Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 155 of 318
Found at i:47647118 original size:21 final size:21
Alignment explanation
Indices: 47647093--47647132 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
47647083 CTGCTTCTGT
47647093 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
47647114 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
47647133 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:47648508 original size:144 final size:144
Alignment explanation
Indices: 47648245--47648616 Score: 439
Period size: 144 Copynumber: 2.6 Consensus size: 144
47648235 TATGTGTGCC
* **
47648245 AGTGTAAGACCATGTCTAGGACATGGCATTGGCCACGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATTCACCACGATATGAGAGCCAGTGTAAGACCATGTTT
* * * * *
47648310 GGAACATGGCATTGGCAATGTTGTGAGAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAACG
66 GGAACATGGCATCGACAATGTAGCGAGAGCCAATGTAAGACCATGTCTGAGACATGGCATCAAC-
* *
47648375 A-TGTTG-TGAGAGCT
130 ATTG-AGATAAGAGCT
* *
47648389 AGTGTAAGACCATGTCTGGGATATGGCATTCACCAC-ATTATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATTCACCACGA-TATGAGAGCCAGTGTAAGACCATGTT
* * * * * * **
47648453 TGGGACATGGTATCGACATTG-AGACGAGAGCTAATGTCAGACCATGTCTGGGACATGGCATCGG
65 TGGAACATGGCATCGACAATGTAG-CGAGAGCCAATGTAAGACCATGTCTGAGACATGGCATCAA
47648517 CATTGAGATAAGAGCT
129 CATTGAGATAAGAGCT
* * * * *
47648533 ACTGTAAGACCATGTCTGGGACATGGTA-TCGACCTCGACATGTGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATTC-ACCACGATATGAGAGCCAGTGTAAGACCATGTT
47648597 TGGAACATGGCATCGACAAT
65 TGGAACATGGCATCGACAAT
47648617 TCAACCTCTT
Statistics
Matches: 192, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
143 6 0.03
144 185 0.96
145 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (144 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTCACCACGATATGAGAGCCAGTGTAAGACCATGTTT
GGAACATGGCATCGACAATGTAGCGAGAGCCAATGTAAGACCATGTCTGAGACATGGCATCAACA
TTGAGATAAGAGCT
Found at i:47648612 original size:48 final size:48
Alignment explanation
Indices: 47648233--47648614 Score: 344
Period size: 48 Copynumber: 8.0 Consensus size: 48
47648223 CCATTCGGGT
* * * * *
47648233 GATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCCA-C
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCGACATC
* * * *
47648281 GATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCAAT-
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-ATC
* * * *
47648329 GTTGTGAGAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAACGAT-
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-ATC
* * * *
47648377 GTTGTGAGAGCTAGTGTAAGACCATGTCTGGGATATGGCATTC-ACCA-C
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCGA-CATC
* *
47648425 -ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGTATCGACATT
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATC
* * * * * * *
47648473 GAGACGAGAGCTAATGTCAGACCATGTCTGGGACATGGCATCGGCATT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATC
* * * * * *
47648521 GAGATAAGAGCTACTGTAAGACCATGTCTGGGACATGGTATCGACCTC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATC
* * * *
47648569 GACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACA
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA
47648615 ATTCAACCTC
Statistics
Matches: 276, Mismatches: 49, Indels: 18
0.80 0.14 0.05
Matches are distributed among these distances:
47 7 0.03
48 265 0.96
49 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATC
Found at i:47652251 original size:21 final size:21
Alignment explanation
Indices: 47652182--47652257 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
47652172 CATCATGAAC
*
47652182 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* **
47652203 TCAGATGCCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
47652227 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
47652248 TCAGATCACA
1 TCAGACCACA
47652258 TAATTCCTAG
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
20 2 0.05
21 19 0.45
22 5 0.12
23 4 0.10
24 10 0.24
25 2 0.05
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:47654317 original size:29 final size:29
Alignment explanation
Indices: 47654283--47654414 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
47654273 TACTCGATTT
** * *
47654283 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
47654312 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
47654341 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
47654370 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
47654399 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47654415 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:47662256 original size:29 final size:29
Alignment explanation
Indices: 47662222--47662353 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
47662212 TACTCGATTT
** * *
47662222 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
47662251 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
47662280 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
47662309 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
47662338 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47662354 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:47664605 original size:45 final size:45
Alignment explanation
Indices: 47664554--47664668 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 45
47664544 CTAGGAATTT
* *
47664554 AGAAATCTGAGCTAGTTGAGTTGGTCCAAGTTTGTGATACATGTG
1 AGAAATCCGAGCTAGTTGAGTTGGTCCAAGTTCGTGATACATGTG
* * * * *
47664599 AGAAATCCAAACTTGTTGAGTTAGTCCAAGTTCGTGATATATGTG
1 AGAAATCCGAGCTAGTTGAGTTGGTCCAAGTTCGTGATACATGTG
* *
47664644 A-AGCATCCGAGCTCGTTGAGTTGGT
1 AGA-AATCCGAGCTAGTTGAGTTGGT
47664669 TTGAGTTCAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 1 0.02
45 56 0.98
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (45 bp):
AGAAATCCGAGCTAGTTGAGTTGGTCCAAGTTCGTGATACATGTG
Found at i:47666131 original size:93 final size:93
Alignment explanation
Indices: 47666024--47666194 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
47666014 GCCCCTAAGT
* *
47666024 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47666089 CGAGTTCGGATGCCTCGTTACATTTCAC
66 CGAGTTCGGATGCCTCGTTACATTTCAC
* *
47666117 GAACTCGGACTCAACTCCACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47666182 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47666195 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:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTCGTTACATTTCAC
Found at i:47666191 original size:46 final size:45
Alignment explanation
Indices: 47666019--47666191 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 45
47666009 AACCCGCCCC
* *
47666019 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCATCCA
* * *
47666065 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTCG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CTTCGCATCCA
* * *
47666111 TTTCA-CGAACTCGGACTCAACTCCACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCATCCA
47666158 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47666192 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
45 3 0.03
46 66 0.62
47 34 0.32
48 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTTCGCATCCA
Found at i:47673972 original size:45 final size:45
Alignment explanation
Indices: 47673905--47674031 Score: 182
Period size: 45 Copynumber: 2.8 Consensus size: 45
47673895 TGTAGGATTT
* *
47673905 TGATATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCAG
1 TGATATATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCAG
* * *
47673950 TGATATATGTGTTTTTGAGTAAGACCACGTCTAGGACGTTGGCAT
1 TGATATATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCAG
* * *
47673995 TGATATATGTGGTTATGTGTAAGACCATGTCTGGGAC
1 TGATATATGTGTTTTTGTGTAAGACCACGTCTGGGAC
47674032 ATCGGCATTG
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (45 bp):
TGATATATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCAG
Found at i:47682534 original size:46 final size:46
Alignment explanation
Indices: 47682467--47682642 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
47682457 TGTAACCCAC
*
47682467 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
47682513 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC-A-TTCGCAT
* * *
47682563 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47682606 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47682643 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 2 0.02
46 63 0.57
47 25 0.23
48 2 0.02
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:47682587 original size:93 final size:93
Alignment explanation
Indices: 47682475--47682645 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
47682465 ACCCATAAGT
*
47682475 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
47682540 CGAGCTCAGATGCCTAGTTACATCTCAC
66 CGAGCTCAGATGCCTAGTTACATCTCAC
* *
47682568 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
47682633 CGAGTTCGGATGC
66 CGAGCTCAGATGC
47682646 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:47690223 original size:122 final size:120
Alignment explanation
Indices: 47690071--47690289 Score: 375
Period size: 122 Copynumber: 1.8 Consensus size: 120
47690061 TTATTCTATC
* *
47690071 ATTTAATTTGCATTCTTAAGTTAGTTATCATACATTTCATGTTAAATCGAGTTATTAGGAAAACT
1 ATTTAATTTGCATTCTTAAGTTAGTTATCATACATTCCATGTTAAATCGAG--ATTAGGAAAACC
47690136 TCATACCCATGACATTACTATGCTCATTCTCATGCTATTACCATGCCAATGTTTATA
64 TCATACCCATGACATTACTATGCTCATTCTCATGCTATTACCATGCCAATGTTTATA
* *
47690193 ATTTAATTTGCATTCTTAGGTTAGTTATCATACATTCCATGTTAAATCGAGGTTAGGAAAACCTC
1 ATTTAATTTGCATTCTTAAGTTAGTTATCATACATTCCATGTTAAATCGAGATTAGGAAAACCTC
*
47690258 ATACCCATGACATTACTATTCTCATTCTCATG
66 ATACCCATGACATTACTATGCTCATTCTCATG
47690290 GTTATTTTGG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
120 43 0.47
122 49 0.53
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (120 bp):
ATTTAATTTGCATTCTTAAGTTAGTTATCATACATTCCATGTTAAATCGAGATTAGGAAAACCTC
ATACCCATGACATTACTATGCTCATTCTCATGCTATTACCATGCCAATGTTTATA
Found at i:47694710 original size:12 final size:12
Alignment explanation
Indices: 47694693--47694719 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47694683 GATCATTATT
47694693 TTTGACATAAAA
1 TTTGACATAAAA
47694705 TTTGACATAAAA
