21 21 0.64
22 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.29, T:0.27
Consensus pattern (20 bp):
AAAGTGTTGTAAAAAGGTAA
Found at i:10349123 original size:19 final size:19
Alignment explanation
Indices: 10349096--10349133 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10349086 CCATTTGACT
10349096 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
10349115 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
10349134 GTTAAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:10355644 original size:21 final size:21
Alignment explanation
Indices: 10355620--10355777 Score: 88
Period size: 21 Copynumber: 7.4 Consensus size: 21
10355610 TGTAAATGTG
10355620 TAAGAAGTGTCGTAAAATAGA
1 TAAGAAGTGTCGTAAAATAGA
*
10355641 TAAGAAGTGTCGTAAGATA-A
1 TAAGAAGTGTCGTAAAATAGA
* * *
10355661 GTAAGAAGTGTTGCAAGATA-A
1 -TAAGAAGTGTCGTAAAATAGA
* * * * *
10355682 GTACGAAATATTGTAAAATAGG
1 -TAAGAAGTGTCGTAAAATAGA
* * * *
10355704 TAAAAAATGTTGTAAAATAGG
1 TAAGAAGTGTCGTAAAATAGA
*
10355725 TAAGAATAGTGTCGTAAGATATG-
1 TAAG-A-AGTGTCGTAAAATA-GA
* * *
10355748 TAAGAAGTGTAGTGAAATAGG
1 TAAGAAGTGTCGTAAAATAGA
*
10355769 TGAGAAGTG
1 TAAGAAGTG
10355778 CCGCAAGATA
Statistics
Matches: 111, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.02
21 91 0.82
22 2 0.02
23 15 0.14
24 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.27, T:0.26
Consensus pattern (21 bp):
TAAGAAGTGTCGTAAAATAGA
Found at i:10356617 original size:21 final size:21
Alignment explanation
Indices: 10356587--10356627 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10356577 ACAAAGATAT
*
10356587 AAAGCCATAGTTGACCTTGAC
1 AAAGCCATAGTCGACCTTGAC
*
10356608 AAAGCTATAGTCGACCTTGA
1 AAAGCCATAGTCGACCTTGA
10356628 GACAAAATAT
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:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
AAAGCCATAGTCGACCTTGAC
Found at i:10356618 original size:71 final size:71
Alignment explanation
Indices: 10356543--10356687 Score: 168
Period size: 72 Copynumber: 2.0 Consensus size: 71
10356533 TATATGCTCC
* * * * * *
10356543 ATAGTCGATCTTGTGGCAAGATGGATG-AAAAATCACAAAGATAT-AAAGCCATAGTTGACCTTG
1 ATAGTCGACCTTGAGACAAAATAGATGCAAAAAT--CAAAGATATAAAAGCCATAGTTGACCTTA
10356606 ACAAAGCT
64 ACAAAGCT
* * *
10356614 ATAGTCGACCTTGAGACAAAATATATGCAAAAATCAAGGATTTGAAAAGCCATAGTTGACCTTAA
1 ATAGTCGACCTTGAGACAAAATAGATGCAAAAATCAAAGATAT-AAAAGCCATAGTTGACCTTAA
10356679 CAAAGCT
65 CAAAGCT
10356686 AT
1 AT
10356688 TGTCAACCAT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
70 7 0.11
71 21 0.34
72 34 0.55
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (71 bp):
ATAGTCGACCTTGAGACAAAATAGATGCAAAAATCAAAGATATAAAAGCCATAGTTGACCTTAAC
AAAGCT
Found at i:10358645 original size:21 final size:21
Alignment explanation
Indices: 10358619--10359090 Score: 210
Period size: 21 Copynumber: 22.6 Consensus size: 21
10358609 AAGAAATATT
*
10358619 AATAGGTAAGAAATGTCGTAA
1 AATAGGTAAGAAGTGTCGTAA
* *
10358640 TATAGGT---AATTGTCG-AA
1 AATAGGTAAGAAGTGTCGTAA
* *
10358657 AATAGGTAAAAAGTGTTGTAA
1 AATAGGTAAGAAGTGTCGTAA
*
10358678 AATAGGTAATAAGTGTCGTAA
1 AATAGGTAAGAAGTGTCGTAA
* *
10358699 GATAGGTAAGAAGTGTAGTAA
