Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 129 of 373
Found at i:42658126 original size:39 final size:39
Alignment explanation
Indices: 42658070--42658378 Score: 512
Period size: 39 Copynumber: 7.9 Consensus size: 39
42658060 TTATATTATT
* * *
42658070 AGCACAAAGCCTACGGGACTTTGGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
42658109 AGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
42658148 AGCACGAAGCCTGCGGGACTTTGGCCGGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
42658187 AGCACGAAGCCTGC-GGACTTTAGTCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
42658225 AGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
** *
42658264 AGCACGAAGCCTGCGGGACTTTAGCCCAAATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
42658303 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
42658342 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
42658379 TCAGTGTCTT
Statistics
Matches: 254, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
38 35 0.14
39 219 0.86
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.21
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:42658352 original size:155 final size:156
Alignment explanation
Indices: 42658070--42658378 Score: 530
Period size: 155 Copynumber: 2.0 Consensus size: 156
42658060 TTATATTATT
*
42658070 AGCACAAAGCCTACGGGACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCC
1 AGCACAAAGCCTACGGGACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCC
** * *
42658135 CGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCGGGATACATTTCCAGCACGAAGCCTG
66 CAAATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTG
*
42658200 C-GGACTTTAGTCCGGATACATTTCC
131 CGGGACTTTAGCCCGGATACATTTCC
* *
42658225 AGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCC
1 AGCACAAAGCCTACGGGACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCC
*
42658290 CAAATATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTG
66 CAAATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTG
42658355 CGGGACTTTAGCCCGGATACATTT
131 CGGGACTTTAGCCCGGATACATTT
42658379 TCAGTGTCTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
155 123 0.85
156 21 0.15
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.21
Consensus pattern (156 bp):
AGCACAAAGCCTACGGGACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCC
CAAATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTG
CGGGACTTTAGCCCGGATACATTTCC
Found at i:42659747 original size:29 final size:29
Alignment explanation
Indices: 42659705--42659763 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
42659695 GACGATATGT
42659705 ATGTTAATAAAAGGTTTTAATTTGGGCAA
1 ATGTTAATAAAAGGTTTTAATTTGGGCAA
42659734 ATGTTAATAAAAGGTTTTAATTTGGGCAA
1 ATGTTAATAAAAGGTTTTAATTTGGGCAA
42659763 A
1 A
42659764 ATCTTATGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.37
Consensus pattern (29 bp):
ATGTTAATAAAAGGTTTTAATTTGGGCAA
Found at i:42676543 original size:29 final size:29
Alignment explanation
Indices: 42676510--42676569 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
42676500 TTATTTTGAA
42676510 GTAGGCTTCATGTTTAAAAATTTACTTAT
1 GTAGGCTTCATGTTTAAAAATTTACTTAT
*
42676539 GTAGGCTTCATGTTTAAAAATTTATTTAT
1 GTAGGCTTCATGTTTAAAAATTTACTTAT
42676568 GT
1 GT
42676570 GTGACATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (29 bp):
GTAGGCTTCATGTTTAAAAATTTACTTAT
Found at i:42681758 original size:29 final size:29
Alignment explanation
Indices: 42681695--42681762 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
42681685 TAATCAACCG
42681695 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
42681724 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
42681753 CGCACACTTA
1 CGCACACTTA
42681763 CCTTTTCCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:42681875 original size:174 final size:174
Alignment explanation
Indices: 42681584--42681911 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
42681574 AACTCAAGGT
* * *
42681584 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCACTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
42681649 GAAAATATATATTGGGTTCGCAGACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
42681714 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
**
42681758 ACTTACCTTTTCCACTGTCCAAAATCGACTCGGTATGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCACTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
42681823 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
42681888 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
42681912 TGTACAATTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCACTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:42681903 original size:29 final size:30
Alignment explanation
Indices: 42681864--42681942 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
42681854 CTTAATAATC
42681864 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
42681894 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
42681923 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
42681943 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:42681996 original size:101 final size:101
Alignment explanation
Indices: 42681869--42682085 Score: 434
Period size: 101 Copynumber: 2.1 Consensus size: 101
42681859 TAATCAACCA
42681869 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACAC
1 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACAC
42681934 TTAGTGCCAATCTCATGACCGTGAACACTTATTGCC
66 TTAGTGCCAATCTCATGACCGTGAACACTTATTGCC
42681970 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACAC
1 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACAC
42682035 TTAGTGCCAATCTCATGACCGTGAACACTTATTGCC
66 TTAGTGCCAATCTCATGACCGTGAACACTTATTGCC
42682071 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
42682086 GAAAACCAGC
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 116 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (101 bp):
CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACAC
TTAGTGCCAATCTCATGACCGTGAACACTTATTGCC
Found at i:42682003 original size:29 final size:30
Alignment explanation
Indices: 42681968--42682043 Score: 113
Period size: 29 Copynumber: 2.6 Consensus size: 30
42681958 ACACTTATTG
42681968 CCCGCACACTTAGTGCCATGTAC-TTTAAA
1 CCCGCACACTTAGTGCCATGTACATTTAAA
*
42681997 CTCGCACACTTAGTG-C-TGTACAATTTAAA
1 CCCGCACACTTAGTGCCATGTAC-ATTTAAA
42682026 CCCGCACACTTAGTGCCA
1 CCCGCACACTTAGTGCCA
42682044 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 34 0.83
30 1 0.02
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (30 bp):
CCCGCACACTTAGTGCCATGTACATTTAAA
Found at i:42686169 original size:40 final size:40
Alignment explanation
Indices: 42686071--42686373 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
42686061 TCCTCGTTCA
* * * * *
42686071 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
42686110 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
42686150 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42686190 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42686230 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
42686270 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
42686310 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
42686350 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42686374 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:42694159 original size:40 final size:40
Alignment explanation
Indices: 42694061--42694363 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
42694051 TCCTCGTTCA
* * * * *
42694061 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
42694100 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
42694140 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42694180 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42694220 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
42694260 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
42694300 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
42694340 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42694364 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:42701179 original size:29 final size:29
Alignment explanation
Indices: 42701116--42701183 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
42701106 TAATCAACCG
42701116 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
42701145 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
42701174 CGCACACTTA
1 CGCACACTTA
42701184 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:42701296 original size:174 final size:174
Alignment explanation
Indices: 42701005--42701332 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
42700995 AACTCAAGGT
* *
42701005 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
42701070 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
42701135 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
42701179 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTTGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
42701244 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
42701309 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
42701333 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:42701324 original size:29 final size:30
Alignment explanation
Indices: 42701285--42701363 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
42701275 CTTAATAATC
42701285 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
42701315 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
42701344 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
42701364 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:42706586 original size:25 final size:25
Alignment explanation
Indices: 42706558--42706616 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
42706548 TTATGGCTAA
*
42706558 TTTGATGTTGTTGTCGTTTGATAAG
1 TTTGATGTTGTTGCCGTTTGATAAG
42706583 TTTGATGTTGTTGCCGTTTGATAAG
1 TTTGATGTTGTTGCCGTTTGATAAG
42706608 TTTGATGTT
1 TTTGATGTT
42706617 ATTCTAGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.15, C:0.05, G:0.27, T:0.53
Consensus pattern (25 bp):
TTTGATGTTGTTGCCGTTTGATAAG
Found at i:42709985 original size:198 final size:199
Alignment explanation
Indices: 42709633--42710032 Score: 730
Period size: 198 Copynumber: 2.0 Consensus size: 199
42709623 AAGAGGCTAC
*
42709633 GTGGGAGCCCGAGGGAGCTATGAGAAACCATTATCCTAACCTATACACTAGTAAGATTTTCGGGG
1 GTGGGAGCCCGAGGGAGCTATGAGAAAACATTATCCTAACCTATACACTAGTAAGATTTTCGGGG
42709698 ACGAAAACCCCTAAGGGGGAGTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGG
66 ACGAAAACCCCTAAGGGGGAGTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGG
* * *
42709763 ACCACAAAATCCGAGATGGAAATAATTATTTTATGATTATTTTGAGGTCTATGATATGATTGCAT
131 ACCACAAAATCCGAGATAGAAATAATTATTTTATGATTATTTTGAGGTCTATGACATGATTGAAT
42709828 GATT
196 GATT
*
42709832 GTGGGAGCCCGAGGGAGCTATGAGAAAACATTATCCTAA-CTATACACTGGTAAGATTTTCGGGG
1 GTGGGAGCCCGAGGGAGCTATGAGAAAACATTATCCTAACCTATACACTAGTAAGATTTTCGGGG
*
42709896 ACGAAAATCCCTAAGGGGGAGTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGG
66 ACGAAAACCCCTAAGGGGGAGTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGG
*
42709961 ACCACAAAATTCGAGATAGAAATAATTATTTTATGATTATTTTGAGGTCTATGACATGATTGAAT
131 ACCACAAAATCCGAGATAGAAATAATTATTTTATGATTATTTTGAGGTCTATGACATGATTGAAT
42710026 GATT
196 GATT
42710030 GTG
1 GTG
42710033 TGAAAATTTC
Statistics
Matches: 194, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
198 156 0.80
199 38 0.20