1 TTTGACATAAAA
47694717 TTT
1 TTT
47694720 ATCTTATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (12 bp):
TTTGACATAAAA
Found at i:47709517 original size:24 final size:22
Alignment explanation
Indices: 47709479--47709536 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
47709469 ATGGTGTGGT
*
47709479 TAAACCACTCAAATGGTACAGA
1 TAAAACACTCAAATGGTACAGA
**
47709501 TAAAAGCTACTCAAATGGTATGGA
1 TAAAA-C-ACTCAAATGGTACAGA
47709525 TAAAACACTCAA
1 TAAAACACTCAA
47709537 TGATGCGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 10 0.32
23 2 0.06
24 19 0.61
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.21
Consensus pattern (22 bp):
TAAAACACTCAAATGGTACAGA
Found at i:47711025 original size:14 final size:14
Alignment explanation
Indices: 47711006--47711037 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
47710996 AACCATTTAC
47711006 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
47711020 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
47711034 AAAA
1 AAAA
47711038 TTAGTGCTGA
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:47713054 original size:22 final size:22
Alignment explanation
Indices: 47713026--47713106 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
47713016 GAAAAGACGA
*
47713026 ATGAACAATAAAATTCTTTGGC
1 ATGAACAATAAAATTCTCTGGC
* * *
47713048 ATGAACAGTGAAATTCTCTGAC
1 ATGAACAATAAAATTCTCTGGC
***
47713070 ATGAATTGTAAATATTCTCT-GC
1 ATGAACAATAAA-ATTCTCTGGC
47713092 ATGAACAATGAAAAT
1 ATGAACAAT-AAAAT
47713107 ATCCAACTAG
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 36 0.78
23 10 0.22
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (22 bp):
ATGAACAATAAAATTCTCTGGC
Found at i:47713702 original size:11 final size:12
Alignment explanation
Indices: 47713673--47713702 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
47713663 TTTATTATTA
47713673 AAATTATATGTT
1 AAATTATATGTT
47713685 AAATTATATGTT
1 AAATTATATGTT
47713697 -AATTAT
1 AAATTAT
47713703 TTTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
AAATTATATGTT
Found at i:47732290 original size:28 final size:28
Alignment explanation
Indices: 47732258--47732356 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
47732248 GCAATAAGCC
*
47732258 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
47732286 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
47732314 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
47732343 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47732357 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:47739864 original size:40 final size:40
Alignment explanation
Indices: 47739672--47739857 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
47739662 TCGAATGATG
* * *
47739672 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
47739712 TCCGGACTAAGAT-CCAAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47739752 TCCGGACTAAGAT-CCGGAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47739792 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47739833 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47739858 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47739864 original size:80 final size:79
Alignment explanation
Indices: 47739728--47739880 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 79
47739718 CTAAGATCCA
* **
47739728 AAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGGAGGCATTTGTGCGAGTTA-CTAAA
1 AAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
47739792 TCCGGGTTAAGTCCCG
65 TCC-GGTTAAGTCCCG
* * * *
47739808 AAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTAT
1 AAGGCATTCGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAA
47739871 ATCCGGTTAA
64 ATCCGGTTAA
47739881 ACTCCAAGGT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 52 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
AAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAAT
CCGGTTAAGTCCCG
Found at i:47743791 original size:40 final size:40
Alignment explanation
Indices: 47743732--47743900 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
47743722 CGGGACTTTA
* * *
47743732 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
47743772 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
47743812 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
47743852 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
47743892 CCCGGATAT
1 CCCGGATAT
47743901 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:47751822 original size:40 final size:40
Alignment explanation
Indices: 47751763--47751931 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
47751753 CGGGACTTTA
* * *
47751763 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
47751803 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
47751843 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
47751883 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
47751923 CCCGGATAT
1 CCCGGATAT
47751932 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:47753631 original size:29 final size:29
Alignment explanation
Indices: 47753588--47753681 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
47753578 GGCTGTCACA
* * *
47753588 AGTGTCATATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCACGCACACTT
*
47753617 AGTGCCTTATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCACGCACACTT
47753646 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCACGCACACTT
47753675 AGTGCCA
1 AGTGCCA
47753682 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCACGCACACTT
Found at i:47761355 original size:29 final size:29
Alignment explanation
Indices: 47761323--47761427 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
47761313 TACTCGATTT
* * *
47761323 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
47761352 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
47761381 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
47761410 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
47761428 TTTCCAGCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:47761436 original size:27 final size:28
Alignment explanation
Indices: 47761382--47761450 Score: 122
Period size: 27 Copynumber: 2.5 Consensus size: 28
47761372 CTTCGAGCTC
47761382 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCA-ATATTTCCAGCAT
47761411 GCACACTTAGTGCC-ATATTTCCAGCAT
1 GCACACTTAGTGCCAATATTTCCAGCAT
47761438 GCACACTTAGTGC
1 GCACACTTAGTGC
47761451 TAATCTCGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 26 0.65
29 14 0.35
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (28 bp):
GCACACTTAGTGCCAATATTTCCAGCAT
Found at i:47768821 original size:29 final size:29
Alignment explanation
Indices: 47768731--47768888 Score: 203
Period size: 29 Copynumber: 5.4 Consensus size: 29
47768721 ACTCGATTTC
** * *
47768731 GCACACTTAGTGCCATGCGATTT-AAGCCT
1 GCACACTTAGTGCCAT-ATATTTCCAGCAT
* *** *
47768760 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
47768788 CGCACACTTAGTGCCATATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
47768818 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47768847 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47768876 GCACACTTAGTGC
1 GCACACTTAGTGC
47768889 TAATCTCGTC
Statistics
Matches: 115, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
28 3 0.03
29 111 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:47773171 original size:39 final size:39
Alignment explanation
Indices: 47773084--47773197 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 39
47773074 TATGGTAACC
** * *
47773084 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
47773124 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47773163 CGCCCAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
47773198 TCGAACATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 50 0.77
40 15 0.23
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:47778606 original size:43 final size:44
Alignment explanation
Indices: 47778545--47778659 Score: 119
Period size: 45 Copynumber: 2.6 Consensus size: 44
47778535 TATAAGATCT
47778545 GAACTCATTGAGTTGGTCTGAGTTCATGATA-TATGT-GCAATCC
1 GAACTCATTGAGTTGGTCTGAGTTCATGATAGTATGTGGC-ATCC
* * * **
47778588 GAACTCTTTGAATTGGTCTGGGTTTGTGATATGTATGTGGCATCC
1 GAACTCATTGAGTTGGTCTGAGTTCATGATA-GTATGTGGCATCC
* *
47778633 GAGCTCGTTGAGTTGGT-TCGAGTTCAT
1 GAACTCATTGAGTTGGTCT-GAGTTCAT
47778660 AATGGATGCA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
43 26 0.46
44 1 0.02
45 28 0.49
46 2 0.04
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37
Consensus pattern (44 bp):
GAACTCATTGAGTTGGTCTGAGTTCATGATAGTATGTGGCATCC
Found at i:47788375 original size:28 final size:28
Alignment explanation
Indices: 47788306--47788406 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
47788296 GACAAGATTG
* * * *
47788306 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
47788336 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
47788364 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
47788393 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47788407 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:47798765 original size:46 final size:46
Alignment explanation
Indices: 47798630--47798896 Score: 168
Period size: 46 Copynumber: 5.7 Consensus size: 46
47798620 GTTATTGTAA
** * * ** *
47798630 GCTAGTGTAAGACATGTCCAGGACATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACAAGT
* * * *
47798676 GCTAATGTAAGACCATGTCTGGGATATGGCATCGGCATTGAGACAAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACAAGT
*
47798724 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGAC--GT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAAGT
* * *
47798768 AAGCCAGTGTAAGACATATCTGGGACATGCATCGG-CTACGAG--ATGT
1 --GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACAAGT
* * * * * * * *
47798814 GTTAGTGTAAGACCTTGTCTGGGACATGGCATTGGCATAGATATGCTAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA--CAAGT
*
47798864 GCTTGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
47798897 AACACCTGCA
Statistics
Matches: 172, Mismatches: 34, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
44 12 0.07
45 14 0.08
46 69 0.40
47 24 0.14
48 22 0.13
49 1 0.01
50 30 0.17
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAAGT
Found at i:47806024 original size:40 final size:40
Alignment explanation
Indices: 47805967--47806176 Score: 298
Period size: 40 Copynumber: 5.2 Consensus size: 40
47805957 CTAAAGGGGT
* * * * *
47805967 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
47806007 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
47806047 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
47806087 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
47806127 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
*
47806167 TAAGACCCGA
1 TAAGTCCCGA
47806177 CGGCCTTGTG
Statistics
Matches: 158, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 156 0.99
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:47806200 original size:39 final size:40
Alignment explanation
Indices: 47805967--47806207 Score: 204
Period size: 40 Copynumber: 6.1 Consensus size: 40
47805957 CTAAAGGGGT
* * * * *
47805967 TAAGTCCCGAAGACATTTGTGCTAGTGATTA-ATTTCGGGC
1 TAAGACCCGAAGGCACTTGTGCTAGTGACTATA-TCCGGGC
* * * *
47806007 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGC
1 TAAGACCCGAAGGCACTTGTGCTAGTGACTATA-TCCGGGC
* * * * *
47806047 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGA
1 TAAGACCCGAAGGCACTTGTGCTAGTGACTATA-TCCGGGC
* * * *
47806087 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 TAAGACCCGAAGGCACTTGTGCTAGTGACTATATCCGGGC
* * *
47806127 TAAGTCCCGAAGGCATTTGTGCTAGTGACCATATCCGGGC
1 TAAGACCCGAAGGCACTTGTGCTAGTGACTATATCCGGGC
* **
47806167 TAAGACCCGACGGC-CTTGTGCTAGTGGTTATATCC-GGC
1 TAAGACCCGAAGGCACTTGTGCTAGTGACTATATCCGGGC
47806205 TAA
1 TAA
47806208 ATCCTGAAGA
Statistics
Matches: 184, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
38 6 0.03
39 17 0.09
40 160 0.87
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGACCCGAAGGCACTTGTGCTAGTGACTATATCCGGGC
Found at i:47810204 original size:40 final size:40
Alignment explanation
Indices: 47810160--47810387 Score: 379
Period size: 40 Copynumber: 5.7 Consensus size: 40
47810150 GCTACTTGTT
47810160 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
47810200 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
47810240 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
47810280 CAAATGCCTTCGGGACTTAGCTCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
47810320 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
47810359 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
47810388 CATCCGAATA
Statistics
Matches: 176, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.19
40 141 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:47815937 original size:7 final size:7
Alignment explanation
Indices: 47815927--47815964 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
47815917 TGAAGGATGA
47815927 ATGAGGG
1 ATGAGGG
47815934 ATGAGGG
1 ATGAGGG
47815941 ATGAGGG
1 ATGAGGG
47815948 ATGAGGG
1 ATGAGGG
47815955 ATGAGGG
1 ATGAGGG
47815962 ATG
1 ATG
47815965 GTTGAAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.55, T:0.16
Consensus pattern (7 bp):
ATGAGGG
Found at i:47827907 original size:22 final size:20
Alignment explanation
Indices: 47827880--47827924 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
47827870 ATATTAAATA
*
47827880 ATTTATTATTTTAATATATTAT
1 ATTTATTATATTAATA-ATT-T
47827902 ATTTATTATATTAATAATTT
1 ATTTATTATATTAATAATTT
47827922 ATT
1 ATT
47827925 ATGTCACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 3 0.14
22 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTATTATATTAATAATTT
Found at i:47827921 original size:16 final size:14
Alignment explanation
Indices: 47827883--47827926 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
47827873 TTAAATAATT
*
47827883 TATTAT-TTTAATA
1 TATTATATTTATTA
47827896 TATTATATTTATTA
1 TATTATATTTATTA
47827910 TATTAATAATTTATTA
1 TATT-AT-ATTTATTA
47827926 T
1 T
47827927 GTCACTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 6 0.22
14 10 0.37
15 2 0.07
16 9 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTATATTTATTA
Found at i:47827972 original size:24 final size:25
Alignment explanation
Indices: 47827940--47828000 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
47827930 ACTAAATATA
* *
47827940 AATAATTAAATATAT-ATGTTTAAT
1 AATATTTAAATATATAATATTTAAT
*
47827964 AATATTTAAAAATATAATATTTAAT
1 AATATTTAAATATATAATATTTAAT
47827989 AAT-TTTAAATAT
1 AATATTTAAATAT
47828001 TTTTAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 21 0.66
25 11 0.34
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AATATTTAAATATATAATATTTAAT
Found at i:47827986 original size:25 final size:25
Alignment explanation
Indices: 47827947--47827997 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
47827937 ATAAATAATT
*
47827947 AAATATATATGTTTAATAATATTTAA
1 AAATATATATATTTAATAAT-TTTAA
47827973 AAATATA-ATATTTAATAATTTTAA
1 AAATATATATATTTAATAATTTTAA
47827997 A
1 A
47827998 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 6 0.25
25 11 0.46
26 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
AAATATATATATTTAATAATTTTAA
Found at i:47831673 original size:20 final size:21
Alignment explanation
Indices: 47831634--47831673 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
47831624 AAGCAATAAG
*
47831634 ATATATTTAATTGAAGAAAAA
1 ATATATTTAATTGAAAAAAAA
*
47831655 ATATA-TTATTTGAAAAAAA
1 ATATATTTAATTGAAAAAAA
47831674 TAAAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
ATATATTTAATTGAAAAAAAA
Found at i:47832105 original size:35 final size:35
Alignment explanation
Indices: 47832059--47832128 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
47832049 ACATTCATTG
47832059 CCGGAGTAACTATGAATACAATTCCAATCAATCTA
1 CCGGAGTAACTATGAATACAATTCCAATCAATCTA
47832094 CCGGAGTAACTATGAATACAATTCCAATCAATCTA
1 CCGGAGTAACTATGAATACAATTCCAATCAATCTA
47832129 ACATATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (35 bp):
CCGGAGTAACTATGAATACAATTCCAATCAATCTA
Found at i:47837000 original size:47 final size:47
Alignment explanation
Indices: 47836949--47837235 Score: 450
Period size: 47 Copynumber: 6.1 Consensus size: 47
47836939 ATTTAGGATT
*
47836949 CAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
47836996 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
* *
47837043 CAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGAC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
*
47837090 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGAC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
* *
47837137 CAATGTGATGAATGTGAACATGCATATATGTGACAAGGCAGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
* * * * *
47837184 CAATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGC
1 CAATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGC
*
47837231 TAATG
1 CAATG
47837236 CGAAATGTGT
Statistics
Matches: 224, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 221 0.99
48 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
Found at i:47837051 original size:22 final size:22
Alignment explanation
Indices: 47836980--47837051 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
47836970 GCATATATGA
47836980 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
47837002 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
47837027 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
47837049 GAT
1 GAT
47837052 GAATGTGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:47837098 original size:22 final size:22
Alignment explanation
Indices: 47837071--47837145 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
47837061 CATGCATATG
47837071 TGTGATAAGGCCGAATGACCAA
1 TGTGATAAGGCCGAATGACCAA
* * *
47837093 TGTGATGAATG-TGAACATG-CATATA
1 TGTGAT-AAGGCCG-A-ATGAC-CA-A
47837118 TGTGATAAGGCCGAATGACCAA
1 TGTGATAAGGCCGAATGACCAA
47837140 TGTGAT
1 TGTGAT
47837146 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGACCAA
Found at i:47837265 original size:46 final size:46
Alignment explanation
Indices: 47837209--47837345 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
47837199 GGAAGTGTAT
*
47837209 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
47837255 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * * *
47837301 ACATGCGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
47837346 TGTATATATA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:47845443 original size:29 final size:31
Alignment explanation
Indices: 47845390--47845448 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
47845380 GGGGGTGGGA
*
47845390 TGGGAAGGAAGTAAAAGTTTTAGGGGGAAAG
1 TGGGAAGGAAGTAAAAGATTTAGGGGGAAAG
*
47845421 TGGG-AGGGAGTAAAA-ATTTAGGGGGAAA
1 TGGGAAGGAAGTAAAAGATTTAGGGGGAAA
47845449 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 10 0.38
31 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.19
Consensus pattern (31 bp):
TGGGAAGGAAGTAAAAGATTTAGGGGGAAAG
Found at i:47845576 original size:16 final size:16
Alignment explanation
Indices: 47845557--47845607 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
47845547 TAGGATAGGA
47845557 GGGGAGTAAAAGTTTT
1 GGGGAGTAAAAGTTTT
**
47845573 GGGG-G-AAAAG-TGA
1 GGGGAGTAAAAGTTTT
47845586 GGAGGAGTAAAAGTTTT
1 GG-GGAGTAAAAGTTTT
47845603 GGGGA
1 GGGGA
47845608 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
13 3 0.11
14 7 0.26
15 2 0.07
16 12 0.44
17 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.45, T:0.22
Consensus pattern (16 bp):
GGGGAGTAAAAGTTTT
Found at i:47845607 original size:29 final size:29
Alignment explanation
Indices: 47845555--47845611 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
47845545 ATTAGGATAG
47845555 GAGGGGAGTAAAAGTTTTGGGGGAAAAGT
1 GAGGGGAGTAAAAGTTTTGGGGGAAAAGT
*
47845584 GAGGAGGAGTAAAAGTTTTGGGGAAAAA
1 GAGG-GGAGTAAAAGTTTTGGGGGAAAA
47845612 ATAAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.19
Consensus pattern (29 bp):
GAGGGGAGTAAAAGTTTTGGGGGAAAAGT
Found at i:47851639 original size:25 final size:25
Alignment explanation
Indices: 47851611--47851663 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
47851601 ATGCTCACTT
* *
47851611 GAGCTGTAGATCGGTATGCTCTCAC
1 GAGCTATAAATCGGTATGCTCTCAC
*
47851636 GAGCTATAAATCGGTTTGCTCTCAC
1 GAGCTATAAATCGGTATGCTCTCAC
47851661 GAG
1 GAG
47851664 TTGTGGGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (25 bp):