1 AATAGGTAAGAAGTGTCGTAA
* * *
10358720 GATAAGTAAGAAGTGTCATAA
1 AATAGGTAAGAAGTGTCGTAA
* * * *
10358741 ATTAGGTAAG-AGTATCATTA
1 AATAGGTAAGAAGTGTCGTAA
* * * *
10358761 AGTAGGTAAGATGTATCATAA
1 AATAGGTAAGAAGTGTCGTAA
*
10358782 GAA-AGGTGAA-AAGTATCGTAA
1 -AATAGGT-AAGAAGTGTCGTAA
* * *
10358803 GCA-A-GTAAAAAGTATCGTAA
1 -AATAGGTAAGAAGTGTCGTAA
* * * *
10358823 AATAGGTAAAAAATGCCATAA
1 AATAGGTAAGAAGTGTCGTAA
* * **
10358844 GATAGGTAAGAAGTGCCACAA
1 AATAGGTAAGAAGTGTCGTAA
*
10358865 AATAGGTTAGAAGAATG-CAGTAA
1 AATAGGTAAGAAG--TGTC-GTAA
* * * *
10358888 GATAAGTAAGAATTGTCATAA
1 AATAGGTAAGAAGTGTCGTAA
* * * * *
10358909 AGTAAG-AAAAAATATCGTAA
1 AATAGGTAAGAAGTGTCGTAA
*
10358929 AATAGGTAAGAAGTGTCATAA
1 AATAGGTAAGAAGTGTCGTAA
* *
10358950 AATAGGTTAGAAGAGTGTTGTAA
1 AATAGGTAAG-A-AGTGTCGTAA
* * **
10358973 GATAGGTAAGGAGTGTAATAA
1 AATAGGTAAGAAGTGTCGTAA
* * * *
10358994 AATAGGTTAGAAGTTTCTTAG
1 AATAGGTAAGAAGTGTCGTAA
* * * *
10359015 GATAGGTAAACAAATGTCATAA
1 AATAGGT-AAGAAGTGTCGTAA
* * * * *
10359037 GATTGATAAGAAGTGTAGTTA
1 AATAGGTAAGAAGTGTCGTAA
** *
10359058 AATAGAAAAGAAGTGTCATAA
1 AATAGGTAAGAAGTGTCGTAA
10359079 AATAGGTAAGAA
1 AATAGGTAAGAA
10359091 ATGTATTCAA
Statistics
Matches: 341, Mismatches: 92, Indels: 36
0.73 0.20 0.08
Matches are distributed among these distances:
17 8 0.02
18 7 0.02
19 3 0.01
20 51 0.15
21 224 0.66
22 19 0.06
23 29 0.09
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.25
Consensus pattern (21 bp):
AATAGGTAAGAAGTGTCGTAA
Found at i:10358889 original size:44 final size:44
Alignment explanation
Indices: 10358674--10359006 Score: 205
Period size: 41 Copynumber: 7.9 Consensus size: 44
10358664 AAAAAGTGTT
* * * * * *
10358674 GTAAAATAGGTAATAAGTGTCGTAAGATAGGTAAGAAG--TGTA
1 GTAAGATAGGTAAGAAGTGTCATAAAATAGGTTAGAAGAATGCA
* * * *
10358716 GTAAGATAAGTAAGAAGTGTCATAAATTAGGTAAG-AGTAT-CA
1 GTAAGATAGGTAAGAAGTGTCATAAAATAGGTTAGAAGAATGCA
* * * * * *
10358758 TTAAG-TAGGTAAGATGTATCATAAGAA-AGGTGAAAAGTAT-C-
1 GTAAGATAGGTAAGAAGTGTCATAA-AATAGGTTAGAAGAATGCA
* * * *
10358799 GTAAGCA-A-GTAAAAAGTATCGTAAAATAGG-TA-AAAAATGCCA
1 GTAAG-ATAGGTAAGAAGTGTCATAAAATAGGTTAGAAGAATG-CA
* *
10358841 -TAAGATAGGTAAGAAGTGCCACAAAATAGGTTAGAAGAATGCA
1 GTAAGATAGGTAAGAAGTGTCATAAAATAGGTTAGAAGAATGCA
* * * * * *
10358884 GTAAGATAAGTAAGAATTGTCATAAAGTAAG--A-AAAAATATC-
1 GTAAGATAGGTAAGAAGTGTCATAAAATAGGTTAGAAGAAT-GCA
* * **
10358925 GTAAAATAGGTAAGAAGTGTCATAAAATAGGTTAGAAGAGTGTT
1 GTAAGATAGGTAAGAAGTGTCATAAAATAGGTTAGAAGAATGCA
* *
10358969 GTAAGATAGGTAAGGAGTGTAATAAAATAGGTTAGAAG
1 GTAAGATAGGTAAGAAGTGTCATAAAATAGGTTAGAAG
10359007 TTTCTTAGGA
Statistics
Matches: 224, Mismatches: 47, Indels: 38
0.72 0.15 0.12
Matches are distributed among these distances:
39 4 0.02
40 4 0.02
41 80 0.36
42 61 0.27
43 6 0.03
44 69 0.31
ACGTcount: A:0.47, C:0.05, G:0.25, T:0.24
Consensus pattern (44 bp):
GTAAGATAGGTAAGAAGTGTCATAAAATAGGTTAGAAGAATGCA
Found at i:10359297 original size:3 final size:3
Alignment explanation
Indices: 10359289--10359337 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
10359279 AATGAAATGA
*
10359289 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10359337 A