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (199 bp):
GTGGGAGCCCGAGGGAGCTATGAGAAAACATTATCCTAACCTATACACTAGTAAGATTTTCGGGG
ACGAAAACCCCTAAGGGGGAGTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGG
ACCACAAAATCCGAGATAGAAATAATTATTTTATGATTATTTTGAGGTCTATGACATGATTGAAT
GATT
Found at i:42711600 original size:64 final size:64
Alignment explanation
Indices: 42711521--42711704 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
42711511 AGACATTATG
* * * *
42711521 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
42711585 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
42711650 AA
63 AA
* * *
42711652 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
42711705 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:42718107 original size:29 final size:29
Alignment explanation
Indices: 42718074--42718137 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
42718064 TGTCTAAGCT
*
42718074 ATGTGTGACACACGGCTTGCCCCATGGGC
1 ATGTGTGAAACACGGCTTGCCCCATGGGC
*
42718103 ATGTGTGAAACACGGCTTGCCTCATGGGC
1 ATGTGTGAAACACGGCTTGCCCCATGGGC
42718132 ATGTGT
1 ATGTGT
42718138 TTTGGCCGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (29 bp):
ATGTGTGAAACACGGCTTGCCCCATGGGC
Found at i:42721320 original size:42 final size:42
Alignment explanation
Indices: 42721261--42721355 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
42721251 GAGACTATGC
42721261 GTAAGACCATATCTGGGAAATGGCATCAATATGA-ATTTTCGT
1 GTAAGACCATATCTGGGAAATGGCATCAATATGAGA-TTTCGT
* * *
42721303 GTAAGACCATATCTGGGATATGGTATCGATATGAGATTTCGT
1 GTAAGACCATATCTGGGAAATGGCATCAATATGAGATTTCGT
42721345 GTAAGACCATA
1 GTAAGACCATA
42721356 GTTGGGCTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.31
Consensus pattern (42 bp):
GTAAGACCATATCTGGGAAATGGCATCAATATGAGATTTCGT
Found at i:42726613 original size:30 final size:30
Alignment explanation
Indices: 42726577--42726637 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
42726567 CATTTAATAC
*
42726577 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
42726607 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
42726637 A
1 A
42726638 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:42730624 original size:27 final size:26
Alignment explanation
Indices: 42730560--42730636 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 26
42730550 CTCATCTATA
42730560 CTTATTTGATGTATATGTGAATTATGTG
1 CTTATTTGA-GTATATGTG-ATTATGTG
* *
42730588 ATTAACTTGAGTATATGTGATTAACT-TG
1 CTT-ATTTGAGTATATGTGATT-A-TGTG
42730616 CTTATTTGAGTATATGTGATT
1 CTTATTTGAGTATATGTGATT
42730637 GGGCAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 20 0.48
28 16 0.38
29 6 0.14
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.48
Consensus pattern (26 bp):
CTTATTTGAGTATATGTGATTATGTG
Found at i:42731186 original size:21 final size:21
Alignment explanation
Indices: 42731139--42731191 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
42731129 CTGCCTATAG
* **
42731139 CACGGGCGTGTCCTATGGTCA
1 CACGGGCGTGTCCCATGACCA
* *
42731160 CCCGGGAGTGTCCCATGACCA
1 CACGGGCGTGTCCCATGACCA
42731181 CACGGGCGTGT
1 CACGGGCGTGT
42731192 GTGCCTTGCA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.32, G:0.34, T:0.19
Consensus pattern (21 bp):
CACGGGCGTGTCCCATGACCA
Found at i:42733400 original size:26 final size:26
Alignment explanation
Indices: 42733363--42733416 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
42733353 GTCTGAGTCT
*
42733363 GAGTCATGTTAATAGTGAGTTAAAAA
1 GAGTCATCTTAATAGTGAGTTAAAAA
*
42733389 GAGTCATCTTAATATTGAGTTAAAAA
1 GAGTCATCTTAATAGTGAGTTAAAAA
42733415 GA
1 GA
42733417 TAAAACGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (26 bp):
GAGTCATCTTAATAGTGAGTTAAAAA
Found at i:42743116 original size:32 final size:32
Alignment explanation
Indices: 42743075--42743138 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
42743065 CTGGATTTCT
42743075 TCCCCTTTTATCAAATATATCAATGTTAATGA
1 TCCCCTTTTATCAAATATATCAATGTTAATGA
42743107 TCCCCTTTTATCAAATATATCAATGTTAATGA
1 TCCCCTTTTATCAAATATATCAATGTTAATGA
42743139 ACATTCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (32 bp):
TCCCCTTTTATCAAATATATCAATGTTAATGA
Found at i:42746605 original size:47 final size:47
Alignment explanation
Indices: 42746539--42746849 Score: 173
Period size: 47 Copynumber: 6.6 Consensus size: 47
42746529 GGTGAGAGCC
42746539 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-TGA-GATGAAGGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGATGAT--A-GCT
* *
42746587 AGTGTAAGA-CATGTCTGGGACAT-GCATTAGCCATATTATGATAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CATATGATGATAGCT
* * * * *
42746633 AGTGTAAGACCATGTTTGGGACATGGCATCAGCTTAAAGAGGAGT-GCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-ATGATGA-TAGCT
* * * * * * *
42746681 AATGTAGGA-CATGTTTGGGACAT-GCATCGGCCTCAACGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAT--ATGATGATAGCT
* * * * *
42746728 AGTGTAAGA-CGTGCCTGGGACAT-GCAT-AGGC-TAAGCTTCAT-GCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCA-GCATATG-ATGATAGCT
* * * * * *
42746772 AGTGTAAGA-CATGTTTAGAACAT-GCATCAGCACGTATACACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCA--TAT-GATGATAGCT
*
42746820 AGTATAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
42746850 GACAACTTAA
Statistics
Matches: 204, Mismatches: 40, Indels: 36
0.73 0.14 0.13
Matches are distributed among these distances:
44 28 0.14
45 4 0.02
46 28 0.14
47 83 0.41
48 41 0.20
49 15 0.07
50 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGATGATAGCT
Found at i:42746747 original size:94 final size:94
Alignment explanation
Indices: 42746535--42746849 Score: 252
Period size: 94 Copynumber: 3.4 Consensus size: 94
42746525 ATTAGGTGAG
* * *
42746535 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATGAAGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTAAGATGAAGGCCAATGTAAGACATG
* **
42746600 TCTGGGACATGCATTAGCCATATTATGAT
66 TCTGGGACATGCATCAGCCATACGATGAT
* * * *
42746629 AGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGC-TTAAAGA-GGAGTGCCAATGTAGGACA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATT-AAGATGAAG-GCCAATGTAAGACA
* *
42746692 TGTTTGGGACATGCATCGGCC-TCAACGATGAT
64 TGTCTGGGACATGCATCAGCCAT--ACGATGAT
* * * ** * * *
42746724 AGCCAGTGTAAGA-CGTGCCTGGGACAT-GCAT-AGGC--TAAGCTTCATGCTAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCA-GCATTAAGATGAAGGCCAATGTAAGACAT
* * * * *
42746784 GTTTAGAACATGCATCAGCACGTATAC-ACGAG
65 GTCTGGGACATGCATCAGC-C--ATACGATGAT
* *
42746816 AGCTAGTATAAGACCATGTCTGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
42746850 GACAACTTAA
Statistics
Matches: 176, Mismatches: 32, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
91 31 0.18
92 18 0.10
93 26 0.15
94 82 0.47
95 19 0.11
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTAAGATGAAGGCCAATGTAAGACATG
TCTGGGACATGCATCAGCCATACGATGAT
Found at i:42749134 original size:47 final size:47
Alignment explanation
Indices: 42749056--42749423 Score: 189
Period size: 47 Copynumber: 7.8 Consensus size: 47
42749046 TTGAATTATG
42749056 CGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGA
1 CGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCATTGAGA
* * * * **
42749104 CGAGGGCTAGTGTAAGA-CATGTCTGGGACATGCATCAACCA-CGTTA
1 CGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATC-AGCATTGAGA
* * * ** *
42749150 TGACAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAGTGTAGAGA
1 CGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCATTGAGA
* * * * ** * * *
42749198 GGAGTGCCAATGTGAGA-CATGTCTAAGACATGCATCGGCCTCGACGA
1 CGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCATTGA-GA
* * * *
42749245 TGATAGCCAGTGTAAGACGC--GTCTGGGACATGCATC-G-ACTAAG-
1 CGAGAGCCAGTGTAAGAC-CATGTCTGGGACATGCATCAGCATTGAGA
** * * *
42749288 CTTCGTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCACGTAT-ACA
1 C-GAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCA--T-TGAGA
* *** * * * *
42749337 TGAGAATTAGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGATGA
1 CGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCATTGA-GA
* * *
42749386 AGATAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 CGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATC
42749424 GGCAACTTAA
Statistics
Matches: 234, Mismatches: 66, Indels: 39
0.69 0.19 0.12
Matches are distributed among these distances:
42 1 0.00
44 28 0.12
45 2 0.01
46 30 0.13
47 72 0.31
48 46 0.20
49 48 0.21
50 7 0.03
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (47 bp):
CGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCATTGAGA
Found at i:42749179 original size:94 final size:92
Alignment explanation
Indices: 42749060--42749374 Score: 282
Period size: 94 Copynumber: 3.4 Consensus size: 92
42749050 ATTATGCGAG
*
42749060 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-ATTGAGACGAGTGCTAGTGTAAGACATG
42749125 TCTGGGACATGCATCAACCACGTTATGAC
65 TCTGGGACATGCATC-ACCACGTTATGAC
* * * * *
42749154 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTAG-TGTAGAGAGGAGTGCCAATGTGAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGAT-T-GAGACGAGTGCTAGTGTAAGACAT
** * * ** *
42749218 GTCTAAGACATGCATCGGCCTCGACGATGAT
64 GTCTGGGACATGCATC-ACCACG-TTATGAC
* * **
42749249 AGCCAGTGTAAGACGC--GTCTGGGACAT-GCATC-GACTAAG-CTTCGTGCTAGTGTAAGACAT
1 AGCCAGTGTAAGAC-CATGTCTGGGACATGGCATCAGATTGAGAC-GAGTGCTAGTGTAAGACAT
* *
42749309 GTCTGGGACATGCATCAGCACGTATACATGAG
64 GTCTGGGACATGCATCACCACGT-T--ATGAC
*** *
42749341 AATTAGTGTAAAACCATGTCTGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
42749375 GGCCTCGATG
Statistics
Matches: 174, Mismatches: 35, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
90 3 0.02
91 31 0.18
92 17 0.10
93 16 0.09
94 88 0.51
95 18 0.10
96 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (92 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGATTGAGACGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCACCACGTTATGAC
Found at i:42767776 original size:43 final size:42
Alignment explanation
Indices: 42767678--42767798 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
42767668 TAGGGTTAGT
* * *
42767678 GAGATTACTTGTAAAACCATATCTGGGATATGGCATCGATAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
** * *
42767720 GAGACTT-TGTGTAAGACCATAGCTGGGCTATTGGCATCGATAC
1 GAGA-TTACATGTAAGACCATATCTGGGATA-TGGCATCGATAC
42767763 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
42767799 TGGTACATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 30 0.45
43 36 0.55
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:42789593 original size:29 final size:29
Alignment explanation
Indices: 42789560--42789620 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
42789550 CTGCGATTGT
42789560 TGTTAATCAGAATCCTGCTCCGCGCACTA
1 TGTTAATCAGAATCCTGCTCCGCGCACTA
42789589 TGTTAATCAGAATCCTGCTCCGCGCACTA
1 TGTTAATCAGAATCCTGCTCCGCGCACTA
42789618 TGT
1 TGT
42789621 ATGATTATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (29 bp):
TGTTAATCAGAATCCTGCTCCGCGCACTA
Found at i:42792850 original size:37 final size:37
Alignment explanation
Indices: 42792750--42792852 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
42792740 CAAATAGTCC
* *
42792750 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
42792787 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
42792824 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
42792853 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:42793051 original size:48 final size:48