GAGCTATAAATCGGTATGCTCTCAC
Found at i:47857755 original size:18 final size:18
Alignment explanation
Indices: 47857729--47857767 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47857719 TAAAGGATTT
47857729 TTTATTTATATTTAATTAA
1 TTTATTTATATTTAA-TAA
*
47857748 TTTA-TTATCTTTAATAA
1 TTTATTTATATTTAATAA
47857765 TTT
1 TTT
47857768 TGATTTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 9 0.47
19 4 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATTTATATTTAATAA
Found at i:47858632 original size:37 final size:37
Alignment explanation
Indices: 47858579--47858653 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
47858569 AAAGTTTTCT
*
47858579 AAGTACGGTCTTAAGATTCTGTTCATCAAATCCATAA
1 AAGTACGGTCTGAAGATTCTGTTCATCAAATCCATAA
47858616 AAGTACGGTCTGAAGATTCTGTTCATCAAATCCATAA
1 AAGTACGGTCTGAAGATTCTGTTCATCAAATCCATAA
47858653 A
1 A
47858654 TACTGCAGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.31
Consensus pattern (37 bp):
AAGTACGGTCTGAAGATTCTGTTCATCAAATCCATAA
Found at i:47863215 original size:40 final size:38
Alignment explanation
Indices: 47863171--47863333 Score: 157
Period size: 40 Copynumber: 4.1 Consensus size: 38
47863161 GCTCGATTGT
* * *
47863171 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAACCCGGTT-TAGT-ACTCGCACAAATGC
*
47863211 CTTCGGGA-ATTAGCCCGGATTTAGTAGCTCGCACAAATGC
1 CTTCGGGACA-TAACCCGG-TTTAGTA-CTCGCACAAATGC
* *
47863251 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAACCCGG-TTTAGT-ACTCGCACAAATGC
* * *
47863291 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACATAACCCGG-TTTAGT-ACTCGCACAAATGC
47863331 CTT
1 CTT
47863334 GTAACACCCC
Statistics
Matches: 111, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
39 2 0.02
40 106 0.95
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (38 bp):
CTTCGGGACATAACCCGGTTTAGTACTCGCACAAATGC
Found at i:47863269 original size:80 final size:80
Alignment explanation
Indices: 47863171--47863333 Score: 209
Period size: 80 Copynumber: 2.0 Consensus size: 80
47863161 GCTCGATTGT
* * * * *
47863171 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGT
* *
47863236 AGCTCGCACAAATGC
66 AACTCACACAAATGC
* * * * * *
47863251 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGT
47863316 AACTCACACAAATGC
66 AACTCACACAAATGC
47863331 CTT
1 CTT
47863334 GTAACACCCC
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (80 bp):
CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGT
AACTCACACAAATGC
Found at i:47864791 original size:40 final size:40
Alignment explanation
Indices: 47864683--47864932 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
47864673 CGGGATTTAA
* * * * *
47864683 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
47864723 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47864763 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47864803 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47864843 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47864883 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47864923 CCGGATATAT
1 CCGGATATAT
47864933 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:47871483 original size:39 final size:39
Alignment explanation
Indices: 47871437--47871534 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 39
47871427 GGACTAGGAT
**
47871437 CCGAAGGCATTCGTGCGAGTTAATAAATTCGGGCTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGC
* * * * *
47871476 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGT
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGC
47871515 CCGAAGGCATTCGTGCGAGT
1 CCGAAGGCATTCGTGCGAGT
47871535 CACTGTAACC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGC
Found at i:47871529 original size:78 final size:80
Alignment explanation
Indices: 47871386--47871534 Score: 214
Period size: 79 Copynumber: 1.9 Consensus size: 80
47871376 GAATGATGTC
* * *
47871386 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTCGT
1 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGT
47871451 GCGAGTTAATAAATT
66 GCGAGTTAATAAATT
* **
47871466 CGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCGAAGGCATTCG
1 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
47871528 TGCGAGT
65 TGCGAGT
47871535 CACTGTAACC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
78 21 0.34
79 25 0.40
80 16 0.26
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGT
GCGAGTTAATAAATT
Found at i:47873356 original size:39 final size:38
Alignment explanation
Indices: 47873233--47873414 Score: 215
Period size: 39 Copynumber: 4.7 Consensus size: 38
47873223 GCTACTCGTT
* *
47873233 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGCA
*
47873273 CAAATGCCTTCGGGCTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTAGTAACTCGCA
*
47873311 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGG-ATTAGTAACTCGCA
* * * *
47873350 CAAATGCCTTCGGATCTTAGTCCGGA-TATGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATTA-GTAAC-TCGCA
47873390 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
47873415 CATCATTCGA
Statistics
Matches: 125, Mismatches: 12, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
38 36 0.29
39 58 0.46
40 31 0.25
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTAGTAACTCGCA
Found at i:47881345 original size:40 final size:39
Alignment explanation
Indices: 47881308--47881491 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 39
47881298 GCTACTCGTT
*
47881308 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
47881348 CAAATGTCC-TCGGGGCTTAACCCGG-ACTTAGTAACTCGCA
1 CAAATG-CCTTCGGGACTTAGCCCGGTA--TAGTAACTCGCA
* *
47881388 CCAATGCCTTCGGGA-TTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* * * *
47881427 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGTAAC-TCGCA
47881468 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
47881492 ACATCATTTG
Statistics
Matches: 121, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
38 4 0.03
39 33 0.27
40 70 0.58
41 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:47881452 original size:79 final size:81
Alignment explanation
Indices: 47881310--47881492 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 81
47881300 TACTCGTTCA
* * *
47881310 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGTCCTCGGGGCTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGTCCTCGGAGCTTAACCCGGA
*
47881374 CT-TAGTAAC-TCGCACC
66 -TATAGTAACTTAGCA-C
* **
47881390 AATGCCTTCGGGA-TTAGCCCGGAAT-TAGTAACTCGCACAAATG-CCTTCGGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGTCC-TCGGAGCTTAACCCGG
* *
47881452 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
47881469 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
47881493 CATCATTTGA
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGTCCTCGGAGCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:47882506 original size:12 final size:12
Alignment explanation
Indices: 47882489--47882513 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47882479 GAGTTCAAAT
47882489 TTATCTAACACC
1 TTATCTAACACC
47882501 TTATCTAACACC
1 TTATCTAACACC
47882513 T
1 T
47882514 CAAGCAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (12 bp):
TTATCTAACACC
Found at i:47883633 original size:24 final size:24
Alignment explanation
Indices: 47883601--47883651 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
47883591 GAAAAATCAC
*
47883601 TTAGTAAAAGTTGTTCACTATCCT
1 TTAGTAAAAGTTGTTCACCATCCT
47883625 TTAGTAAAAGTTGTTCACCATCCT
1 TTAGTAAAAGTTGTTCACCATCCT
47883649 TTA
1 TTA
47883652 AACTCTCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (24 bp):
TTAGTAAAAGTTGTTCACCATCCT
Found at i:47891007 original size:62 final size:64
Alignment explanation
Indices: 47890906--47891077 Score: 181
Period size: 62 Copynumber: 2.7 Consensus size: 64
47890896 TGGCAAACCA
* * * **
47890906 TGTAACTCATTGTTTAT-GAATTAGAGGCACACGAACTAGGGACACGGA-CGTGTGTCCAGGCCG
1 TGTAACTCACTGTTT-TGGATTTAGAGCCACACGGGCTAGGGACACGGAGCGTGTGTCCAGGCCG
* * * * * *
47890969 TGTAACTCACTG-TTTGTATTTTGGGTCACACGGGCTAGGGACAC-GAGCGTGTGTCTAGGTCG
1 TGTAACTCACTGTTTTGGATTTAGAGCCACACGGGCTAGGGACACGGAGCGTGTGTCCAGGCCG
* * *
47891031 TGTAACTCATTGTTTTGGATTTAGAGCCATACGGGCCAGGGACACGG
1 TGTAACTCACTGTTTTGGATTTAGAGCCACACGGGCTAGGGACACGG
47891078 GCCTATGTCT
Statistics
Matches: 88, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
61 3 0.03
62 47 0.53
63 37 0.42
64 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (64 bp):
TGTAACTCACTGTTTTGGATTTAGAGCCACACGGGCTAGGGACACGGAGCGTGTGTCCAGGCCG
Found at i:47891087 original size:63 final size:63
Alignment explanation
Indices: 47890906--47891096 Score: 197
Period size: 63 Copynumber: 3.0 Consensus size: 63
47890896 TGGCAAACCA
* * ** * * *
47890906 TGTAACTCATTGTTTAT-GAATTAGAGGCACACGAACTAGGGACACGGACGTGTGTCCAGGCCG
1 TGTAACTCATTGTTT-TGGATTTAGAGCCACACGGGCTAGGGACACGGGCGTGTGTCTAGGTCG
* * * * * *
47890969 TGTAACTCACTG-TTTGTATTTTGGGTCACACGGGCTAGGGACACGAGCGTGTGTCTAGGTCG
1 TGTAACTCATTGTTTTGGATTTAGAGCCACACGGGCTAGGGACACGGGCGTGTGTCTAGGTCG
* * * * *
47891031 TGTAACTCATTGTTTTGGATTTAGAGCCATACGGGCCAGGGACACGGGCCTATGTCTAAGTCG
1 TGTAACTCATTGTTTTGGATTTAGAGCCACACGGGCTAGGGACACGGGCGTGTGTCTAGGTCG
47891094 TGT
1 TGT
47891097 GAGGGTTTGT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
61 1 0.01
62 48 0.47
63 54 0.52
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (63 bp):
TGTAACTCATTGTTTTGGATTTAGAGCCACACGGGCTAGGGACACGGGCGTGTGTCTAGGTCG
Found at i:47891773 original size:22 final size:22
Alignment explanation
Indices: 47891748--47891801 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
47891738 GATTCTAATA
47891748 TGTTCTGCATTTGTATATGATT-
1 TGTTCTGCATTTGTATATG-TTC
*
47891770 TGTTCTACATTTGTATATGTTC
1 TGTTCTGCATTTGTATATGTTC
*
47891792 TATTCTGCAT
1 TGTTCTGCAT
47891802 CTATATCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.19, C:0.13, G:0.15, T:0.54
Consensus pattern (22 bp):
TGTTCTGCATTTGTATATGTTC
Found at i:47898972 original size:17 final size:18
Alignment explanation
Indices: 47898950--47898993 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
47898940 TCTTGATATT
47898950 ATCATATTTA-AAATAAA
1 ATCATATTTATAAATAAA
*
47898967 ATCATATTTATATATAAA
1 ATCATATTTATAAATAAA
*
47898985 ATTATATTT
1 ATCATATTT
47898994 TTTAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