1 A
10359338 GCTTAAGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10359582 original size:14 final size:17
Alignment explanation
Indices: 10359558--10359598 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
10359548 ACAATAAAAC
10359558 AAAATATTAA-TG-TTA
1 AAAATATTAATTGCTTA
10359573 AAAATA-TAATTGCTTA
1 AAAATATTAATTGCTTA
*
10359589 AAAAAATTAA
1 AAAATATTAA
10359599 AGTGAACTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.14
15 8 0.36
16 8 0.36
17 3 0.14
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (17 bp):
AAAATATTAATTGCTTA
Found at i:10360723 original size:19 final size:19
Alignment explanation
Indices: 10360699--10360735 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
10360689 CCATTTGACT
10360699 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
10360718 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
10360736 AGTTTAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:10361919 original size:13 final size:13
Alignment explanation
Indices: 10361901--10361925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10361891 GGAGAAATTG
10361901 TGATTTTATAAAA
1 TGATTTTATAAAA
10361914 TGATTTTATAAA
1 TGATTTTATAAA
10361926 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:10363623 original size:25 final size:24
Alignment explanation
Indices: 10363589--10363644 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
10363579 CTCCACTCCT
10363589 CAAAAACTTCTCTCTTA-AAGCACC
1 CAAAAACTTCTCTCTTATAA-CACC
*
10363613 CAAAAAGCTTCTTTCTTATAACACC
1 CAAAAA-CTTCTCTCTTATAACACC
10363638 CAAAAAC
1 CAAAAAC
10363645 GTAAGCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 7 0.24
25 20 0.69
26 2 0.07
ACGTcount: A:0.41, C:0.30, G:0.04, T:0.25
Consensus pattern (24 bp):
CAAAAACTTCTCTCTTATAACACC
Found at i:10370071 original size:15 final size:15
Alignment explanation
Indices: 10370045--10370085 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
10370035 ACTTTATATC
10370045 AAAAAA-CAAATA-A
1 AAAAAACCAAATAGA
10370058 AAAAACACCAAATATGA
1 AAAAA-ACCAAATA-GA
10370075 AAAAAACCAAA
1 AAAAAACCAAA
10370086 GCCCACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.21
14 1 0.04
15 6 0.25
16 6 0.25
17 6 0.25
ACGTcount: A:0.76, C:0.15, G:0.02, T:0.07
Consensus pattern (15 bp):
AAAAAACCAAATAGA
Found at i:10370801 original size:28 final size:29
Alignment explanation
Indices: 10370760--10370824 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
10370750 TTCTATGGGC
10370760 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTATGGGGCAAAAATGT
* * * *
10370788 AATTTTTGACTTTTACTGGGGTAAAAGTGT
1 AATTTTTCAATTTTA-TGGGGCAAAAATGT
*
10370818 AAATTTT
1 AATTTTT
10370825 AAAAAATTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 12 0.40
30 18 0.60
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (29 bp):
AATTTTTCAATTTTATGGGGCAAAAATGT
Found at i:10375039 original size:13 final size:13
Alignment explanation
Indices: 10375023--10375047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10375013 TTCCAGAAAA
10375023 TTTATAAAATCAT
1 TTTATAAAATCAT
10375036 TTTATAAAATCA
1 TTTATAAAATCA
10375048 CAATTTTTCC
