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 79 of 290
Found at i:26204592 original size:43 final size:43
Alignment explanation
Indices: 26204508--26204606 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
26204498 ACAATGTCTA
* * * *
26204508 AGACATTGGCA-TCATATTCGATTTCATATAAGACCCTATCTG
1 AGACAGTGGCATTGATATTCAATTACATATAAGACCCTATCTG
* * *
26204550 GGAGAGTGGCATTGATATTCAATTACATGTAAGACCAC-ATCTG
1 AGACAGTGGCATTGATATTCAATTACATATAAGACC-CTATCTG
*
26204593 AGACATTGGCATTG
1 AGACAGTGGCATTG
26204607 TACAAGCTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 8 0.18
43 36 0.80
44 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (43 bp):
AGACAGTGGCATTGATATTCAATTACATATAAGACCCTATCTG
Found at i:26205024 original size:47 final size:47
Alignment explanation
Indices: 26204955--26205046 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
26204945 CTTTTGAAAG
*
26204955 CTTACTTTGCATGTGTTTTCAATTATTTTATAGATATCATAGCTAAA
1 CTTACTTTGCACGTGTTTTCAATTATTTTATAGATATCATAGCTAAA
* *
26205002 CTTACTTTGCGCGTGTTTTCAATTGTTTTATAGATATCATAGCTA
1 CTTACTTTGCACGTGTTTTCAATTATTTTATAGATATCATAGCTA
26205047 TCGGGAGCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (47 bp):
CTTACTTTGCACGTGTTTTCAATTATTTTATAGATATCATAGCTAAA
Found at i:26221081 original size:46 final size:45
Alignment explanation
Indices: 26221022--26221197 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
26221012 TGGTTGAGCA
* * *
26221022 TCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
26221068 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GAA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAAG
* *
26221115 TCCGAACTCGATGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
26221161 CCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
26221198 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 61 0.59
47 30 0.29
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:26224077 original size:23 final size:24
Alignment explanation
Indices: 26224042--26224103 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
26224032 CAAATGATCC
* *
26224042 AATTATTTTATTATTACCATT-TT
1 AATTAATTAATTATTACCATTATT
*
26224065 AATTAATTAATTATTACTATTATT
1 AATTAATTAATTATTACCATTATT
*
26224089 AATTAATAAATTATT
1 AATTAATTAATTATT
26224104 TTATCCTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 18 0.53
24 16 0.47
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTAATTAATTATTACCATTATT
Found at i:26224107 original size:20 final size:19
Alignment explanation
Indices: 26224060--26224107 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
26224050 TATTATTACC
*
26224060 ATTTTAATTAATTAATTATT
1 ATTTT-ATTAATTAATAATT
*
26224080 ACTATTATTAATTAATAAATT
1 A-TTTTATTAATTAAT-AATT
26224101 ATTTTAT
1 ATTTTAT
26224108 CCTATTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTATTAATTAATAATT
Found at i:26226128 original size:20 final size:20
Alignment explanation
Indices: 26226103--26226143 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
26226093 CAAATGAGTA
26226103 AGTCTATTATCATCATATGT
1 AGTCTATTATCATCATATGT
*
26226123 AGTCTATTATCATTATATGT
1 AGTCTATTATCATCATATGT
26226143 A
1 A
26226144 TTTTTTATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (20 bp):
AGTCTATTATCATCATATGT
Found at i:26226988 original size:6 final size:6
Alignment explanation
Indices: 26226977--26227001 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26226967 GTCGAAACCA
26226977 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
26227002 ACATAGATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:26242715 original size:33 final size:33
Alignment explanation
Indices: 26242658--26242732 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
26242648 AAAGTTGCCG
*
26242658 AATAAGACCATAACTGGGCTATGGCAAT-CGAAT
1 AATAAGACCATAACCGGGCTATGGC-ATGCGAAT
* *
26242691 AATAAGACCATAACCGAG-TCATGGCATGTGAAT
1 AATAAGACCATAACCGGGCT-ATGGCATGCGAAT
26242724 AA-AAGACCA
1 AATAAGACCA
26242733 CGGCAGGGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 10 0.27
33 27 0.73
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.19
Consensus pattern (33 bp):
AATAAGACCATAACCGGGCTATGGCATGCGAAT
Found at i:26246428 original size:39 final size:39
Alignment explanation
Indices: 26246376--26246503 Score: 193
Period size: 39 Copynumber: 3.3 Consensus size: 39
26246366 TATGAGATTG
26246376 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
26246415 AAAATATCCGGACATGAGATCCGCAAGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
26246454 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
26246493 AAAATATCCGG
1 AAAATATCCGG
26246504 GTTAAAGCCC
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:26246517 original size:78 final size:76
Alignment explanation
Indices: 26246375--26246529 Score: 195
Period size: 78 Copynumber: 2.0 Consensus size: 76
26246365 GTATGAGATT
* * *
26246375 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
*
26246440 AGCTATATGCTA
66 AGCT-TACGCTA
* * ** *
26246452 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGCCCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
26246516 CAAGCTTACGCTA
64 CAAGCTTACGCTA
26246529 G
1 G
26246530 TAATGTATTC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 12 0.18
78 55 0.82
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
AGCTTACGCTA
Found at i:26254373 original size:39 final size:39
Alignment explanation
Indices: 26254319--26254446 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
26254309 TATGAGATTG
26254319 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * *
26254358 AAAATATCCGAACATGAGATCCTCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
** * *
26254397 AGTATATCCGGACTTGAGGTCCGCAGGCTACATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
26254436 AAAATATCCGG
1 AAAATATCCGG
26254447 GTTAAAAACT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:26254463 original size:78 final size:77
Alignment explanation
Indices: 26254322--26254472 Score: 187
Period size: 78 Copynumber: 1.9 Consensus size: 77
26254312 GAGATTGAAA
* * * * *
26254322 ATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGAACATGAGATCCTCAGGCT
1 ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACATAAAAACCGCAGGCT
*
26254387 ATATGCTAGAAGT
66 -TACGCTAGAAGT
* ***
26254400 ATATCCGGACTTGAGGTCCGCAGGCTACATGCTGGAAAAATATCCG-GGTTAAAAACTCGCAGGC
1 ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACATAAAAAC-CGCAGGC
26254464 TTACGCTAG
65 TTACGCTAG
26254473 TAATGTATTC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 11 0.18
78 51 0.82
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (77 bp):
ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACATAAAAACCGCAGGCT
TACGCTAGAAGT
Found at i:26257063 original size:20 final size:20
Alignment explanation
Indices: 26257027--26257064 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26257017 CCTGTACATG
*
26257027 GTAAAAATTTTCTAAGTTTT
1 GTAAAAATTCTCTAAGTTTT
26257047 GTAAAAATTACTC-AAGTT
1 GTAAAAATT-CTCTAAGTT
26257065 CTCGGTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (20 bp):
GTAAAAATTCTCTAAGTTTT
Found at i:26267659 original size:74 final size:74
Alignment explanation
Indices: 26267563--26267740 Score: 356
Period size: 74 Copynumber: 2.4 Consensus size: 74
26267553 TTATTACTTG
26267563 AATATATTTTATTATGCATTATATTATTAATATATATAAAAATATGAGTTTAAAAAAACTTTTAA
1 AATATATTTTATTATGCATTATATTATTAATATATATAAAAATATGAGTTTAAAAAAACTTTTAA
26267628 ACTGGAAAT
66 ACTGGAAAT
26267637 AATATATTTTATTATGCATTATATTATTAATATATATAAAAATATGAGTTTAAAAAAACTTTTAA
1 AATATATTTTATTATGCATTATATTATTAATATATATAAAAATATGAGTTTAAAAAAACTTTTAA
26267702 ACTGGAAAT
66 ACTGGAAAT
26267711 AATATATTTTATTATGCATTATATTATTAA
1 AATATATTTTATTATGCATTATATTATTAA
26267741 ATTCTCATCT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 104 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (74 bp):
AATATATTTTATTATGCATTATATTATTAATATATATAAAAATATGAGTTTAAAAAAACTTTTAA
ACTGGAAAT
Found at i:26267847 original size:13 final size:13
Alignment explanation
Indices: 26267829--26267854 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26267819 TAAAAAATTT
26267829 GATGAGAATTTAA
1 GATGAGAATTTAA
26267842 GATGAGAATTTAA
1 GATGAGAATTTAA
26267855 TAATATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
GATGAGAATTTAA
Found at i:26273556 original size:56 final size:56
Alignment explanation
Indices: 26273468--26273579 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
26273458 TGCAATTTTG
* *
26273468 AAAGAGTGTTATGACTATAAATGTGATTTTTGTATGTGGCTATGGAACTGGAAGTT
1 AAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTATGGAACTGAAAGTT
26273524 AAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTATGGAACTGAAAGTT
1 AAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTATGGAACTGAAAGTT
26273580 GAATGGTCGA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (56 bp):
AAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTATGGAACTGAAAGTT
Found at i:26273735 original size:40 final size:40
Alignment explanation