Alignment explanation
Indices: 42792993--42793419 Score: 737
Period size: 48 Copynumber: 8.9 Consensus size: 48
42792983 ATGTACACAC
*
42792993 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
42793041 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
42793089 ATCTCATATATATTTCACATTAGCCATTCGTCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
42793137 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
42793185 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
42793233 ATCTCATATATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
42793281 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTA-C-CACATATACAT
42793331 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
42793379 ATCTCATACATATTTCACACTAGTCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
42793420 CACATATATA
Statistics
Matches: 361, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 313 0.87
49 2 0.01
50 46 0.13
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:42796770 original size:23 final size:23
Alignment explanation
Indices: 42796744--42796790 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
42796734 CATTCTGTTG
*
42796744 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
42796767 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
42796790 T
1 T
42796791 AATGTCACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:42799723 original size:24 final size:26
Alignment explanation
Indices: 42799671--42799723 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
42799661 TTTCGATAGA
*
42799671 GATTATAAGTTGAGAATAATTTATTTT
1 GATTATAAGTTGAGAAT-ATTTATCTT
*
42799698 GATTATGAGTTGAGAAT-TTT-TCTT
1 GATTATAAGTTGAGAATATTTATCTT
42799722 GA
1 GA
42799724 GGACAAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 3 0.12
27 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (26 bp):
GATTATAAGTTGAGAATATTTATCTT
Found at i:42816934 original size:6 final size:6
Alignment explanation
Indices: 42816916--42817004 Score: 58
Period size: 6 Copynumber: 14.3 Consensus size: 6
42816906 AGGAAACATT
* * *
42816916 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGAGAAA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG--A ATCAGA
* *
42816965 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATC-AGA ATCAGA AT
42817005 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 9, Indels: 18
0.71 0.10 0.20
Matches are distributed among these distances:
5 6 0.09
6 46 0.71
7 9 0.14
8 4 0.06
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:42816993 original size:31 final size:31
Alignment explanation
Indices: 42816925--42817004 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
42816915 TATCAGAACT
* * *
42816925 AGAATCAGAATCAGAATCAGAATTAGGTGAG
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
42816956 AAAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
42816987 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
42817005 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 31 0.76
32 10 0.24
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:42817189 original size:27 final size:26
Alignment explanation
Indices: 42817141--42817200 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
42817131 GCTCAGTTAT
* *
42817141 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCA-AAA
*
42817168 CAGATATTGTGGCTAG-GCCACCAAAA
1 CAGATATTGTGAC-AGAGCCACCAAAA
42817194 CAGATAT
1 CAGATAT
42817201 ATATATGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 18 0.62
28 2 0.07
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAAAA
Found at i:42817287 original size:27 final size:26
Alignment explanation
Indices: 42817239--42817290 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
42817229 GCGAGGCTGC
*
42817239 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
42817265 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
42817291 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:42817584 original size:27 final size:27
Alignment explanation
Indices: 42817536--42817783 Score: 273
Period size: 27 Copynumber: 9.2 Consensus size: 27
42817526 GGGTAAAATG
* * * * *
42817536 GTAATTTTACCCCACAAAGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
42817563 GTAATTCTATCCTACAGGGGTATTT-A
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
42817589 GTAATTCTACCATACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
42817616 GTATTTCTACCCTACAAGGGTATTTCT
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
42817643 GTAGTTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
42817670 GTAACTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * *
42817697 GTATTTCTATCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
42817724 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
42817751 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
42817778 GTAATT
1 GTAATT
42817784 TTGTAAATTG
Statistics
Matches: 191, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 23 0.12
27 168 0.88
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:42817699 original size:81 final size:81
Alignment explanation
Indices: 42817539--42817776 Score: 309
Period size: 81 Copynumber: 3.0 Consensus size: 81
42817529 TAAAATGGTA
* * * * * *
42817539 ATTT-TACCCCACAAAGGTATCTCGGTAATTCTATCCTACAGGGGTA-TTTAGTAATTCTACCAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
42817602 ACAGGGGTATTTCAGT
66 ACAGGGGTATTTCAGT
* * *
42817618 ATTTCTACCCTACAAGGGTATTTCTGTAGTTCTACCCTACAAGGGTATTTTAGTAACTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
*
42817683 ATAGGGGTATTTCAGT
66 ACAGGGGTATTTCAGT
* * * ** *
42817699 ATTTCTATCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
*
42817764 ACAAGGGTATTTC
66 ACAGGGGTATTTC
42817777 GGTAATTTTG
Statistics
Matches: 137, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
79 4 0.03
80 35 0.26
81 98 0.72
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTCAGT
Found at i:42817797 original size:27 final size:27
Alignment explanation
Indices: 42817767--42818270 Score: 267
Period size: 27 Copynumber: 18.7 Consensus size: 27
42817757 CTACCCTACA
** *
42817767 AGGGTATTTCGGTAATTTTGTAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*** ** *
42817794 AGGGTAAAACGGTAATTTTGTAAAT-T
1 AGGGTATTTCGGTAATTTTACAAATCG
*
42817820 AGGGGTACTTT-GGTAATTTTACAAGTCG
1 A-GGGTA-TTTCGGTAATTTTACAAATCG
** **
42817848 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
42817875 AGGGTATTTCAGTAATTTCACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
42817902 AGGGTATTTTGGTAATTTTACAGA-CT
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * * *
42817928 AGGGGTATTTTGATAATTATACAAACCA
1 A-GGGTATTTCGGTAATTTTACAAATCG
* * *
42817956 AGGGTATTTTGGTACTTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
42817982 AGGGGTATTTTGGTAATTTTACAAA-CC
1 A-GGGTATTTCGGTAATTTTACAAATCG
* *
42818009 AGGGGTATTTTGGTAATTTTACAAA-CC
1 A-GGGTATTTCGGTAATTTTACAAATCG
* ** * *
42818036 AGGGGTATTTTGGTAATTTTGTAAACCA
1 A-GGGTATTTCGGTAATTTTACAAATCG
* *
42818064 AGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
42818090 AGGGGTATTTTGGTAATTTTATAAA-CAA
1 A-GGGTATTTCGGTAATTTTACAAATC-G
** *
42818118 AGGGTATTTTAGTAATTTTACAAA-CTA
1 AGGGTATTTCGGTAATTTTACAAATC-G
* ** ** *
42818145 AGGGTATTTTGGTAATTTTGTAAGCCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
42818172 AGGGTATTTTGGTAATTTTACAAA-CT
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
42818198 AGGGGTATTTTGGTAATTTTATAAA-CAA
1 A-GGGTATTTCGGTAATTTTACAAATC-G
* ** *
42818226 AGAGTATTTTAGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTACAAATCG
*
42818252 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTCGGTAATTT
42818271 GGTAAACTAA
Statistics
Matches: 403, Mismatches: 60, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.03
27 382 0.95
28 8 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:42817934 original size:54 final size:54
Alignment explanation
Indices: 42817804--42818270 Score: 567
Period size: 54 Copynumber: 8.6 Consensus size: 54
42817794 AGGGTAAAAC
** * * ** * *
42817804 GGTAATTTTGTAAATTAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
** ** * ** * *
42817858 AATAATTTTAC-AGGTCGAGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTT
1 GGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
* * *
42817912 GGTAATTTTACAGACTAGGGGTATTTTGATAATTATACAAACCAAGGGTATTTT
1 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
* * *
42817966 GGTACTTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
* **
42818020 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
* * *
42818074 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTT
1 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
* * ** *
42818128 AGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAGCCAAGGGTATTTT
1 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
* * *
42818182 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAAGAGTATTTT
1 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
* *
42818236 AGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
42818271 GGTAAACTAA
Statistics
Matches: 359, Mismatches: 52, Indels: 4
0.87 0.13 0.01
Matches are distributed among these distances:
53 3 0.01
54 354 0.99
55 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
Found at i:42818277 original size:27 final size:27
Alignment explanation
Indices: 42817876--42818270 Score: 520
Period size: 27 Copynumber: 14.6 Consensus size: 27
42817866 TACAGGTCGA
** * * *
42817876 GGGTATTTCAGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
42817903 GGGTATTTTGGTAATTTTACAGACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
42817930 GGGTATTTTGATAATTATACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
42817957 GGGTATTTTGGTACTTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
42817984 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
42818011 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
42818038 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
42818065 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
42818092 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
42818119 GGGTATTTTAGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
42818146 GGGTATTTTGGTAATTTTGTAAGCCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
42818173 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
42818200 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
42818227 GAGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
42818254 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
42818271 GGTAAACTAA
Statistics
Matches: 319, Mismatches: 49, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 319 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:42818277 original size:54 final size:54
Alignment explanation
Indices: 42817876--42818270 Score: 574
Period size: 54 Copynumber: 7.3 Consensus size: 54
42817866 TACAGGTCGA
** * * * * *
42817876 GGGTATTTCAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAGACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * *
42817930 GGGTATTTTGATAATTATACAAACCAAGGGTATTTTGGTACTTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
42817984 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
*
42818038 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * *
42818092 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
42818146 GGGTATTTTGGTAATTTTGTAAGCCAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
