Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 101 of 332
Found at i:32664323 original size:13 final size:14
Alignment explanation
Indices: 32664297--32664329 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
32664287 ATAAAATATA
32664297 AATTTATATTTAAT
1 AATTTATATTTAAT
32664311 AATTTAT-TTTAAT
1 AATTTATATTTAAT
32664324 ATATTT
1 A-ATTT
32664330 CATTAATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTATATTTAAT
Found at i:32666972 original size:20 final size:20
Alignment explanation
Indices: 32666947--32666986 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
32666937 AATGGTGGTT
32666947 CGCTGAATTGAAAGCTAGAC
1 CGCTGAATTGAAAGCTAGAC
*
32666967 CGCTGAGTTGAAAGCTAGAC
1 CGCTGAATTGAAAGCTAGAC
32666987 TGATGTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (20 bp):
CGCTGAATTGAAAGCTAGAC
Found at i:32668201 original size:38 final size:38
Alignment explanation
Indices: 32668146--32668221 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
32668136 ATTTGTCGTT
32668146 AGAGTTAGAAAAAATTCACAATGTATTTCACGTATCTA
1 AGAGTTAGAAAAAATTCACAATGTATTTCACGTATCTA
*
32668184 AGAGTTAGAAAAGATTCACAATGTATTTCACGTATCTA
1 AGAGTTAGAAAAAATTCACAATGTATTTCACGTATCTA
32668222 TGTTATGACG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (38 bp):
AGAGTTAGAAAAAATTCACAATGTATTTCACGTATCTA
Found at i:32670652 original size:47 final size:47
Alignment explanation
Indices: 32670596--32670801 Score: 202
Period size: 47 Copynumber: 4.6 Consensus size: 47
32670586 ATGTACAACA
32670596 GTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAAC
1 GTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATGTAAC
* * *
32670642 AGTGGAATATCCACTTAGCACCACATTACATG--T---T-TA---ATC
1 -GTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATGTAAC
* *
32670681 GTGGTATATCCACTTAGCACCACGTTA-GTGAATCAATATATGTAAC
1 GTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATGTAAC
* * * *
32670727 TGTGGCATATCCACTTAGCACCACATTACATGTATCAATTTGTGTAATC
1 -GTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATGTAA-C
* *
32670776 GT-GTATATCCACTTCGCACCACGTTA
1 GTGGCATATCCACTTAGCACCACGTTA
32670802 TACGTATAAC
Statistics
Matches: 130, Mismatches: 16, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
37 2 0.02
38 25 0.19
39 3 0.02
42 3 0.02
43 3 0.02
46 3 0.02
47 71 0.55
48 19 0.15
49 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (47 bp):
GTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATGTAAC
Found at i:32670737 original size:85 final size:85
Alignment explanation
Indices: 32670596--32670759 Score: 292
Period size: 85 Copynumber: 1.9 Consensus size: 85
32670586 ATGTACAACA
32670596 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACAGTGGAATATCCACTTAGC
1 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACAGTGGAATATCCACTTAGC
32670661 ACCACATTACATGTTTAATC
66 ACCACATTACATGTTTAATC
* * * *
32670681 GTGGTATATCCACTTAGCACCACGTTAGTGAATCAATATATGTAACTGTGGCATATCCACTTAGC
1 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACAGTGGAATATCCACTTAGC
32670746 ACCACATTACATGT
66 ACCACATTACATGT
32670760 ATCAATTTGT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 75 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (85 bp):
GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACAGTGGAATATCCACTTAGC
ACCACATTACATGTTTAATC
Found at i:32670838 original size:132 final size:132
Alignment explanation
Indices: 32670596--32670838 Score: 337
Period size: 132 Copynumber: 1.8 Consensus size: 132
32670586 ATGTACAACA
*
32670596 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACAGTGGAATATCCACTTAGC
1 GTGGCATATCCACTTAGCACCACATTAATGAATCAATATATGTAACAGTGGAATATCCACTTAGC
* * * * *
32670661 ACCACATTACATGTTTAATCGTGGTATATCCACTTAGCACCACGTTAGTGAATCAATATATGTAA
66 ACCACATTACACGTATAACCATGGTATATCCACTTAGCACAACGTTAGTGAATCAATATATGTAA
32670726 CT
131 CT
* * * * *
32670728 GTGGCATATCCACTTAGCACCACATTACATGTATCAATTTGTGTAATC-GT-GTATATCCACTTC
1 GTGGCATATCCACTTAGCACCACATTA-ATGAATCAATATATGTAA-CAGTGGAATATCCACTTA
* *
32670791 GCACCACGTTATACGTATAACCATGGTATATCCACTTAGCACAACGTT
64 GCACCACATTACACGTATAACCATGGTATATCCACTTAGCACAACGTT
32670839 TTTCCATTCC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
132 78 0.81
133 17 0.18
134 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (132 bp):