Indices: 26273680--26273839 Score: 286
Period size: 40 Copynumber: 4.0 Consensus size: 40
26273670 TGAGAGTTAG
*
26273680 ATATCCGGGCTAAGTCCCGAAGAGCTTTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
26273720 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
*
26273760 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
26273800 ATATCCGGGCTAAG-CCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTGGTGTT
26273840 GTAACACCCC
Statistics
Matches: 116, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
39 1 0.01
40 115 0.99
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
Found at i:26275259 original size:40 final size:40
Alignment explanation
Indices: 26275215--26275408 Score: 220
Period size: 40 Copynumber: 4.9 Consensus size: 40
26275205 GGATATAGCT
* *
26275215 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
26275255 ACTCGCACCAAA-GCCTTCAGGACTTAGCCTGGATT-TGGTA
1 ACTCGCA-CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* * * *
26275295 ACTTGCACAAACGCCTTCGAG-CTTAG-CCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
26275333 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
26275373 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
26275409 CATCCGAATA
Statistics
Matches: 131, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
38 25 0.19
39 14 0.11
40 85 0.65
41 7 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:26275338 original size:78 final size:79
Alignment explanation
Indices: 26275215--26275401 Score: 218
Period size: 78 Copynumber: 2.4 Consensus size: 79
26275205 GGATATAGCT
* * * * *
26275215 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACCAAA-GCCTTCAGGAC
1 ACTCGCACAAACGCCTTCGAGACTTAG-CCGGAAT-TAGTAACTCGCA-CAAATGCCTTCAGGAC
* * *
26275278 TTAGCCTGGATTTGGTA
63 TTAGCCCGGAATTAGTA
* *
26275295 ACTTGCACAAACGCCTTCGAG-CTTAGCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTA
1 ACTCGCACAAACGCCTTCGAGACTTAGCCGGAATTAGTAACTCGCACAAATGCCTTCAGGACTTA
26275359 GCCCGGAATTAGTA
66 GCCCGGAATTAGTA
* *
26275373 ACTCGCACAAATGCCTTCGGGACTTAGCC
1 ACTCGCACAAACGCCTTCGAGACTTAGCC
26275402 CGGTTATCAT
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
77 4 0.04
78 58 0.64
79 12 0.13
80 17 0.19
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
ACTCGCACAAACGCCTTCGAGACTTAGCCGGAATTAGTAACTCGCACAAATGCCTTCAGGACTTA
GCCCGGAATTAGTA
Found at i:26292491 original size:42 final size:42
Alignment explanation
Indices: 26292443--26292523 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
26292433 CCGAGACTAG
**
26292443 GTGTAAGACCATATCT-AGGATATGACATCATTATGAAATTTC
1 GTGTAAGACCATATCTGA-GATATGACATCAAAATGAAATTTC
*
26292485 GTGTAAGACCATATCTGAGATATGGCATCAAAATGAAAT
1 GTGTAAGACCATATCTGAGATATGACATCAAAATGAAAT
26292524 CCCATATAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGAGATATGACATCAAAATGAAATTTC
Found at i:26292534 original size:42 final size:42
Alignment explanation
Indices: 26292446--26292540 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
26292436 AGACTAGGTG
** ** * *
26292446 TAAGACCATATCTAGGATATGACATCATTATGAAATTTCGTG
1 TAAGACCATATCTAGGATATGACATCAAAATGAAATCCCATA
*
26292488 TAAGACCATATCT-GAGATATGGCATCAAAATGAAATCCCATA
1 TAAGACCATATCTAG-GATATGACATCAAAATGAAATCCCATA
26292530 TAAGACCATAT
1 TAAGACCATAT
26292541 TTGGGTTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 44 0.98
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (42 bp):
TAAGACCATATCTAGGATATGACATCAAAATGAAATCCCATA
Found at i:26293980 original size:17 final size:18
Alignment explanation
Indices: 26293948--26293988 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
26293938 TCGTGTGGTT
26293948 CACCCGTGAAGGCCCACA
1 CACCCGTGAAGGCCCACA
*
26293966 CACCCGTG-TGGCCCACA
1 CACCCGTGAAGGCCCACA
26293983 CGACCC
1 C-ACCC
26293989 ACTTCGGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.22, C:0.49, G:0.22, T:0.07
Consensus pattern (18 bp):
CACCCGTGAAGGCCCACA
Found at i:26296689 original size:16 final size:16
Alignment explanation
Indices: 26296668--26296699 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26296658 AGTTTAGTGG
26296668 CAAAAATATAATTTTT
1 CAAAAATATAATTTTT
*
26296684 CAAAAATATGATTTTT
1 CAAAAATATAATTTTT
26296700 GGTTCAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (16 bp):
CAAAAATATAATTTTT
Found at i:26309243 original size:20 final size:18
Alignment explanation
Indices: 26309209--26309245 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
26309199 GCAACTCATA
26309209 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
26309227 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
26309246 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:26312002 original size:43 final size:43
Alignment explanation
Indices: 26311955--26312146 Score: 262
Period size: 43 Copynumber: 4.5 Consensus size: 43
26311945 TCGGGCTGTT
** * *
26311955 ACATCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGATTAC
1 ACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATAC
*
26311998 ACATCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCGAATAC
1 ACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATAC
*
26312041 ACATCACTGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATAC
1 ACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATAC
* ** *
26312084 ACATCACCGGCACTAAGCCTGCTAGGCATAAAGGCCCGAATAT
1 ACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATAC
* *
26312127 A-AT-ACCAGCAGGAAGCCTGC
1 ACATCACCGGCACGAAGCCTGC
26312147 GGGATTTAAC
Statistics
Matches: 134, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 14 0.10
42 2 0.01
43 118 0.88
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (43 bp):
ACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATAC
Found at i:26324299 original size:28 final size:28
Alignment explanation
Indices: 26324256--26324310 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
26324246 GAGTGGGTCG
* *
26324256 CGCAGTATGCCGGAACCAATCCGGCTGC
1 CGCAATATGCCCGAACCAATCCGGCTGC
*
26324284 CGCAATATGCCCGAACCAATTCGGCTG
1 CGCAATATGCCCGAACCAATCCGGCTG
26324311 TCCAACAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.35, G:0.25, T:0.16
Consensus pattern (28 bp):
CGCAATATGCCCGAACCAATCCGGCTGC
Found at i:26324324 original size:28 final size:28
Alignment explanation
Indices: 26324261--26324326 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
26324251 GGTCGCGCAG
* *
26324261 TATGCCGGAACCAATCCGGCTGCCGCAA
1 TATGCCCGAACCAATCCGGCTGCCACAA
*
26324289 TATGCCCGAACCAATTCGGCTGTCCAACAA
1 TATGCCCGAACCAATCCGGCTG-CC-ACAA
26324319 T-T-CCCGAA
1 TATGCCCGAA
26324327 TTTGAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 26 0.79
29 3 0.09
30 4 0.12
ACGTcount: A:0.27, C:0.35, G:0.20, T:0.18
Consensus pattern (28 bp):
TATGCCCGAACCAATCCGGCTGCCACAA
Found at i:26328170 original size:74 final size:74
Alignment explanation
Indices: 26328049--26328196 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
26328039 TTTAATAATC
* *
26328049 ACAAATCGTGATATCGCCACCAGCACATATACGGCACAGTTTATTCATTGTAACACTAATTTAGT
1 ACAAACCGTGATATCGCCACCAGCACATATACGGCACAGTTTATTCATTGTAACACTAATTTAAT
26328114 GCATCAAAT
66 GCATCAAAT
* *
26328123 ACAAACCGTGATATCTCCACCAGCACATATACGGCACAGTTTATTCATTGTAACACTCATTTAAT
1 ACAAACCGTGATATCGCCACCAGCACATATACGGCACAGTTTATTCATTGTAACACTAATTTAAT
26328188 GCATCAAAT
66 GCATCAAAT
26328197 TTCGAAATCC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.28
Consensus pattern (74 bp):
ACAAACCGTGATATCGCCACCAGCACATATACGGCACAGTTTATTCATTGTAACACTAATTTAAT
GCATCAAAT
Found at i:26332839 original size:38 final size:38
Alignment explanation
Indices: 26332788--26332871 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 38
26332778 GGCACGAAGG
* * *
26332788 CTCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CTCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
26332826 CTCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CTCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
26332864 CTCGAATA
1 CTCGAATA
26332872 CACATCAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (38 bp):
CTCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:26334275 original size:37 final size:37
Alignment explanation
Indices: 26334225--26334329 Score: 192
Period size: 37 Copynumber: 2.8 Consensus size: 37
26334215 AGCTCAGACG
*
26334225 AAATCTCCACACGTAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
26334262 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
26334299 TAATCTCCACACGTAGTCATCGGGTCTTACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACC
26334330 TGGAATATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:26334518 original size:50 final size:50
Alignment explanation
Indices: 26334470--26334566 Score: 135
Period size: 48 Copynumber: 2.0 Consensus size: 50
26334460 ACGATATACG
* *
26334470 CACATCGCCTACATATTTCACACTAGCCATTCGGCTTTA-C-CACATATA
1 CACATCGCATACATATTTCACACTAGCCATTCGGCCTTATCACACATATA
* * *
26334518 CATATCTCATACATATTTCACATTAGCCATTCGGCCTTATCACACATAT
1 CACATCGCATACATATTTCACACTAGCCATTCGGCCTTATCACACATAT