42818200 GGGTATTTTGGTAATTTTATAAACAAAGAGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
42818254 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
42818271 GGTAAACTAA
Statistics
Matches: 309, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 309 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
Found at i:42818279 original size:81 final size:81
Alignment explanation
Indices: 42817822--42818270 Score: 549
Period size: 81 Copynumber: 5.5 Consensus size: 81
42817812 TGTAAATTAG
* ** *** *** * **
42817822 GGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
* *
42817886 GTAATTTCACAAATCAA
65 GTAATTTTACAAACCAA
* * * *
42817903 GGGTATTTTGGTAATTTTACAGACTAGGGGTATTTTGATAATTATACAAACCAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
* *
42817968 TACTTTTACAAACCAG
66 TAATTTTACAAACCAA
*
42817984 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
**
42818049 TAATTTTGTAAACCAA
66 TAATTTTACAAACCAA
* * *
42818065 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
*
42818130 TAATTTTACAAACTAA
66 TAATTTTACAAACCAA
** * * * *
42818146 GGGTATTTTGGTAATTTTGTAAGCCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
* *
42818211 TAATTTTATAAACAAA
66 TAATTTTACAAACCAA
* *
42818227 GAGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
42818271 GGTAAACTAA
Statistics
Matches: 317, Mismatches: 50, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
81 316 1.00
82 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
TAATTTTACAAACCAA
Found at i:42822304 original size:80 final size:79
Alignment explanation
Indices: 42822219--42822390 Score: 193
Period size: 79 Copynumber: 2.2 Consensus size: 79
42822209 GGACTAAGAT
* *
42822219 CCGAAGGCTTTTGTGCGAGCT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGCTGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* * *
42822283 AAATCTGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
42822299 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGCTGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
42822364 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
42822378 CCGAAGGCATTTG
1 CCGAAGGCATTTG
42822391 AACGAGGAGC
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 37 0.49
80 36 0.47
81 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:42822370 original size:39 final size:39
Alignment explanation
Indices: 42822166--42822388 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 39
42822156 TTGAATGCTG
* * * * * *
42822166 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
42822206 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGCTAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGC-ATTGTGCGAGTTACTAAA
* * *
42822245 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
42822286 TCTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
42822326 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
42822365 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42822389 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 39 0.25
40 102 0.67
41 12 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:42822408 original size:79 final size:80
Alignment explanation
Indices: 42822246--42822423 Score: 189
Period size: 79 Copynumber: 2.2 Consensus size: 80
42822236 AGCTACAAAT
* * * * *
42822246 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCTGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
42822311 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
42822326 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
42822390 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
42822405 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42822424 TACGTGATTT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 48 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:42837102 original size:45 final size:45
Alignment explanation
Indices: 42837008--42837121 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
42836998 CAGGCATTTC
* *
42837008 GCCTGCTAGGCTCG-AGGCCCG-ATATGATTTCACCGACTTTATA
1 GCCTGCTAGGCTCGAAAGCCCGAATATGATTTCACCGACATTATA
42837051 GCCTGCTAGGCTCGAAAGCCCGAATA-GTATCTT-ACCGACATTATA
1 GCCTGCTAGGCTCGAAAGCCCGAATATG-AT-TTCACCGACATTATA
* *
42837096 GTCTGCTAAGCTC-AAAGGCCCGAATA
1 GCCTGCTAGGCTCGAAA-GCCCGAATA
42837122 ATCAAATCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
43 14 0.23
44 10 0.16
45 36 0.58
46 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAAGCCCGAATATGATTTCACCGACATTATA
Found at i:42837499 original size:43 final size:43
Alignment explanation
Indices: 42837451--42837605 Score: 274
Period size: 43 Copynumber: 3.6 Consensus size: 43
42837441 CCGGCATTAC
42837451 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
42837494 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
42837537 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
42837580 GCCTGCTAGGTACGAAGGCCTGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
42837606 TAATACTAGC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:42854973 original size:49 final size:49
Alignment explanation
Indices: 42854912--42855671 Score: 941
Period size: 47 Copynumber: 15.6 Consensus size: 49
42854902 GATAATTGTG
42854912 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
42854959 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42855006 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42855055 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
42855104 ATGTGAAAGTG--TATATATGTGACAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
42855151 ATGTGAAAGTGTATATATATGTGATAAGACCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42855200 ATGTGAAAGTGTATATATATGTGATAAGG-CTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*** * * * * * * *
42855248 ATGTGGCCGATGTGATGAATGTGAAAGTGTATATATG--TGATGAGGCCTAATGGCCGATGTG
1 ATGTGAAAG-TGT-AT--ATAT--ATGTG-ATA-AGGCCTAAT--GGCC-GAT-G-TGATG-A
* *
42855309 ATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCAATGTGATGA
1 ----ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
42855360 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42855407 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42855456 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
42855505 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
**
42855552 ATGTGAAAGTG--TATATATGTGAGGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
42855599 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42855646 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
42855672 TCCCGAAGGG
Statistics
Matches: 633, Mismatches: 50, Indels: 60
0.85 0.07 0.08
Matches are distributed among these distances:
47 287 0.45
48 28 0.04
49 255 0.40
50 2 0.00
52 7 0.01
53 1 0.00
54 7 0.01
55 12 0.02
56 4 0.01
57 11 0.02
58 2 0.00
59 4 0.01
60 4 0.01
61 1 0.00
64 2 0.00
65 6 0.01
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:42855019 original size:96 final size:96
Alignment explanation
Indices: 42854912--42855671 Score: 943
Period size: 96 Copynumber: 7.8 Consensus size: 96
42854902 GATAATTGTG
42854912 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
42854975 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
42855006 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
42855071 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
42855104 ATGTGAAAGTG--TATATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
42855167 ATATGTGATAAGACCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
***
42855200 ATGTGAAAGTGTATATATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGGCCGATGTGAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-TGT-AT
** * *
42855264 GA-ATGTGA-AAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
64 -ATATGTGATAAG-G--CCTA----AT--GGCC-GAT-G-TGA--T---GA
* *
42855313 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
42855376 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
42855407 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
42855472 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
42855505 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
**
42855568 ATGTGAGGAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
42855599 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
42855662 ATGTGATAAG
66 ATGTGATAAG
42855672 TCCCGAAGGG
Statistics
Matches: 589, Mismatches: 44, Indels: 66
0.84 0.06 0.09
Matches are distributed among these distances:
94 114 0.19
95 2 0.00
96 238 0.40
97 32 0.05
98 108 0.18
99 4 0.01
100 1 0.00
101 3 0.01
102 4 0.01
103 2 0.00
104 2 0.00
105 4 0.01
106 2 0.00
107 1 0.00
108 3 0.01
109 1 0.00
110 10 0.02
111 21 0.04
112 24 0.04
113 13 0.02
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:42855256 original size:18 final size:18
Alignment explanation
Indices: 42855233--42855270 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
42855223 ATAAGGCTAA
42855233 TGGCCGATGTGATGAATG
1 TGGCCGATGTGATGAATG
42855251 TGGCCGATGTGATGAATG
1 TGGCCGATGTGATGAATG
42855269 TG
1 TG
42855271 AAAGTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.39, T:0.29
Consensus pattern (18 bp):
TGGCCGATGTGATGAATG
Found at i:42855257 original size:66 final size:65
Alignment explanation
Indices: 42855185--42855317 Score: 232
Period size: 66 Copynumber: 2.0 Consensus size: 65
42855175 TAAGACCTAA
42855185 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG-CTAATGGCCGATGTGATGAA
1 TGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
42855249 TG
64 TG
*
42855251 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATG
1 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
42855316 TG
1 TG
42855318 AAAGTGTATA
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
64 15 0.23
65 24 0.37
66 26 0.40
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.30
Consensus pattern (65 bp):
TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:42859358 original size:15 final size:15
Alignment explanation
Indices: 42859330--42859372 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
42859320 AAAGACGAAG
*
42859330 AAAG-TAAGAGAACA
1 AAAGATAAGAAAACA
42859344 AAAGATAAGAAAACA
1 AAAGATAAGAAAACA
42859359 AGAAGA-AAGAAAAC
1 A-AAGATAAGAAAAC
42859373 CCATTGGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.70, C:0.07, G:0.19, T:0.05
Consensus pattern (15 bp):
AAAGATAAGAAAACA
Found at i:42870491 original size:25 final size:25
Alignment explanation
Indices: 42870454--42870501 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
42870444 GTAGCATAAT
* *
42870454 AATTTGATTAAATTTATTGTAAAATA
1 AATTTGATGAAA-TTATTATAAAATA
42870480 AATTT-ATGAAATTATTATAAAA
1 AATTTGATGAAATTATTATAAAA
42870502 GTACTTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 5 0.25
26 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (25 bp):
AATTTGATGAAATTATTATAAAATA
Found at i:42878080 original size:24 final size:24
Alignment explanation
Indices: 42878036--42878089 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
42878026 ATGCAATGCT
*
42878036 ATATT-TATGTTTTAAATTGATTTA
1 ATATTATATGATTTAAATTGA-TTA
* *
42878060 ATATTATATGATTTATA-TGATTG
1 ATATTATATGATTTAAATTGATTA
42878083 ATATTAT
1 ATATTAT
42878090 GAGCAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 9 0.35
24 8 0.31
25 9 0.35
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (24 bp):
ATATTATATGATTTAAATTGATTA
Found at i:42878237 original size:42 final size:41
Alignment explanation
Indices: 42878180--42878330 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 41