GTGGCATATCCACTTAGCACCACATTAATGAATCAATATATGTAACAGTGGAATATCCACTTAGC
ACCACATTACACGTATAACCATGGTATATCCACTTAGCACAACGTTAGTGAATCAATATATGTAA
CT
Found at i:32673615 original size:24 final size:25
Alignment explanation
Indices: 32673574--32673630 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
32673564 CCTGTTAAAT
**
32673574 TGGCTCTTTGTGTGCTT-CTCGA-TA
1 TGGCTCTTTGTGAACTTCCT-GATTA
*
32673598 TGGCTCTTTTTGAACTTCCTGATTA
1 TGGCTCTTTGTGAACTTCCTGATTA
32673623 TGGCTCTT
1 TGGCTCTT
32673631 ATGAGCTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (25 bp):
TGGCTCTTTGTGAACTTCCTGATTA
Found at i:32686402 original size:12 final size:12
Alignment explanation
Indices: 32686385--32686410 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32686375 TATTTTAGTG
32686385 TTTACAGTATGA
1 TTTACAGTATGA
32686397 TTTACAGTATGA
1 TTTACAGTATGA
32686409 TT
1 TT
32686411 AAATTTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTACAGTATGA
Found at i:32702295 original size:19 final size:19
Alignment explanation
Indices: 32702271--32702329 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
32702261 CCTTAATCAT
32702271 TTAATTTAACATGATTCAA
1 TTAATTTAACATGATTCAA
* *
32702290 TTAA-TTCAC-T-A--AAA
1 TTAATTTAACATGATTCAA
32702304 TTTAATTTAACATGATTCAA
1 -TTAATTTAACATGATTCAA
32702324 TTAATT
1 TTAATT
32702330 CACTAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
14 2 0.07
15 4 0.13
16 5 0.17
17 2 0.07
18 5 0.17
19 10 0.33
20 2 0.07
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.44
Consensus pattern (19 bp):
TTAATTTAACATGATTCAA
Found at i:32702307 original size:34 final size:33
Alignment explanation
Indices: 32702269--32702341 Score: 137
Period size: 34 Copynumber: 2.2 Consensus size: 33
32702259 CACCTTAATC
32702269 ATTTAATTTAACATGATTCAATTAATTCACTAAA
1 ATTTAATTTAACATGATTCAATTAATTCACT-AA
32702303 ATTTAATTTAACATGATTCAATTAATTCACTAA
1 ATTTAATTTAACATGATTCAATTAATTCACTAA
32702336 ATTTAA
1 ATTTAA
32702342 CTTTCAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
33 8 0.21
34 31 0.79
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (33 bp):
ATTTAATTTAACATGATTCAATTAATTCACTAA
Found at i:32707464 original size:19 final size:20
Alignment explanation
Indices: 32707440--32707477 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
32707430 GGTACCACCA
32707440 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
32707459 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
32707478 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:32707811 original size:93 final size:93
Alignment explanation
Indices: 32707705--32707875 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
32707695 CGCCCTAAGT
* *
32707705 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
32707770 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
32707798 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
32707863 CGAGTTCGGATGC
66 CGAGTTCGGATGC
32707876 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:32707872 original size:46 final size:46
Alignment explanation
Indices: 32707700--32707872 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
32707690 TAACCCGCCC
* * * * *
32707700 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
32707746 TAAATGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
32707794 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
32707839 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
32707873 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:32715335 original size:46 final size:47
Alignment explanation
Indices: 32715215--32715338 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
32715205 TAACCCGCCC
*
32715215 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTCACAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GCATAGTCACAT
* * * *
32715263 CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CAT-TTGA-AT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATAGTCACAT
32715306 CAATAAGTGAACTCGGACTCAACTCAACGAGTT
1 C--TAAGTGAACTCGGACTCAACTCAACGAGTT
32715339 GGATGCTCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.05
44 2 0.03
45 4 0.06
46 25 0.38
47 29 0.44
48 3 0.05
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (47 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATAGTCACAT
Found at i:32715791 original size:29 final size:29