26334567 GCATGTTCAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 34 0.81
49 1 0.02
50 7 0.17
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (50 bp):
CACATCGCATACATATTTCACACTAGCCATTCGGCCTTATCACACATATA
Found at i:26334795 original size:22 final size:22
Alignment explanation
Indices: 26334769--26334843 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
26334759 GTTCACATTC
26334769 ATCACATTGGCCATTCGACCTT
1 ATCACATTGGCCATTCGACCTT
* *
26334791 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGACCTT
*
26334815 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGACCTT
26334838 ATCACA
1 ATCACA
26334844 CATATGCATG
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
22 16 0.39
23 7 0.17
24 8 0.20
25 10 0.24
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGACCTT
Found at i:26334867 original size:25 final size:25
Alignment explanation
Indices: 26334746--26334868 Score: 63
Period size: 24 Copynumber: 5.2 Consensus size: 25
26334736 TCGGCCTTAA
*
26334746 CACATATATGCATGTTCACATTCAT
1 CACACATATGCATGTTCACATTCAT
*
26334771 --CACAT-TGGCCA--TTCGACCTT-AT
1 CACACATAT-G-CATGTTC-ACATTCAT
*
26334793 CACATATATGCATGTTCACATTCAT
1 CACACATATGCATGTTCACATTCAT
* *
26334818 --CACAT-TGGCCA--TTCGGCCTT-AT
1 CACACATAT-G-CATGTTC-ACATTCAT
26334840 CACACATATGCATGTTCACATTCAT
1 CACACATATGCATGTTCACATTCAT
26334865 CACA
1 CACA
26334869 TTGGCCATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 36
0.61 0.08 0.31
Matches are distributed among these distances:
22 12 0.17
23 21 0.30
24 22 0.31
25 16 0.23
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (25 bp):
CACACATATGCATGTTCACATTCAT
Found at i:26334942 original size:47 final size:47
Alignment explanation
Indices: 26334535--26334932 Score: 724
Period size: 47 Copynumber: 8.5 Consensus size: 47
26334525 CATACATATT
* * *
26334535 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
26334582 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
26334629 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
26334676 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
26334723 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
* *
26334770 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
* *
26334817 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
26334864 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
*
26334911 TGACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
26334933 TCTCCTATAT
Statistics
Matches: 341, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 341 1.00
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
Found at i:26336773 original size:234 final size:234
Alignment explanation
Indices: 26336364--26336832 Score: 929
Period size: 234 Copynumber: 2.0 Consensus size: 234
26336354 ATGTATATAC
26336364 ACTCTCATATTCATTATTAAAAACGTTGCCGAATACTCATTTAATAATCAACTCATATATTCATA
1 ACTCTCATATTCATTATTAAAAACGTTGCCGAATACTCATTTAATAATCAACTCATATATTCATA
26336429 CATGGACGATTTGAAGTTTCCTTTAACCAATTATATAATCGGCAATGGCTACAATAACTTATCAA
66 CATGGACGATTTGAAGTTTCCTTTAACCAATTATATAATCGGCAATGGCTACAATAACTTATCAA
26336494 GCCTTAGAAACTTCTTTAACCCTTTTAACTTCATCTTATTACCCCTAAATGCACACATAACAAAA
131 GCCTTAGAAACTTCTTTAACCCTTTTAACTTCATCTTATTACCCCTAAATGCACACATAACAAAA
26336559 TATAATGCCAAAATGCCATTAACTAATAAAATCACACAT
196 TATAATGCCAAAATGCCATTAACTAATAAAATCACACAT
26336598 ACTCTCATATTCATTATTAAAAACGTTGCCGAATACTCATTTAATAATCAACTCATATATTCATA
1 ACTCTCATATTCATTATTAAAAACGTTGCCGAATACTCATTTAATAATCAACTCATATATTCATA
26336663 CATGGACGATTTGAAGTTTCCTTTAACCAATTATATAATCGGCAATGGCTACAATAACTTATCAA
66 CATGGACGATTTGAAGTTTCCTTTAACCAATTATATAATCGGCAATGGCTACAATAACTTATCAA
26336728 GCCTTAGAAACTTCTTTAACCCTTTTAACTTCATCTTATTACCCCTAAATGCACACATAACAAAA
131 GCCTTAGAAACTTCTTTAACCCTTTTAACTTCATCTTATTACCCCTAAATGCACACATAACAAAA
*
26336793 TATAATGCCAAAATGCCATTAACTAATACAATCACACAT
196 TATAATGCCAAAATGCCATTAACTAATAAAATCACACAT
26336832 A
1 A
26336833 AACAATTTAT
Statistics
Matches: 234, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
234 234 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.32
Consensus pattern (234 bp):
ACTCTCATATTCATTATTAAAAACGTTGCCGAATACTCATTTAATAATCAACTCATATATTCATA
CATGGACGATTTGAAGTTTCCTTTAACCAATTATATAATCGGCAATGGCTACAATAACTTATCAA
GCCTTAGAAACTTCTTTAACCCTTTTAACTTCATCTTATTACCCCTAAATGCACACATAACAAAA
TATAATGCCAAAATGCCATTAACTAATAAAATCACACAT
Found at i:26339281 original size:40 final size:40
Alignment explanation
Indices: 26339249--26339679 Score: 668
Period size: 40 Copynumber: 10.8 Consensus size: 40
26339239 CCAGCATGAT
* * * *
26339249 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
26339289 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
26339329 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
26339369 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
26339409 TGCTC-TCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
26339448 TGCTCCTCGGGACTTAGCCCGGATATATCGCTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
26339488 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
26339528 TGCTCCTT-GGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCT-CTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
26339568 TGCTCCTCGGGACTTAGCTCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
26339608 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
26339648 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
26339680 CTCAATTCTC
Statistics
Matches: 365, Mismatches: 23, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
39 39 0.11
40 323 0.88
41 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:26339625 original size:23 final size:23
Alignment explanation
Indices: 26339599--26339665 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
26339589 GATATATCAC
26339599 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
26339622 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
26339639 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
26339662 TAGC
1 TAGC
26339666 CCGGATATAT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
21 2 0.07
22 3 0.10
23 12 0.40
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:26339836 original size:47 final size:47
Alignment explanation
Indices: 26339783--26339876 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
26339773 CAACTTCCAG
26339783 TTCCATAGCCACATACAAAAATCACATTGATAGTCATAACACTCTTT
1 TTCCATAGCCACATACAAAAATCACATTGATAGTCATAACACTCTTT
*
26339830 TTCCATAGCCACATACAAAAATCACATTTATAGTCATAACACTCTTT
1 TTCCATAGCCACATACAAAAATCACATTGATAGTCATAACACTCTTT
26339877 CAAAATTGCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (47 bp):
TTCCATAGCCACATACAAAAATCACATTGATAGTCATAACACTCTTT
Found at i:26341042 original size:37 final size:37
Alignment explanation
Indices: 26340992--26341104 Score: 199
Period size: 37 Copynumber: 3.1 Consensus size: 37
26340982 CTTTAGCTCA
* *
26340992 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
26341029 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
26341066 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
26341103 GA
1 GA
26341105 ATATATTTCC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:26341366 original size:47 final size:47
Alignment explanation
Indices: 26341307--26341667 Score: 668
Period size: 47 Copynumber: 7.7 Consensus size: 47
26341297 CATACATATT
* * *
26341307 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
26341354 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
26341401 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
26341448 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
26341495 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
26341542 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
26341589 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
* * *
26341636 TCACATTGGCCATTTGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTAACACATATAT
26341668 ACACCTAAAA
Statistics
Matches: 308, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 308 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
Found at i:26348942 original size:13 final size:13
Alignment explanation
Indices: 26348924--26348959 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
26348914 TCTACCACAT
*
26348924 GCCCGTGTCTCTA
1 GCCCGTGTCCCTA
26348937 GCCCGTGTCCCTA
1 GCCCGTGTCCCTA
26348950 GCCCGTGTCC
1 GCCCGTGTCC
26348960 TTCACACGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.06, C:0.44, G:0.25, T:0.25
Consensus pattern (13 bp):
GCCCGTGTCCCTA
Found at i:26350089 original size:46 final size:46
Alignment explanation
Indices: 26349962--26350174 Score: 150
Period size: 46 Copynumber: 4.6 Consensus size: 46
26349952 GGTGTCGAAG
* *
26349962 CCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTA-GCTGAT
1 CCATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCG-AGGCCGAT
* * * * * *
26350007 GCATGTCCCAGGCATATCTTATACTAGCTTA-T-GTCTCGAGGCTGAT
1 CCATGTCCCAGACATGTCTTACACTAGC--ACTCATCTCGAGGCCGAT
* * * *
26350053 ACATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGAT
1 CCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGGCCGAT
* * * * * *
26350099 GCCATATCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTGGCCGAT
1 -CCATGTCCCAGACAT-GTCTTACACTAGCACTCAT-CTCGAGGCCGAT
*
26350147 CCATGTCCTAGACATGTCTTACACTAGC
1 CCATGTCCCAGACATGTCTTACACTAGC
26350175 TCACGCAAGT
Statistics
Matches: 131, Mismatches: 27, Indels: 19
0.74 0.15 0.11
Matches are distributed among these distances:
44 9 0.07
45 16 0.12
46 57 0.44
47 26 0.20
48 22 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGGCCGAT
Found at i:26361291 original size:22 final size:22
Alignment explanation
Indices: 26361247--26361292 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
26361237 AGTGTGGTTG
* *
26361247 AAAACCGTAGCTTATGTTGAAA
1 AAAACCGTAACTTATGTTAAAA
26361269 AAAACCGTAACTTA-GCTTAAAA
1 AAAACCGTAACTTATG-TTAAAA
26361291 AA
1 AA
26361293 TTTTCCGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (22 bp):
AAAACCGTAACTTATGTTAAAA
Found at i:26362362 original size:19 final size:19
Alignment explanation
Indices: 26362323--26362358 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26362313 ATGTTGTTTA
*
26362323 CCCGTGTGGGCCCATACGC
1 CCCGTGTGGGCCCACACGC
26362342 CCCGTGT-GGCCCACACG
1 CCCGTGTGGGCCCACACG
26362359 GCCCAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.11, C:0.44, G:0.31, T:0.14
Consensus pattern (19 bp):
CCCGTGTGGGCCCACACGC
Found at i:26365904 original size:9 final size:9
Alignment explanation
Indices: 26365890--26365915 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
26365880 AGATTAAATT
26365890 GTAAAAGTA
1 GTAAAAGTA
26365899 GTAAAAGTA
1 GTAAAAGTA
26365908 GTAAAAGT
1 GTAAAAGT
26365916 TATTCACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (9 bp):
GTAAAAGTA
Found at i:26368166 original size:29 final size:29
Alignment explanation
Indices: 26368131--26368201 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
26368121 CATGAGATTG
* * **
26368131 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTTAAAGTACATA
* *
26368160 GCACTAAGTGTGTGAGTTTAAAGTACATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATA
26368189 GCACTAAGTGTGC
1 GCACTAAGTGTGC
26368202 ATGGTTGGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATA
Found at i:26368425 original size:174 final size:174
Alignment explanation
Indices: 26368160--26368661 Score: 941
Period size: 174 Copynumber: 2.9 Consensus size: 174
26368150 AAATTGTATA
* ** *
26368160 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCATGGTTGGTTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
26368225 TGTGCGAACCCAATATATATTTTCTATAAATTATTTTCATTAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
26368290 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
26368334 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
26368399 TGTGCGAACGCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
26368464 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
26368508 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
26368573 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
26368638 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
26368662 ACCTTGAGTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 320 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:26370738 original size:40 final size:40
Alignment explanation
Indices: 26370694--26370881 Score: 340
Period size: 40 Copynumber: 4.7 Consensus size: 40
26370684 GCAAACACAT
* *
26370694 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
26370734 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
26370774 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
26370814 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
26370854 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
26370882 TCCAATGCTC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:26379307 original size:40 final size:40
Alignment explanation
Indices: 26379206--26379313 Score: 198
Period size: 40 Copynumber: 2.7 Consensus size: 40
26379196 GCAAACACAT
* *
26379206 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
26379246 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
26379286 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
26379314 TCCAATGCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:26389861 original size:40 final size:40
Alignment explanation
Indices: 26389760--26389867 Score: 198
Period size: 40 Copynumber: 2.7 Consensus size: 40
26389750 GCAAACACAT
* *
26389760 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
26389800 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
26389840 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
26389868 TCCAATGCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:26396675 original size:40 final size:40
Alignment explanation
Indices: 26396631--26396818 Score: 340
Period size: 40 Copynumber: 4.7 Consensus size: 40
26396621 GCAAACACAT
* *
26396631 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
26396671 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
26396711 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
26396751 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
26396791 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
26396819 TCCAATGCTC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:26405251 original size:40 final size:40
Alignment explanation
Indices: 26405207--26405362 Score: 258
Period size: 40 Copynumber: 3.9 Consensus size: 40
26405197 GCAAACACAT
* *
26405207 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
26405247 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
26405287 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
26405327 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGC
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGC
26405363 TCATGCACAC
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 109 1.00
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:26405584 original size:178 final size:178
Alignment explanation
Indices: 26405285--26405643 Score: 659
Period size: 178 Copynumber: 2.0 Consensus size: 178
26405275 CATCTCGCAT
** *
26405285 AATTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAATTGCCTTCGGGTCATAGCCCGGA
1 AATTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGA
26405350 TATATCAACTCGCTCATGCACACATATATCAATAATCATAACACATCCATATCATTTCTTCGTTA
66 TATATCAACTCGCTCATGCACACATATATCAATAATCATAACACATCCATATCATTTCTTCGTTA
26405415 CTAAGGCTCAAACACAAAACATTTATTAAATCTTTCAAATTTCGGCTC
131 CTAAGGCTCAAACACAAAACATTTATTAAATCTTTCAAATTTCGGCTC
26405463 AATTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGA
1 AATTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGA
26405528 TATATTCCAA-T-GCTCATGCACACATATATCAATAATCATAACACATCCATATCATTTCTTCGT
66 TATA-T-CAACTCGCTCATGCACACATATATCAATAATCATAACACATCCATATCATTTCTTCGT
26405591 TACTAAGGCTCAAACACAAAACATTTATTAAATCTTTCAAATTTCGGCTC
129 TACTAAGGCTCAAACACAAAACATTTATTAAATCTTTCAAATTTCGGCTC
26405641 AAT
1 AAT
26405644 AGCCACACAC
Statistics
Matches: 176, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
178 171 0.97
179 2 0.01
180 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (178 bp):
AATTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGA
TATATCAACTCGCTCATGCACACATATATCAATAATCATAACACATCCATATCATTTCTTCGTTA
CTAAGGCTCAAACACAAAACATTTATTAAATCTTTCAAATTTCGGCTC
Found at i:26411399 original size:89 final size:89
Alignment explanation
Indices: 26411248--26411442 Score: 390
Period size: 89 Copynumber: 2.2 Consensus size: 89
26411238 GCCTTAGTTG
26411248 CAAGATTCGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
1 CAAGATTCGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
26411313 TCGCTCAAAACAGCAAAATTGGAC
66 TCGCTCAAAACAGCAAAATTGGAC
26411337 CAAGATTCGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
1 CAAGATTCGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
26411402 TCGCTCAAAACAGCAAAATTGGAC
66 TCGCTCAAAACAGCAAAATTGGAC
26411426 CAAGATTCGGTTTCTTG
1 CAAGATTCGGTTTCTTG
26411443 ATTTTCTTGA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 106 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (89 bp):
CAAGATTCGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
TCGCTCAAAACAGCAAAATTGGAC
Found at i:26417310 original size:22 final size:21
Alignment explanation
Indices: 26417285--26417326 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
26417275 TTTGAACCAT
26417285 TACCAATTCGTACCAACTTCCA
1 TACCAATTCGTACCAA-TTCCA
*
26417307 TACCATTTCGTACCAATTCC
1 TACCAATTCGTACCAATTCC
26417327 TAAATACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.29, C:0.36, G:0.05, T:0.31
Consensus pattern (21 bp):
TACCAATTCGTACCAATTCCA
Found at i:26417717 original size:19 final size:19
Alignment explanation
Indices: 26417693--26417730 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
26417683 TGGCTTAGAA
26417693 AATGACTCTTGAGTTGTCC
1 AATGACTCTTGAGTTGTCC
26417712 AATGACTCTTGAGTTGTCC
1 AATGACTCTTGAGTTGTCC