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:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:10380013 original size:5 final size:5
Alignment explanation
Indices: 10380005--10380095 Score: 161
Period size: 5 Copynumber: 18.8 Consensus size: 5
10379995 ACCTAACCTG
10380005 ACTTA ACTTA AC-TA ACTTA ACTTA ACTTA ACTTA AC-TA ACTTA ACTTA
1 ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA
10380053 ACTTA ACTTA AC-TA ACTTA ACTTA ACTTA ACTTA ACTTA ACTT
1 ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTT
10380096 GGGCACGCAG
Statistics
Matches: 83, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
4 12 0.14
5 71 0.86
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (5 bp):
ACTTA
Found at i:10380032 original size:24 final size:24
Alignment explanation
Indices: 10380005--10380095 Score: 173
Period size: 24 Copynumber: 3.8 Consensus size: 24
10379995 ACCTAACCTG
10380005 ACTTAACTTAACTAACTTAACTTA
1 ACTTAACTTAACTAACTTAACTTA
10380029 ACTTAACTTAACTAACTTAACTTA
1 ACTTAACTTAACTAACTTAACTTA
10380053 ACTTAACTTAACTAACTTAACTTA
1 ACTTAACTTAACTAACTTAACTTA
10380077 ACTTAACTTAACTTAACTT
1 ACTTAACTTAAC-TAACTT
10380096 GGGCACGCAG
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
24 60 0.91
25 6 0.09
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (24 bp):
ACTTAACTTAACTAACTTAACTTA
Found at i:10380040 original size:29 final size:30
Alignment explanation
Indices: 10380005--10380095 Score: 161
Period size: 29 Copynumber: 3.1 Consensus size: 30
10379995 ACCTAACCTG
10380005 ACTTAACTTAAC-TAACTTAACTTAACTTA
1 ACTTAACTTAACTTAACTTAACTTAACTTA
10380034 ACTTAAC-TAACTTAACTTAACTTAACTTA
1 ACTTAACTTAACTTAACTTAACTTAACTTA
10380063 AC-TAACTTAACTTAACTTAACTTAACTTA
1 ACTTAACTTAACTTAACTTAACTTAACTTA
10380092 ACTT
1 ACTT
10380096 GGGCACGCAG
Statistics
Matches: 59, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
28 8 0.14
29 50 0.85
30 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (30 bp):
ACTTAACTTAACTTAACTTAACTTAACTTA
Found at i:10380149 original size:15 final size:15
Alignment explanation
Indices: 10380129--10380174 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
10380119 TTCTTAAAAC
10380129 AACTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
10380144 AACTTTAAAATCCAA
1 AACTTTAAAATCAAA
*
10380159 AGCTTTAAAATCAAA
1 AACTTTAAAATCAAA
10380174 A
1 A
10380175 TCTCTGATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:10381391 original size:13 final size:13
Alignment explanation
Indices: 10381375--10381399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10381365 TTCCAGAAAA
10381375 TTTATAAAATCAT
1 TTTATAAAATCAT
10381388 TTTATAAAATCA
1 TTTATAAAATCA
10381400 CAATTTTTCC
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:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:10395246 original size:20 final size:20
Alignment explanation
Indices: 10395201--10395238 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10395191 TTTTGGCCCC
10395201 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
10395221 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