42878170 TAGGGTTATG
42878180 TGTGATTTCGTGTAAGACCATATCTGGGATCTGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATC-GGCATCGATA
* *
42878222 TGTGATTTCGTGTAAGACCATGTCTGGGACACGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGA-TCGGCATCGATA
* **
42878264 TGAGACATCGTGTAAGACCATAGT-TGGGCTATCGGCATCGATA
1 TGTGATTTCGTGTAAGACCATA-TCTGGG--ATCGGCATCGATA
* ** *
42878307 TATGATCCCATGTAAGACCATATC
1 TGTGATTTCGTGTAAGACCATATC
42878331 AGGGGTATGC
Statistics
Matches: 91, Mismatches: 13, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 61 0.67
43 29 0.32
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (41 bp):
TGTGATTTCGTGTAAGACCATATCTGGGATCGGCATCGATA
Found at i:42878517 original size:16 final size:17
Alignment explanation
Indices: 42878496--42878527 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
42878486 AAGCATTGGT
42878496 TTCATGAT-ATTATGAG
1 TTCATGATCATTATGAG
42878512 TTCATGATCATTATGA
1 TTCATGATCATTATGA
42878528 AAGTGACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (17 bp):
TTCATGATCATTATGAG
Found at i:42890655 original size:79 final size:81
Alignment explanation
Indices: 42890546--42890728 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
42890536 TACTCGTTCA
* *
42890546 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
42890609 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
42890626 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
42890689 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
42890705 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
42890729 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:42890728 original size:40 final size:40
Alignment explanation
Indices: 42890525--42890728 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
42890515 CGGAATTTAA
** *
42890525 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42890565 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42890605 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
42890644 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
42890684 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42890724 CCGGA
1 CCGGA
42890729 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42896205 original size:9 final size:9
Alignment explanation
Indices: 42896191--42896380 Score: 100
Period size: 9 Copynumber: 20.6 Consensus size: 9
42896181 TATTTAAGTA
42896191 TTATGTAAG
1 TTATGTAAG
42896200 TTATGTAAG
1 TTATGTAAG
*
42896209 TTATGATATG
1 TTATG-TAAG
* * *
42896219 ATATAT-AT
1 TTATGTAAG
*
42896227 TTATGTAAA
1 TTATGTAAG
* *
42896236 TTATAT-AT
1 TTATGTAAG
*
42896244 TTATCTAAG
1 TTATGTAAG
*
42896253 TTATATAAG
1 TTATGTAAG
42896262 TTATGTAAG
1 TTATGTAAG
*
42896271 TTATGTAAA
1 TTATGTAAG
*
42896280 TTATGATATAAAA
1 TTATG---T-AAG
*
42896293 TATATTTAAG
1 T-TATGTAAG
42896303 TATTATGTAAG
1 --TTATGTAAG
42896314 TTATGTAAG
1 TTATGTAAG
* *
42896323 TTATAT-AT
1 TTATGTAAG
*
42896331 TTATCTAAG
1 TTATGTAAG
*
42896340 TTATATAAG
1 TTATGTAAG
42896349 TTATGTACA-
1 TTATGTA-AG
*
42896358 TTTTGTAAG
1 TTATGTAAG
* *
42896367 TTATATAAA
1 TTATGTAAG
42896376 TTATG
1 TTATG
42896381 ATATCAAATA
Statistics
Matches: 139, Mismatches: 29, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
8 17 0.12
9 96 0.69
10 9 0.06
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:42896273 original size:71 final size:69
Alignment explanation
Indices: 42896191--42896353 Score: 202
Period size: 71 Copynumber: 2.3 Consensus size: 69
42896181 TATTTAAGTA
* * * *
42896191 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
42896255 ATATAAG
64 ATAT-AG
* * *
42896262 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
42896327 ATAT
66 ATAG
* *
42896331 TTATCTAAGTTATATAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
42896354 TACATTTTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 27 0.34
70 15 0.19
71 38 0.47
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:42896329 original size:87 final size:91
Alignment explanation
Indices: 42896227--42896411 Score: 261
Period size: 96 Copynumber: 2.0 Consensus size: 91
42896217 TGATATATAT
*
42896227 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-T-A-TGTAAGTTATGTAAATTATGATA
1 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTAATTGTAAGTTATATAAATTATGATA
42896288 TAAAATATATTTAAGTATTATGTAAG
66 TAAAATATATTTAAGTATTATGTAAG
*
42896314 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACATTTTGTAAGTTATATAAATTA
1 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TGTA-A--TTGTAAGTTATATAAATTA
* *
42896379 TGATATCAAATATATTTATGTATTATGTAAG
61 TGATATAAAATATATTTAAGTATTATGTAAG
42896410 TT
1 TT
42896412 TTTTATTTCA
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
87 34 0.40
90 1 0.01
91 1 0.01
93 1 0.01
96 48 0.56
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (91 bp):
TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTAATTGTAAGTTATATAAATTATGATA
TAAAATATATTTAAGTATTATGTAAG
Found at i:42896367 original size:114 final size:114
Alignment explanation
Indices: 42896167--42896380 Score: 290
Period size: 114 Copynumber: 1.9 Consensus size: 114
42896157 ACTAGTTATG
* * * *
42896167 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
* *
42896232 TAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
66 TAAATTATACATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
* *
42896281 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-AGTTAT
* *
42896344 ATAAGTTATGTACATTT-TGTAAGTTATATAAATTATG
65 ATAAATTA--TACATTTATCTAAGTTATATAAATTATG
42896381 ATATCAAATA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
112 4 0.05
113 15 0.17
114 62 0.71
115 6 0.07
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
TAAATTATACATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
Found at i:42896419 original size:87 final size:87
Alignment explanation
Indices: 42896227--42896411 Score: 227
Period size: 87 Copynumber: 2.1 Consensus size: 87
42896217 TGATATATAT
*
42896227 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
** *
42896292 ATATATTTAAGTATTATGTAAG
66 ATATATCAAAATATTATGTAAG
* *
42896314 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACA-TTTTGTAAGTTAT-ATA-AA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTA-AGTTATGTAAATTATGATATAA
*
42896376 TTATGATATCAAATATATTTATGT-A-
65 -AAT-ATATCAAA-ATA-TTATGTAAG
42896401 TTATGTAAGTT
1 TTATGTAAGTT
42896412 TTTTATTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
85 2 0.02
86 5 0.06
87 69 0.80
88 4 0.05
89 6 0.07
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (87 bp):
TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
ATATATCAAAATATTATGTAAG
Found at i:42896505 original size:15 final size:15
Alignment explanation
Indices: 42896485--42896514 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
42896475 AAGTAGCAGG
42896485 ATTAAATAATATTTA
1 ATTAAATAATATTTA
42896500 ATTAAATAATATTTA
1 ATTAAATAATATTTA
42896515 TAAAAATTAT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:42896737 original size:29 final size:29
Alignment explanation
Indices: 42896683--42896738 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
42896673 CAAACATTAT
* * *
42896683 TAATATAAAAAATAGTAATTTGAATATAA
1 TAATATAAAAAAAAGTAATGTAAATATAA
42896712 TAATATAAAAAAAAG-AATCGTAAATAT
1 TAATATAAAAAAAAGTAAT-GTAAATAT
42896739 TAAAATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (29 bp):
TAATATAAAAAAAAGTAATGTAAATATAA
Found at i:42896757 original size:72 final size:72
Alignment explanation
Indices: 42896642--42896805 Score: 287
Period size: 72 Copynumber: 2.3 Consensus size: 72
42896632 AAGTACATAT
42896642 TAATATAAAAAAAGAATCGT-AATAAAAAAATCAAACATTATTAATAT-AAAAAATAGTAATTTG
1 TAATATAAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTG
42896705 AATATAA
66 AATATAA
**
42896712 TAATATAAAAAAAAGAATCGTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTT
1 TAATAT-AAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTT
42896777 GAATATAA
65 GAATATAA
42896785 TAATATAAAAAAAGAATCGTA
1 TAATATAAAAAAAGAATCGTA
42896806 GTTTAATTTT
Statistics
Matches: 89, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
70 6 0.07
71 14 0.16
72 40 0.45
73 29 0.33
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (72 bp):
TAATATAAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTG
AATATAA
Found at i:42897799 original size:273 final size:275
Alignment explanation
Indices: 42896732--42898383 Score: 3222
Period size: 275 Copynumber: 6.0 Consensus size: 275
42896722 AAAAGAATCG
42896732 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
42896797 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
42896862 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
42896927 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
*
42896992 AATTTTTAAAATATT
261 AATCTTTAAAATATT
*
42897007 AAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
42897072 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
42897137 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
42897202 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
42897267 AATCTTTAAAATATT
261 AATCTTTAAAATATT
42897282 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATA-AAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
42897346 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
42897411 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
42897476 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
42897541 AATCTTTAAAATATT
261 AATCTTTAAAATATT
42897556 TAAATATTAAAATCAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAATAATA-AAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
42897619 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
42897684 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
42897749 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
42897814 AATCTTTAAAATATT
261 AATCTTTAAAATATT
42897829 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAA-TTGAATATAATAATATAAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATAT-AAAAA
*
42897893 AAGTATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGAT
65 AAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGAT
*
42897958 AGAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGA
130 AGAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGG
42898023 GAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTT
195 GAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTT
42898088 GAATCTTTAAAATATT
260 GAATCTTTAAAATATT
42898104 TAAATATTAAAATCAAACATTATTAATATAAAAAAAATAGTAATTTGAATATAATAATATAAAAA
1 TAAATATTAAAATCAAACATTATTAATAT-AAAAAAATAGTAATTTGAATATAATAATATAAAAA
42898169 AAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGAT
65 AAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGAT
42898234 AGAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGG
130 AGAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGG
42898299 GAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTT
195 GAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTT
42898364 GAATCTTTAAAATATT
260 GAATCTTTAAAATATT
42898380 TAAA
1 TAAA
42898384 ATAAGGTTGG
Statistics
Matches: 1365, Mismatches: 7, Indels: 9
0.99 0.01 0.01
Matches are distributed among these distances:
273 288 0.21
274 257 0.19
275 573 0.42
276 231 0.17
277 16 0.01
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (275 bp):
TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
AATCTTTAAAATATT