26417731 TTGGCTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
AATGACTCTTGAGTTGTCC
Found at i:26420113 original size:19 final size:18
Alignment explanation
Indices: 26420077--26420116 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26420067 TTTCCACTCG
*
26420077 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
26420095 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
26420114 TTT
1 TTT
26420117 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:26420248 original size:18 final size:17
Alignment explanation
Indices: 26420189--26420249 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
26420179 GCACTCTTTC
*
26420189 TTTTCTTTCTCCAATCTTT
1 TTTTCTTT-TTCAAT-TTT
*
26420208 TTCTCTTTTTCAATTTT
1 TTTTCTTTTTCAATTTT
*
26420225 TGTTTCTTTTTCAGTTTCT
1 T-TTTCTTTTTCAATTT-T
26420244 TTTTCT
1 TTTTCT
26420250 CTCGTCACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.11
18 23 0.64
19 9 0.25
ACGTcount: A:0.08, C:0.20, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTCTTTTTCAATTTT
Found at i:26421197 original size:15 final size:15
Alignment explanation
Indices: 26421177--26421233 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
26421167 TAGCTTCTTC
26421177 TTTTTTTTTCACGAA
1 TTTTTTTTTCACGAA
26421192 TTTTTTTTTCACGAA
1 TTTTTTTTTCACGAA
*
26421207 TTTTTTTTTTCA-AAA
1 -TTTTTTTTTCACGAA
26421222 TTTTTTTTTCAC
1 TTTTTTTTTCAC
26421234 AACTTGATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
14 11 0.28
15 17 0.44
16 11 0.28
ACGTcount: A:0.19, C:0.12, G:0.04, T:0.65
Consensus pattern (15 bp):
TTTTTTTTTCACGAA
Found at i:26421292 original size:11 final size:11
Alignment explanation
Indices: 26421276--26421317 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
26421266 AAACTAGTTT
26421276 TTTTTTTGAAA
1 TTTTTTTGAAA
*
26421287 TTTTTTTTGAAT
1 -TTTTTTTGAAA
*
26421299 TTTTTTTG-AG
1 TTTTTTTGAAA
26421309 TTTTTTTGA
1 TTTTTTTGA
26421318 GAAACTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 9 0.33
11 8 0.30
12 10 0.37
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (11 bp):
TTTTTTTGAAA
Found at i:26421313 original size:12 final size:11
Alignment explanation
Indices: 26421275--26421315 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
26421265 GAAACTAGTT
26421275 TTTTTTTTGAAA
1 TTTTTTTTG-AA
26421287 TTTTTTTTGAA
1 TTTTTTTTGAA
*
26421298 TTTTTTTTGAG
1 TTTTTTTTGAA
26421309 TTTTTTT
1 TTTTTTT
26421316 GAGAAACTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.76
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:26421678 original size:49 final size:49
Alignment explanation
Indices: 26421606--26421703 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
26421596 CAGAACGGTC
26421606 TTTAGGTGTTTTTCGGTTAAAGGAAACAGGAAAGGAACCTTGACCCACT
1 TTTAGGTGTTTTTCGGTTAAAGGAAACAGGAAAGGAACCTTGACCCACT
* *
26421655 TTTAGGTGTTTTTTGGTTAAAGGAAACATGAAAGGAACCTTGACCCACT
1 TTTAGGTGTTTTTCGGTTAAAGGAAACAGGAAAGGAACCTTGACCCACT
26421704 ATCAACTATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (49 bp):
TTTAGGTGTTTTTCGGTTAAAGGAAACAGGAAAGGAACCTTGACCCACT
Found at i:26423789 original size:19 final size:19
Alignment explanation
Indices: 26423752--26423789 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
26423742 TGAAGGCAAG
26423752 GCCCAATAAGATGAGTCCAA
1 GCCCAATAAGA-GAGTCCAA
26423772 GCCCAATCAAGA-AGTCCA
1 GCCCAAT-AAGAGAGTCCA
26423790 CCCATACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.13
Consensus pattern (19 bp):
GCCCAATAAGAGAGTCCAA
Found at i:26437679 original size:20 final size:20
Alignment explanation
Indices: 26437656--26437709 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
26437646 AGTTTTTCCC
*
26437656 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
26437676 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
26437696 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
26437710 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:26437691 original size:30 final size:30
Alignment explanation
Indices: 26437656--26437729 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
26437646 AGTTTTTCCC
26437656 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
26437686 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
26437716 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
26437730 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:26437719 original size:20 final size:20
Alignment explanation
Indices: 26437656--26437720 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
26437646 AGTTTTTCCC
* * * *
26437656 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
26437676 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
26437695 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
26437716 AGCTC
1 AGCTC
26437721 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:26438941 original size:14 final size:13
Alignment explanation
Indices: 26438918--26438948 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
26438908 CACCGAATAT
26438918 CTTATATTTTATC
1 CTTATATTTTATC
26438931 CTTATTATTTTATC
1 CTTA-TATTTTATC
26438945 CTTA
1 CTTA
26438949 AACTGAGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (13 bp):
CTTATATTTTATC
Found at i:26442173 original size:13 final size:13
Alignment explanation
Indices: 26442150--26442184 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
26442140 TATTGGATTA
*
26442150 AAAAAAGAAAATTG
1 AAAAAA-AAAATTC
26442164 AAAAAAAAAATTC
1 AAAAAAAAAATTC
26442177 AAAAAAAA
1 AAAAAAAA
26442185 GGTGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.80, C:0.03, G:0.06, T:0.11
Consensus pattern (13 bp):
AAAAAAAAAATTC
Found at i:26442221 original size:15 final size:16
Alignment explanation
Indices: 26442203--26442241 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
26442193 AAAATCGAGC
26442203 AAAAAAAAAGAAAG-A
1 AAAAAAAAAGAAAGCA
* *
26442218 AAAAAAAAGGTAAGCA
1 AAAAAAAAAGAAAGCA
26442234 AAAAAAAA
1 AAAAAAAA
26442242 TCAAGTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAGAAAGCA
Found at i:26443367 original size:48 final size:47
Alignment explanation
Indices: 26443288--26443393 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
26443278 GAGTGTCATG
*
26443288 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
26443336 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
26443384 GAAAAAGAAA
1 GAAAAAGAAA
26443394 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:26448569 original size:27 final size:28
Alignment explanation
Indices: 26448534--26448593 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
26448524 GGACTTATCT
26448534 TTTA-TTCTTGCTG-TTCAATTTT-TTTC
1 TTTATTTCTTGCTGTTTC-ATTTTATTTC
*
26448560 TTTATTTCTTGCTGTTTCGTTTTATTTC
1 TTTATTTCTTGCTGTTTCATTTTATTTC
26448588 TTTATT
1 TTTATT
26448594 CCTACTTCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.13
27 13 0.43
28 13 0.43
ACGTcount: A:0.10, C:0.13, G:0.08, T:0.68
Consensus pattern (28 bp):
TTTATTTCTTGCTGTTTCATTTTATTTC
Found at i:26449947 original size:22 final size:22
Alignment explanation
Indices: 26449919--26449962 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
26449909 TTTTGAACCA
26449919 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
26449941 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
26449963 CAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:26452651 original size:28 final size:29
Alignment explanation
Indices: 26452620--26452726 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 29
26452610 GCACAAGCAG
*
26452620 AAAT-AAAGAAAAGAAACTGACAGCAAGC
1 AAATAAAAGAAAAGAAATTGACAGCAAGC
26452648 AAATAAAAGAAATTAGATAAAGATTCGACA-CAAGC
1 AAATAAAAGAAA--AG---AA-ATT-GACAGCAAGC
26452683 AGAA-ATAAAGAAAAGAAATTGACAGCAAGC
1 A-AATA-AAAGAAAAGAAATTGACAGCAAGC
26452713 AAATAAAAGAAAAG
1 AAATAAAAGAAAAG
26452727 TCCTAAAAGG
Statistics
Matches: 66, Mismatches: 1, Indels: 23
0.73 0.01 0.26
Matches are distributed among these distances:
28 4 0.06
29 22 0.33
30 10 0.15
31 4 0.06
34 4 0.06
35 9 0.14
36 13 0.20
ACGTcount: A:0.62, C:0.10, G:0.17, T:0.11
Consensus pattern (29 bp):
AAATAAAAGAAAAGAAATTGACAGCAAGC
Found at i:26452668 original size:65 final size:65
Alignment explanation
Indices: 26452592--26452724 Score: 248
Period size: 65 Copynumber: 2.0 Consensus size: 65
26452582 AACAGCAAAT
*
26452592 AAATTAGATAAAGATTCGGCACAAGCAGAAATAAAGAAAAGAAACTGACAGCAAGCAAATAAAAG
1 AAATTAGATAAAGATTCGACACAAGCAGAAATAAAGAAAAGAAACTGACAGCAAGCAAATAAAAG
*
26452657 AAATTAGATAAAGATTCGACACAAGCAGAAATAAAGAAAAGAAATTGACAGCAAGCAAATAAAAG
1 AAATTAGATAAAGATTCGACACAAGCAGAAATAAAGAAAAGAAACTGACAGCAAGCAAATAAAAG
26452722 AAA
1 AAA
26452725 AGTCCTAAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.59, C:0.11, G:0.17, T:0.13
Consensus pattern (65 bp):
AAATTAGATAAAGATTCGACACAAGCAGAAATAAAGAAAAGAAACTGACAGCAAGCAAATAAAAG
Found at i:26454556 original size:23 final size:22
Alignment explanation
Indices: 26454504--26454556 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
26454494 TCCTTGTCAT
*
26454504 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