Alignment explanation
Indices: 32715758--32715813 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
32715748 TTTTAATACG
32715758 AACTTTAAAAAAATTACACTTTTGCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCTA
*** *
32715787 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTAAAAAAATTACACTTTTGCCC
32715814 CTAGCTCGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (29 bp):
AACTTTAAAAAAATTACACTTTTGCCCTA
Found at i:32736045 original size:41 final size:40
Alignment explanation
Indices: 32735981--32736059 Score: 108
Period size: 39 Copynumber: 1.9 Consensus size: 40
32735971 CCAAGGGCAT
*
32735981 TTGTGCGGAGTTACTTAATCCGGGGTTAAGTCCGAAGGCAAG
1 TTGTGCGGAGTTACTTAATCC-GGGCT-AGTCCGAAGGCAAG
32736023 TTGTGC-GAGTTACTATAA-CCGGGCTAGTCCGAAGGCA
1 TTGTGCGGAGTTACT-TAATCCGGGCTAGTCCGAAGGCA
32736060 TATTGACACG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
39 12 0.34
40 4 0.11
41 10 0.29
42 9 0.26
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (40 bp):
TTGTGCGGAGTTACTTAATCCGGGCTAGTCCGAAGGCAAG
Found at i:32742463 original size:42 final size:41
Alignment explanation
Indices: 32742357--32742492 Score: 136
Period size: 41 Copynumber: 3.3 Consensus size: 41
32742347 CTTACTCGTT
* * *
32742357 CAAATTGCCTTCGGACATAGCCCGG-TTATAGTAAACTCGCA
1 CAAA-TGCCTTCGGGCTTAGCCCGGATTTTAGTAAACTCGCA
* *
32742398 C-ATTGCCTTCGGGACTTAACCCGGATTTTAGTAAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATTTTAGTAAACTCGCA
* *
32742439 CAAATGCCTTGCGGGCTTAGCCCGGA-ATTAGT-ATCTCGCA
1 CAAATGCCTT-CGGGCTTAGCCCGGATTTTAGTAAACTCGCA
*
32742479 CCAATTGCCTTCGG
1 -CAAATGCCTTCGG
32742493 ATATTCTTAG
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
39 9 0.11
40 19 0.24
41 31 0.39
42 17 0.21
43 4 0.05
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTTAGTAAACTCGCA
Found at i:32751290 original size:27 final size:27
Alignment explanation
Indices: 32751260--32751437 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32751250 ATATTGAGTC
* * * *
32751260 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
32751287 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32751314 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
32751342 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32751369 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
32751396 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32751423 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32751438 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:32751399 original size:82 final size:81
Alignment explanation
Indices: 32751281--32751436 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32751271 TGCTATATAA
* *
32751281 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32751346 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32751363 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32751427 CACTTAGTGC
65 CACTTAGTGC
32751437 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32756637 original size:21 final size:21
Alignment explanation
Indices: 32756611--32756651 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32756601 AATTTTGAAA
*
32756611 GAAAGGCCTGAAGGGCATTTT
1 GAAAGGCCTGAAAGGCATTTT
*
32756632 GAAAGGCCTTAAAGGCATTT
1 GAAAGGCCTGAAAGGCATTT
32756652 GGGTCATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (21 bp):
GAAAGGCCTGAAAGGCATTTT
Found at i:32758002 original size:42 final size:42
Alignment explanation
Indices: 32757955--32758046 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
32757945 TGGCCCTTAG
* ** * *
32757955 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGAAA
32757997 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGAAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGAAA
32758039 GCCCATTT
1 GCCCATTT
32758047 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGAAA
Found at i:32759083 original size:27 final size:27
Alignment explanation
Indices: 32759019--32759075 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
32759009 GGGCATATTC
32759019 GTCACTTTACCATACAGGGGTATTACG
1 GTCACTTTACCATACAGGGGTATTACG
*
32759046 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCACTTTACCATACAGGGG-TATTACG
32759073 GTC
1 GTC
32759076 TTTTTACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGTATTACG
Found at i:32759167 original size:27 final size:27
Alignment explanation
Indices: 32759137--32759188 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
32759127 GTAAATCTAC
32759137 AAACCAATGGTATTT-CAGTAATTTTGT
1 AAACCAATGGTATTTCCA-TAATTTTGT
32759164 AAACCAATGGTATTTCCATAATTTT
1 AAACCAATGGTATTTCCATAATTTT
32759189 TAGAAAGTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAATGGTATTTCCATAATTTTGT
Found at i:32759304 original size:27 final size:27
Alignment explanation
Indices: 32759227--32759307 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
32759217 TGTAAATCAG
* *
32759227 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACTAA
* * *
32759254 GGGTATTTCGGTAATTTCAAAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
*
32759281 TGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
32759308 ACGAAGATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAA
Found at i:32760869 original size:40 final size:40
Alignment explanation
Indices: 32760824--32761055 Score: 288
Period size: 40 Copynumber: 5.8 Consensus size: 40
32760814 ATAACCACAA
* * *
32760824 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
32760864 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
32760904 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * *
32760944 GCACAATTGCCTTCGAGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
32760984 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
32761024 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
32761056 CATTCAAATG
Statistics
Matches: 166, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
39 4 0.02
40 155 0.93
41 7 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:32760908 original size:80 final size:80
Alignment explanation
Indices: 32760824--32761055 Score: 331
Period size: 80 Copynumber: 2.9 Consensus size: 80
32760814 ATAACCACAA
* * * * * *
32760824 GCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
*
32760888 CCGGATATATCAACTC
65 CCGGATATAGCAACTC
* * *
32760904 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGAGTCTTAACC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
*
32760969 CGGGTATAGCAACTC
66 CGGATATAGCAACTC
* *
32760984 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
32761049 CGGATAT
66 CGGATAT
32761056 CATTCAAATG
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 131 0.98
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
CGGATATAGCAACTC
Found at i:32761032 original size:120 final size:120
Alignment explanation
Indices: 32760795--32761054 Score: 407
Period size: 120 Copynumber: 2.2 Consensus size: 120
32760785 ACCCAAGTTT
* * * *
32760795 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGAGTCTTAACCCGGGTATAGC
* *
32760859 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
* * *
32760914 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGAGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGAGTCTTAACCCGGGTATAGC
*
32760979 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCATAAATGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AAATCAACTAGCACAAATGC
32761034 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
32761055 TCATTCAAAT
Statistics
Matches: 128, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
119 10 0.08
120 114 0.89
121 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGAGTCTTAACCCGGGTATAGC
AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
Found at i:32764272 original size:16 final size:17
Alignment explanation
Indices: 32764247--32764280 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32764237 TTCGTTTACA
*
32764247 TAATTTATTC-ACTATT
1 TAATTCATTCTACTATT
32764263 TAATTCATTCTACTATT
1 TAATTCATTCTACTATT
32764280 T
1 T
32764281 TTAGTGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTCATTCTACTATT
Found at i:32765102 original size:40 final size:40
Alignment explanation
Indices: 32765065--32765196 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 40
32765055 GCTACTCGTT
* *
32765065 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* *
32765105 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
32765145 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
32765184 CAAATGCCTTCGG
1 CAAATGCCTTCGG
32765197 ATCTTAGTCC
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.42
40 46 0.55
