Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 168 of 290
Found at i:57589241 original size:30 final size:30
Alignment explanation
Indices: 57589206--57589263 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
57589196 AAATTCACAT
* *
57589206 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
57589236 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
57589264 TGCTCGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:57605537 original size:39 final size:39
Alignment explanation
Indices: 57605494--57605571 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
57605484 AATCAGAGGT
* *
57605494 AAGTATCGTTCCCATGTACTTTAGAACTCAAGAATGCAA
1 AAGTATCATTCCCACGTACTTTAGAACTCAAGAATGCAA
57605533 AAGTATCATTCCCACGTACTTTAGAACTCAAGAATGCAA
1 AAGTATCATTCCCACGTACTTTAGAACTCAAGAATGCAA
57605572 CATCTCAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (39 bp):
AAGTATCATTCCCACGTACTTTAGAACTCAAGAATGCAA
Found at i:57609231 original size:28 final size:28
Alignment explanation
Indices: 57609170--57609433 Score: 431
Period size: 28 Copynumber: 9.5 Consensus size: 28
57609160 ATTAAGTCCT
* *
57609170 CACACTCAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
*
57609197 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
*
57609225 CACACTTAGTGCTACATAATCAAACTTG
1 CACACTTAGTGCTACATAATCAAACTCG
*
57609253 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
*
57609281 CACACTTAGTGCTACATAATCAAGCTCG
1 CACACTTAGTGCTACATAATCAAACTCG
*
57609309 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
*
57609337 CACACTTAGTGCTACATAATCAAGCTCG
1 CACACTTAGTGCTACATAATCAAACTCG
*
57609365 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
*
57609393 CACACTTAGTGCTACATAATCAAGCTCG
1 CACACTTAGTGCTACATAATCAAACTCG
57609421 CACACTTAGTGCT
1 CACACTTAGTGCT
57609434 GTACAATTTA
Statistics
Matches: 221, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
27 20 0.09
28 201 0.91
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CACACTTAGTGCTACATAATCAAACTCG
Found at i:57617492 original size:93 final size:93
Alignment explanation
Indices: 57617380--57617550 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
57617370 GCCCATAAGT
* *
57617380 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57617445 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
57617473 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
57617538 CGAGTTCGGATGC
66 CGAGCTCGGATGC
57617551 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:57617547 original size:46 final size:46
Alignment explanation
Indices: 57617372--57617547 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57617362 TGTAACCCGC
* *
57617372 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
57617418 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
57617468 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
57617511 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
57617548 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 65 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:57619982 original size:30 final size:30
Alignment explanation
Indices: 57619938--57620026 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
57619928 CAAAGATAAC
*
57619938 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
57619967 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
57619997 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
57620027 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:57619986 original size:15 final size:14
Alignment explanation
Indices: 57619938--57620020 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
57619928 CAAAGATAAC
*
57619938 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
57619952 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
57619967 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
57619982 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
57619997 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
57620012 AAGAAACCC
1 AAGAAACCC
57620021 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:57620026 original size:15 final size:15
Alignment explanation
Indices: 57619949--57620026 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
57619939 AGAAAACCGA
57619949 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
57619964 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
57619978 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
57619993 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
57620009 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
57620024 ATA
1 ATA
57620027 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:57623072 original size:46 final size:46
Alignment explanation
Indices: 57622906--57623073 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 46
57622896 TGTAACCTGC
* * * * * * *
57622906 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCATAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTTACAT
* * * * *
57622952 CCATGAGTGAACTCGGACTCAACTCAAAGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTACAT
* *
57623002 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTTACAT
*
57623045 CCATAAGTGAACTCGGACTCAACTCAACG
1 CCATAAGCGAACTCGGACTCAACTCAACG
57623074 CCTAGGTTGA
Statistics
Matches: 96, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 50 0.52
47 25 0.26
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTTACAT
Found at i:57624258 original size:125 final size:124
Alignment explanation
Indices: 57624027--57624278 Score: 468
Period size: 125 Copynumber: 2.0 Consensus size: 124
57624017 GCCAACATTC
*
57624027 GGTCAATAGAAATAACTTCAATGTGACTTTTAAAAATTTTATTCATTCATTGAGATTCATGACCG
1 GGTCAATAGAAATAACTTCAATGTGACTTTTAAAAATTTTATTCATTCATTGAGATTCATGACCA
57624092 AACCTAAATAGCTAATTCATAAGTAAACATATCCTAACTATACACTTTTATTTGGACTA
66 AACCTAAATAGCTAATTCATAAGTAAACATATCCTAACTATACACTTTTATTTGGACTA
*
57624151 GGTCAATGGAAAATAACTTCAATGTGACTTTTAAAAATTTTATTCATTCATTGAGATTCATGACC
1 GGTCAATAG-AAATAACTTCAATGTGACTTTTAAAAATTTTATTCATTCATTGAGATTCATGACC
*
57624216 AAACCTAAATAGCTAATTCATAAGTAAACATATCCTAACTATACACTTTTATTTTGACTA
65 AAACCTAAATAGCTAATTCATAAGTAAACATATCCTAACTATACACTTTTATTTGGACTA
57624276 GGT
1 GGT
57624279 TTAGCAGTAT
Statistics
Matches: 124, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
124 8 0.06
125 116 0.94
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (124 bp):
GGTCAATAGAAATAACTTCAATGTGACTTTTAAAAATTTTATTCATTCATTGAGATTCATGACCA
AACCTAAATAGCTAATTCATAAGTAAACATATCCTAACTATACACTTTTATTTGGACTA
Found at i:57627640 original size:42 final size:43
Alignment explanation
Indices: 57627529--57627688 Score: 116
Period size: 44 Copynumber: 3.7 Consensus size: 43
57627519 CTCATACAAT
* * * * *
57627529 GCCAACGTCCCAGACGTGGTCTTACATG-TA-ATCAACTATTGAT
1 GCCAACGTCCCAGACATGGTCTTACACGAAACATCAA--ATCGAC
* * *
57627572 GCC-ACTGTCCCAGATAAGGTCTTACAC-AAA-ATCATATACGAC
1 GCCAAC-GTCCCAGACATGGTCTTACACGAAACATCAAAT-CGAC
* * *
57627614 GCCAATC-TCCTAGACATGGTCTTACACGTAAACCTCAAATCGAT
1 GCCAA-CGTCCCAGACATGGTCTTACACG-AAACATCAAATCGAC
*
57627658 GCCAACGTCCCAGACATGGTCTTACATGAAA
1 GCCAACGTCCCAGACATGGTCTTACACGAAA
57627689 TCACATATCA
Statistics
Matches: 92, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
41 2 0.02
42 24 0.26
43 30 0.33
44 31 0.34
45 5 0.05
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCAACGTCCCAGACATGGTCTTACACGAAACATCAAATCGAC
Found at i:57627673 original size:44 final size:42
Alignment explanation
Indices: 57627527--57627691 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 42
57627517 AGCTCATACA
* * *
57627527 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAACTATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAA--ATCG
* * * *
57627570 ATGCC-ACTGTCCCAGATAAGGTCTTACAC-AAAATCATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAAT-CG
* *
57627612 ACGCCAATC-TCCTAGACATGGTCTTACACGTAAACCTCAAATCG
1 ATGCCAA-CGTCCCAGACATGGTCTTACACGTAAA--TCAAATCG
*
57627656 ATGCCAACGTCCCAGACATGGTCTTACATG-AAATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA
57627692 CATATCAGAG
Statistics
Matches: 97, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
41 5 0.05
42 24 0.25
43 35 0.36
44 28 0.29
45 5 0.05
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATCG
Found at i:57630937 original size:38 final size:38
Alignment explanation
Indices: 57630894--57630968 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
57630884 TCAAATGGTC
57630894 TAATTACCACATAAGGACCTCCACTTTAATGTTCCATT
1 TAATTACCACATAAGGACCTCCACTTTAATGTTCCATT
57630932 TAATTACCACATAAGGACCTCCACTTTAATGTTCCAT
1 TAATTACCACATAAGGACCTCCACTTTAATGTTCCAT
57630969 AGCTATTAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (38 bp):
TAATTACCACATAAGGACCTCCACTTTAATGTTCCATT
Found at i:57638214 original size:48 final size:48
Alignment explanation
Indices: 57638161--57638259 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
57638151 CATTCTCGAG
57638161 TATATTTACTTAGCCTTATGAATTTTCTTTTATACTCAGTTACAGTTA
1 TATATTTACTTAGCCTTATGAATTTTCTTTTATACTCAGTTACAGTTA
57638209 TATATTTACTTAGCCTTATGAATTTTCTTTTATACTCAGTTACAGTTA
1 TATATTTACTTAGCCTTATGAATTTTCTTTTATACTCAGTTACAGTTA
57638257 TAT
1 TAT
57638260 GACCTTGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (48 bp):
TATATTTACTTAGCCTTATGAATTTTCTTTTATACTCAGTTACAGTTA
Found at i:57639327 original size:12 final size:12
Alignment explanation
Indices: 57639310--57639348 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
57639300 CACATGGCTA
*
57639310 TGTCCCAGCCTG
1 TGTCCCAGCCCG
57639322 TGTCCCAGCCCG
1 TGTCCCAGCCCG
* *
57639334 TGTCCTACCCCG
1 TGTCCCAGCCCG
57639346 TGT
1 TGT
57639349 AACTCTCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.08, C:0.44, G:0.23, T:0.26
Consensus pattern (12 bp):
TGTCCCAGCCCG
Found at i:57642375 original size:26 final size:25
Alignment explanation
Indices: 57642326--57642378 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
57642316 AATGGTAGTT
57642326 AAATGTTAAATTTATATGCTGTTATG
1 AAATGTTAAATTTATATGC-GTTATG
57642352 AAATGTTAGAATTTATATTG-GTTATG
1 AAATGTTA-AATTTATA-TGCGTTATG
57642378 A
1 A
57642379 CTAAATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.60
27 8 0.32