26454526 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
26454549 TTTCTTTT
1 TTTCTTTT
26454557 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:26454570 original size:18 final size:18
Alignment explanation
Indices: 26454549--26454588 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26454539 CTTTCTTCAA
* * *
26454549 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
26454567 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
26454585 TTTC
1 TTTC
26454589 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:26456513 original size:11 final size:12
Alignment explanation
Indices: 26456457--26456492 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
26456447 ATAGTAGTTT
26456457 CTCGAAAAAAAA
1 CTCGAAAAAAAA
26456469 CTCGAAAAAAAA
1 CTCGAAAAAAAA
26456481 CTCGAAAAAAAA
1 CTCGAAAAAAAA
26456493 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.67, C:0.17, G:0.08, T:0.08
Consensus pattern (12 bp):
CTCGAAAAAAAA
Found at i:26456574 original size:13 final size:13
Alignment explanation
Indices: 26456556--26456596 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
26456546 TATCAAGTTG
26456556 TGAAAAAAAAATT
1 TGAAAAAAAAATT
26456569 TGAAAAAAAAATT
1 TGAAAAAAAAATT
*
26456582 TGTGAAAAAAAATT
1 TG-AAAAAAAAATT
26456596 T
1 T
26456597 CGTGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (13 bp):
TGAAAAAAAAATT
Found at i:26456578 original size:15 final size:15
Alignment explanation
Indices: 26456553--26456610 Score: 68
Period size: 14 Copynumber: 4.0 Consensus size: 15
26456543 GGATATCAAG
26456553 TTGTG-AAAAAAAAA
1 TTGTGAAAAAAAAAA
*
26456567 TT-TGAAAAAAAAAT
1 TTGTGAAAAAAAAAA
*
26456581 TTGTG-AAAAAAAAT
1 TTGTGAAAAAAAAAA
26456595 TTCGTGAAAAAAAAAA
1 TT-GTGAAAAAAAAAA
26456611 GAAGAAGCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
13 2 0.05
14 23 0.61
15 5 0.13
16 8 0.21
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (15 bp):
TTGTGAAAAAAAAAA
Found at i:26456594 original size:14 final size:14
Alignment explanation
Indices: 26456553--26456608 Score: 78
Period size: 15 Copynumber: 3.9 Consensus size: 14
26456543 GGATATCAAG
26456553 TTGTGAAAAAAAAAT
1 TTGTG-AAAAAAAAT
*
26456568 TTG-AAAAAAAAAT
1 TTGTGAAAAAAAAT
26456581 TTGTGAAAAAAAAT
1 TTGTGAAAAAAAAT
26456595 TTCGTGAAAAAAAA
1 TT-GTGAAAAAAAA
26456609 AAGAAGAAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.32
14 11 0.30
15 14 0.38
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (14 bp):
TTGTGAAAAAAAAT
Found at i:26459262 original size:70 final size:70
Alignment explanation
Indices: 26459149--26459287 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 70
26459139 TCAAGAGGGA
*
26459149 GGGTATGATGCGATCCCGGTCGCATCATGTTACAACACAACTCGACTCTACCGAGATTGGTCCAA
1 GGGTATGATGCGATCCCGGTCGCATCATGTTACAACACAACTCGACGCTACCGAGATTGGTCCAA
26459214 ACTCG
66 ACTCG
* * *
26459219 GGGTATGATGCGATCCCGGTCGCATCATGTTACGACACAACTCGACGCTACTGAGATTGGTCTAA
1 GGGTATGATGCGATCCCGGTCGCATCATGTTACAACACAACTCGACGCTACCGAGATTGGTCCAA
26459284 ACTC
66 ACTC
26459288 AAGGGGCCCA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (70 bp):
GGGTATGATGCGATCCCGGTCGCATCATGTTACAACACAACTCGACGCTACCGAGATTGGTCCAA
ACTCG
Found at i:26459804 original size:61 final size:61
Alignment explanation
Indices: 26459732--26459852 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
26459722 TGCTTCTTTA
* *
26459732 ATTAAATTAGTTGCTGGAATAATTATTGCATATATGTTTTAGTTCATTTATTTAAGTAAGC
1 ATTAAACTAGTTGCTGGAATAATTATTGCATATATGTTTTAGTTCATCTATTTAAGTAAGC
26459793 ATTAAACTAGTTGCTGGAATAATTATTGCATATATGTTTTAGTTCATCTATTTAAGTAAG
1 ATTAAACTAGTTGCTGGAATAATTATTGCATATATGTTTTAGTTCATCTATTTAAGTAAG
26459853 TTTAATGTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (61 bp):
ATTAAACTAGTTGCTGGAATAATTATTGCATATATGTTTTAGTTCATCTATTTAAGTAAGC
Found at i:26465488 original size:20 final size:19
Alignment explanation
Indices: 26465465--26465522 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
26465455 AAGTTCATTT
26465465 AGCTCAATTTTAGCTCATC
1 AGCTCAATTTTAGCTCATC
* *
26465484 GAGCTCACTCTTAGCTCAATC
1 -AGCTCAATTTTAGCTC-ATC
*
26465505 AGCTC-TTTTTAAGCTCAT
1 AGCTCAATTTT-AGCTCAT
26465523 TTGCGTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (19 bp):
AGCTCAATTTTAGCTCATC
Found at i:26468818 original size:22 final size:21
Alignment explanation
Indices: 26468769--26468819 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
26468759 TGTAAACTTT
* *
26468769 TTTTTATTTTTATTTATTTAT
1 TTTTTATTTTTACTTATTTAA
*
26468790 TTATTTATTTTTCCTTAGTTTAA
1 TT-TTTATTTTTACTTA-TTTAA
26468813 TTTTTAT
1 TTTTTAT
26468820 GTAAATATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTTATTTTTACTTATTTAA
Found at i:26474558 original size:20 final size:19
Alignment explanation
Indices: 26474533--26474592 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
26474523 TCAAGTTCAT
26474533 TCAGCTCAATTTTAGCTCA
1 TCAGCTCAATTTTAGCTCA
* *
26474552 TCGAGCTCACTCTTAGCTCAA
1 TC-AGCTCAATTTTAGCTC-A
26474573 TCAGCTC-ATTTTAAGCTCA
1 TCAGCTCAATTTT-AGCTCA
26474592 T
1 T
26474593 TTGCGTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.21
20 24 0.71
21 3 0.09
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (19 bp):
TCAGCTCAATTTTAGCTCA
Found at i:26477426 original size:55 final size:54
Alignment explanation
Indices: 26477312--26477427 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 54
26477302 TGCATGTTTT
* * *
26477312 CATT-AATGCCGTCCATGCATGGGAACATCTCATTAAATCCATTCTTTGCTTCC
1 CATTAAATGCCGTCCATGCATGGGAACATCTCATTAAATCCATGCTTTGCTGCA
* * *
26477365 CTTTAAATGCCGTTCCATGCATGGGAACATCTCCTT-AATTCATGGCTTTGCTGCA
1 CATTAAATGCCG-TCCATGCATGGGAACATCTCATTAAATCCAT-GCTTTGCTGCA
26477420 CATTAAAT
1 CATTAAAT
26477428 CAGCAAGCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.06
54 13 0.25
55 37 0.70
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (54 bp):
CATTAAATGCCGTCCATGCATGGGAACATCTCATTAAATCCATGCTTTGCTGCA
Found at i:26477715 original size:23 final size:22
Alignment explanation
Indices: 26477688--26477751 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 22
26477678 GAACACCTTT
*
26477688 AAAACATGCATTAAATTCGGCC
1 AAAACATACATTAAATTCGGCC
*
26477710 AGAAACATACATTAAATTTGGCC
1 A-AAACATACATTAAATTCGGCC
26477733 AAAGACATACATTAAATTC
1 AAA-ACATACATTAAATTC
26477752 ATCTGGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.08
23 34 0.92
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (22 bp):
AAAACATACATTAAATTCGGCC
Found at i:26480885 original size:35 final size:35
Alignment explanation
Indices: 26480839--26480912 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
26480829 ATAAGTATTT
*
26480839 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTG
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
*
26480874 AGTTGTTGGAATAAATTACTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
26480909 AGTT
1 AGTT
26480913 CATCTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.42
Consensus pattern (35 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
Found at i:26480917 original size:19 final size:19
Alignment explanation
Indices: 26480893--26480931 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
26480883 AATAAATTAC
26480893 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
26480912 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
26480931 T
1 T
26480932 GCTGGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:26481063 original size:19 final size:18
Alignment explanation
Indices: 26481034--26481069 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
26481024 TAAGTCTAAT
26481034 ATGTGTTTAATGTGTTTA
1 ATGTGTTTAATGTGTTTA
26481052 ATGTGTTTTAATGTGTTT
1 ATGTG-TTTAATGTGTTT
26481070 TTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.58
Consensus pattern (18 bp):
ATGTGTTTAATGTGTTTA
Found at i:26481070 original size:10 final size:9
Alignment explanation
Indices: 26481034--26481069 Score: 63
Period size: 9 Copynumber: 3.9 Consensus size: 9
26481024 TAAGTCTAAT
26481034 ATGTGTTTA
1 ATGTGTTTA
26481043 ATGTGTTTA
1 ATGTGTTTA
26481052 ATGTGTTTTA
1 ATGTG-TTTA
26481062 ATGTGTTT
1 ATGTGTTT
26481070 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.58
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:26481138 original size:74 final size:73
Alignment explanation
Indices: 26481038--26481176 Score: 233
Period size: 74 Copynumber: 1.9 Consensus size: 73
26481028 TCTAATATGT
* *
26481038 GTTTAATGTGTTTAATGTGTTTTAATGTGTTTTTTAATAAATGCTTGCAGGTGACTATTTAGTTG
1 GTTTAATGTGTTTAATGTGTTTTAATGTGCTTGTTAATAAATGCTTGCAGGTGACTATTTAGTTG
26481103 CTTATTAA
66 CTTATTAA
* *
26481111 GTTTAGTGTGTTTAAATGTGTTTTAATGTGCTTGTTAATAAATGTTTGCAGGTGACTATTTAGTT
1 GTTTAATGTGTTT-AATGTGTTTTAATGTGCTTGTTAATAAATGCTTGCAGGTGACTATTTAGTT
26481176 G
65 G
26481177 GAATCAATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
73 12 0.20
74 49 0.80
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.50
Consensus pattern (73 bp):
GTTTAATGTGTTTAATGTGTTTTAATGTGCTTGTTAATAAATGCTTGCAGGTGACTATTTAGTTG
CTTATTAA