10395239 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:10405945 original size:13 final size:13
Alignment explanation
Indices: 10405927--10405951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10405917 TTTCAGAAAA
10405927 TTTATAAAATCAT
1 TTTATAAAATCAT
10405940 TTTATAAAATCA
1 TTTATAAAATCA
10405952 CAATTTCTCC
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:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:10407969 original size:29 final size:28
Alignment explanation
Indices: 10407857--10408022 Score: 179
Period size: 29 Copynumber: 5.8 Consensus size: 28
10407847 GGGTTTGACA
*
10407857 TGTCTAAATTGAGACAAAAATATTTTATCT
1 TGTCTAAATTAAGACAAAAATA-TTT-TCT
* *
10407887 TGTCTAAATTGAGACAAATATATTTTCT
1 TGTCTAAATTAAGACAAAAATATTTTCT
* * * *
10407915 TATCTAGATTAAAACAAAAAAAATTTTCT
1 TGTCTAAATTAAGAC-AAAAATATTTTCT
*
10407944 TGTCTTAAATTAAGACAAACATATTTTCT
1 TGTC-TAAATTAAGACAAAAATATTTTCT
* * *
10407973 TGTCTAAATTAAGATCAAACATGTTTTAT
1 TGTCTAAATTAAGA-CAAAAATATTTTCT
*
10408002 TGTCTAAATTAAGATAAAAAT
1 TGTCTAAATTAAGACAAAAAT
10408023 GTTAAAGCTG
Statistics
Matches: 117, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
28 29 0.25
29 58 0.50
30 30 0.26
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (28 bp):
TGTCTAAATTAAGACAAAAATATTTTCT
Found at i:10408034 original size:29 final size:29
Alignment explanation
Indices: 10407973--10408034 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
10407963 CATATTTTCT
* ** *
10407973 TGTCTAAATTAAGATCAAACATGTTTTAT
1 TGTCTAAATTAAGATCAAAAATGTTAAAC
10408002 TGTCTAAATTAAGAT-AAAAATGTTAAAGC
1 TGTCTAAATTAAGATCAAAAATGTTAAA-C
10408031 TGTC
1 TGTC
10408035 ATTTTTGTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (29 bp):
TGTCTAAATTAAGATCAAAAATGTTAAAC
Found at i:10412187 original size:19 final size:18
Alignment explanation
Indices: 10412163--10412199 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
10412153 ATATATATAT
*
10412163 ATAGATTGTTTTACATTAA
1 ATAGATTATTTTA-ATTAA
10412182 ATAGATTATTTTAATTAA
1 ATAGATTATTTTAATTAA
10412200 TATTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (18 bp):
ATAGATTATTTTAATTAA
Found at i:10415232 original size:22 final size:22
Alignment explanation
Indices: 10415201--10415253 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
10415191 AGCATTACGC
*
10415201 CACGTTAATACAAAATCAACAT
1 CACGTCAATACAAAATCAACAT
10415223 CACGTCAATACAAAATCAACAT
1 CACGTCAATACAAAATCAACAT
10415245 CACGTCAAT
1 CACGTCAAT
10415254 TGATAGTACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.47, C:0.26, G:0.06, T:0.21
Consensus pattern (22 bp):
CACGTCAATACAAAATCAACAT
Found at i:10420274 original size:29 final size:28
Alignment explanation
Indices: 10420223--10420298 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
10420213 AGATATTAAA
*
10420223 GTGTAACAAAAT-TTTTTTGAATATGGC
1 GTGTAACAAAATATTTTTTCAATATGGC
*
10420250 GTGTAATAATAATATTTTTTCAATATGGC
1 GTGTAACAA-AATATTTTTTCAATATGGC
* *
10420279 ATGTAACAACAGTATTTTTT
1 GTGTAACAA-AATATTTTTT
10420299 TTTTCAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 8 0.20
28 3 0.07
29 30 0.73
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.43
Consensus pattern (28 bp):