Found at i:42898665 original size:15 final size:15
Alignment explanation
Indices: 42898645--42898673 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42898635 AGAATTTTGA
42898645 AATAAAACGTACCTT
1 AATAAAACGTACCTT
42898660 AATAAAACGTACCT
1 AATAAAACGTACCT
42898674 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:42899186 original size:183 final size:183
Alignment explanation
Indices: 42898878--42899425 Score: 1024
Period size: 183 Copynumber: 3.0 Consensus size: 183
42898868 GAACAGATGC
42898878 AAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTATATCA
1 AAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTATATCA
42898943 GTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGCA
66 GTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGCA
42899008 GGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACACATGT
131 GGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACACATGT
* *
42899061 AAGATTATAAGAGTAGCACCAAATATATTTCAGTTCAAGAAAATATAAAAACTTTATCTATATCA
1 AAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTATATCA
42899126 GTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGCA
66 GTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGCA
*
42899191 GGAATCAGTAACAGAAATACATACAACATTAATTCACTAATACAGACACATGT
131 GGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACACATGT
*
42899244 AAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTATATCA
1 AAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTATATCA
42899309 GTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGCA
66 GTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGCA
* * * *
42899374 GGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACACATG
131 GGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACACATG
42899426 GAACTATATC
Statistics
Matches: 354, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 354 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
AAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTATATCA
GTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGCA
GGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACACATGT
Found at i:42902372 original size:15 final size:15
Alignment explanation
Indices: 42902352--42902400 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
42902342 GGTAAAAATT
42902352 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
*
42902367 TT-GGGG-G-A-AAT
1 TTGGGGGAGAAGAAG
*
42902378 TTGAGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
42902393 TTGGGGGA
1 TTGGGGGA
42902401 AATCGGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
11 4 0.15
12 4 0.15
13 2 0.08
14 5 0.19
15 11 0.42
ACGTcount: A:0.31, C:0.00, G:0.51, T:0.18
Consensus pattern (15 bp):
TTGGGGGAGAAGAAG
Found at i:42902385 original size:26 final size:26
Alignment explanation
Indices: 42902351--42902403 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
42902341 GGGTAAAAAT
*
42902351 TTTGGGGGAGAAGAAGTTGGGGGAAA
1 TTTGAGGGAGAAGAAGTTGGGGGAAA
42902377 TTTGAGGGAGAAGAAGTTGGGGGAAA
1 TTTGAGGGAGAAGAAGTTGGGGGAAA
42902403 T
1 T
42902404 CGGGGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.47, T:0.21
Consensus pattern (26 bp):
TTTGAGGGAGAAGAAGTTGGGGGAAA
Found at i:42902713 original size:28 final size:28
Alignment explanation
Indices: 42902681--42902738 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
42902671 AATCAAAACT
* *
42902681 CTAT-ACCTTAAACCATTAAATTATATCC
1 CTATAACCTTAAACC-CTAAAGTATATCC
*
42902709 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAAGTATATCC
42902737 CT
1 CT
42902739 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAAGTATATCC
Found at i:42902739 original size:21 final size:21
Alignment explanation
Indices: 42902715--42902758 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
42902705 ATCCCTATAA
* *
42902715 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
42902736 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
42902757 CC
1 CC
42902759 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:42902991 original size:7 final size:7
Alignment explanation
Indices: 42902979--42903012 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
42902969 CCCTAAGTAT
42902979 TAACCCC
1 TAACCCC
42902986 TAACCCC
1 TAACCCC
42902993 TAACCCC
1 TAACCCC
42903000 TAACCCC
1 TAACCCC
42903007 TAACCC
1 TAACCC
42903013 TTAAATCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:42903175 original size:41 final size:41
Alignment explanation
Indices: 42903118--42903378 Score: 380
Period size: 41 Copynumber: 6.4 Consensus size: 41
42903108 AACCCTAAAC
42903118 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
*
42903159 TTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* * * * *
42903200 TTTTTAGCGGTGTTTTACCAAAAGCGCCCCAAATACTCTGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* * **
42903241 TTTTTAGCGACGCTTTACCAAAAGCGCCGCTAATGCTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
*
42903282 TTTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* * *
42903323 TTTTTAGCGGCGTTTTACCAAAAGCGCCACTATTGCTC-TG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
*
42903363 CTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
42903379 TGGTAAAACG
Statistics
Matches: 198, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
40 16 0.08
41 182 0.92
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
Found at i:42903448 original size:12 final size:12
Alignment explanation
Indices: 42903433--42903458 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42903423 ATTTTTTGAG
42903433 AAAACGCCGCTA
1 AAAACGCCGCTA
42903445 AAAACGCCGCTA
1 AAAACGCCGCTA
42903457 AA
1 AA
42903459 TACCTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:42911792 original size:46 final size:46
Alignment explanation
Indices: 42911644--42911816 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
42911634 ATTTGTTTGT
* * * * ** *
42911644 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAAACATGTCTGGGACATGCATCGACCTCAAGACGA
* * * * **
42911690 GAGCCAATGTAGACCATGTCTGGGACATGGCATCGACATTGAGACGA
1 GAGCCAGTGTAAAACATGTCTGGGACAT-GCATCGACCTCAAGACGA
*
42911737 GAGCTAGTGTAAAACATGTCTGGGACATGCATCGACCTCAAGACGTA
1 GAGCCAGTGTAAAACATGTCTGGGACATGCATCGACCTCAAGACG-A
*
42911784 -AGCCAGTGTAAGACATGTCTGGGACATGCATCG
1 GAGCCAGTGTAAAACATGTCTGGGACATGCATCG
42911817 GCTACGAGAT
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
46 68 0.66
47 35 0.34
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAAACATGTCTGGGACATGCATCGACCTCAAGACGA
Found at i:42911803 original size:93 final size:93
Alignment explanation
Indices: 42911644--42911919 Score: 285
Period size: 93 Copynumber: 3.0 Consensus size: 93
42911634 ATTTGTTTGT
* * * **
42911644 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-AGAGCCAATGT-AGACCAT
1 GAGCTAGTGTAAAACATGTCTGGGACATGCATCGACCTCAAGATGTA-AGCCAATGTAAGACCAT
42911707 GTCTGGGACATGGCATCGACATTGAGACGA
65 GTCTGGGACATGGCATCGAC-TTGAGACGA
* *
42911737 GAGCTAGTGTAAAACATGTCTGGGACATGCATCGACCTCAAGACGTAAGCCAGTGTAAGA-CATG
1 GAGCTAGTGTAAAACATGTCTGGGACATGCATCGACCTCAAGATGTAAGCCAATGTAAGACCATG
* * *
42911801 TCTGGGACAT-GCATCGGCTACGAGATGA
66 TCTGGGACATGGCATCGACT-TGAGACGA
* * * * ** * *
42911829 TAG-TCAGTGTGAGAGCATGTCTGGGACATGGAATCGA-CTTGAGATATGAGCCAATGTAAGACC
1 GAGCT-AGTGT-AAAACATGTCTGGGACAT-GCATCGACCTCAAGATGTAAGCCAATGTAAGACC
*
42911892 ATATCTGGGACATGGCATCGACTTGAGA
63 ATGTCTGGGACATGGCATCGACTTGAGA
42911920 TATGAGTCAG
Statistics
Matches: 152, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
91 2 0.01
92 20 0.13
93 95 0.62
94 27 0.18
95 8 0.05
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (93 bp):
GAGCTAGTGTAAAACATGTCTGGGACATGCATCGACCTCAAGATGTAAGCCAATGTAAGACCATG
TCTGGGACATGGCATCGACTTGAGACGA
Found at i:42911837 original size:46 final size:47
Alignment explanation
Indices: 42911643--42911958 Score: 258
Period size: 47 Copynumber: 6.8 Consensus size: 47
42911633 CATTTGTTTG
* * * *
42911643 TGAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGC-C-ACATTA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGATGA
* * *
42911687 TGAGAGCCAATGT-AGACCATGTCTGGGACATGGCATCGACATTGAGACGA
1 T--GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TCGAGATGA
* * * *
42911737 -GAGCTAGTGTAA-AACATGTCTGGGACATGCATCGACCTCAAGACG-
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGA-CTCGAGATGA
* *
42911782 TAAGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACT-CGAGATGA
* * * * *
42911829 T-AGTCAGTGTGAGAGCATGTCTGGGACATGGAATCGACTTGAGAT-A
1 TGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGACTCGAGATGA
* * *
42911875 TGAGCCAATGTAAGACCATATCTGGGACATGGCATCGACTTGAGAT-A
1 TGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGACTCGAGATGA
* * *
42911922 TGAGTCAGAGTAAGACCATGTCTGGGATATGACATCG
1 TGAGCCAGTGTAAGACCATGTCTGGGACATG-CATCG
42911959 GCACCTTACC
Statistics
Matches: 222, Mismatches: 33, Indels: 31
0.78 0.12 0.11
Matches are distributed among these distances:
44 1 0.00
45 5 0.02
46 84 0.38
47 121 0.55
48 8 0.04
50 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
TGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGATGA
Found at i:42915159 original size:24 final size:23
Alignment explanation
Indices: 42915119--42915163 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
42915109 GCAAAATTAA
**
42915119 GTATAAAAATTAATAAAATATGC
1 GTATAAAAAGAAATAAAATATGC
42915142 GTATAAAAAGAAATTAAAATAT
1 GTATAAAAAGAAA-TAAAATAT
42915164 CACATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (23 bp):
GTATAAAAAGAAATAAAATATGC
Found at i:42916614 original size:18 final size:18
Alignment explanation
Indices: 42916591--42916625 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42916581 TTTATAATAC
*
42916591 TATATATTATGTTATTTT
1 TATATATTATGTAATTTT
42916609 TATATATTATGTAATTT
1 TATATATTATGTAATTT
42916626 AGTACACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
TATATATTATGTAATTTT
Found at i:42923042 original size:18 final size:18
Alignment explanation
Indices: 42923000--42923042 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
42922990 ATAATTTAAA
* *
42923000 ATATAATTTTATTAATTT
1 ATATAAATTTATTAATAT
42923018 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
42923036 ATGTAAA
1 ATATAAA
42923043 AATAACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:42927024 original size:48 final size:48
Alignment explanation
Indices: 42926972--42927066 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
42926962 TTAACCTAAG
42926972 CCCATTTTAGGTCCACCCATATTATTTTTTATTTTAAAATATTTATTA
1 CCCATTTTAGGTCCACCCATATTATTTTTTATTTTAAAATATTTATTA
**
42927020 CCCATTTTAGGTCTGCCCATATTATTTTTTATTTTAAAATATTTATT
1 CCCATTTTAGGTCCACCCATATTATTTTTTATTTTAAAATATTTATT
42927067 TTATTTTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (48 bp):
CCCATTTTAGGTCCACCCATATTATTTTTTATTTTAAAATATTTATTA
Found at i:42943586 original size:43 final size:43
Alignment explanation
Indices: 42943431--42943587 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
42943421 TGTGTTATCG
* *
42943431 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATC-AATATTTGA-TTACA
** * *
42943475 TGTAAGACCACGTCTCGGG-CGTTGGCAT-TGTATTTGATTTCG
1 TGTAAGACCACGTCT-GGGACGTTGGCATCAATATTTGATTACA
42943517 TGTAAGACC-CTGTCTGGGACAG-TGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCAATATTTGATTACA
* *
42943560 TGTAAGACCACATCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
42943588 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
41 4 0.04
42 25 0.27
43 37 0.39