Found at i:26481574 original size:24 final size:25
Alignment explanation
Indices: 26481528--26481574 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
26481518 AGGAATTTGG
*
26481528 CTAAATGAATTGATGATGGAAATGA
1 CTAAATGAATTGATGATGAAAATGA
* *
26481553 CTAAGTGAA-TGATGGTGAAAAT
1 CTAAATGAATTGATGATGAAAAT
26481575 TCGGCTAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.28
Consensus pattern (25 bp):
CTAAATGAATTGATGATGAAAATGA
Found at i:26488605 original size:27 final size:27
Alignment explanation
Indices: 26488574--26488751 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
26488564 TAAATTGTAC
26488574 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
26488601 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
26488627 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
26488655 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
26488683 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
26488710 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
26488737 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
26488752 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:26488688 original size:82 final size:81
Alignment explanation
Indices: 26488575--26488730 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
26488565 AAATTGTACA
* *
26488575 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
26488639 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
26488656 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
26488721 TGCGAGTTGA
65 TGCGAATTGA
26488731 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:26488742 original size:82 final size:81
Alignment explanation
Indices: 26488571--26488751 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
26488561 GATTAAATTG
* *
26488571 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
26488636 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
26488652 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
26488716 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
26488734 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
26488752 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:26488762 original size:27 final size:27
Alignment explanation
Indices: 26488656--26488762 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
26488646 TGACCATGCG
* * * *
26488656 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
26488684 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
26488711 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
26488738 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
26488763 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:26490513 original size:14 final size:14
Alignment explanation
Indices: 26490496--26490527 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
26490486 AAAACTAAGT
26490496 AAATAAAAAAATAA
1 AAATAAAAAAATAA
26490510 AAATAAAAAAATAA
1 AAATAAAAAAATAA
26490524 AAAT
1 AAAT
26490528 CATTAAACNN
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATAAAAAAATAA
Found at i:26492004 original size:5 final size:5
Alignment explanation
Indices: 26491994--26492021 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
26491984 CATGCTGTGA
26491994 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
26492022 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:26501718 original size:30 final size:30
Alignment explanation
Indices: 26501684--26501758 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
26501674 AAGAGAACTG
*
26501684 TGCTACGAGGCAGACAAAAACGCTAAAGCA
1 TGCTACGAGGCAGACAAAAACCCTAAAGCA
* *
26501714 TGCTACGAGGCAGACAAAAACCCTAGAGCG
1 TGCTACGAGGCAGACAAAAACCCTAAAGCA
*
26501744 TGCTACAAGGCAGAC
1 TGCTACGAGGCAGAC
26501759 TATTTACTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (30 bp):
TGCTACGAGGCAGACAAAAACCCTAAAGCA
Found at i:26505611 original size:21 final size:20
Alignment explanation
Indices: 26505581--26505620 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
26505571 TAAAACTTGT
*
26505581 ATAACTATCATCAAACATTC
1 ATAACTATCACCAAACATTC
*
26505601 ATAATCTATCACCAATCATT
1 ATAA-CTATCACCAAACATT
26505621 AAAAATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCACCAAACATTC
Found at i:26505627 original size:21 final size:21
Alignment explanation
Indices: 26505585--26505627 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
26505575 ACTTGTATAA
* * *
26505585 CTATCATCAAACATTCATAAT
1 CTATCACCAAACATTAAAAAT
*
26505606 CTATCACCAATCATTAAAAAT
1 CTATCACCAAACATTAAAAAT
26505627 C
1 C
26505628 ATACATATTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (21 bp):
CTATCACCAAACATTAAAAAT
Found at i:26506056 original size:208 final size:212
Alignment explanation
Indices: 26505667--26506079 Score: 690
Period size: 208 Copynumber: 2.0 Consensus size: 212
26505657 ACCTTTAAAA
*
26505667 TTTTTGCAAATTAGTCCCTGGGATAGCTAGACTAAGCTGCAACGATCTAAAAAAACATAGAAATC
1 TTTTTGCAAATTAGTCCCTGAGATAGCTAGACTAAGCTGCAACGATCTAAAAAAACATAGAAATC
*
26505732 ACTAAAAATCGAGTCAAAAATAACTTACATGCACCTAGGATAGTTTCCAAACCTTGAAGCTCTTT
66 ACTAAAAACCGAGTCAAAAATAACTTACATGCACCTAGGATAGTTTCCAAACCTTGAAGCTCTTT
**
26505797 TAATGGAGTTTTTCTTAGCTTAATTTCGGTTAGGTGAAGAAGAAACAAGATGATACCTTGTTTTT
131 TAATAAAGTTTTTCTTAGCTTAATTTCGGTTAGGTGAAGAAGAAACAAGATGATACCTTGTTTTT
26505862 CTTTAATTTAGTTTAAG
196 CTTTAATTTAGTTTAAG
* * *
26505879 TTTTT-CAAATTAGTCCCT-AGTTAGCTCGACTAAGCTGTAACGATCT-AAAAAACATAGAAATC
1 TTTTTGCAAATTAGTCCCTGAGATAGCTAGACTAAGCTGCAACGATCTAAAAAAACATAGAAATC
* * * *
26505941 ATTAAATACCGAGTC-AAAATCACTTACATGCACTTAGGATAGTTTCCAAACCTTGAAGCTCTTT
66 ACTAAAAACCGAGTCAAAAATAACTTACATGCACCTAGGATAGTTTCCAAACCTTGAAGCTCTTT
*
26506005 TAATAAAGTTTTTCTTAGCTTAATTTTGGTTAGGTGAAGAAGAAACAAGATGATACCTTGTTTTT
131 TAATAAAGTTTTTCTTAGCTTAATTTCGGTTAGGTGAAGAAGAAACAAGATGATACCTTGTTTTT
26506070 CTTTAATTTA
196 CTTTAATTTA
26506080 ATTAACTTTA
Statistics
Matches: 189, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
208 119 0.63
209 28 0.15
210 24 0.13
211 13 0.07
212 5 0.03
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (212 bp):
TTTTTGCAAATTAGTCCCTGAGATAGCTAGACTAAGCTGCAACGATCTAAAAAAACATAGAAATC
ACTAAAAACCGAGTCAAAAATAACTTACATGCACCTAGGATAGTTTCCAAACCTTGAAGCTCTTT
TAATAAAGTTTTTCTTAGCTTAATTTCGGTTAGGTGAAGAAGAAACAAGATGATACCTTGTTTTT
CTTTAATTTAGTTTAAG
Found at i:26506825 original size:18 final size:18
Alignment explanation
Indices: 26506799--26506833 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26506789 AATTTTGGGG
*
26506799 AATCGAGTTATTCGAGTT
1 AATCAAGTTATTCGAGTT
26506817 AATCAAGTTATTCGAGT
1 AATCAAGTTATTCGAGT
26506834 CAACTCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (18 bp):
AATCAAGTTATTCGAGTT
Found at i:26518186 original size:22 final size:23
Alignment explanation
Indices: 26518156--26518199 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
26518146 TGATAGTTAT
26518156 ATCTCTATAAAT-AGACATGAAAA
1 ATCTCTATAAATAAGA-ATGAAAA
26518179 ATCT-TATAAATAAGAATGAAA
1 ATCTCTATAAATAAGAATGAAA
26518200 TTTCATACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (23 bp):
ATCTCTATAAATAAGAATGAAAA
Found at i:26520630 original size:30 final size:29
Alignment explanation
Indices: 26520596--26520653 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
26520586 TATAGTATCG
26520596 TATCTTAGATTTCTTTATTCTGGGTTTCTC
1 TATCTTAGATTTCTTTATTC-GGGTTTCTC
* *
26520626 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTAGATTTCTTTATTCGGGTTTCT
26520654 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.59
Consensus pattern (29 bp):
TATCTTAGATTTCTTTATTCGGGTTTCTC
Found at i:26520654 original size:14 final size:14
Alignment explanation
Indices: 26520603--26520654 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
26520593 TCGTATCTTA
26520603 GATTTCTTTATTCTG
1 GATTTCTTTATTC-G
* * *
26520618 GGTTTCTCTATCTTG
1 GATTTCTTTAT-TCG
26520633 GATTTCTTTATTCG
1 GATTTCTTTATTCG
*
26520647 GTTTTCTT
1 GATTTCTT
26520655 GTTATCTTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
14 9 0.31
15 19 0.66
16 1 0.03
ACGTcount: A:0.10, C:0.15, G:0.15, T:0.60
Consensus pattern (14 bp):
GATTTCTTTATTCG
Found at i:26523085 original size:47 final size:47
Alignment explanation
Indices: 26523016--26523888 Score: 1712
Period size: 47 Copynumber: 18.6 Consensus size: 47
26523006 ATTTGAGTTT
26523016 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
* *
26523063 CGAACTCGTTGAGTTGAGTCCGAGTTCACT-TGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGGCATC
26523110 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523157 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523204 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523251 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523298 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523345 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523392 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523439 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523486 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523533 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523580 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523627 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523674 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523721 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523768 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523815 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