ATCATATTTATAAATAAA
Found at i:47900788 original size:2 final size:2
Alignment explanation
Indices: 47900781--47900828 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
47900771 TTTGTGGTGT
47900781 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47900823 TA TA TA
1 TA TA TA
47900829 ATGTGCCATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47901904 original size:17 final size:17
Alignment explanation
Indices: 47901882--47901932 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
47901872 GTCATAATTT
47901882 AAAATAAAAATTTAAAA
1 AAAATAAAAATTTAAAA
* *
47901899 AAAATAAATATTT-TAA
1 AAAATAAAAATTTAAAA
*
47901915 AAAATAAATATTTTAAAA
1 AAAATAAA-AATTTAAAA
47901933 TATTAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 10 0.37
17 15 0.56
18 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATAAAAATTTAAAA
Found at i:47901932 original size:15 final size:16
Alignment explanation
Indices: 47901882--47901932 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
47901872 GTCATAATTT
* *
47901882 AAAATAAAAATTTAAAA
1 AAAATAAATATTT-TAA
47901899 AAAATAAATATTTTAA
1 AAAATAAATATTTTAA
47901915 AAAATAAATATTTTAA
1 AAAATAAATATTTTAA
47901931 AA
1 AA
47901933 TATTAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 20 0.62
17 12 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATAAATATTTTAA
Found at i:47902455 original size:7 final size:6
Alignment explanation
Indices: 47902437--47902468 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
47902427 TAATAAAAAA
*
47902437 TATTTT TATTTT CATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TATTTT TA
47902469 GCAGGAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:47902676 original size:36 final size:36
Alignment explanation
Indices: 47902635--47902709 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
47902625 AAATAATCTC
47902635 TTTTACAAAATAATAAACACTATTTTAAAAGTATTT
1 TTTTACAAAATAATAAACACTATTTTAAAAGTATTT
47902671 TTTTACAAAATAATAAACACTATTTTAAAAGTATTT
1 TTTTACAAAATAATAAACACTATTTTAAAAGTATTT
47902707 TTT
1 TTT
47902710 CATTTTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (36 bp):
TTTTACAAAATAATAAACACTATTTTAAAAGTATTT
Found at i:47902855 original size:5 final size:5
Alignment explanation
Indices: 47902845--47902887 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
47902835 GCAATTGAGA
47902845 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA- AATAA- AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AA-AAT AAAAT AAA
47902888 GAACACACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.11
5 26 0.74
6 5 0.14
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:47907332 original size:6 final size:5
Alignment explanation
Indices: 47907302--47907331 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
47907292 CAATTTGAAA
47907302 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
47907332 AACACACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:47910818 original size:22 final size:22
Alignment explanation
Indices: 47910788--47910839 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
47910778 GGTCTTTAGT
* *
47910788 CGTCCTGTCTACGGTGTTGAGC
1 CGTCCTGTCTACAGCGTTGAGC
*
47910810 CGTCTTGTCTACAGCGTTGAGC
1 CGTCCTGTCTACAGCGTTGAGC
47910832 CGTCCTGT
1 CGTCCTGT
47910840 TGACTTAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.10, C:0.29, G:0.29, T:0.33
Consensus pattern (22 bp):
CGTCCTGTCTACAGCGTTGAGC
Found at i:47921697 original size:20 final size:20
Alignment explanation
Indices: 47921672--47921710 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47921662 TCTACGGTAC
47921672 ATGAAAGAATTACTTAAAAT
1 ATGAAAGAATTACTTAAAAT
**
47921692 ATGAAATTATTACTTAAAA
1 ATGAAAGAATTACTTAAAA
47921711 CATAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (20 bp):
ATGAAAGAATTACTTAAAAT
Found at i:47921722 original size:20 final size:20
Alignment explanation
Indices: 47921680--47921722 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
47921670 ACATGAAAGA
* * *
47921680 ATTACTTAAAATATGAAATT
1 ATTACTTAAAACATAAAAAT
47921700 ATTACTTAAAACATAAAAAT
1 ATTACTTAAAACATAAAAAT
47921720 ATT
1 ATT
47921723 TTTAAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTACTTAAAACATAAAAAT
Found at i:47921727 original size:111 final size:110
Alignment explanation
Indices: 47921589--47921809 Score: 284
Period size: 111 Copynumber: 2.0 Consensus size: 110
47921579 AAATGAAAGA
* * * * *
47921589 ATTACTTAAAACAATAAATTTTTTTTAAAAAACTAAGTAATTCATAAAACATGAAAGAGTTCTA-
1 ATTACTTAAAACAATAAAATATTTTTAAAAAACTAAGTAATTCATAAAACATAAAAAAATTCTAG
* *
47921653 AAAATTTAGTCTACGGTACATGAAAGAATTACTTAAAATATGAAATT
66 AAAA--TAATCTACAGTACATGAAAGAATTACTTAAAATATGAAATT
* * *
47921700 ATTACTTAAAAC-ATAAAAATATTTTTAAAATATTAAGTAATTCGTAAAACATAAAAAAATTCTA
1 ATTACTTAAAACAAT-AAAATATTTTTAAAAAACTAAGTAATTCATAAAACATAAAAAAATTCTA
* *
47921764 GGAAAATAATTTATAGTACATGAAAGAATTACTTAAAATATGAAAT
65 -GAAAATAATCTACAGTACATGAAAGAATTACTTAAAATATGAAAT
47921810 AGTTATTTCA
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
110 2 0.02
111 89 0.94
113 4 0.04
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (110 bp):
ATTACTTAAAACAATAAAATATTTTTAAAAAACTAAGTAATTCATAAAACATAAAAAAATTCTAG
AAAATAATCTACAGTACATGAAAGAATTACTTAAAATATGAAATT
Found at i:47922206 original size:60 final size:59
Alignment explanation
Indices: 47922113--47922230 Score: 200
Period size: 60 Copynumber: 2.0 Consensus size: 59
47922103 AACAAATAAT
* *
47922113 AAATGAATAATGTTAGACAATATTTGTTAATTTTGAAGGGTTTTAATATTCCTTCTTTTC
1 AAATGAATAAGGTTAGACAATATTTGTTAATTTTGAAAGGTTTTAATATTCCTT-TTTTC
*
47922173 AAATGAATAAGGTTATACAATATTTGTTAATTTTGAAAGGTTTTAATATTCCTTTTTT
1 AAATGAATAAGGTTAGACAATATTTGTTAATTTTGAAAGGTTTTAATATTCCTTTTTT
47922231 ATCAGTTGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
59 4 0.07
60 51 0.93
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (59 bp):
AAATGAATAAGGTTAGACAATATTTGTTAATTTTGAAAGGTTTTAATATTCCTTTTTTC
Found at i:47922507 original size:32 final size:32
Alignment explanation
Indices: 47922469--47922536 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
47922459 CAAAGTATAA
47922469 TTTTAAGGCCATTAACCCATGATATCTCCTTT
1 TTTTAAGGCCATTAACCCATGATATCTCCTTT
*
47922501 TTTTAAGGCCATTAACCCATTATATCTCCTTT
1 TTTTAAGGCCATTAACCCATGATATCTCCTTT
47922533 TTTT
1 TTTT
47922537 CTTCTTGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.46
Consensus pattern (32 bp):
TTTTAAGGCCATTAACCCATGATATCTCCTTT
Found at i:47927444 original size:8 final size:8
Alignment explanation
Indices: 47927433--47927468 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
47927423 AGAAATTAAT
47927433 ATAATATA
1 ATAATATA
47927441 ATAATATA
1 ATAATATA
47927449 ATAATATA
1 ATAATATA
47927457 ATAATATA
1 ATAATATA
47927465 ATAA
1 ATAA
47927469 AACATAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATAATATA
Found at i:47928414 original size:44 final size:43
Alignment explanation
Indices: 47928329--47928417 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 43
47928319 TCTACAGGGA
47928329 TACTTCGACCTTGGGTCGATGAGGCACTAATAGTGTTGTACTGT
1 TACTTCGACCTTGGGTCGATGAGGCACT-ATAGTGTTGTACTGT
** * *
47928373 TACTTCGAGTTTGTGTCGATGAGGCACT-TCGTGTGTCGTACTGT
1 TACTTCGACCTTGGGTCGATGAGGCACTATAGTGT-T-GTACTGT
47928417 T
1 T
47928418 TTTGTTACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 5 0.13
43 1 0.03
44 33 0.85
ACGTcount: A:0.17, C:0.18, G:0.28, T:0.37
Consensus pattern (43 bp):
TACTTCGACCTTGGGTCGATGAGGCACTATAGTGTTGTACTGT
Found at i:47930567 original size:28 final size:27
Alignment explanation
Indices: 47930504--47930573 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
47930494 ATAGTGAGTC
47930504 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
47930531 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47930559 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47930574 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47934790 original size:14 final size:14
Alignment explanation
Indices: 47934771--47934799 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47934761 CGAATCTCAT
47934771 ATATATATATATAC
1 ATATATATATATAC
47934785 ATATATATATATAC
1 ATATATATATATAC
47934799 A
1 A
47934800 ACTCACATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:47943378 original size:55 final size:54
Alignment explanation
Indices: 47943223--47943429 Score: 227
Period size: 53 Copynumber: 3.8 Consensus size: 54
47943213 TTCCTTTTTA
* * * *
47943223 AACTTACCATTACCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
47943276 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
47943330 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
47943385 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
47943430 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 45 0.36
54 38 0.31
55 41 0.33
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:47944603 original size:22 final size:22
Alignment explanation
Indices: 47944578--47944619 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
47944568 TTCTATCTCG
*
47944578 GATTCGTGGTTTTACAACCACA
1 GATTCGTGGTTTCACAACCACA
47944600 GATTCGTGGTTTCACAACCA
1 GATTCGTGGTTTCACAACCA
47944620 TTTTTCCGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (22 bp):
GATTCGTGGTTTCACAACCACA
Found at i:47945710 original size:42 final size:43
Alignment explanation
Indices: 47945603--47945746 Score: 148
Period size: 43 Copynumber: 3.4 Consensus size: 43
47945593 TAGAAATTCG
* * * *
47945603 AGCTCGTTGAGCGATCCGAGTTCGTGATATATGTGAGAATCCTA
1 AGCTCGTTGAGAGGTCCAAGTTCGTGATATATGTGAGCATCC-A
* *
47945647 A-CTTGTTGAGTGGTCCAAGTTCGTGATATATGTG-GCATCCA
1 AGCTCGTTGAGAGGTCCAAGTTCGTGATATATGTGAGCATCCA
* * ** **
47945688 AGCTCGTTGAGAGGTCCAAGTTCATTATGGATGTGAGCATCTG
1 AGCTCGTTGAGAGGTCCAAGTTCGTGATATATGTGAGCATCCA
*
47945731 AGCTTGTTGAGAGGTC
1 AGCTCGTTGAGAGGTC
47945747 TGAGTTCATG
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
41 2 0.02
42 32 0.38
43 49 0.58
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
AGCTCGTTGAGAGGTCCAAGTTCGTGATATATGTGAGCATCCA
Found at i:47945742 original size:43 final size:42
Alignment explanation
Indices: 47945648--47945763 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
47945638 AGAATCCTAA
* * **
47945648 CTTGTTGAGTGGTCCAAGTTCGTGATATATGTGGCATCCAAG