44 25 0.27
45 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATATTTGATTACA
Found at i:42945405 original size:40 final size:40
Alignment explanation
Indices: 42945337--42945513 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
42945327 ACCCAAGTAT
*
42945337 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
42945376 CTTCGGGTCTTAGCCTGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
42945416 CTTCGGGTCTTAGCCCGAATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
42945456 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
42945496 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
42945514 TTATCATCCG
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 100 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:42953434 original size:40 final size:40
Alignment explanation
Indices: 42953366--42953542 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
42953356 ACCCAAGTAT
*
42953366 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
42953405 CTTCGGGTCTTAGCCTGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
42953445 CTTCAGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
42953485 CTTCAGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
42953525 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
42953543 TTATCATCCG
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 100 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:42957155 original size:8 final size:9
Alignment explanation
Indices: 42957133--42957157 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
42957123 TTTGAGCTCG
42957133 GTTTTTGAT
1 GTTTTTGAT
42957142 GTTTTTGAT
1 GTTTTTGAT
42957151 GTTTTTG
1 GTTTTTG
42957158 TGATCGTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:42967804 original size:6 final size:6
Alignment explanation
Indices: 42967793--42967824 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
42967783 TCACCCCTAA
42967793 AACCCT AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AACCCT AA
42967825 AAAAATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.16
Consensus pattern (6 bp):
AACCCT
Found at i:42969391 original size:66 final size:67
Alignment explanation
Indices: 42969257--42969394 Score: 215
Period size: 66 Copynumber: 2.1 Consensus size: 67
42969247 GATGGTAATG
* * ** *
42969257 TTGTTTCTTGAAGGTTGTAACTTGCTAGGTTTTGTTTTAGGTGCTATTAGTGTTCTGTCATAGTT
1 TTGTTTCTTGAAGGCTGTAACTTGCTAGGTTTTGTTTTAGGCGCTATTAGTGTTCCATCACAGTT
42969322 TC
66 TC
*
42969324 TTGTTTCTTGAAGGCTGTAACTTGCTAGG-TTTGTTTTAGGCGCTATTCGTGTTCCATCACAGTT
1 TTGTTTCTTGAAGGCTGTAACTTGCTAGGTTTTGTTTTAGGCGCTATTAGTGTTCCATCACAGTT
42969388 TC
66 TC
42969390 TTGTT
1 TTGTT
42969395 GATAGCAATG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
66 37 0.57
67 28 0.43
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (67 bp):
TTGTTTCTTGAAGGCTGTAACTTGCTAGGTTTTGTTTTAGGCGCTATTAGTGTTCCATCACAGTT
TC
Found at i:42974005 original size:16 final size:17
Alignment explanation
Indices: 42973981--42974017 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
42973971 CCACAGAATT
*
42973981 TTTTTTTTTTTTTGTA-
1 TTTTATTTTTTTTGTAC
42973997 TTTTATTTTTTTTGTAC
1 TTTTATTTTTTTTGTAC
42974014 TTTT
1 TTTT
42974018 TTAATCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.08, C:0.03, G:0.05, T:0.84
Consensus pattern (17 bp):
TTTTATTTTTTTTGTAC
Found at i:42983665 original size:27 final size:27
Alignment explanation
Indices: 42983607--42983786 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
42983597 ATATTGAGCC
* * *
42983607 CGCACACTCAGTGCTATATATAATCAACT
1 CGCACACTTAGTGC--TACATAATCAAAT
*
42983636 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
42983663 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** * *
42983691 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
42983718 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* * *
42983745 CGCACACTTAGTGCAACATAGTCAAAC
1 CGCACACTTAGTGCTACATAATCAAAT
42983772 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42983787 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 92 0.72
28 23 0.18
29 13 0.10
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:42983701 original size:55 final size:55
Alignment explanation
Indices: 42983607--42983786 Score: 202
Period size: 55 Copynumber: 3.3 Consensus size: 55
42983597 ATATTGAGCC
* * * * *
42983607 CGCACACTCAGTGCTATATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATAGTCAACTCGCACACTTAGTGCAACATAATCAAAT
** * *
42983663 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTATCATAGTC-AACTCGCACACTTAGTGCAACATAATCAAAT
* ** * *
42983718 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAC
1 CGCACACTTAGTGCTATCATAGTCAACTCGCACACTTAGTGCAACATAATCAAAT
42983772 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42983787 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
54 43 0.41
55 46 0.44
56 15 0.14
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATAGTCAACTCGCACACTTAGTGCAACATAATCAAAT
Found at i:42983724 original size:82 final size:81
Alignment explanation
Indices: 42983629--42983785 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 81
42983619 GCTATATATA
* *
42983629 ATCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCG
1 ATCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CG
42983693 CACACTTAGTGCCGCATG
64 CACACTTAGTGCCGCATG
* * **
42983711 ATCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCA
1 ATCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
42983776 CACTTAGTGC
66 CACTTAGTGC
42983786 TGTACAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 53 0.78
83 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
CACTTAGTGCCGCATG
Found at i:42991784 original size:27 final size:27
Alignment explanation
Indices: 42991726--42991901 Score: 174
Period size: 27 Copynumber: 6.4 Consensus size: 27
42991716 ATATTGAGCC
* * *
42991726 CGCACACTCAGTGCTATATATAATCAACT
1 CGCACACTTAGTGC--TACATAATCAAAT
*
42991755 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
42991782 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** * *
42991810 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
42991837 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* * *
42991864 CGCACACTTAGTGCAACATAGTCAAAC
1 CGCACACTTAGTGCTACATAATCAAAT
42991891 CGCACACTTAG
1 CGCACACTTAG
42991902 GGTGCGTTTG
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
27 89 0.71
28 23 0.18
29 13 0.10
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:42991820 original size:55 final size:54
Alignment explanation
Indices: 42991726--42991901 Score: 183
Period size: 55 Copynumber: 3.2 Consensus size: 54
42991716 ATATTGAGCC
* * * * *
42991726 CGCACACTCAGTGCTATATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-AT-CATAGTCAACTCGCACACTTAGTGCAACATAATCAAAT
** * *
42991782 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCAT-CATAGTC-AACTCGCACACTTAGTGCAACATAATCAAAT
* ** * *
42991837 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAC
1 CGCACACTTAGTGCATCATAGTCAACTCGCACACTTAGTGCAACATAATCAAAT
42991891 CGCACACTTAG
1 CGCACACTTAG
42991902 GGTGCGTTTG
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
54 41 0.41
55 46 0.46
56 14 0.14
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAGTCAACTCGCACACTTAGTGCAACATAATCAAAT
Found at i:42991843 original size:82 final size:81
Alignment explanation
Indices: 42991748--42991901 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 81
42991738 GCTATATATA
* *
42991748 ATCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCG
1 ATCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CG
42991812 CACACTTAGTGCCGCATG
64 CACACTTAGTGCCGCATG
* * **
42991830 ATCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCA
1 ATCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
42991895 CACTTAG
66 CACTTAG
42991902 GGTGCGTTTG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 11 0.17
82 53 0.82
83 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
CACTTAGTGCCGCATG
Found at i:42991939 original size:16 final size:16
Alignment explanation
Indices: 42991918--42991986 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
42991908 TTTGGTTCGC
42991918 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
42991934 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
42991950 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
42991967 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
42991983 TGTA
1 TGTA
42991987 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:42991964 original size:33 final size:32
Alignment explanation
Indices: 42991918--42991986 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
42991908 TTTGGTTCGC
42991918 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
42991950 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
42991983 TGTA
1 TGTA
42991987 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:42992237 original size:17 final size:17
Alignment explanation
Indices: 42992216--42992249 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
42992206 TTATTATTAA
42992216 ATAT-ATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
42992233 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
42992250 TCTTAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:42992362 original size:14 final size:15
Alignment explanation
Indices: 42992313--42992364 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
42992303 ATAAAATATA
42992313 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
42992328 TATTAAATATATTAT
1 AATTAAATATATTAT
42992343 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
42992356 AATTTAATA
1 AATTAAATA
42992365 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:42992366 original size:59 final size:58
Alignment explanation
Indices: 42992202--42992493 Score: 177
Period size: 59 Copynumber: 4.9 Consensus size: 58
42992192 ATATTTAAAC
* * * *
42992202 ATAATTATTATTAAATATATT-TAATTAAAATATATAATTTAATAAAATTCTTAAAATCA
1 ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-T-ATAAATTAA
* * * * * * *
42992261 AT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAATATAAATTAA
1 ATAATTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATATAAATTAA
* * *
42992319 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-TAA
1 -ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAATTAA
* * * * * * * *
42992378 TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTTGAA
1 ATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTAATAAAATATAAATT-AA
* * *
42992440 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAA
42992494 ATAATTATAA
Statistics
Matches: 170, Mismatches: 43, Indels: 40
0.67 0.17 0.16
Matches are distributed among these distances:
57 10 0.06
58 24 0.14
59 63 0.37
60 33 0.19
61 22 0.13
62 9 0.05
63 9 0.05
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (58 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAATTAA
Found at i:42992500 original size:120 final size:120
Alignment explanation
Indices: 42992199--42992489 Score: 498
Period size: 120 Copynumber: 2.4 Consensus size: 120
42992189 ATCATATTTA
*
42992199 AACATAATTATTATTAAATATA-TTTAATTAAAATATATAATTTAATAAAATTCTTAA-AATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
42992262 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
*
42992317 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
42992382 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
* *