28 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (25 bp):
AAATGTTAAATTTATATGCGTTATG
Found at i:57643251 original size:82 final size:83
Alignment explanation
Indices: 57643135--57643298 Score: 303
Period size: 82 Copynumber: 2.0 Consensus size: 83
57643125 AATACTTTGG
57643135 TTTAATTAATTAAATTGATGATATTATTAGGTTACTCTTTTGCTTATGACTTACTAAGCTTTGAT
1 TTTAATTAATTAAATTGATGATATTATTAGGTTACTCTTTTGCTTATGACTTACTAAGCTTTGAT
*
57643200 AGCTTACTCTGTGTGTTT
66 AGCTTACTCTGTATGTTT
*
57643218 TTTAATTAATT-AATTTATGATATTATTAGGTTACTCTTTTGCTTATGACTTACTAAGCTTTGAT
1 TTTAATTAATTAAATTGATGATATTATTAGGTTACTCTTTTGCTTATGACTTACTAAGCTTTGAT
57643282 AGCTTACTCTGTATGTT
66 AGCTTACTCTGTATGTT
57643299 ATGTCTACTC
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
82 68 0.86
83 11 0.14
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (83 bp):
TTTAATTAATTAAATTGATGATATTATTAGGTTACTCTTTTGCTTATGACTTACTAAGCTTTGAT
AGCTTACTCTGTATGTTT
Found at i:57645372 original size:27 final size:27
Alignment explanation
Indices: 57645354--57645485 Score: 176
Period size: 27 Copynumber: 4.9 Consensus size: 27
57645344 CTCAATTTGT
57645354 AAAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCATTTTACCCTCGATTTAC
* *
57645381 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCATTTTACCCTCGATTTAC
* *
57645408 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCATTTTACCCTCGATTTAC
**
57645435 AAAATTACCATTTTA-CCTTTAGTTTAC
1 AAAATTACCATTTTACCCTCGA-TTTAC
* *
57645462 AAAATTACCGTTTTACCTTCGATT
1 AAAATTACCATTTTACCCTCGATT
57645486 GTGAAATTAC
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.04
27 84 0.92
28 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
AAAATTACCATTTTACCCTCGATTTAC
Found at i:57645565 original size:27 final size:27
Alignment explanation
Indices: 57645484--57645706 Score: 137
Period size: 27 Copynumber: 8.2 Consensus size: 27
57645474 TTACCTTCGA
* *
57645484 TTGTGAAATTACTAAAATACCCCT-GT
1 TTGTAAAATTACAAAAATACCCCTAGT
** * *
57645510 AGGATAGAATTACCAAAATACCCCTAGT
1 TTG-TAAAATTACAAAAATACCCCTAGT
57645538 TTGTAAAATTACAAAAATACCCCTAGT
1 TTGTAAAATTACAAAAATACCCCTAGT
* ** *
57645565 TTGTGAAATTACCGAAATA-CCCTCAAT
1 TTGTAAAATTACAAAAATACCCCT-AGT
* * *
57645592 TTGTAAAATCACCAAAATA-CCCTGGAT
1 TTGTAAAATTACAAAAATACCCCTAG-T
** * *
57645619 TTACAAAATTACAAAAATACCCTTGACT
1 TTGTAAAATTACAAAAATACCCCT-AGT
* * * **
57645647 TTTTAAAAATTATAGAAATACCATTAGT
1 TTGT-AAAATTACAAAAATACCCCTAGT
** * * *
57645675 TTACAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACAAAAATACCCCTAGT
57645702 TTGTA
1 TTGTA
57645707 GATTTACCAA
Statistics
Matches: 150, Mismatches: 40, Indels: 13
0.74 0.20 0.06
Matches are distributed among these distances:
26 5 0.03
27 115 0.77
28 13 0.09
29 17 0.11
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACAAAAATACCCCTAGT
Found at i:57645628 original size:54 final size:55
Alignment explanation
Indices: 57645517--57645697 Score: 154
Period size: 54 Copynumber: 3.3 Consensus size: 55
57645507 TGTAGGATAG
* * ***
57645517 AATTACCAAAATACCC-CTAGTTTGTAAAATTACAAAAATACCCCTAGTTTGTGA
1 AATTACCAAAATACCCTCTAATTTGTAAAATCACAAAAATACCCCTAGTTTACAA
* * *
57645571 AATTACCGAAATACCCTC-AATTTGTAAAATCACCAAAATA-CCCTGGATTTACAA
1 AATTACCAAAATACCCTCTAATTTGTAAAATCACAAAAATACCCCTAG-TTTACAA
* * * * * * **
57645625 AATTACAAAAATACCCT-TGACTTTTTAAAAATTATAGAAATACCATTAGTTTACAA
1 AATTACCAAAATACCCTCT-AATTTGT-AAAATCACAAAAATACCCCTAGTTTACAA
*
57645681 AATTACTAAAATACCCT
1 AATTACCAAAATACCCT
57645698 TGGTTTGTAG
Statistics
Matches: 101, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
53 5 0.05
54 53 0.52
55 6 0.06
56 34 0.34
57 3 0.03
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.30
Consensus pattern (55 bp):
AATTACCAAAATACCCTCTAATTTGTAAAATCACAAAAATACCCCTAGTTTACAA
Found at i:57646661 original size:26 final size:26
Alignment explanation
Indices: 57646632--57646898 Score: 333
Period size: 26 Copynumber: 10.3 Consensus size: 26
57646622 GAGGAAGTGC
*
57646632 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
57646658 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
57646684 AAAAGAGTTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
57646710 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * * **
57646736 GAAAGGGTTTATGCCTCAGTTTACAG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
57646762 AAAAGGGATTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
57646788 GAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
57646814 AAAAGGGCTTATGCCTTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
57646840 AAAAGGGCTTACGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
57646866 -AAAGGGCTTTTGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
57646889 AAAAGAGGCT
1 AAAAG-GGCT
57646899 AGGCCTCCAG
Statistics
Matches: 206, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
24 7 0.03
25 20 0.10
26 179 0.87
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:57647092 original size:42 final size:42
Alignment explanation
Indices: 57647033--57647124 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
57647023 TAGTCTCCCC
* *
57647033 AAATGGGCTTGCATACATTCATTGGCATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
57647075 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
57647117 AAATGGGC
1 AAATGGGC
57647125 CTAAGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:57647183 original size:31 final size:31
Alignment explanation
Indices: 57647148--57647231 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
57647138 CTTTTACAGT
57647148 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
57647179 AAAGGCTTCGGCCCAATGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
57647210 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
57647232 TCAAGACTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:57650387 original size:13 final size:13
Alignment explanation
Indices: 57650369--57650393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57650359 GCTTGACAGG
57650369 GACACGCCCGTGT
1 GACACGCCCGTGT
57650382 GACACGCCCGTG
1 GACACGCCCGTG
57650394 CGAGATTACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.32, T:0.12
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:57663280 original size:27 final size:26
Alignment explanation
Indices: 57663249--57663426 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
57663239 TAAATTGTAC
57663249 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
57663276 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
57663302 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
57663330 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
57663358 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
57663385 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
57663412 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57663427 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:57663365 original size:82 final size:81
Alignment explanation
Indices: 57663250--57663405 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
57663240 AAATTGTACA
* * *
57663250 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
57663314 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57663331 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
57663396 TGCGAGTTGA
65 TGCGAATTGA
57663406 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57663417 original size:82 final size:81
Alignment explanation
Indices: 57663246--57663426 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
57663236 GATTAAATTG
* * *
57663246 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57663311 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57663327 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57663391 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57663409 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57663427 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57672828 original size:21 final size:22
Alignment explanation
Indices: 57672802--57672842 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
57672792 TACTAGATAC
57672802 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
*
57672823 AGGGGCAACACGCCCTTGTG
1 AGGGGCAACACGCCCGTGTG
57672843 ACAAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.29, G:0.41, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:57681695 original size:40 final size:40
Alignment explanation
Indices: 57681651--57681882 Score: 297
Period size: 40 Copynumber: 5.8 Consensus size: 40
57681641 ATAACCACAA
*
57681651 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
57681691 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * * *
57681731 GGACAAATACCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
57681771 GCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
57681811 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
57681851 GCACAATTGCCTTCGGGACTTAGCCTGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
57681883 CATTCAAATG
Statistics
Matches: 164, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
39 4 0.02
40 153 0.93
41 7 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:57681754 original size:80 final size:80
Alignment explanation
Indices: 57681651--57681882 Score: 340
Period size: 80 Copynumber: 2.9 Consensus size: 80
57681641 ATAACCACAA
* * * *
57681651 GCACAAATGCCCTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAGC
*
57681715 CCGGATATATCAACTC
65 CCGGATATAGCAACTC
* * *
57681731 GGACAAATACCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
*
57681796 CGGGTATAGCAACTC
66 CGGATATAGCAACTC
* *
57681811 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
*
57681876 TGGATAT
66 CGGATAT
57681883 CATTCAAATG
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
80 131 0.97
81 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
CGGATATAGCAACTC
Found at i:57681864 original size:120 final size:120
Alignment explanation
Indices: 57681622--57681881 Score: 335
Period size: 120 Copynumber: 2.2 Consensus size: 120
57681612 ACCCAAGTTT
* * * *
57681622 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATATC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGC
* * *