26523862 CGAACTCGTTGAGTTGAGTCCGAGTTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC
26523889 ACTTATGGGT
Statistics
Matches: 820, Mismatches: 4, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
46 1 0.00
47 818 1.00
48 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
Found at i:26526343 original size:5 final size:6
Alignment explanation
Indices: 26526323--26526352 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
26526313 AGTTTATAAA
26526323 TTTATTT TTTATT TTTATT TTTATT TTTAT
1 TTTA-TT TTTATT TTTATT TTTATT TTTAT
26526353 GAAATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:26528821 original size:24 final size:24
Alignment explanation
Indices: 26528789--26528837 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
26528779 CTGATTACGT
26528789 TCTATAATAGGATTAAGGGTAGAA
1 TCTATAATAGGATTAAGGGTAGAA
26528813 TCTATAATAGGATTAAGGGTAGAA
1 TCTATAATAGGATTAAGGGTAGAA
26528837 T
1 T
26528838 GTGAGACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (24 bp):
TCTATAATAGGATTAAGGGTAGAA
Found at i:26529148 original size:18 final size:18
Alignment explanation
Indices: 26529111--26529148 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
26529101 TTGCAACCCC
*
26529111 AACCATAATTATAGTTTT
1 AACCATAATTATAGTATT
26529129 AACCATAATTCATA-TATT
1 AACCATAATT-ATAGTATT
26529147 AA
1 AA
26529149 TAAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (18 bp):
AACCATAATTATAGTATT
Found at i:26536680 original size:132 final size:132
Alignment explanation
Indices: 26536401--26536750 Score: 411
Period size: 132 Copynumber: 2.7 Consensus size: 132
26536391 GTAAAACCGA
* * * *
26536401 AACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAAACATCGAGCATTGCCTT-ATTTT-TA
1 AACCCAGCACGA-TAGGGCACGATTCCCCGAATTTCTAAACATCGAACATTACCTTCATTTTAAA
* * * * * * *
26536463 GAATTTTTAAGAAACATGAGTGAAATTCTAAGGGGGATATTCGATTATTTTGAACCAACAGGAAA
65 G-ATTTTTAGGAAACATGAATGAAATTCCAAGAGGGACATTCGATTATTTTGAACAAACAAGAAA
26536528 TCGC
129 TCGC
*
26536532 AACCCAGCACGATAGGGCACGATTCCCCAAATTTCTAAACATCGAACATTACCTTCATTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATCGAACATTACCTTCATTTTAAAG
* *
26536597 ACTTTTTAGGAAACATGAATGAAATTCCAA-AGGGACATTTGATTATTTTGAGCAAACAAGAAAT
66 A-TTTTTAGGAAACATGAATGAAATTCCAAGAGGGACATTCGATTATTTTGAACAAACAAGAAAT
* *
26536661 TGT
130 CGC
* * * * * * * *
26536664 AACCCGGCACGCTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCACCTTCATTTTAAGG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATCGAACATTACCTTCATTTTAA-A
*
26536729 GATTTTTAGAAAACATGAATGA
65 GATTTTTAGGAAACATGAATGA
26536751 TTATAAAACT
Statistics
Matches: 188, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
131 49 0.26
132 110 0.59
133 29 0.15
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (132 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATCGAACATTACCTTCATTTTAAAG
ATTTTTAGGAAACATGAATGAAATTCCAAGAGGGACATTCGATTATTTTGAACAAACAAGAAATC
GC
Found at i:26537970 original size:18 final size:18
Alignment explanation
Indices: 26537916--26537971 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
26537906 ACAAATATAT
* *
26537916 ATATATAGAAAATAAAAT
1 ATATATAAAAAATAAAAA
*
26537934 ATATATAAAAAATACAAA
1 ATATATAAAAAATAAAAA
*
26537952 ATAT-TAACATAATAAAAA
1 ATATATAA-AAAATAAAAA
26537970 AT
1 AT
26537972 CTTCAAAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 3 0.09
18 29 0.91
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
ATATATAAAAAATAAAAA
Found at i:26539341 original size:44 final size:45
Alignment explanation
Indices: 26539281--26539387 Score: 132
Period size: 44 Copynumber: 2.4 Consensus size: 45
26539271 TGTTTTTATC
*
26539281 CTGCTCTACTGCAACTTCAGAGAGATAAGGAT-TG-TGA-CTTC-GAT
1 CTGCTCCACTGCAACTTCAGAGAGATAA-GATCTGAT-ATCTTCAG-T
* *
26539325 CTGCTCCACTGCAACTTCAGGGGGATAAGATCTGATATCTTCAGT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATCTGATATCTTCAGT
26539370 CTGCTCCACTGCAACTTC
1 CTGCTCCACTGCAACTTC
26539388 TGGGAAATAA
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
43 3 0.05
44 28 0.50
45 24 0.43
46 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGATCTGATATCTTCAGT
Found at i:26539413 original size:45 final size:45
Alignment explanation
Indices: 26539281--26539399 Score: 129
Period size: 45 Copynumber: 2.7 Consensus size: 45
26539271 TGTTTTTATC
* * *
26539281 CTGCTCTACTGCAACTTCAGAGAGATAAGGAT-TG-TGA-CTTC-GAT
1 CTGCTCCACTGCAACTTCAGGGAAATAA-GATCTGAT-ATCTTCAG-T
**
26539325 CTGCTCCACTGCAACTTCAGGGGGATAAGATCTGATATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAAATAAGATCTGATATCTTCAGT
*
26539370 CTGCTCCACTGCAACTTCTGGGAAATAAGA
1 CTGCTCCACTGCAACTTCAGGGAAATAAGA
26539400 CTTGTAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
43 3 0.05
44 28 0.43
45 33 0.51
46 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAAATAAGATCTGATATCTTCAGT
Found at i:26540841 original size:59 final size:59
Alignment explanation
Indices: 26540749--26540866 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
26540739 GAAAGCTTTC
26540749 TTCACAACTTAAGGCCCCTTCCAATTAGGCATCCATTTTCCTCGAAAATCCTTCTGTAT
1 TTCACAACTTAAGGCCCCTTCCAATTAGGCATCCATTTTCCTCGAAAATCCTTCTGTAT
*
26540808 TTCACCACTTAAGGCCCCTTCCAATTAGGCATCCATTTTCCTCGAAAATCCTTCTGTAT
1 TTCACAACTTAAGGCCCCTTCCAATTAGGCATCCATTTTCCTCGAAAATCCTTCTGTAT
26540867 GGGAAGGATC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (59 bp):
TTCACAACTTAAGGCCCCTTCCAATTAGGCATCCATTTTCCTCGAAAATCCTTCTGTAT
Found at i:26545974 original size:57 final size:57
Alignment explanation
Indices: 26545886--26546000 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 57
26545876 CAGGCTTTCC
* **
26545886 TTTCCTGAAATCGTTACGTTGCAATCATAATTCCATGAGACTCTTTTGCTGTCTTTG
1 TTTCCTGAAATCGTCACACTGCAATCATAATTCCATGAGACTCTTTTGCTGTCTTTG
* * *
26545943 TTTCCTGAAATCGTCACACTGCATTCATAATTCCATGGGACTTTTTTGCTGTCTTTG
1 TTTCCTGAAATCGTCACACTGCAATCATAATTCCATGAGACTCTTTTGCTGTCTTTG
26546000 T
1 T
26546001 AGGGGAAGAC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.43
Consensus pattern (57 bp):
TTTCCTGAAATCGTCACACTGCAATCATAATTCCATGAGACTCTTTTGCTGTCTTTG
Found at i:26549587 original size:67 final size:67
Alignment explanation
Indices: 26549476--26549609 Score: 232
Period size: 67 Copynumber: 2.0 Consensus size: 67
26549466 TCGGTTATTC
* *
26549476 ATGAGGAAGGATTGGCACCCTCACTACGCCCAAAATTGGTACCAAATCGATTAAATACTGTCCTT
1 ATGAGGAAGGATTAGCACCCTCACTACGCCCAAAATTGGCACCAAATCGATTAAATACTGTCCTT
26549541 AT
66 AT
**
26549543 ATGAGGAAGGATTAGCACCCTCACTACGCCCAAAATTGGCACCAAATCGATTAAATGTTGTCCTT
1 ATGAGGAAGGATTAGCACCCTCACTACGCCCAAAATTGGCACCAAATCGATTAAATACTGTCCTT
26549608 AT
66 AT
26549610 GTCTAAAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (67 bp):
ATGAGGAAGGATTAGCACCCTCACTACGCCCAAAATTGGCACCAAATCGATTAAATACTGTCCTT
AT
Found at i:26550118 original size:132 final size:132
Alignment explanation
Indices: 26549835--26550184 Score: 402
Period size: 132 Copynumber: 2.7 Consensus size: 132
26549825 GTAAAACCGA
* * * *
26549835 AACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAAACATCGAGCATTGCCTT-ATTTT-TA
1 AACCCAGCACGA-TAGGGCACGATTCCCCGAATTTCTAAACATCGAACATTACCTTCATTTTAAA
* * * * * * *
26549897 GAATTTTTAAGAAACATGAGTGAAATTCTAAGGGGGATATTCGATTATTTTGAACCAACAGGAAA
65 G-ATTTTTAGGAAACATGAATGAAATTCCAAGAGGGACATTCGATTATTTTGAACAAACAAGAAA
26549962 TCGC
129 TCGC
* *
26549966 AACCCAGCACGATAGGGCACGATTCCCCAAATTTCTAAACATCGAACATTACCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATCGAACATTACCTTCATTTTAAAG
* *
26550031 ACTTTTTAGGAAACATGAATGAAATTCCAA-AGGGACATTTGATTATTTTGAGCAAACAAGAAAT
66 A-TTTTTAGGAAACATGAATGAAATTCCAAGAGGGACATTCGATTATTTTGAACAAACAAGAAAT
* *
26550095 TGT
130 CGC
* * * * * * * *
26550098 AACCCGGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCACCTTCATTTTAAGG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATCGAACATTACCTTCATTTTAA-A
*
26550163 GATTTTTAGAAAACATGAATGA
65 GATTTTTAGGAAACATGAATGA
26550185 TTATAAAACT
Statistics
Matches: 186, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
131 49 0.26
132 108 0.58
133 29 0.16
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (132 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATCGAACATTACCTTCATTTTAAAG
ATTTTTAGGAAACATGAATGAAATTCCAAGAGGGACATTCGATTATTTTGAACAAACAAGAAATC
GC
Found at i:26551049 original size:20 final size:22
Alignment explanation
Indices: 26551020--26551062 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
26551010 TGGAGATCAA
26551020 ATATAGGTAT-A-AATAATTTT
1 ATATAGGTATAATAATAATTTT
*
26551040 ATATATGTATAATAATAATTTT
1 ATATAGGTATAATAATAATTTT
26551062 A
1 A
26551063 AAGATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
ATATAGGTATAATAATAATTTT
Done.