42992437 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
42992490 TAAAATAATT
Statistics
Matches: 163, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
118 22 0.13
119 34 0.21
120 105 0.64
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
Found at i:42992536 original size:101 final size:93
Alignment explanation
Indices: 42992430--42992712 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
42992420 ACTATAAAAG
* * * *
42992430 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
42992494 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
42992531 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
42992594 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
42992622 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
42992685 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
42992713 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:42992559 original size:26 final size:28
Alignment explanation
Indices: 42992530--42992590 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
42992520 TATGAATTTG
*
42992530 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
42992556 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
42992584 TAAAATT
1 TATAATT
42992591 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:42992588 original size:47 final size:46
Alignment explanation
Indices: 42992537--42992680 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
42992527 TTGTATAATT
42992537 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
42992584 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
42992628 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
42992675 TAAAAT
1 TAAAAT
42992681 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:42992600 original size:91 final size:90
Alignment explanation
Indices: 42992505--42992712 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
42992495 TAATTATAAC
* * * *
42992505 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
42992570 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
42992596 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
42992661 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
42992687 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
42992713 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:42992672 original size:44 final size:43
Alignment explanation
Indices: 42992530--42992672 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
42992520 TATGAATTTG
* *
42992530 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
42992574 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
42992621 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
42992665 TATAATTT
1 TATAATTT
42992673 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:42992687 original size:47 final size:47
Alignment explanation
Indices: 42992555--42992693 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
42992545 TTATTATTAC
* *
42992555 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
42992602 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
42992646 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
42992693 A
1 A
42992694 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:42998984 original size:26 final size:26
Alignment explanation
Indices: 42998955--42999062 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
42998945 TGGTACAAAT
42998955 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
42998981 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
42999007 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
42999033 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
42999059 TGAT
1 TGAT
42999063 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:43000679 original size:27 final size:27
Alignment explanation
Indices: 43000639--43000750 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
43000629 AGGAAGCGTC
*
43000639 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
*
43000666 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAAATATCTGA-T
* *
43000693 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
43000721 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
43000747 CTGG
1 CTGG
43000751 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 15 0.20
29 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:43000743 original size:54 final size:54
Alignment explanation
Indices: 43000639--43000750 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
43000629 AGGAAGCGTC
*
43000639 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * * *
43000693 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTATT
43000747 CTGG
1 CTGG
43000751 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:43002279 original size:21 final size:19
Alignment explanation
Indices: 43002255--43002293 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
43002245 GTTTCTCATG
43002255 GCCTCCTCAGGCTCCCATGTA
1 GCCTCCTCA-GC-CCCATGTA
*
43002276 GCCTCTTCAGCCCCATGT
1 GCCTCCTCAGCCCCATGT
43002294 CTTTGCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.13, C:0.44, G:0.18, T:0.26
Consensus pattern (19 bp):
GCCTCCTCAGCCCCATGTA
Found at i:43017025 original size:83 final size:84
Alignment explanation
Indices: 43016875--43017087 Score: 340
Period size: 83 Copynumber: 2.5 Consensus size: 84
43016865 AAAAATTTGT
*
43016875 GGCGTTTATTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGC
1 GGCGTTTAGTGGG-AAAAACGCCGCTAAAGGTCAAGGCTTTTA---GCGTTTGTGGGAAAAGCGC
*
43016940 CGCTAGAGGTCAAGGCTTTTAGC
62 CGCTAAAGGTCAAGGCTTTTAGC
* *
43016963 GGCGTTT-GTGGGAAAAGCGCCACTAAAGGTCAAGGCTTTTAGCGTTTGTGGGAAAAGCGCCGCT
1 GGCGTTTAGTGGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGTTTGTGGGAAAAGCGCCGCT
43017027 AAAGGTCAAGGCTTTTAGC
66 AAAGGTCAAGGCTTTTAGC
43017046 GGCGTTTAG-GGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAG
1 GGCGTTTAGTGGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAG
43017088 TGGCGCTTTT
Statistics
Matches: 118, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
83 79 0.67
84 1 0.01
86 27 0.23
87 4 0.03
88 7 0.06
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.23
Consensus pattern (84 bp):
GGCGTTTAGTGGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGTTTGTGGGAAAAGCGCCGCT
AAAGGTCAAGGCTTTTAGC
Found at i:43017114 original size:43 final size:43
Alignment explanation
Indices: 43016875--43017092 Score: 327
Period size: 43 Copynumber: 5.1 Consensus size: 43
43016865 AAAAATTTGT
* *
43016875 GGCGTTTATTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTT-GTGGG-AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
*
43016920 GGCGTTTGTGGGAAAAGCGCCGCTAGAGGTCAAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
*
43016963 GGCGTTTGTGGGAAAAGCGCCACTAAAGGTCAAGGCTTTTA--
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
43017004 -GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* *
43017046 GGCGTTTAG-GGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGT
1 GGCGTTT-GTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
43017089 GGCG
1 GGCG
43017093 CTTTTTTTAC
Statistics
Matches: 161, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
40 39 0.24
43 110 0.68
44 5 0.03
45 7 0.04
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.23
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
Found at i:43017202 original size:31 final size:31
Alignment explanation
Indices: 43017167--43017248 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
43017157 CTTCCTGCAT
* * *
43017167 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATACAACCAAAAACAACAAATATAACA
** * * *
43017198 TAAAATGTAGCCAAAAACAGCAAATTTAACA
1 TAAAATACAACCAAAAACAACAAATATAACA
43017229 TAAAAATACAACCAAAAACA
1 T-AAAATACAACCAAAAACA
43017249 TTAATTCTAA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 25 0.62
32 15 0.38
ACGTcount: A:0.61, C:0.18, G:0.04, T:0.17
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAACA
Found at i:43023159 original size:9 final size:9
Alignment explanation
Indices: 43023145--43023537 Score: 172
Period size: 9 Copynumber: 42.6 Consensus size: 9
43023135 TATTTAAGTA
43023145 TTATGTAAG
1 TTATGTAAG
43023154 TTATGTAAG
1 TTATGTAAG
*
43023163 TTATGATATG
1 TTATG-TAAG
* * *
43023173 ATATAT-AT
1 TTATGTAAG
*
43023181 TTATGTAAA
1 TTATGTAAG
* *
43023190 TTATAT-AT
1 TTATGTAAG
*
43023198 TTATCTAAG
1 TTATGTAAG
*
43023207 TTATATAAG
1 TTATGTAAG
43023216 TTATGTAAG
1 TTATGTAAG
*
43023225 TTATGTAAA
1 TTATGTAAG
*
43023234 TTATGATATAAAA
1 TTATG---T-AAG
*
43023247 TATATTTAAG
1 T-TATGTAAG
43023257 TATTATGTAAG
1 --TTATGTAAG
43023268 TTATGTAAG
1 TTATGTAAG
* *
43023277 TTATAT-AT
1 TTATGTAAG
*
43023285 TTATCTAAG
1 TTATGTAAG
*
43023294 TTATATAAG
1 TTATGTAAG
*
43023303 TTATGTACG
1 TTATGTAAG
*
43023312 TTTTGTAAG
1 TTATGTAAG
* *
43023321 TTATATAAA
1 TTATGTAAG
43023330 TTATG-ATA-
1 TTATGTA-AG
* ** *
43023338 TCAAATATAT
1 TTATGTA-AG
43023348 TTATGTAAG
1 TTATGTAAG
43023357 TTATGTAAG
1 TTATGTAAG
*
43023366 TTATGATATG
1 TTATG-TAAG
* * *
43023376 ATATAT-AT
1 TTATGTAAG
*
43023384 TTATGTAAA
1 TTATGTAAG
* *
43023393 TTATAT-AT
1 TTATGTAAG
*
43023401 TTATCTAAG
1 TTATGTAAG
*
43023410 TTATATAAG
1 TTATGTAAG
43023419 TTATGTAAG
1 TTATGTAAG
*
43023428 TTATGTAAA
1 TTATGTAAG
*
43023437 TTATGATATAAAA
1 TTATG---T-AAG
*
43023450 TATATTTAAG
1 T-TATGTAAG
43023460 TATTATGTAAG
1 --TTATGTAAG
43023471 TTATGTAAG
1 TTATGTAAG
* *
43023480 TTATAT-AT
1 TTATGTAAG
*
43023488 TTATTTAAG
1 TTATGTAAG
*
43023497 TTATATAAG
1 TTATGTAAG
*
43023506 TTATGTACG
1 TTATGTAAG
*
43023515 TTTTGTAAG
1 TTATGTAAG
* *
43023524 TTATATAAA
1 TTATGTAAG
43023533 TTATG
1 TTATG
43023538 ATATCAAATA
Statistics
Matches: 290, Mismatches: 69, Indels: 50
0.71 0.17 0.12
Matches are distributed among these distances:
8 35 0.12
9 201 0.69
10 20 0.07
11 16 0.06
12 4 0.01
13 8 0.03
14 6 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:43023306 original size:96 final size:96
Alignment explanation
Indices: 43023198--43023568 Score: 472
Period size: 96 Copynumber: 3.8 Consensus size: 96
43023188 AATTATATAT
* *
43023198 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTAT
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAATTATGATATAAAATATATTTAAGTATTAT
43023263 GTAAGTTATGTAAGTTATATATTTATCTAAG
66 GTAAGTTATGTAAGTTATATATTTATCTAAG
* * * * *
43023294 TTATATAAGTTATGTACGTTTTGTAAGTTATATAAATTATGATATCAAATATATTTATGTAAGTT
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAATTATGATATAAAATATATTTAAGT-A-TT
* * * *
43023359 ATGTAAGTTATGATATGATATATATTTATGTAAATTA
64 ATGTAAGTTATG-TAAGTTATATATTTATCT-AA--G
*
43023396 TATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGT
1 T-TA--TA--TAAGTTATATAAGTTATGTAAGTTATATAAATTATGATATAAAATATATTTAAGT
*
43023461 ATTATGTAAGTTATGTAAGTTATATATTTATTTAAG
61 ATTATGTAAGTTATGTAAGTTATATATTTATCTAAG
* * * * * *
43023497 TTATATAAGTTATGTACGTTTTGTAAGTTATATAAATTATGATATCAAATATATTTATGTAATAT
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAATTATGATATAAAATATATTTAAGTATTAT
43023562 GTAAGTT
66 GTAAGTT
43023569 TTTTATTTCA
Statistics
Matches: 236, Mismatches: 28, Indels: 22
0.83 0.10 0.08
Matches are distributed among these distances:
96 113 0.48
97 1 0.00
98 16 0.07
99 15 0.06
100 4 0.02
101 1 0.00
102 1 0.00
103 4 0.02
104 15 0.06
105 16 0.07
106 1 0.00
107 49 0.21
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (96 bp):
TTATATAAGTTATATAAGTTATGTAAGTTATATAAATTATGATATAAAATATATTTAAGTATTAT
GTAAGTTATGTAAGTTATATATTTATCTAAG
Done.