57681686 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGGACAAATAC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATAC
* * * * * * *
57681741 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGC
* * *
57681806 AACTCGCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATC-ACTAGCACAATTGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AAATCAACTAGCACAAATAC
*
57681861 CTTCGGGACTTAGCCTGGATA
1 CTTCGGGACTTAGCCCGGATA
57681882 TCATTCAAAT
Statistics
Matches: 120, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
119 10 0.08
120 106 0.88
121 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGC
AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATAC
Found at i:57684590 original size:7 final size:7
Alignment explanation
Indices: 57684578--57684608 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
57684568 CTTTTTTAAC
57684578 CATCCCT
1 CATCCCT
57684585 CATCCCT
1 CATCCCT
57684592 CATCCCT
1 CATCCCT
*
57684599 TATCCCT
1 CATCCCT
57684606 CAT
1 CAT
57684609 TCATCCCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (7 bp):
CATCCCT
Found at i:57695604 original size:40 final size:40
Alignment explanation
Indices: 57695499--57695705 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
57695489 CGGATGATAA
* *
57695499 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
57695539 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
57695578 CTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57695618 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
57695658 CCGGGCTAAGTCCCAAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
57695698 CC-GGCTAA
1 CCGGGCTAA
57695706 ATTCCAAAGG
Statistics
Matches: 153, Mismatches: 11, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
39 42 0.27
40 111 0.73
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57701479 original size:7 final size:7
Alignment explanation
Indices: 57701467--57701491 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
57701457 ACTTTTTCAA
57701467 TCATCCC
1 TCATCCC
57701474 TCATCCC
1 TCATCCC
57701481 TCATCCC
1 TCATCCC
57701488 TCAT
1 TCAT
57701492 TCATCCCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (7 bp):
TCATCCC
Found at i:57701513 original size:18 final size:18
Alignment explanation
Indices: 57701474--57701515 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
57701464 CAATCATCCC
*
57701474 TCATCCCTCATCCCTCAT
1 TCATCCCTCATCACTCAT
*
57701492 TCATCCCTCACTCATTCA-
1 TCATCCCTCA-TCACTCAT
57701510 TCATCC
1 TCATCC
57701516 TCTCCTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.19, C:0.48, G:0.00, T:0.33
Consensus pattern (18 bp):
TCATCCCTCATCACTCAT
Found at i:57703900 original size:46 final size:45
Alignment explanation
Indices: 57703754--57703974 Score: 178
Period size: 46 Copynumber: 4.7 Consensus size: 45
57703744 TGCAGGTGTT
* * *
57703754 GATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTATGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTAG--C-A-CATCTCGATGCC
* * *
57703804 AATGCCATGTCCCAGACAAGGTCTTACACTAACACATCTCG-TAGCC
1 GATGCCATGTCCCAGAC-ATGTCTTACACTAGCACATCTCGAT-GCC
* * *
57703850 GATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGC--ACATCTCGATGCC
* * * *
57703896 GATG-CATGTCCCAAACACGTCTTACACTAGCACTTGTCTCAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCAC--ATCTCGATGCC
* *
57703942 GATGCCATATCCCAGACATGGTCTTACATTAGC
1 GATGCCATGTCCCAGACAT-GTCTTACACTAGC
57703975 TCTCATAATG
Statistics
Matches: 141, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 14 0.10
45 13 0.09
46 62 0.44
47 12 0.09
48 13 0.09
50 26 0.18
51 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (45 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCACATCTCGATGCC
Found at i:57712903 original size:42 final size:42
Alignment explanation
Indices: 57712838--57712928 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
57712828 CAGTTTCCAT
*
57712838 ACGGCCTAAGACGCGGGCATGTCTACTAGCCGTGTAAGGCAC
1 ACGGCCTAAGACACGGGCATGTCTACTAGCCGTGTAAGGCAC
* * * *
57712880 ATGGCCTAAGACACTGGCGTGTCTACTAGCCGTGTGAGGCAC
1 ACGGCCTAAGACACGGGCATGTCTACTAGCCGTGTAAGGCAC
57712922 ACGGCCT
1 ACGGCCT
57712929 GTTCACATGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.29, G:0.31, T:0.19
Consensus pattern (42 bp):
ACGGCCTAAGACACGGGCATGTCTACTAGCCGTGTAAGGCAC
Found at i:57720657 original size:43 final size:44
Alignment explanation
Indices: 57720556--57720670 Score: 119
Period size: 43 Copynumber: 2.6 Consensus size: 44
57720546 TGCATCCATT
* *
57720556 ATGAACTC-GAACCAACTCAACGAGCTCGGATGCCACATACATATC
1 ATGAACTCAG-ACCAACTCAAAGAGTTCGGATGCCACATA-ATATC
** * *
57720601 ACAAACCCAGACCAATTCAAAGAGTTCGGATTG-CACAT-ATATC
1 ATGAACTCAGACCAACTCAAAGAGTTCGGA-TGCCACATAATATC
*
57720644 ATGAACTCAGACCAACTCAATGAGTTC
1 ATGAACTCAGACCAACTCAAAGAGTTC
57720671 AGATCTTATA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
43 27 0.47
45 27 0.47
46 3 0.05
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (44 bp):
ATGAACTCAGACCAACTCAAAGAGTTCGGATGCCACATAATATC
Found at i:57724616 original size:45 final size:45
Alignment explanation
Indices: 57724549--57724664 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 45
57724539 GTTGTACAGT
* **
57724549 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGAC
* * * *
57724594 ATTATTCGGGCCTTTGAACCTAGCAAGCTATAATGCCAGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGAC
* *
57724639 ATTTTTTGGGCC-TCGAGCCTAGCAGG
1 ATTATTCGGGCCTTCGAGCCTAGCAGG
57724665 AAAAATGCCG
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
44 11 0.18
45 49 0.82
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGAC
Found at i:57726951 original size:15 final size:15
Alignment explanation
Indices: 57726919--57726989 Score: 88
Period size: 15 Copynumber: 4.7 Consensus size: 15
57726909 GAGATGTCAT
* *
57726919 GAAAACCAAGATAAA
1 GAAATCCAAGAAAAA
* *
57726934 GAAGTCCAGGAAAAA
1 GAAATCCAAGAAAAA
*
57726949 GAAATCCAAGATAAA
1 GAAATCCAAGAAAAA
*
57726964 GAAATCCAAGAAACA
1 GAAATCCAAGAAAAA
57726979 GAAATCCAAGA
1 GAAATCCAAGA
57726990 TACAATATCA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.59, C:0.15, G:0.17, T:0.08
Consensus pattern (15 bp):
GAAATCCAAGAAAAA
Found at i:57726960 original size:30 final size:30
Alignment explanation
Indices: 57726919--57726991 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
57726909 GAGATGTCAT
* * *
57726919 GAAAACCAAGATAAAGAAGTCCAGGAAAAA
1 GAAATCCAAGATAAAGAAATCCAAGAAAAA
*
57726949 GAAATCCAAGATAAAGAAATCCAAGAAACA
1 GAAATCCAAGATAAAGAAATCCAAGAAAAA
57726979 GAAATCCAAGATA
1 GAAATCCAAGATA
57726992 CAATATCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.59, C:0.15, G:0.16, T:0.10
Consensus pattern (30 bp):
GAAATCCAAGATAAAGAAATCCAAGAAAAA
Found at i:57728698 original size:19 final size:18
Alignment explanation
Indices: 57728656--57728698 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
57728646 TGTGGGTAGG
*
57728656 CCGTGTGGTCACACACGC
1 CCGTGTGGTCACACACAC
*
57728674 CCGTGTGGCTCAGACACAC
1 CCGTGTGG-TCACACACAC
*
57728693 CTGTGT
1 CCGTGT
57728699 CTTCAGCCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.16, C:0.35, G:0.28, T:0.21
Consensus pattern (18 bp):
CCGTGTGGTCACACACAC
Found at i:57731353 original size:103 final size:103
Alignment explanation
Indices: 57731174--57731379 Score: 394
Period size: 103 Copynumber: 2.0 Consensus size: 103
57731164 CATTTTCGCA
*
57731174 TGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCCACAACAAACGGGTAGTCCTATACA
1 TGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCAACAACAAACGGGTAGTCCTATACA
*
57731239 TGTCATTTCGAAGTTCAACCAAAATTGTACCAAAAGGG
66 TGCCATTTCGAAGTTCAACCAAAATTGTACCAAAAGGG
57731277 TGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCAACAACAAACGGGTAGTCCTATACA
1 TGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCAACAACAAACGGGTAGTCCTATACA
57731342 TGCCATTTCGAAGTTCAACCAAAATTGTACCAAAAGGG
66 TGCCATTTCGAAGTTCAACCAAAATTGTACCAAAAGGG
57731380 GGGGCTTTGA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (103 bp):
TGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCAACAACAAACGGGTAGTCCTATACA
TGCCATTTCGAAGTTCAACCAAAATTGTACCAAAAGGG
Found at i:57731934 original size:79 final size:82
Alignment explanation
Indices: 57731823--57732007 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
57731813 GCTACTCGTT
* * *
57731823 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
57731886 GGATTTAGTAAC-TCGCA
65 AGATATAGTAACTTAGCA
* **
57731903 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCA
* *
57731966 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
57731983 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57732008 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCA
GATATAGTAACTTAGCA
Found at i:57731940 original size:39 final size:40
Alignment explanation
Indices: 57731823--57732007 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
57731813 GCTACTCGTT
*
57731823 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
57731863 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
57731903 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
57731942 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
57731983 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57732008 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 75 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:57735783 original size:27 final size:26
Alignment explanation
Indices: 57735753--57735929 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 26
57735743 AAATTGTACA
* *
57735753 GCACTAAGTGTGTGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
57735780 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
57735807 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
57735834 GCACTAAGTGTGCGAGTTTGACTATGTG
1 GCACTAAGTGTGCGA--TTGACTATGTG
* *
57735862 GCACTAAGTGTGCGATTTGATTATGTA
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
57735889 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
57735916 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57735930 GACTCGATAT
Statistics
Matches: 131, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.79
28 27 0.21
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:57735866 original size:82 final size:81