GTGTAACAAAATATTTTTTCAATATGGC
Found at i:10420434 original size:24 final size:24
Alignment explanation
Indices: 10420406--10420463 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
10420396 ATAACTTAAC
10420406 CATGACGTGTCACATGTTTCTGTA
1 CATGACGTGTCACATGTTTCTGTA
10420430 CATGACGTGTCACATGTTTCTGTA
1 CATGACGTGTCACATGTTTCTGTA
*
10420454 CATGATGTGT
1 CATGACGTGT
10420464 AACAACCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (24 bp):
CATGACGTGTCACATGTTTCTGTA
Found at i:10420528 original size:45 final size:45
Alignment explanation
Indices: 10420430--10420529 Score: 103
Period size: 45 Copynumber: 2.2 Consensus size: 45
10420420 TGTTTCTGTA
** *
10420430 CATGACGTGTCACATGTTTCTGTACATGATGTGTAACAACCTAAT
1 CATGACGTGTCACATGTTTCTACACATGATGTGTAACAACCAAAT
* * * * * *
10420475 AATAACGTGTTACATGTTTTTACACATGGCT-TGTAACAATCAAAT
1 CATGACGTGTCACATGTTTCTACACAT-GATGTGTAACAACCAAAT
10420520 CATGACGTGT
1 CATGACGTGT
10420530 AATATATTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
45 41 0.95
46 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (45 bp):
CATGACGTGTCACATGTTTCTACACATGATGTGTAACAACCAAAT
Found at i:10423106 original size:14 final size:15
Alignment explanation
Indices: 10423087--10423115 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10423077 ACTGACCCAT
10423087 GAAAAA-GAAAAAAA
1 GAAAAAGGAAAAAAA
10423101 GAAAAAGGAAAAAAA
1 GAAAAAGGAAAAAAA
10423116 TAGAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
GAAAAAGGAAAAAAA
Found at i:10423197 original size:26 final size:26
Alignment explanation
Indices: 10423136--10423210 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
10423126 AAGAATAAAT
* *
10423136 TATTTATAAAATTTAAA-A-TATTAA
1 TATTAATATAATTTAAATATTATTAA
10423160 TATTTTATATATAATTTAAATATTATTAA
1 TA--TTA-ATATAATTTAAATATTATTAA
* *
10423189 TATTAATATGATTAAAATATTA
1 TATTAATATAATTTAAATATTA
10423211 ATATTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
24 2 0.05
26 17 0.40
27 14 0.33
28 1 0.02
29 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
TATTAATATAATTTAAATATTATTAA
Found at i:10423225 original size:16 final size:16
Alignment explanation
Indices: 10423147--10423267 Score: 79
Period size: 16 Copynumber: 7.4 Consensus size: 16
10423137 ATTTATAAAA
10423147 TTTAAAATATTAATAT
1 TTTAAAATATTAATAT
*
10423163 TTTATATATAATTTAAATAT
1 TTTA-AAAT-A-TT-AATAT
10423183 TATT--AATATTAATAT
1 T-TTAAAATATTAATAT
*
10423198 GATTAAAATATTAATAT
1 -TTTAAAATATTAATAT
* *
10423215 TTTAAACTATTAATGT
1 TTTAAAATATTAATAT
**
10423231 TTT-ATTTATTAA-AT
1 TTTAAAATATTAATAT
* *
10423245 TATTAATATATTAAAAT
1 T-TTAAAATATTAATAT
10423262 TTTAAA
1 TTTAAA
10423268 GAGTATAAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
14 2 0.02
15 16 0.19
16 34 0.41
17 18 0.22
18 3 0.04
19 2 0.02
20 6 0.07
21 2 0.02
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (16 bp):
TTTAAAATATTAATAT
Found at i:10423331 original size:23 final size:23
Alignment explanation
Indices: 10423279--10423334 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
10423269 AGTATAAATA
10423279 AAAATAAAA-AATATTAATATTT
1 AAAATAAAATAATATTAATATTT
* *