1 CTTGTTGAGAGGTCCAAGTTCATGATGGATGTGGCATCCAAG
* * **
47945690 CTCGTTGAGAGGTCCAAGTTCATTATGGATGTGAGCATCTGAG
1 CTTGTTGAGAGGTCCAAGTTCATGATGGATGTG-GCATCCAAG
**
47945733 CTTGTTGAGAGGTCTGAGTTCATGATGGATG
1 CTTGTTGAGAGGTCCAAGTTCATGATGGATG
47945764 CGATTCATGT
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.33
Consensus pattern (42 bp):
CTTGTTGAGAGGTCCAAGTTCATGATGGATGTGGCATCCAAG
Found at i:47953213 original size:48 final size:47
Alignment explanation
Indices: 47953140--47953458 Score: 336
Period size: 48 Copynumber: 6.6 Consensus size: 47
47953130 ATGTGTGCTG
47953140 GTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATC-GCCACATTATGAGAGCCA
* * * ** * * *
47953188 ATGTAAGACCATGTCTGGGATATGGCATCGGC-GTTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGCCACAT--TATGAGAGCCA
47953236 GTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCG-CCACATTATGAGAGCCA
* * **
47953284 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGCTAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATC-GCCACATTATGAGAGCCA
* * * * * * * *
47953332 ATGTAGGACCATGTTTGGAACATGGCATCGACATTATTAT-ATGTGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGCCA-CATTATGA-GAGCCA
*
47953380 GTGTAAGACCATGTCTGGGACATGGCATCGACACTGATGTATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGCCAC--AT-TATGAGAGCCA
*
47953430 GTGTAAGACCATGTTTGGGACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
47953459 AGCATTTTAC
Statistics
Matches: 220, Mismatches: 40, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.00
47 4 0.02
48 174 0.79
49 4 0.02
50 36 0.16
51 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (47 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGCCACATTATGAGAGCCA
Found at i:47953289 original size:96 final size:96
Alignment explanation
Indices: 47953124--47953458 Score: 390
Period size: 96 Copynumber: 3.5 Consensus size: 96
47953114 AAGACATTTG
* **
47953124 GTTGATATGTGTGCTGGTGTAAGACCATGTCTGGGACATGGCATC-AGCCACATTATGAGAGCCA
1 GTTGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACATTATGAGAGCCA
* *
47953188 ATGTAAGACCATGTCTGGGATATGGCATCGGC
65 GTGTAAGACCATGTCTGGGACATGGCATCGGC
* *
47953220 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAG
1 GTTGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAG
47953285 TGTAAGACCATGTCTGGGACATGGCATCGGC
66 TGTAAGACCATGTCTGGGACATGGCATCGGC
* ** * * * * * * *
47953316 CTCAATATGCT-AGCCAATGTAGGACCATGTTTGGAACATGGCATCGA-CATTATTAT-ATGTGT
1 GTTGATATG-TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-CATTATGA-GAGC
*
47953378 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC
63 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
** * *
47953412 ACTGATGTATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
1 GTTGA--TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
47953459 AGCATTTTAC
Statistics
Matches: 208, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
95 3 0.01
96 168 0.81
97 2 0.01
98 35 0.17
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (96 bp):
GTTGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAG
TGTAAGACCATGTCTGGGACATGGCATCGGC
Found at i:47953400 original size:144 final size:145
Alignment explanation
Indices: 47953140--47953461 Score: 463
Period size: 144 Copynumber: 2.2 Consensus size: 145
47953130 ATGTGTGCTG
*
47953140 GTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAATGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCCACAATATGAGAGCCAATGTAAGACCATGTCTG
* * *
47953205 GGATATGGCATCGGCGTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA
66 GAACATGGCATCGACGTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CA
47953270 C-AT-TATGAGAGCCA
130 CGATGTATGAGAGCCA
* * ** * *
47953284 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGCTAGCCAATGTAGGACCATGTTTG
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCCACAATATGAGAGCCAATGTAAGACCATGTCTG
* *
47953349 GAACATGGCATCGACATT-ATTATATGTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
66 GAACATGGCATCGACGTTGA-TATGTGTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGAC
47953412 ACTGATGTATGAGAGCCA
129 AC-GATGTATGAGAGCCA
*
47953430 GTGTAAGACCATGTTTGGGACATGGCATCAGC
1 GTGTAAGACCATGTCTGGGACATGGCATCAGC
47953462 ATTTTACCCT
Statistics
Matches: 159, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
143 5 0.03
144 111 0.70
145 2 0.01
146 41 0.26
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (145 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGCCACAATATGAGAGCCAATGTAAGACCATGTCTG
GAACATGGCATCGACGTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAC
GATGTATGAGAGCCA
Found at i:47956818 original size:40 final size:40
Alignment explanation
Indices: 47956769--47956976 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
47956759 TCTTCGGAAT
* * *
47956769 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
47956808 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
47956848 TTAGCCCGGATATAA-CAACTCGAACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
47956888 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * **
47956928 TTAGCCCGGATATAATCACTAGCATAAATACCTTCGGAAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
47956968 TTAGCCCGG
1 TTAGCCCGG
47956977 GTATCATTCA
Statistics
Matches: 142, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 3 0.02
40 138 0.97
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:47962279 original size:30 final size:29
Alignment explanation
Indices: 47962185--47962286 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
47962175 TATAGTGAAT
* * *
47962185 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
47962214 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
47962242 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
47962272 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
47962287 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:47969422 original size:30 final size:29
Alignment explanation
Indices: 47969328--47969429 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
47969318 TATAGTGAAT
* * *
47969328 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
47969357 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
47969385 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
47969415 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
47969430 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:47971275 original size:41 final size:40
Alignment explanation
Indices: 47971150--47971293 Score: 107
Period size: 41 Copynumber: 3.5 Consensus size: 40
47971140 ACAATTCGGA
47971150 TATATACATGGCACTTAGTGTGC--GATTCAGAATAGCTTTGGC
1 TATATA-A-GGCACTTAGTGTGCTAGATT-A-AATAGCTTTGGC
* * ** * *
47971192 AATATATGGCACTTAGTGTG-TGAGACCAAGATAACTTCGGC
1 TATATAAGGCACTTAGTGTGCT-AGATTAA-ATAGCTTTGGC
*
47971233 TATATAAGGCACTTAGTGTGCTAAATTATAATAGCTTTGGC
1 TATATAAGGCACTTAGTGTGCTAGATTA-AATAGCTTTGGC
*
47971274 TATGTATTA-GCACTTAGTGT
1 TA--TATAAGGCACTTAGTGT
47971294 ATGAGATATC
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
40 14 0.17
41 42 0.52
42 20 0.25
43 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (40 bp):
TATATAAGGCACTTAGTGTGCTAGATTAAATAGCTTTGGC
Found at i:47971288 original size:83 final size:83
Alignment explanation
Indices: 47971144--47971299 Score: 201
Period size: 83 Copynumber: 1.9 Consensus size: 83
47971134 TCAATGACAA
* *
47971144 TTCGGATATATACATGGCACTTAGTGTGCGATTCAGAATAGCTTTGGCAATATATGGCACTTAGT
1 TTCGGATATATACATGGCACTTAGTGTGCAATTCAGAATAGCTTTGGCAATATATAGCACTTAGT
*
47971209 GTGTGAGACCAAGATAAC
66 GTATGAGACCAAGATAAC
* * * *
47971227 TTCGGCTATATA-A-GGCACTTAGTGTGCTAAATT-ATAATAGCTTTGGCTATGTATTAGCACTT
1 TTCGGATATATACATGGCACTTAGTGTGC--AATTCAGAATAGCTTTGGCAATATA-TAGCACTT
47971289 AGTGTATGAGA
63 AGTGTATGAGA
47971300 TATCGAGTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
81 14 0.22
82 18 0.29
83 31 0.49
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.33
Consensus pattern (83 bp):
TTCGGATATATACATGGCACTTAGTGTGCAATTCAGAATAGCTTTGGCAATATATAGCACTTAGT
GTATGAGACCAAGATAAC
Found at i:47974742 original size:29 final size:29
Alignment explanation
Indices: 47974710--47974787 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
47974700 ATACCCTCCG
** *
47974710 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
47974739 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
47974768 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
47974788 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:47976822 original size:39 final size:39
Alignment explanation
Indices: 47976759--47976966 Score: 143
Period size: 40 Copynumber: 5.3 Consensus size: 39
47976749 TCTTCGGGAT
** *
47976759 TTAG-CCGGATATAACCACTCGCACAAGGCCGTCAGGTC
1 TTAGCCCGGATATAGTCACTCGCACAAGGCCGTCAGGAC
* * * * *
47976797 TTAGCCCGGATATGGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTCGCAC-AAGGCCGTCAGGAC
* * * *
47976837 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTCGCAC-AAGGCCGTCAGGAC
* * * * *
47976877 TTAGCTCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTCACTCGCAC-AAGGCCGTCAGGAC
* * * * *
47976917 TTAGCCCGGA-ATTAGTAACTGGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTCACTCGCAC-AAGGCCGTCAGGAC
47976957 TTAGCCCGGA
1 TTAGCCCGGA
47976967 ATTAGTAACT
Statistics
Matches: 153, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
38 4 0.03
39 17 0.11
40 132 0.86
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.22
Consensus pattern (39 bp):
TTAGCCCGGATATAGTCACTCGCACAAGGCCGTCAGGAC
Found at i:47976848 original size:40 final size:40
Alignment explanation
Indices: 47976796--47977039 Score: 339
Period size: 40 Copynumber: 6.1 Consensus size: 40
47976786 GCCGTCAGGT
* *
47976796 CTTAGCCCGG-ATATGGTCACTAGCACAAATGCCTTCGGGA
1 CTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGA
*
47976836 CTTAGCCCGG-ATATAGTAACTCGCACAAATGCCTTCGGGA
1 CTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGA
* *
47976876 CTTAGCTCGGAATTAGTAACTCGCACAAATGCCTTCGGGA
1 CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
*
47976916 CTTAGCCCGGAATTAGTAACTGGCACAAATGCCTTCGGGA
1 CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
* *
47976956 CTTAGCCCGGAATTAGTAACTGGCGCAAATGCCTTCGGGA
1 CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
* * * **