Alignment explanation
Indices: 57735753--57735908 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
57735743 AAATTGTACA
* *
57735753 GCACTAAGTGTGTGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
57735817 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
57735834 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
57735899 TGCGAGTTGA
65 TGCGAATTGA
57735909 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57735920 original size:82 final size:81
Alignment explanation
Indices: 57735749--57735929 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
57735739 GATTAAATTG
* *
57735749 TACAGCACTAAGTGTGTGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
57735814 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
57735830 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
57735894 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57735912 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57735930 GACTCGATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57742815 original size:243 final size:243
Alignment explanation
Indices: 57742387--57742872 Score: 893
Period size: 243 Copynumber: 2.0 Consensus size: 243
57742377 ATCTTCAGTT
57742387 CAGAAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACTAGACTCATATGTTCATCTACATAT
1 CAGAAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACTAGACTCATATGTTCATCTACATAT
* *
57742452 TTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTCAAATTCTCCCATGTTACA
66 TTTTTTCTAGAATTTATAGTTGGGCCAATTAGTACAGTTTATTAGTCAAATTCTCCCATGTTACA
* * *
57742517 GGGATCGACTTCCCTGACCTTTGCGCATTTCGACTTGGATATCTCCCTGTACAGGGCTTCAATAC
131 GGGATCGACTACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATAC
57742582 TGATG-CAGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATAC
196 TGATGTC-GTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATAC
57742630 CAGAAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACTAGACTCATATGTTCATCTACATAT
1 CAGAAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACTAGACTCATATGTTCATCTACATAT
57742695 TTTTTTCTAGAATTTATAGTTGGGCCAATTAGTACAGTTTATTAGTCAAATTCTCCCATGTTACA
66 TTTTTTCTAGAATTTATAGTTGGGCCAATTAGTACAGTTTATTAGTCAAATTCTCCCATGTTACA
* *
57742760 GGGATCGACTACACTGACCTTTGCGCATTACGACTTTGATATCTCTCTGTACAGGGCTTCAATAC
131 GGGATCGACTACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATAC
57742825 TGATGTCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATAC
196 TGATGTCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATAC
57742873 ATATATGGCT
Statistics
Matches: 235, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
243 234 1.00
244 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (243 bp):
CAGAAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACTAGACTCATATGTTCATCTACATAT
TTTTTTCTAGAATTTATAGTTGGGCCAATTAGTACAGTTTATTAGTCAAATTCTCCCATGTTACA
GGGATCGACTACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATAC
TGATGTCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATAC
Found at i:57743574 original size:39 final size:40
Alignment explanation
Indices: 57743473--57743696 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
57743463 TTGAATGATG
* *
57743473 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
57743512 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
57743553 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
57743592 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
57743631 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
57743670 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
57743697 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 75 0.46
40 76 0.46
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:57743719 original size:79 final size:78
Alignment explanation
Indices: 57743526--57743696 Score: 238
Period size: 78 Copynumber: 2.2 Consensus size: 78
57743516 GGACTAAGAT
* *
57743526 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACTAA-TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
57743590 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
* *
57743604 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGTGCGAGATACT-AATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
57743668 ATAACCGGGCTATGTC
65 AT-ACCGGGCTAAG-C
57743684 CCGAAGGCATTTG
1 CCGAAGGCATTTG
57743697 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
78 35 0.42
79 34 0.41
80 14 0.17
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:57743727 original size:79 final size:79
Alignment explanation
Indices: 57743526--57743729 Score: 218
Period size: 79 Copynumber: 2.6 Consensus size: 79
57743516 GGACTAAGAT
** * * * * *
57743526 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
*
57743590 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
57743604 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
*
57743668 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
57743684 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
57743730 TACGTGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 34 0.31
79 49 0.45
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:57745730 original size:20 final size:20
Alignment explanation
Indices: 57745707--57745744 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
57745697 CACTCTGTAA
57745707 ATATTTATAAAAATATTTAC
1 ATATTTATAAAAATATTTAC
57745727 ATATTTATAAAAATATTT
1 ATATTTATAAAAATATTT
57745745 CTGGCTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTTATAAAAATATTTAC
Found at i:57746642 original size:4 final size:4
Alignment explanation
Indices: 57746633--57746657 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
57746623 TTAAACTAAG
57746633 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
57746658 AATAAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:57751701 original size:17 final size:17
Alignment explanation
Indices: 57751673--57751720 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
57751663 TTGGATTGAG
57751673 AAAATT-ATTTAATTAA
1 AAAATTAATTTAATTAA
57751689 AAAATTAATTTAATTAA
1 AAAATTAATTTAATTAA
**
57751706 TTAATTAATTATAAT
1 AAAATTAATT-TAAT
57751721 AATTGGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:57771482 original size:10 final size:10
Alignment explanation
Indices: 57771469--57771516 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
57771459 TTATTTTCAT
57771469 TTATCTTTAA
1 TTATCTTTAA
57771479 TTATCTTTAA
1 TTATCTTTAA
*
57771489 TTATCTTTAT
1 TTATCTTTAA
*
57771499 TTAT-TTGTAT
1 TTATCTT-TAA
57771509 TTATCTTT
1 TTATCTTT
57771517 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:57780942 original size:7 final size:6
Alignment explanation
Indices: 57780922--57780963 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
57780912 TTTATTTCTC
*
57780922 TTTATT TTTATT TTTATT TTT-TAT TTTATT TTAATT ATTTAT
1 TTTATT TTTATT TTTATT TTTAT-T TTTATT TTTATT -TTTAT
57780964 ATCTTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 1 0.03
6 25 0.81
7 5 0.16
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:57780950 original size:18 final size:18
Alignment explanation
Indices: 57780922--57781001 Score: 64
Period size: 15 Copynumber: 4.7 Consensus size: 18
57780912 TTTATTTCTC
* *
57780922 TTTATTTTTATTTTTATTT
1 TTTA-TTTTATTTTAATTA
57780941 TTTATTTTATTTTAATTA
1 TTTATTTTATTTTAATTA
*
57780959 TTTA---TATCTTAATTA
1 TTTATTTTATTTTAATTA
* *
57780974 TTTA--TTA-CTTAATTT
1 TTTATTTTATTTTAATTA
57780989 TTTATTTTATTTT
1 TTTATTTTATTTT
57781002 TGATATTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
15 25 0.48
16 2 0.04
17 3 0.06
18 18 0.35
19 4 0.08
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTTATTTTAATTA
Found at i:57781000 original size:12 final size:12
Alignment explanation
Indices: 57780922--57781002 Score: 60
Period size: 12 Copynumber: 6.8 Consensus size: 12
57780912 TTTATTTCTC
57780922 TTTA-TTTTTATT
1 TTTATTTTTTA-T
57780934 TTTATTTTTTAT
1 TTTATTTTTTAT
57780946 TTTATTTTAATTA-
1 TTTATTTT--TTAT
* *
57780959 TTTATATCTTA-
1 TTTATTTTTTAT
* * *
57780970 ATTATTTATTAC
1 TTTATTTTTTAT
*
57780982 TTAATTTTTTAT
1 TTTATTTTTTAT
57780994 TTTATTTTT
1 TTTATTTTT
57781003 GATATTAATA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
11 11 0.20
12 29 0.53
13 12 0.22
14 3 0.05
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:57783748 original size:96 final size:97
Alignment explanation
Indices: 57783580--57783761 Score: 294
Period size: 96 Copynumber: 1.9 Consensus size: 97
57783570 TTTAAGAATA
* * *
57783580 TGTTGGGCTGAGTAACCAAGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAAT
1 TGTTGGGCTAAGTAACCAAGGTGAGGTGCTTAGCTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
*
57783645 ATGTTCTTAAG-AAAAATAAAAATTAGGAGTG
66 ATATTCTTAAGTAAAAATAAAAATTAGGAGTG
**
57783676 TGTTGGGCTAAGTAACCGGGGTGAGGTGCTTAGCTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
1 TGTTGGGCTAAGTAACCAAGGTGAGGTGCTTAGCTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
*
57783741 ATATTCTTAAGTAAAACTAAA
66 ATATTCTTAAGTAAAAATAAA
57783762 TAAATAAATA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
96 70 0.90
97 8 0.10
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (97 bp):
TGTTGGGCTAAGTAACCAAGGTGAGGTGCTTAGCTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
ATATTCTTAAGTAAAAATAAAAATTAGGAGTG
Found at i:57784379 original size:14 final size:13
Alignment explanation
Indices: 57784360--57784397 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
57784350 ATTTAATGTT
57784360 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
57784374 TAATTATTAAGGA
1 TAATTATTTAGGA
57784387 TAATTATTTAG
1 TAATTATTTAG
57784398 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:57784426 original size:10 final size:10
Alignment explanation
Indices: 57784411--57784460 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
57784401 TAATTTTAGA
57784411 ATTTAT-TTT
1 ATTTATCTTT
57784420 CATTTATCTTT
1 -ATTTATCTTT
*
57784431 AATTATCTTT
1 ATTTATCTTT
57784441 ATTTAT-TTGT
1 ATTTATCTT-T
57784451 ATTTATCTTT
1 ATTTATCTTT
57784461 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:57785255 original size:41 final size:43
Alignment explanation
Indices: 57785201--57785280 Score: 112