10423301 TAATTAAAATAATATTAA-ATTAT
1 AAAATAAAATAATATTAATATT-T
10423324 AAAATAAAATA
1 AAAATAAAATA
10423335 TTAGTAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATAAAATAATATTAATATTT
Found at i:10423604 original size:27 final size:27
Alignment explanation
Indices: 10423574--10423625 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
10423564 ATATCAAACT
10423574 ACGTAAT-ACTTATTTTATTTTATTTCC
1 ACGTAATAAC-TATTTTATTTTATTTCC
10423601 ACGTAATAACTATTTTATTTTATTT
1 ACGTAATAACTATTTTATTTTATTT
10423626 TTATCTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.56
Consensus pattern (27 bp):
ACGTAATAACTATTTTATTTTATTTCC
Found at i:10434660 original size:28 final size:28
Alignment explanation
Indices: 10434619--10434683 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
10434609 TAAATTTTTG
* ** *
10434619 AAAATTACCCTTTTAACCCCGTAAAGTGA
1 AAAATTA-CATTTTAACCCCAAAAACTGA
* *
10434648 AAAATTACATTTTTACCTCAAAAACTGA
1 AAAATTACATTTTAACCCCAAAAACTGA
10434676 AAAATTAC
1 AAAATTAC
10434684 CCATAGACAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 23 0.77
29 7 0.23
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (28 bp):
AAAATTACATTTTAACCCCAAAAACTGA
Found at i:10437836 original size:44 final size:41
Alignment explanation
Indices: 10437782--10437863 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
10437772 TTACAAAATG
* *
10437782 AATAGGTTTAGATAGGTAAAATTTATAGAAAGAAAATAAATGAT
1 AATAGATTTAGATAGG-AAAA-ATATAGAAA-AAAATAAATGAT
* *
10437826 AATAGATTTAGGTAGGAAAAATATAGAAATAAATAAAT
1 AATAGATTTAGATAGGAAAAATATAGAAAAAAATAAAT
10437864 ATTCAGGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 8 0.24
42 8 0.24
43 4 0.12
44 14 0.41
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (41 bp):
AATAGATTTAGATAGGAAAAATATAGAAAAAAATAAATGAT
Found at i:10451174 original size:22 final size:22
Alignment explanation
Indices: 10451133--10451173 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10451123 TACCTTTTGT
*
10451133 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
10451155 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
10451174 TNATCTTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:10451245 original size:20 final size:22
Alignment explanation
Indices: 10451222--10451265 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
10451212 CACCTAGGGT
10451222 TTTGTTCTT-CCTT-TTCTTCC
1 TTTGTTCTTGCCTTGTTCTTCC
*
10451242 TTTGTTCTTGCTTTGTTCTTCC
1 TTTGTTCTTGCCTTGTTCTTCC
10451264 TT
1 TT
10451266 GGCCAGCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 3 0.14
22 9 0.43
ACGTcount: A:0.00, C:0.25, G:0.09, T:0.66
Consensus pattern (22 bp):
TTTGTTCTTGCCTTGTTCTTCC
Found at i:10453057 original size:34 final size:34
Alignment explanation
Indices: 10453007--10453074 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
10452997 GAACAACGCG
* *
10453007 GATAGTGAAGACACAAATGATCATGAGCTATGTA
1 GATAGTGAAAACACAAATGATCATGAGCAATGTA
*
10453041 GATAGTGAAAATACAAATGATCATGAGCAATGTA
1 GATAGTGAAAACACAAATGATCATGAGCAATGTA
10453075 AATCCCGACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (34 bp):
GATAGTGAAAACACAAATGATCATGAGCAATGTA
Found at i:10456463 original size:50 final size:50