47976996 CTTAGCCCAGAATTAATCACTAGCACAAATATCTTCGGGA
1 CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
47977036 CTTA
1 CTTA
47977040 ACCCCGTTAG
Statistics
Matches: 189, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 187 0.99
41 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
Found at i:47981516 original size:31 final size:31
Alignment explanation
Indices: 47981478--47981615 Score: 104
Period size: 31 Copynumber: 4.5 Consensus size: 31
47981468 AAGATCACCC
**
47981478 CGTGTTTACTGTCCTGGTAGACTATCTGCTA
1 CGTGTTTACTGTCCCAGTAGACTATCTGCTA
* * * *
47981509 CGTGTTTACTATCCCAGCAGATTATTTGCTA
1 CGTGTTTACTGTCCCAGTAGACTATCTGCTA
* * *
47981540 TGTGTTT-CATGTCCTAGT-GAACTATCT-TTA
1 CGTGTTTAC-TGTCCCAGTAG-ACTATCTGCTA
* * *
47981570 TGTGTTTTCTGTCCCAGTAGACTATTTG-TA
1 CGTGTTTACTGTCCCAGTAGACTATCTGCTA
*
47981600 CTGTGTTTACTATCCC
1 C-GTGTTTACTGTCCC
47981616 TATAATAGCC
Statistics
Matches: 83, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
30 27 0.33
31 56 0.67
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (31 bp):
CGTGTTTACTGTCCCAGTAGACTATCTGCTA
Found at i:47983078 original size:2 final size:2
Alignment explanation
Indices: 47983071--47983097 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47983061 CATGGCAGTG
47983071 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
47983098 GCAGGATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47984121 original size:125 final size:129
Alignment explanation
Indices: 47983964--47984305 Score: 322
Period size: 131 Copynumber: 2.6 Consensus size: 129
47983954 ATTATTTAGT
* *
47983964 CAAACGAGAAAATCGAAACCCAGCA-TAGTAGGGCATGATTCCTCGAATT-TCTAAACATCGAGC
1 CAAACGAG-AAATCGCAACCCAGCACGA-TAGGGCATGATTCC-CGAATTGTC-AAACATCGAGC
* *
47984027 ATTGCCTT-ATTT-TAGAATTTACAG-AGT-ATGAGTGAAATTCTAAAGGAATC-TTCAATTA-T
62 ATTGCCTTCATTTAAAGAATTTACAGAAGTCATGAATGAAATTCTAAAGGAA-CATTCAATTACT
47984086 TGAA
126 TGAA
* * * * * *
47984090 CGAACGGGAAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGACAAACATCGAGTATTA
1 CAAACGAGAAATCGCAACCCAGCACGATAGGGCATGATTCCCGAATTGTCAAACATCGAGCATTG
* * ** * *
47984155 CCTTCGTTTAAAAGATTTTTTAGAAGTCATGAATGAAATTCTAAAGGGACATTCGATTACTTTGA
66 CCTTCATTT-AAAGAATTTACAGAAGTCATGAATGAAATTCTAAAGGAACATTCAATTAC-TTGA
*
47984220 G
129 A
* * * * * *
47984221 CAAACGAGAAATTGCAACCCAGCACGTTAGGGCATGATTTCGCGAATTGTCAAATATCGAACATC
1 CAAACGAGAAATCGCAACCCAGCACGATAGGGCATGA-TTCCCGAATTGTCAAACATCGAGCATT
* *
47984286 GCCTTCGTTTTAAAGGATTT
65 GCCTTC-ATTTAAAGAATTT
47984306 TTAGAAGACA
Statistics
Matches: 172, Mismatches: 32, Indels: 18
0.77 0.14 0.08
Matches are distributed among these distances:
124 23 0.13
125 32 0.19
126 7 0.04
127 8 0.05
128 4 0.02
129 26 0.15
131 36 0.21
132 33 0.19
133 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (129 bp):
CAAACGAGAAATCGCAACCCAGCACGATAGGGCATGATTCCCGAATTGTCAAACATCGAGCATTG
CCTTCATTTAAAGAATTTACAGAAGTCATGAATGAAATTCTAAAGGAACATTCAATTACTTGAA
Found at i:47984307 original size:132 final size:131
Alignment explanation
Indices: 47984054--47984440 Score: 406
Period size: 132 Copynumber: 3.0 Consensus size: 131
47984044 TTTACAGAGT
* * * * * * *
47984054 ATGAGTGAAATTCTAAAGGAATC-TTCAATTA-TTGAACGAACGGGAAATCGCAACCCAGCACGA
1 ATGAATGAAATTCTAAAGGGA-CATTCGATTATTTGAGCAAACGGGAAATTGCAACCCAGCACGT
* * ** ** *
47984117 TAGGGCACGA-TTCCCGAATTGACAAACATCGAGTATTACCTTCG-TTTAAAAGATTTTTTAGAA
65 TAGGGCACGATTTCGCGAATTGACAAATATCGAACATCGCCTTCGTTTTAAAGGA-TTTTTAGAA
*
47984180 GTC
129 GAC
*
47984183 ATGAATGAAATTCTAAAGGGACATTCGATTACTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
1 ATGAATGAAATTCTAAAGGGACATTCGATTA-TTTGAGCAAACGGGAAATTGCAACCCAGCACGT
* *
47984248 TAGGGCATGATTTCGCGAATTGTCAAATATCGAACATCGCCTTCGTTTTAAAGGATTTTTAGAAG
65 TAGGGCACGATTTCGCGAATTGACAAATATCGAACATCGCCTTCGTTTTAAAGGATTTTTAGAAG
47984313 AC
130 AC
* * * * * * * * *
47984315 ATGTACGAAATTTTGAAGGGATATTCGATCTTTTTGAGCAAGCGGGAAATTGCAACCCAACACAT
1 ATGAATGAAATTCTAAAGGGACATTCGAT-TATTTGAGCAAACGGGAAATTGCAACCCAGCACGT
* * * * *
47984380 TAGGGCACGATTCCGCGAATTGCCAAATATCAAATC-TCGTCTTCGTTTTAAAGAATTTTTA
65 TAGGGCACGATTTCGCGAATTGACAAATATCGAA-CATCGCCTTCGTTTTAAAGGATTTTTA
47984441 AATGAATAAT
Statistics
Matches: 217, Mismatches: 34, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
128 1 0.00
129 26 0.12
131 36 0.17
132 144 0.66
133 10 0.05
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (131 bp):
ATGAATGAAATTCTAAAGGGACATTCGATTATTTGAGCAAACGGGAAATTGCAACCCAGCACGTT
AGGGCACGATTTCGCGAATTGACAAATATCGAACATCGCCTTCGTTTTAAAGGATTTTTAGAAGA
C
Found at i:47985101 original size:2 final size:2
Alignment explanation
Indices: 47985094--47985126 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
47985084 ATAATAAGAG
47985094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47985127 AATTTTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47987769 original size:131 final size:131
Alignment explanation
Indices: 47987355--47988826 Score: 2081
Period size: 131 Copynumber: 11.2 Consensus size: 131
47987345 TCTGTTCTAT
* * ** *
47987355 TGCAGCTTCAAGGAGATAAGATCTGTAATTTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
* * * * * * *
47987420 A-TGGTGGCTTAAATCTGCTTCGCTGCATCTTCAAGAAGCCAAAATTCATCGTCTTTGATTTGCT
66 ACT--T-GCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCC
*
47987484 ACAC
128 CCAC
* * * * * * *
47987488 TGCAACTTTAGGGAGAGAAGATCTATAATCTTCAACCTACTCTACTACAACTTTAGGGAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
* ** * * * * *
47987553 A-TGGTGGCTTAAATCTACTTCGTTGCATCTTCAAGTA-CCTAAGATTCCTCTTCTTCGATTTGC
66 ACT--T-GCTTAAATCTGCTTCACTGCAACTTCAGGAAGCC-AAGATTCGTCGTCTTCGATTTGC
47987616 CCCAC
127 CCCAC
* *
47987621 TGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
*
47987686 ACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTTGATTTGCCCCA
66 ACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCA
*
47987751 T
131 C
* *
47987752 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGTCTACTCCACTACAACCTTAGGGAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
* *
47987817 ACTTGCTTAAATCTGCTTCACTACAACTTC-GAGAAGCCAAGATTCGTCATCTTCGATTTGCCCC
66 ACTTGCTTAAATCTGCTTCACTGCAACTTCAG-GAAGCCAAGATTCGTCGTCTTCGATTTGCCCC
*
47987881 AT
130 AC
* * *
47987883 TGCAACTTCAAGGAGACAAGATCTACAATATTCAACCTACTCCGCTACAACCTTAGGGAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
* * * *
47987948 ACTTGCTTAAATCTGCTTCACTGCAAATTCAGGAAGCCAAGATTTGTCATCTTCGATTTTCCCCA
66 ACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCA
*
47988013 T
131 C
* *
47988014 TGCAGCTTCAAGGAGACAAGATCTACAATATTTAGCCTACTCCACTACAACTTTAGGGAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
* *
47988079 ACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCAATTTGTCCCA
66 ACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCA
*
47988144 T
131 C
*
47988145 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACCTTAGGGAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
* * *
47988210 ACTTGCTTAAATCTGCTTCACTGCAACTTTAGGAAGCCAAGATTCATCGTCTTCGATTTGCCCTA
66 ACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCA
47988275 C
131 C
* * *
47988276 CGCAACTTCAAGGAGACAAGATCTACAATATTCAACCTACTCCACTACAACCTTAGGGAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
*
47988341 ACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGTCCCA
66 ACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCA
*
47988406 T
131 C
* * *
47988407 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTATTCCACTACAACCTTAAGGAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
* * * * * *
47988472 ATTTGCTTAAATCTACTTCACTACAACTTCAGGAAGCCAAGATTCGTCGTCTTTGATTTACTCCA
66 ACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCA
47988537 C
131 C
* * *
47988538 TGCAACTTTAGGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGTGAGCTAGG
1 TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
* ** * *
47988603 ACATGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTATTCGTCTTTGATTTGCCCTA
66 ACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCA
47988668 C
131 C
* * *
47988669 TGCAACTT-GAGGAAGACCAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGTGAGCTAG
1 TGCAACTTCAAGG-AGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAG
* * *
47988733 GACTTGCTTAAATCTGCTTTACTGCAACTTCAAGAAGCCAAGATTCGTCATCTTCGATTTGCCCC
65 GACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCC
47988798 AC
130 AC
*
47988800 TGCAACTTCAGGGAGACAAGATCTACA
1 TGCAACTTCAAGGAGACAAGATCTACA
47988827 TTCTGTTTCA
Statistics
Matches: 1218, Mismatches: 114, Indels: 16
0.90 0.08 0.01
Matches are distributed among these distances:
130 3 0.00
131 1032 0.85
132 8 0.01
133 174 0.14
134 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (131 bp):
TGCAACTTCAAGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG
ACTTGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCA
C
Found at i:47990058 original size:6 final size:6
Alignment explanation
Indices: 47990044--47990093 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
47990034 TGGCCTCTCC
* *
47990044 TTTTC- TTTTCT TTTTCT TTTTCT TTTTCT TCTTCT TCTTCT TTTT-T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
47990090 TTTT
1 TTTT
47990094 GGGGAAGGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 10 0.24
6 32 0.76
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:47992638 original size:19 final size:19
Alignment explanation
Indices: 47992614--47992661 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
47992604 GGGGAAATTT
47992614 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
* *
47992633 AATGCAAAGGATGCCATGC
1 AATGCAAATGATGCAATGC
47992652 AATGCAAATG
1 AATGCAAATG
47992662 CATGGGATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.19
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:47992675 original size:24 final size:24
Alignment explanation
Indices: 47992624--47992677 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
47992614 AATGCAAATG
*
47992624 ATGCAATGCAATGCAAAGGATGCC
1 ATGCAATGCAATGCAAAGGATGCA
**
47992648 ATGCAATGCAAATGCATGGGATG-A
1 ATGCAATGC-AATGCAAAGGATGCA
47992672 ATGCAA
1 ATGCAA
47992678 AGTAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.19
Consensus pattern (24 bp):
ATGCAATGCAATGCAAAGGATGCA
Found at i:47994367 original size:124 final size:129
Alignment explanation