Period size: 41 Copynumber: 1.9 Consensus size: 43
57785191 TAAAATTCCA
*
57785201 ATCAAAACTTTTAATTCA-ATTTTTA-TTT-TATTTTTTCCAAG
1 ATCAAAACGTTTAATT-ATATTTTTATTTTGTATTTTTTCCAAG
*
57785242 ATCAAAACGTTTAATTATGTTTTTATTTTGTATTTTTTC
1 ATCAAAACGTTTAATTATATTTTTATTTTGTATTTTTTC
57785281 AAGTACGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 1 0.03
41 21 0.62
42 3 0.09
43 9 0.26
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (43 bp):
ATCAAAACGTTTAATTATATTTTTATTTTGTATTTTTTCCAAG
Found at i:57785789 original size:30 final size:30
Alignment explanation
Indices: 57785755--57785816 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
57785745 GTGCTAAAGA
57785755 TAATTAAATGGGTACAAATTAACCAATAAG
1 TAATTAAATGGGTACAAATTAACCAATAAG
57785785 TAATTAAATGGGTACAAATTAACCAATAAG
1 TAATTAAATGGGTACAAATTAACCAATAAG
57785815 TA
1 TA
57785817 GGGAGAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (30 bp):
TAATTAAATGGGTACAAATTAACCAATAAG
Found at i:57792920 original size:20 final size:20
Alignment explanation
Indices: 57792897--57792961 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
57792887 TGCCCCTATT
57792897 TGCACTTCAGTACCCCTGAA
1 TGCACTTCAGTACCCCTGAA
* * **
57792917 TGCACAT-ATGTGCCCCTGTT
1 TGCACTTCA-GTACCCCTGAA
* *
57792937 TGTACTTCAGTACCCTTGAA
1 TGCACTTCAGTACCCCTGAA
57792957 TGCAC
1 TGCAC
57792962 ATACGTGCCC
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.31
Consensus pattern (20 bp):
TGCACTTCAGTACCCCTGAA
Found at i:57793134 original size:40 final size:40
Alignment explanation
Indices: 57792870--57793123 Score: 286
Period size: 40 Copynumber: 6.4 Consensus size: 40
57792860 AAGCAAATGT
* * *
57792870 CCCTGAATGCACATACATGCCCCTATTTGCACTTCAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
*
57792910 CCCTGAATGCACATATGTGCCCCTGTTTGTACTTCAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* *
57792950 CCTTGAATGCACATACGTGCCCCTGTTTGTACTT-TGATAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAG-TAC
* **
57792990 CCCTGAATGCACAT---TG-CCCTATTTGTACACCAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* * **
57793026 CCCTGAATGCACATACGTGCCCCTGATTGTACTTTGATGCCC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTAC-TTCA-GTAC
* * *
57793068 CCCTAAATGCACATATGTGCCCTTGTTTGTACTTCAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
57793108 CCC-GAATTGCACATAC
1 CCCTGAA-TGCACATAC
57793124 ATGCTCTTGT
Statistics
Matches: 177, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
36 28 0.16
37 3 0.02
39 5 0.03
40 107 0.60
41 4 0.02
42 30 0.17
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.30
Consensus pattern (40 bp):
CCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAGTAC
Found at i:57799977 original size:27 final size:27
Alignment explanation
Indices: 57799947--57800123 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
57799937 AAATTGTACA
* *
57799947 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
57799974 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
57800001 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
57800028 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
57800056 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
57800083 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
57800110 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57800124 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:57800060 original size:82 final size:81
Alignment explanation
Indices: 57799947--57800102 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
57799937 AAATTGTACA
* * * *
57799947 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
57800011 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
57800028 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
57800093 TGCGAGTTGA
65 TGCGAATTGA
57800103 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57800114 original size:82 final size:81
Alignment explanation
Indices: 57799943--57800123 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
57799933 GATTAAATTG
* * * * *
57799943 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57800008 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57800024 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57800088 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57800106 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57800124 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57816827 original size:80 final size:80
Alignment explanation
Indices: 57816694--57817677 Score: 1727
Period size: 80 Copynumber: 12.3 Consensus size: 80
57816684 CCAGCATGAT
* ** * * *
57816694 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAG-CACGGAT
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTC-CGGAT
*
57816758 ATATCACTAGCACGAA
65 ACATCACTAGCACGAA
* * * * *
57816774 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
57816839 CATCACTAGCACGAA
66 CATCACTAGCACGAA
57816854 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
*
57816919 TATCACTAGCACGAA
66 CATCACTAGCACGAA
57816934 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
57816999 CATCACTAGCACGAA
66 CATCACTAGCACGAA
57817014 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
57817079 CATCACTAGCACGAA
66 CATCACTAGCACGAA
57817094 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
57817159 CATCACTAGCACGAA
66 CATCACTAGCACGAA
57817174 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
57817239 CATCACTAGCACGAA
66 CATCACTAGCACGAA
57817254 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
57817319 CATCACTAGCACGAA
66 CATCACTAGCACGAA
57817334 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
57817399 CATCACTAGCACGAA
66 CATCACTAGCACGAA
57817414 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
57817479 CATCACTAGCACGAA
66 CATCACTAGCACGAA
57817494 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
*
57817559 TATCACTAGCACGAA
66 CATCACTAGCACGAA
* * * * * * *
57817574 TGCTCTTCGGGACTTACCCCGGACACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
*
57817639 CATCACTAGCATGAA
66 CATCACTAGCACGAA
* * *
57817654 TGCTCTTCGGGACTTAGCTCGGAT
1 TGCTCTTTGGGATTTAGCCCGGAT
57817678 CATCGTCGAG
Statistics
Matches: 877, Mismatches: 26, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
80 876 1.00
81 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (80 bp):
TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAA
Found at i:57818170 original size:39 final size:40
Alignment explanation
Indices: 57818053--57818276 Score: 262
Period size: 39 Copynumber: 5.7 Consensus size: 40
57818043 GCTACTCGTT
* *
57818053 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
57818093 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
57818133 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
57818172 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
57818211 CAAATGCCTTC-GGATCTTAGTCC-GAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
57818252 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57818277 CATCATTCGA
Statistics
Matches: 162, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.45
40 72 0.44
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:57818222 original size:78 final size:80
Alignment explanation
Indices: 57818053--57818276 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 80
57818043 GCTACTCGTT
*
57818053 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
57818118 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * * * *
57818133 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTTGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
57818195 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * * * *
57818211 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
57818274 GGA
64 GGA
57818277 CATCATTCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
77 2 0.02
78 33 0.27
79 54 0.44
80 33 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:57818260 original size:118 final size:120
Alignment explanation
Indices: 57818053--57818276 Score: 278
Period size: 118 Copynumber: 1.9 Consensus size: 120
57818043 GCTACTCGTT
* *
57818053 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
* * *
57818118 ATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
57818172 CAAATGCCTTTGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
57818234 GAATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
64 GAATATAGTAAC-TAGCACCAAAGCCTTCGGGACTTAGCCCGGA
57818277 CATCATTCGA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
117 4 0.04
118 57 0.64
119 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:57820092 original size:96 final size:96
Alignment explanation
Indices: 57819928--57820842 Score: 1757
Period size: 96 Copynumber: 9.6 Consensus size: 96
57819918 GGGTGTTACA
*
57819928 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
1 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
57819993 GCCATTCGGCCTTATCACATATATACACTTT
66 GCCATTCGGCCTTATCACATATATACACTTT
57820024 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
1 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
57820089 GCCATTCGGCCTTATCACATATATACACTTT
66 GCCATTCGGCCTTATCACATATATACACTTT
57820120 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
1 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
57820185 GCCATTCGGCCTTATCACATATATACACTTT
66 GCCATTCGGCCTTATCACATATATACACTTT
57820216 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
1 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
57820281 GCCATTCGGCCTTATCACATATATACACTTT
66 GCCATTCGGCCTTATCACATATATACACTTT
57820312 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
1 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
57820377 GCCATTCGGCCTTATCACATATATACACTTT
66 GCCATTCGGCCTTATCACATATATACACTTT
57820408 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
1 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
57820473 GCCATTCGGCCTTATCACATATATACACTTT
66 GCCATTCGGCCTTATCACATATATACACTTT
57820504 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
1 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
57820569 GCCATTCGGCCTTATCACATATATACACTTT
66 GCCATTCGGCCTTATCACATATATACACTTT