Alignment explanation
Indices: 10456404--10456786 Score: 462
Period size: 50 Copynumber: 7.7 Consensus size: 50
10456394 GTTTATATTG
** *
10456404 TTTTTAAAGTTGTTAAGCCTCGGATGAGGAGCAGTTTATTTTTAAAATTA
1 TTTTTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAATTA
* * * * *
10456454 TTTTTAAAGTTTGTTAAGCCTCGGATGAGTACTTGATTATTTTT-TAATTT
1 TTTTTAAAG-TTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAATTA
*
10456504 TTTTTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAAGTA
1 TTTTTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAATTA
* *
10456554 TTTTTAAAGTTGTTAAGCCTTGGATGAGGAGTTGTTTATTTTTCAAATTC
1 TTTTTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAATTA
* * * * * *
10456604 TTTTTGAAGTTGTTAAGCCTCGGATAAGGATTTTTTTTTTTTTCAAATTG
1 TTTTTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAATTA
* * * * *
10456654 TGTTTAAAGTCGTTAAGCCTCGAATGATGAGTTGTTTATTTTTCAAATTG
1 TTTTTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAATTA
* * * *
10456704 TTTTTAATGTTATTAAGCCTCAGAAGAGGAGTTGTTTATTTTTCAAATTA
1 TTTTTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAATTA
* * * * * *
10456754 CTTTTAAAATTATAAAGCCTTGAATGAGGAGTT
1 TTTTTAAAGTTGTTAAGCCTCGGATGAGGAGTT
10456787 ATATAGCCAG
Statistics
Matches: 282, Mismatches: 49, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
49 31 0.11
50 222 0.79
51 29 0.10
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (50 bp):
TTTTTAAAGTTGTTAAGCCTCGGATGAGGAGTTGTTTATTTTTCAAATTA
Found at i:10456521 original size:100 final size:100
Alignment explanation
Indices: 10456340--10456761 Score: 475
Period size: 100 Copynumber: 4.3 Consensus size: 100
10456330 AATACTTGGA
* * * * * * *
10456340 AGTTGTTTATTTTCCAAAGTGTTCTTAAAGTTGTTAAGCCTCAGATGAGGATTTGTTTA----T-
1 AGTTGTTTATTTTTCAAATTATTTTTAAAGTTGTTAAGCCTCGGATGAGTAGTTGTTTATTTTTC
10456400 --ATTGTTTTTAAAGTTGTTAAGCCTCGGATGAGG
66 AAATTGTTTTTAAAGTTGTTAAGCCTCGGATGAGG
** * * *
10456433 AGCAGTTTATTTTTAAAATTATTTTTAAAGTTTGTTAAGCCTCGGATGAGTACTTGATTATTTTT
1 AGTTGTTTATTTTTCAAATTATTTTTAAAG-TTGTTAAGCCTCGGATGAGTAGTTGTTTATTTTT
* *
10456498 -TAATTTTTTTTAAAGTTGTTAAGCCTCGGATGAGG
65 CAAATTGTTTTTAAAGTTGTTAAGCCTCGGATGAGG
* * *
10456533 AGTTGTTTATTTTTCAAAGTATTTTTAAAGTTGTTAAGCCTTGGATGAGGAGTTGTTTATTTTTC
1 AGTTGTTTATTTTTCAAATTATTTTTAAAGTTGTTAAGCCTCGGATGAGTAGTTGTTTATTTTTC
* * *
10456598 AAATTCTTTTTGAAGTTGTTAAGCCTCGGATAAGG
66 AAATTGTTTTTAAAGTTGTTAAGCCTCGGATGAGG
* * * * * * *
10456633 ATTTTTTTTTTTTTCAAATTGTGTTTAAAGTCGTTAAGCCTCGAATGA-TGAGTTGTTTATTTTT
1 AGTTGTTTATTTTTCAAATTATTTTTAAAGTTGTTAAGCCTCGGATGAGT-AGTTGTTTATTTTT
* * * *
10456697 CAAATTGTTTTTAATGTTATTAAGCCTCAGAAGAGG
65 CAAATTGTTTTTAAAGTTGTTAAGCCTCGGATGAGG
*
10456733 AGTTGTTTATTTTTCAAATTACTTTTAAA
1 AGTTGTTTATTTTTCAAATTATTTTTAAA
10456762 ATTATAAAGC
Statistics
Matches: 273, Mismatches: 47, Indels: 11
0.82 0.14 0.03
Matches are distributed among these distances:
93 23 0.08
94 25 0.09
98 1 0.00
99 30 0.11
100 194 0.71
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (100 bp):
AGTTGTTTATTTTTCAAATTATTTTTAAAGTTGTTAAGCCTCGGATGAGTAGTTGTTTATTTTTC
AAATTGTTTTTAAAGTTGTTAAGCCTCGGATGAGG
Done.