Indices: 47994185--47994619 Score: 311
Period size: 132 Copynumber: 3.4 Consensus size: 129
47994175 ATTATTTAGT
* * *
47994185 CAAACGAGAAAATCGAAACCCAG--C-ATAGTGGCACGATTCCTCGAATTTCTAAACATCGAGCA
1 CAAACGAG-AAATCGCAACCCAGCACGATAG-GGCACGATTCCTCGAATTGCCAAACATCGAGCA
* *
47994247 TTGCCTT-ATTTT-AGA-ATTTAGAGAGT-AT-AAGTGAAATTCTAAAGGAATC-TTCGATTA-T
64 TTACCTTCATTTTAAGATATTTAGA-AGTCATGAA-AGAAATTCTAAAGGAA-CATTCGATTACT
47994305 TGAA
126 TGAA
* * * * *
47994309 CGAACGGGAAATCGCAACCCAGCACGATAGGGCACAATTCC-CGAATTGCCAAAGATCGAGTATT
1 CAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAGCATT
* *
47994373 ACCTTCATTTTAAAGATTTTTTAGAAGTCATGAAAGAAATTCTAAAGGGACATTCGATTACTTTG
66 ACCTTCATTTT-AAGA-TATTTAGAAGTCATGAAAGAAATTCTAAAGGAACATTCGATTAC-TTG
*
47994438 AG
128 AA
* * * * ** **
47994440 CAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATT-CTGTGAATTGTCAAGTATCGAATAT
1 CAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCT-CGAATTGCCAAACATCGAGCAT
** * * * * * * * * * *
47994504 CGCCTTCGTTTTAAAGGATTTTTAGAAGACATGAACGAAATTTTGAAGGGATATTCGATCATTTT
65 TACCTTCATTTT-AA-GATATTTAGAAGTCATGAAAGAAATTCTAAAGGAACATTCGATTA-CTT
*
47994569 GAG
127 GAA
* * * * *
47994572 CAAGCGGGAAATTGCAACCCAACAC-ATTAGGGCACGATTCCGCGAATT
1 CAAACGAGAAATCGCAACCCAGCACGA-TAGGGCACGATTCCTCGAATT
47994620 ACAAAATATC
Statistics
Matches: 253, Mismatches: 39, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
123 13 0.05
124 29 0.11
125 16 0.06
126 4 0.02
127 3 0.01
128 4 0.02
129 30 0.12
130 3 0.01
131 38 0.15
132 110 0.43
133 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (129 bp):
CAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAGCATT
ACCTTCATTTTAAGATATTTAGAAGTCATGAAAGAAATTCTAAAGGAACATTCGATTACTTGAA
Found at i:47994526 original size:132 final size:131
Alignment explanation
Indices: 47994279--47994659 Score: 405
Period size: 132 Copynumber: 2.9 Consensus size: 131
47994269 GAGTATAAGT
* * * * *
47994279 GAAATTCTAAAGGAATC-TTCGATTA-TTGAACGAACGGGAAATCGCAACCCAGCACGATAGGGC
1 GAAATTCTAAAGGGA-CATTCGATTATTTGAGCAAACGGGAAATTGCAACCCAGCACGTTAGGGC
* * * * ** * *
47994342 ACAATTCCCGAATTGCCAAAG-ATCGAGTATTACCTTCATTTTAAA-GATTTTTTAGAAGTCATG
65 ACGATTCGCGAATTGACAAAGTATCGAATATCGCCTTCGTTTTAAAGGA-TTTTTAGAAGACATG
47994405 AAA
129 AAA
*
47994408 GAAATTCTAAAGGGACATTCGATTACTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGC
1 GAAATTCTAAAGGGACATTCGATTA-TTTGAGCAAACGGGAAATTGCAACCCAGCACGTTAGGGC
* *
47994473 ACGATTCTGTGAATTGTC-AAGTATCGAATATCGCCTTCGTTTTAAAGGATTTTTAGAAGACATG
65 ACGATTC-GCGAATTGACAAAGTATCGAATATCGCCTTCGTTTTAAAGGATTTTTAGAAGACATG
*
47994537 AAC
129 AAA
* * * * * * *
47994540 GAAATTTTGAAGGGATATTCGATCATTTTGAGCAAGCGGGAAATTGCAACCCAACACATTAGGGC
1 GAAATTCTAAAGGGACATTCGATTA-TTTGAGCAAACGGGAAATTGCAACCCAGCACGTTAGGGC
* * * * *
47994605 ACGATTCCGCGAATT-ACAAAATATCAAATCTCGTCTTCGTTTTAAAGAATTTTTA
65 ACGATT-CGCGAATTGACAAAGTATCGAATATCGCCTTCGTTTTAAAGGATTTTTA
47994660 AATGAATAAT
Statistics
Matches: 212, Mismatches: 32, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
128 1 0.00
129 22 0.10
131 43 0.20
132 143 0.67
133 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (131 bp):
GAAATTCTAAAGGGACATTCGATTATTTGAGCAAACGGGAAATTGCAACCCAGCACGTTAGGGCA
CGATTCGCGAATTGACAAAGTATCGAATATCGCCTTCGTTTTAAAGGATTTTTAGAAGACATGAA
A
Found at i:47995319 original size:2 final size:2
Alignment explanation
Indices: 47995312--47995340 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47995302 AAATAATAAG
47995312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47995341 AATTTTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47997279 original size:15 final size:16
Alignment explanation
Indices: 47997254--47997286 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
47997244 TTATTATTTG
*
47997254 GTTTGTTTGTTTTTTT
1 GTTTGTTTGTTGTTTT
47997270 GTTT-TTTGTTGTTTT
1 GTTTGTTTGTTGTTTT
47997285 GT
1 GT
47997287 GTTTGTATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (16 bp):
GTTTGTTTGTTGTTTT
Found at i:48001107 original size:29 final size:29
Alignment explanation
Indices: 48001074--48001147 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
48001064 CCTTCGAGCT
48001074 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
48001103 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
48001132 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
48001148 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:48001108 original size:58 final size:58
Alignment explanation
Indices: 48001015--48001147 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
48001005 ATACTCGATT
* * * * *
48001015 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
48001073 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
48001131 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
48001148 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:48008805 original size:40 final size:40
Alignment explanation
Indices: 48008760--48008889 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
48008750 CGGAATACAA
48008760 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
48008800 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
48008840 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
48008880 CCGGATATAA
1 CCGGATATAA
48008890 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:48015512 original size:40 final size:40
Alignment explanation
Indices: 48015467--48015634 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
48015457 CGGAATATAA
48015467 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
48015507 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
48015547 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
48015587 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48015627 CCGGATAT
1 CCGGATAT
48015635 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48023513 original size:40 final size:40
Alignment explanation
Indices: 48023468--48023635 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
48023458 CGGAATATAA
48023468 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
48023508 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
48023548 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
48023588 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48023628 CCGGATAT
1 CCGGATAT
48023636 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48025755 original size:13 final size:13
Alignment explanation
Indices: 48025737--48025762 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48025727 ATTTTTATTT
48025737 TTAACATAAAATA
1 TTAACATAAAATA
48025750 TTAACATAAAATA
1 TTAACATAAAATA
48025763 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:48026833 original size:27 final size:27
Alignment explanation
Indices: 48026803--48027032 Score: 101
Period size: 27 Copynumber: 8.4 Consensus size: 27
48026793 GTAAATCTAC
48026803 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
48026830 AAACCAATGGTGTTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
48026856 AGAAAGTCAAGGATATTTCTA-TAATTTTGT
1 --AAA-CCAAGGGTATTTC-AGTAATTTTGT
* ** **
48026886 AAATC-AGGTGTATTTTGGTAATTTTAC
1 AAACCAAGG-GTATTTCAGTAATTTTGT
*** * ***
48026913 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTGT
** **
48026940 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTGT
* * **
48026967 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* * *
48026994 AAACTAAGGGTATTTTAGCAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
48027021 AAATCGAGGGTA
1 AAACCAAGGGTA
48027033 AAACTATAGT
Statistics
Matches: 165, Mismatches: 28, Indels: 20
0.77 0.13 0.09
Matches are distributed among these distances:
26 6 0.04
27 129 0.78
28 11 0.07
29 18 0.11
30 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:48026935 original size:54 final size:54
Alignment explanation
Indices: 48026877--48027032 Score: 156
Period size: 54 Copynumber: 2.9 Consensus size: 54
48026867 GATATTTCTA
48026877 TAATTTTGTAAATCAGGTGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
1 TAATTTTGTAAATCAGGTGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
*** * * *
48026931 TAATTTCACAAACCA-GTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGG
1 TAATTTTGTAAATCAGGT-GTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGG
* * * ** *
48026985 TAATTTTGTAAACTAAGG-GTATTTTAGCAATTTTGTAAATCGAGGGTA
1 TAATTTTGTAAA-TCAGGTGTATTTTGGTAATTTTACAAATTGAGGGTA
48027033 AAACTATAGT
Statistics
Matches: 80, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
53 3 0.04
54 74 0.93
55 2 0.03
56 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
TAATTTTGTAAATCAGGTGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
Found at i:48027070 original size:81 final size:81
Alignment explanation
Indices: 48026985--48027158 Score: 206
Period size: 81 Copynumber: 2.1 Consensus size: 81
48026975 GGTATTTTGG
* *** * * *
48026985 TAATTTTGTAAACTAAGGGTATTTTAGCAATTTTGTAAATCGAGGGTAAAACT-ATAGTTCTGTA
1 TAATTCTGTAAACTAAGGGTAAAATAGCAATTCTATAAATCGAGGGTAAAA-TGATAATTCTGTA
48027049 AATCGAGGGTAAAACGA
65 AATCGAGGGTAAAACGA
* * * * * * *
48027066 TAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATTGAGGGTATAATGGTAATTCTGTAA
1 TAATTCTGTAAACTAAGGGTAAAATAGCAATTCTATAAATCGAGGGTAAAATGATAATTCTGTAA
48027131 ATCGAGGGTAAAACGA
66 ATCGAGGGTAAAACGA
48027147 TAATTCTGTAAA
1 TAATTCTGTAAA
48027159 TCGAGGGTGC
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 77 0.99
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (81 bp):
TAATTCTGTAAACTAAGGGTAAAATAGCAATTCTATAAATCGAGGGTAAAATGATAATTCTGTAA
ATCGAGGGTAAAACGA
Found at i:48027175 original size:81 final size:81
Alignment explanation
Indices: 48027042--48027191 Score: 237
Period size: 81 Copynumber: 1.9 Consensus size: 81
48027032 AAAACTATAG
* *
48027042 TTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATT
1 TTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACAAATT
48027107 GAGGGTATAATGGTAA
66 GAGGGTATAATGGTAA
**** *
48027123 TTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTGCTTTGGTAATTTTACAAATT
1 TTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACAAATT
48027188 GAGG
66 GAGG
48027192 ACATTTTAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (81 bp):
TTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACAAATT
GAGGGTATAATGGTAA
Done.