57820600 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
1 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
57820665 GCCATTCGGCCTTATCACATATATACACTTT
66 GCCATTCGGCCTTATCACATATATACACTTT
*
57820696 CACATTCATCACATCGGCTATTAGGCCTTATCACATATAT--ACACTTTCACATTCATCACATCG
1 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
* *
57820759 GCTATTAGGCCTTATCACATATATACACTTT
66 GCCATTCGGCCTTATCACATATATACACTTT
*
57820790 CACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--ACACTTTCACATT
1 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATT
57820843 TATTCAAATA
Statistics
Matches: 814, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
94 103 0.13
96 711 0.87
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTG
GCCATTCGGCCTTATCACATATATACACTTT
Found at i:57823300 original size:25 final size:24
Alignment explanation
Indices: 57823271--57823323 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
57823261 TGATACCATA
57823271 GCTCTTTATGAG-TGTCCTGATATAG
1 GCTCTTTATGAGCT-TCCTGATAT-G
* *
57823296 GCTCTTTGTGAGCTTCTTGATATG
1 GCTCTTTATGAGCTTCCTGATATG
57823320 GCTC
1 GCTC
57823324 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 19 0.76
26 1 0.04
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.42
Consensus pattern (24 bp):
GCTCTTTATGAGCTTCCTGATATG
Found at i:57829608 original size:46 final size:46
Alignment explanation
Indices: 57829558--57829818 Score: 260
Period size: 46 Copynumber: 5.7 Consensus size: 46
57829548 TGAGCATCCG
* * *
57829558 AACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAATGTTCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
***
57829604 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
* * * *
57829650 AACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCA
* * ***
57829697 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACCCCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
* * ***
57829743 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACCCCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
*
57829789 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
57829819 GGGGTGGGTT
Statistics
Matches: 183, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
45 3 0.02
46 141 0.77
47 24 0.13
48 2 0.01
50 4 0.02
51 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
Found at i:57829801 original size:139 final size:139
Alignment explanation
Indices: 57829551--57829813 Score: 375
Period size: 139 Copynumber: 1.9 Consensus size: 139
57829541 GGATGGTTGA
* * ****
57829551 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAATGTTCAAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAACCCCCAAACTCGTTGAGT
* *****
57829616 TGAGTCCGAGTTCACTTATGGATGCGAATGTTTGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGA
66 TGAGTCCGAGTTCACTTATGGATGAGAATCCCCCAACTCGTTGAGTTGAGTCCAAGTTCGTGAGA
57829681 TGTAACTAG
131 TGTAACTAG
* *
57829690 GCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACCCCCAAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAACCCCCAAACTCGTTGAGT
*
57829755 TGAGTCCGAGTTCACTTATGGATGAGAA-CCCCCAAGCTCGTTGAGTTGAGTCCGAGTTC
66 TGAGTCCGAGTTCACTTATGGATGAGAATCCCCCAA-CTCGTTGAGTTGAGTCCAAGTTC
57829814 ACTTAGGGGT
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
138 2 0.02
139 106 0.98
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (139 bp):
GCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAACCCCCAAACTCGTTGAGT
TGAGTCCGAGTTCACTTATGGATGAGAATCCCCCAACTCGTTGAGTTGAGTCCAAGTTCGTGAGA
TGTAACTAG
Found at i:57833866 original size:43 final size:43
Alignment explanation
Indices: 57833818--57833988 Score: 184
Period size: 43 Copynumber: 4.0 Consensus size: 43
57833808 ATCTCATACA
* *
57833818 ATGCCAACGTCCCAAACATGGTCTTACATGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATATCG
* * *
57833861 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAACTCATATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCACATATCG
* * * * * * *
57833903 ATGTCGATGTCCCAGACATTGTTTTACACGTAAATCACAAATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCACATATCG
* *
57833947 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCACATATC
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATATC
57833989 AGAATCCTTT
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 27 0.26
43 51 0.49
44 26 0.25
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:57837238 original size:40 final size:39
Alignment explanation
Indices: 57837048--57837231 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
57837038 TGAATGATGT
* * * *
57837048 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
57837088 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
57837128 CCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
57837166 TCCGGGTTAAGTCCCAAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57837207 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57837232 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 34 0.28
40 76 0.63
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57837253 original size:79 final size:79
Alignment explanation
Indices: 57837103--57837254 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 79
57837093 CTAAGATCCG
* * **
57837103 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAAATC
1 AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
57837168 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * *
57837182 AAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
57837245 ATCC-GGTTAA
63 ATCCGGGTTAA
57837255 ATTCCGAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 36 0.57
80 25 0.40
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:57840988 original size:44 final size:40
Alignment explanation
Indices: 57840891--57840989 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 40
57840881 CGAAAGTATT
**
57840891 TGGCACTAAGTGTGCGATTTAAATTAGCTTCGGCTACTAA
1 TGGCACTAAGTGTGCGATCCAAATTAGCTTCGGCTACTAA
* * * *
57840931 AGGCACTAAGTGTGCGATACCAACTTAGCTTCGGTTAGTTGAGA
1 TGGCACTAAGTGTGCGAT-CCAAATTAGCTTCGGCTA-CT-A-A
57840975 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
57840990 AGAATCGTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 17 0.35
41 14 0.29
42 1 0.02
43 1 0.02
44 15 0.31
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGATCCAAATTAGCTTCGGCTACTAA
Found at i:57842015 original size:12 final size:13
Alignment explanation
Indices: 57841998--57842026 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
57841988 CTATTTTTGG
57841998 CATGGCCTAG-CA
1 CATGGCCTAGACA
57842010 CATGGCCTAGACA
1 CATGGCCTAGACA
57842023 CATG
1 CATG
57842027 CGCGTGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.17
Consensus pattern (13 bp):
CATGGCCTAGACA
Found at i:57848806 original size:216 final size:208
Alignment explanation
Indices: 57848275--57848901 Score: 875
Period size: 208 Copynumber: 3.0 Consensus size: 208
57848265 GCATTGGCAC
57848275 TAAGAT-AAGAATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGG
1 TAAGATAAAGAA-ATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGG
* * *
57848339 AAATCATGTATGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGTAAAGGTCCCATGTA
65 AAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTCCATGTA
* * * **
57848404 AGACCATGCCAAGGCA-AGCATTGGTCAGTTCATAA-GACAAGGATACCATGTAAGACCATGTTT
130 AGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGA-AAGGATACCACGTAAGACCATGTCA
* *
57848467 TGAACATGACATTTAG
194 AG-ACATGGCATTTAG
* * *
57848483 TAAGATAAAGATATCATGTAAGACCATGCCAAGGCATGGCAGTGATAAGTTCTATAAGGCAAGGA
1 TAAGATAAAGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGA
57848548 AATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTCCATGTAA
66 AATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTCCATGTAA
* *
57848613 GACCATGCCATGGCATGGCATTGGTGAGTTCATAAGGAAAGGATAGCACGTAAGACCATGTCAAG
131 GACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGAAAGGATACCACGTAAGACCATGTCAAG
57848678 ACATGGCATTGATGAG
196 ACATGGCATT--T-AG
** * * * *
57848694 TTACTATAAGGAAAAGGTTCCATGTAAGACCATGCCATGGCATGGCATTGGTGAGTTC-ATAAGG
1 -TAAGATAAAG-AAA---T-CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGG
* * *
57848758 AAAGGATAGCACGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTCC
60 AAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTCC
* *
57848823 ATGTAAGACCATGCCAAGGTATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCAT
125 ATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGAAAGGATACCACGTAAGACCAT
*
57848888 GTCACGACATGGCA
190 GTCAAGACATGGCA
57848902 ATGGTAAGTT
Statistics
Matches: 375, Mismatches: 32, Indels: 16
0.89 0.08 0.04
Matches are distributed among these distances:
208 142 0.38
209 43 0.11
210 3 0.01
211 2 0.01
212 7 0.02
213 2 0.01
216 142 0.38
217 34 0.09
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (208 bp):
TAAGATAAAGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGA
AATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTCCATGTAA
GACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGAAAGGATACCACGTAAGACCATGTCAAG
ACATGGCATTTAG
Found at i:57848912 original size:108 final size:108
Alignment explanation
Indices: 57848497--57848901 Score: 684
Period size: 108 Copynumber: 3.7 Consensus size: 108
57848487 ATAAAGATAT
* * * * * * *
57848497 CATGTAAGACCATGCCAAGGCATGGCAGTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGAAAGGATAGCACGTAAGACC
57848562 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTC
65 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTC
*
57848606 CATGTAAGACCATGCCATGGCATGGCATTGGTGAGTTCATAAGGAAAGGATAGCACGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGAAAGGATAGCACGTAAGACCA
57848671 TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTC
66 TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTC
*
57848714 CATGTAAGACCATGCCATGGCATGGCATTGGTGAGTTCATAAGGAAAGGATAGCACGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGAAAGGATAGCACGTAAGACCA
57848779 TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTC
66 TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTC
* * *
57848822 CATGTAAGACCATGCCAAGGTATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGAAAGGATAGCACGTAAGACCA
*
57848887 TGTCACGACATGGCA
66 TGTCAAGACATGGCA
57848902 ATGGTAAGTT
Statistics
Matches: 283, Mismatches: 13, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
108 249 0.88
109 34 0.12
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGAAAGGATAGCACGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTC
Found at i:57853296 original size:26 final size:26
Alignment explanation
Indices: 57853267--57853374 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
57853257 TGGTACAAAT
57853267 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
57853293 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
57853319 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
57853345 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57853371 TGAT
1 TGAT
57853375 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:57855028 original size:27 final size:27
Alignment explanation
Indices: 57854972--57855031 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
57854962 AGGAAGCGTC
*
57854972 CTGGTGGCTATGCCACATATATCTGTT
1 CTGGTGGCTATGCAACATATATCTGTT
*
57854999 CTGGTGGCTCTGCAACA-ATATCTGTAT
1 CTGGTGGCTATGCAACATATATCTGT-T
57855026 CTGGTG
1 CTGGTG
57855032 ACTTCGTCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCAACATATATCTGTT
Found at i:57862540 original size:13 final size:13
Alignment explanation
Indices: 57862522--57862546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57862512 ACAAACGATA
57862522 AAATTTTCACACG
1 AAATTTTCACACG
57862535 AAATTTTCACAC
1 AAATTTTCACAC
57862547 ATATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:57869731 original size:47 final size:48
Alignment explanation
Indices: 57869609--57869740 Score: 187
Period size: 47 Copynumber: 2.8 Consensus size: 48
57869599 GTGTGCATGA
*
57869609 TACCTTGATTTGGCTACGGGCAATGGTATAGGTATTTCTGAGAAGAGT
1 TACCTTGATTTGGCTACGGGCAATGGTATAGGTACTTCTGAGAAGAGT
** *
57869657 TACCTTGATTTGGCTACGGGCCGTGGTATAGGTACTTC-GGGATA-AGT
1 TACCTTGATTTGGCTACGGGCAATGGTATAGGTACTTCTGAGA-AGAGT
* *
57869704 TACCTTGATTTGGCTACGAGAAATGGTATAGGTACTT
1 TACCTTGATTTGGCTACGGGCAATGGTATAGGTACTT
57869741 ATCGATTGTG
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
47 39 0.52
48 36 0.48
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.33
Consensus pattern (48 bp):
TACCTTGATTTGGCTACGGGCAATGGTATAGGTACTTCTGAGAAGAGT
Found at i:57870499 original size:22 final size:22
Alignment explanation
Indices: 57870462--57870517 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
57870452 TGGATATGGT
57870462 ATGAATTGTGTA--TATTG-ACG
1 ATGAATTG-GTACCTATTGTACG
* *
57870482 ATGATTTGGCTACCTATTGTATG
1 ATGAATTGG-TACCTATTGTACG
57870505 ATGAATTGGTACC
1 ATGAATTGGTACC
57870518 ATGTTGATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.31
22 9 0.31
23 10 0.34
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
ATGAATTGGTACCTATTGTACG
Found at i:57873456 original size:12 final size:12
Alignment explanation
Indices: 57873439--57873469 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57873429 AGTCATCACT
57873439 TTTTCTTGATCA
1 TTTTCTTGATCA
*
57873451 TTTTCTTGTTCA
1 TTTTCTTGATCA
57873463 TTTTCTT
1 TTTTCTT
57873470 TCCTTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.16, G:0.06, T:0.68
Consensus pattern (12 bp):
TTTTCTTGATCA
Found at i:57873498 original size:18 final size:19
Alignment explanation
Indices: 57873472--57873510 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
57873462 ATTTTCTTTC
*
57873472 CTTTCTTCAATCTCAATTT
1 CTTTCTTCAACCTCAATTT
*
57873491 CTTT-TTCAACCTCGATTT
1 CTTTCTTCAACCTCAATTT
57873509 CT
1 CT
57873511 CTCTCACACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.18, C:0.28, G:0.03, T:0.51
Consensus pattern (19 bp):
CTTTCTTCAACCTCAATTT
Found at i:57876184 original size:48 final size:48
Alignment explanation
Indices: 57876104--57876198 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
57876094 GGGTTATGTA
* * *
57876104 TGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATT
1 TGATCCCATGTAAGACCATATCTAGGAAATGGCATTGCCATCAATATT
* *
57876152 TGATCCCATGTAAGACCATATCTGGGAAATGGCATTGCCATCGATAT
1 TGATCCCATGTAAGACCATATCTAGGAAATGGCATTGCCATCAATAT
57876199 GAGACATCGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATATCTAGGAAATGGCATTGCCATCAATATT
Found at i:57885506 original size:6 final size:6
Alignment explanation
Indices: 57885495--57885539 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
57885485 TCCTCTTATC
* *
57885495 TTTTTA TTTTTA TTTTTA TTTTTC TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
57885540 CAATTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:57885525 original size:24 final size:24
Alignment explanation
Indices: 57885493--57885539 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
57885483 AATCCTCTTA
*
57885493 TCTTTTTATTTTTATTTTTATTTT
1 TCTTTTTATTTTTATTTTCATTTT
57885517 TCTTTTTATTTTTATTTTCATTT
1 TCTTTTTATTTTTATTTTCATTT
57885540 CAATTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (24 bp):
TCTTTTTATTTTTATTTTCATTTT
Found at i:57888482 original size:13 final size:13
Alignment explanation
Indices: 57888464--57888492 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
57888454 TTTAGTTTAA
57888464 TTAGTTAATTAGT
1 TTAGTTAATTAGT
57888477 TTAGTTAATTAGT
1 TTAGTTAATTAGT
57888490 TTA
1 TTA
57888493 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:57890875 original size:48 final size:48
Alignment explanation
Indices: 57890801--57891017 Score: 224
Period size: 48 Copynumber: 4.5 Consensus size: 48
57890791 GTGTGCTAGA
57890801 GTAAGACCATGTCTGGGACATGGCATCGGTCACATTATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGTCACATTATGAGAGCCAGT
* * * * *
57890849 GTAAGACCATGTCTGGGACATAGCATCGGCCTCAATATGCGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGTCACATTATGAGAGCCAGT
* * * ** * * *
57890897 GTAAGACCATGTTTGGAACATGGCGTCGGT-ATTGTTAT-ATGTGTCAAT
1 GTAAGACCATGTCTGGGACATGGCATCGGTCA-CATTATGA-GAGCCAGT
* *
57890945 GTAAGACCATGTGTGTGACATGGCATCGG-CACTGATGTATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGTCAC--AT-TATGAGAGCCAGT
*
57890995 GTAAGACCATGTCCGGGACATGG
1 GTAAGACCATGTCTGGGACATGG
57891018 TATCAGCATT
Statistics
Matches: 132, Mismatches: 30, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
48 102 0.77
49 1 0.01
50 28 0.21
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGTCACATTATGAGAGCCAGT
Found at i:57905954 original size:47 final size:48
Alignment explanation
Indices: 57905864--57905957 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 48
57905854 GGGTTATGTG
* * * *
57905864 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCGATATT
1 TGATCCCATGTAACACAATATCTAGGACATGGCATTGGAATCGATATT
* *
57905912 TGATCCCATGTAACA-AATATCTAGGATATGGCATTGGCATCGATAT
1 TGATCCCATGTAACACAATATCTAGGACATGGCATTGGAATCGATAT
57905958 GAAACATCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 26 0.65
48 14 0.35
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (48 bp):
TGATCCCATGTAACACAATATCTAGGACATGGCATTGGAATCGATATT
Found at i:57912902 original size:16 final size:16
Alignment explanation
Indices: 57912883--57912913 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57912873 CTTCTTCACT
57912883 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
57912899 TACTTACTTACTTAA
1 TACTCACTTACTTAA
57912914 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:57912919 original size:20 final size:20
Alignment explanation
Indices: 57912880--57912919 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57912870 AAACTTCTTC
* *
57912880 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
57912900 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
57912920 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:57913296 original size:108 final size:110
Alignment explanation
Indices: 57913152--57913349 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
57913142 ATCCTTTTGA
* *
57913152 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AACC-CACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGCTAGCCTTGCCTTA-GAAACCTCACCAA
*
57913215 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGCCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
57913260 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGCTTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGCTAGCCTTGCCTTAGAAACCTCACCAAT
57913325 TGCCATGCCTTGCCATGGTCTTACA
66 TGCCATGCCTTGCCATGGTCTTACA
57913350 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.62
109 5 0.06
110 24 0.30
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGCTAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGCCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:57913359 original size:55 final size:55
Alignment explanation
Indices: 57913103--57913359 Score: 261
Period size: 55 Copynumber: 4.8 Consensus size: 55
57913093 ATACACGGGT
* *
57913103 ACCTTACC-ATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TT-GAA
1 ACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAA
* *
57913153 A-CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-A
1 ACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAA
* * * *
57913206 ACC-CACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTA
1 ACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAA
* * * *
57913261 A-CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGCTTTCCTTGCCTTAGAA
1 ACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAA
* *
57913314 ACCTTACCAATTGCCATGCCTTGCCATGGTCTTACACGGTATCCTT
1 ACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
57913360 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 21, Indels: 25
0.79 0.10 0.12
Matches are distributed among these distances:
49 40 0.23
50 1 0.01
52 4 0.02
53 42 0.25
54 14 0.08
55 68 0.40
56 2 0.01
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (55 bp):
ACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAA
Found at i:57920237 original size:16 final size:16
Alignment explanation
Indices: 57920218--57920248 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57920208 CTTCTTCACT
57920218 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
57920234 TACTTACTTACTTAA
1 TACTCACTTACTTAA
57920249 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:57920254 original size:20 final size:20
Alignment explanation
Indices: 57920215--57920254 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57920205 AAACTTCTTC
* *
57920215 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
57920235 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
57920255 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:57920546 original size:53 final size:54
Alignment explanation
Indices: 57920417--57920671 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
57920407 ACACGGGTAC
* * * *
57920417 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
57920466 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
57920519 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
57920574 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
57920627 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
57920672 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 10 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:57920608 original size:108 final size:110
Alignment explanation
Indices: 57920464--57920661 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
57920454 ATCCTTTTGA
* *
57920464 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
57920527 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
57920572 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
57920637 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
57920662 CGGTATCCTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:57923312 original size:4 final size:4
Alignment explanation
Indices: 57923303--57923334 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
57923293 TTGATGTTAG
*
57923303 ATGT ATGT ATGT GTGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
57923335 TTTGTATGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:57929343 original size:38 final size:38
Alignment explanation
Indices: 57929294--57929436 Score: 196
Period size: 38 Copynumber: 3.6 Consensus size: 38
57929284 TGATATAAAA
*
57929294 TGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
57929332 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
*
57929375 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 ---TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
57929416 TGTGTAAGACCATGGTTGAAA
1 TGTGTAAGACCATGGTTGAAA
57929437 CCATGGTTGA
Statistics
Matches: 95, Mismatches: 2, Indels: 16
0.84 0.02 0.14
Matches are distributed among these distances:
38 56 0.59
41 2 0.02
43 2 0.02
46 35 0.37
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (38 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:57929399 original size:46 final size:46
Alignment explanation
Indices: 57929332--57929598 Score: 315
Period size: 46 Copynumber: 5.7 Consensus size: 46
57929322 TGGCAACCTG
57929332 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
57929378 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG-TGTGTAAGACCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG--A-A--A
* * *
57929428 TG-GTTGAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTG-TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
57929474 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
57929520 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * *
57929566 TGAGTAAGACCATAGTTGAAAGACACCATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
57929599 TCACGTCAAA
Statistics
Matches: 192, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
45 4 0.02
46 146 0.76
47 2 0.01
48 1 0.01
49 2 0.01
50 34 0.18
51 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:57929441 original size:12 final size:12
Alignment explanation
Indices: 57929424--57929448 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57929414 TGTGTGTAAG
57929424 ACCATGGTTGAA
1 ACCATGGTTGAA
57929436 ACCATGGTTGAA
1 ACCATGGTTGAA
57929448 A
1 A
57929449 GATACCATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
ACCATGGTTGAA
Found at i:57929904 original size:23 final size:25
Alignment explanation
Indices: 57929859--57929905 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
57929849 AATAAATATA
*
57929859 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
57929884 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
57929906 AGGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:57930934 original size:19 final size:19
Alignment explanation
Indices: 57930910--57930988 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
57930900 AATCTTTAAG
57930910 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
57930929 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
57930948 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
57930965 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
57930986 GAT
1 GAT
57930989 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:57930940 original size:36 final size:36
Alignment explanation
Indices: 57930900--57930987 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
57930890 ATGGAAATAT
57930900 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
57930936 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
57930972 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
57930988 TCTTGTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.63
37 1 0.02
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:57934392 original size:23 final size:21
Alignment explanation
Indices: 57934345--57934385 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
57934335 TTTGGTTAAA
57934345 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
57934367 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
57934386 AGTGAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Found at i:57934763 original size:15 final size:15
Alignment explanation
Indices: 57934715--57934764 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
57934705 TTTATCAAAT
57934715 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
57934730 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
57934745 TTATATTGATTGAAA
1 TTATATTGATTGAAA
57934760 TTATA
1 TTATA
57934765 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:57935175 original size:23 final size:23
Alignment explanation
Indices: 57935145--57935230 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
57935135 GCTTTATCGA
* *
57935145 TCAGGCACTTTATGTGTCATATT
1 TCAGGCACCTTATGTGTCGTATT
*
57935168 TCAGGCACCTTGTGTGTCGTA--
1 TCAGGCACCTTATGTGTCGTATT
**
57935189 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTTATGTGTCGTATT
*
57935211 T-AGGCACTTTATGTGTCGTA
1 TCAGGCACCTTATGTGTCGTA
57935231 CTCTAATCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 34 0.64
22 1 0.02
23 18 0.34
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:57935413 original size:18 final size:19
Alignment explanation
Indices: 57935392--57935432 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
57935382 AATGAAATGA
57935392 GAAATTGA-AT-TGAGAATT
1 GAAATTGATATATGAG-ATT
57935410 GAAATTGATATATGAGATT
1 GAAATTGATATATGAGATT
57935429 GAAA
1 GAAA
57935433 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (19 bp):
GAAATTGATATATGAGATT
Found at i:57935541 original size:17 final size:17
Alignment explanation
Indices: 57935519--57935551 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57935509 TATTGTTAAG
57935519 AAGTAAAGTGTGAATAC
1 AAGTAAAGTGTGAATAC
*
57935536 AAGTAAATTGTGAATA
1 AAGTAAAGTGTGAATA
57935552 TATTGTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.27
Consensus pattern (17 bp):
AAGTAAAGTGTGAATAC
Found at i:57936086 original size:24 final size:22
Alignment explanation
Indices: 57936043--57936086 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
57936033 ATAAATTGTG
* *
57936043 AAAATTGAATTAAGGGCTGAAT
1 AAAATTGAATTAAAGCCTGAAT
57936065 AAAATATGAGATTAAAGCCTGA
1 AAAAT-TGA-ATTAAAGCCTGA
57936087 TGAGTCTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 3 0.17
24 10 0.56
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (22 bp):
AAAATTGAATTAAAGCCTGAAT
Found at i:57940253 original size:14 final size:14
Alignment explanation
Indices: 57940234--57940263 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57940224 AAGATATTCT
57940234 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
57940248 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
57940262 TT
1 TT
57940264 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:57948871 original size:200 final size:201
Alignment explanation
Indices: 57948421--57948915 Score: 832
Period size: 200 Copynumber: 2.4 Consensus size: 201
57948411 GAGCAGATCA
* * *
57948421 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGTATCTC
* * *
57948486 TATATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAG
66 TGTATTGTTAGAGAACAAATCGAAGTTTGGCATCTCCATTTCGACGAAGAGCAGATACATAGCAG
57948551 ATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAG
131 ATCTAACCTTCAGATG----TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAG
57948616 GAACAAATCG
192 GAACAAATCG
57948626 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGTATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGTATCTC
*
57948691 TGTATTGTTAGAGAACAAATCGAAGTTTGGCATCTCTATTTCGACGAAGAGCAGATACATAGCAG
66 TGTATTGTTAGAGAACAAATCGAAGTTTGGCATCTCCATTTCGACGAAGAGCAGATACATAGCAG
*
57948756 ATGTAACCTTCAGATG-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAC
131 ATCTAACCTTCAGATGTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAC
57948820 AAATCG
196 AAATCG
* * *
57948826 AAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTT-GTCATCT
1 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGT-ATCT
57948890 CTGTATTGTTAGAGAACAAATCGAAG
65 CTGTATTGTTAGAGAACAAATCGAAG
57948916 AAGCAGATTC
Statistics
Matches: 278, Mismatches: 11, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
199 2 0.01
200 138 0.50
205 138 0.50
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (201 bp):
AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGTATCTC
TGTATTGTTAGAGAACAAATCGAAGTTTGGCATCTCCATTTCGACGAAGAGCAGATACATAGCAG
ATCTAACCTTCAGATGTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAC
AAATCG
Done.