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:32765182 original size:79 final size:82
Alignment explanation
Indices: 32765065--32765249 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
32765055 GCTACTCGTT
* * * *
32765065 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
32765128 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
32765145 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
32765208 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
32765225 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32765250 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:32774399 original size:29 final size:29
Alignment explanation
Indices: 32774339--32774423 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 29
32774329 ACATACATGT
* *
32774339 ATATGGCCCAGTAGGCCC-AATCTCATTC
1 ATATGGCCCATTAGGCCCGAATCACATTC
32774367 ATATGGCCCATTAGGCCCGAATCACATTC
1 ATATGGCCCATTAGGCCCGAATCACATTC
*
32774396 ATATGGCCCATTCGGCCCGAATCA-ATTC
1 ATATGGCCCATTAGGCCCGAATCACATTC
32774424 CAAGCCATGT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
28 21 0.40
29 32 0.60
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCGAATCACATTC
Found at i:32778330 original size:26 final size:26
Alignment explanation
Indices: 32778301--32778358 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
32778291 AGTGTGTTTG
* *
32778301 GTGAGCCGGTGTTTGCCATGT-AAGTT
1 GTGAACCGGGGTTTGCCA-GTCAAGTT
* *
32778327 GTGAACTGGGGTTTGCTAGTCAAGTT
1 GTGAACCGGGGTTTGCCAGTCAAGTT
32778353 GTGAAC
1 GTGAAC
32778359 TAGGTTCGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.19, C:0.14, G:0.34, T:0.33
Consensus pattern (26 bp):
GTGAACCGGGGTTTGCCAGTCAAGTT
Found at i:32778370 original size:25 final size:26
Alignment explanation
Indices: 32778322--32778374 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
32778312 TTTGCCATGT
* *
32778322 AAGTTGTGAACTGGGGTTTGCTAGTC
1 AAGTTGTGAACTGAGGTTCGCTAGTC
32778348 AAGTTGTGAACT-AGGTTCGCTAGTC
1 AAGTTGTGAACTGAGGTTCGCTAGTC
32778373 AA
1 AA
32778375 AGATATAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (26 bp):
AAGTTGTGAACTGAGGTTCGCTAGTC
Found at i:32779182 original size:14 final size:14
Alignment explanation
Indices: 32779163--32779217 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
32779153 ATGGTAAGAG
32779163 TGGTATGAACGAAA
1 TGGTATGAACGAAA
*
32779177 TGGTATGAATGAAA
1 TGGTATGAACGAAA
*
32779191 TGGTATGAACGAAG
1 TGGTATGAACGAAA
*
32779205 GGGTATGAACGAA
1 TGGTATGAACGAA
32779218 TTAGTCGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.22
Consensus pattern (14 bp):
TGGTATGAACGAAA
Found at i:32782041 original size:46 final size:46
Alignment explanation
Indices: 32781936--32782147 Score: 182
Period size: 46 Copynumber: 4.5 Consensus size: 46
32781926 AGCTGACGCT
* * * *
32781936 ATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCATGC
1 ATGTCCCAGACATGTCTTACACTAGC-TCTATATCTCAAGGCCATAC
* * *
32781983 ATGTCCCAGACATGTCTTACACTAGCTCT-TGTCTCAATGCTGATAC
1 ATGTCCCAGACATGTCTTACACTAGCTCTATATCTCAAGGC-CATAC
* * *
32782029 ATGTCCCAGACATGTCTTACACTAGCTAGTATAGCTCGAGGCCGATGA-
1 ATGTCCCAGACATGTCTTACACTAGCT-CTATATCTCAAGGCC-AT-AC
* * * **
32782077 ATGTCCCAGACATGTCTTACATTGGCTCTCAATATGT---GGCCGATGT
1 ATGTCCCAGACATGTCTTACACTAGCTCT--ATATCTCAAGGCC-ATAC
32782123 ATGTCCCAGACATGTCTTACACTAG
1 ATGTCCCAGACATGTCTTACACTAG
32782148 TACACATATC
Statistics
Matches: 136, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
45 8 0.06
46 62 0.46
47 27 0.20
48 34 0.25
49 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCTCTATATCTCAAGGCCATAC
Found at i:32782133 original size:94 final size:92
Alignment explanation
Indices: 32781935--32782147 Score: 266
Period size: 94 Copynumber: 2.3 Consensus size: 92
32781925 AAGCTGACGC
* * * *
32781935 TATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCATGCATGTCCCAGACATGTCT
1 TATGTCCCAGACATGTCTTACACTAGCTAGTATAGCTCGAGGCCATGAATGTCCCAGACATGTCT
** * *
32782000 TACACTAGCTCTTGTCTCAATGCTGATA
66 TACACTAGCTCTAATAT-AATGCCGATA
*
32782028 CATGTCCCAGACATGTCTTACACTAGCTAGTATAGCTCGAGGCCGATGAATGTCCCAGACATGTC
1 TATGTCCCAGACATGTCTTACACTAGCTAGTATAGCTCGAGGCC-ATGAATGTCCCAGACATGTC
* * * *
32782093 TTACATTGGCTCTCAATAT-GTGGCCGATG
65 TTACACTAGCTCT-AATATAAT-GCCGATA
32782122 TATGTCCCAGACATGTCTTACACTAG
1 TATGTCCCAGACATGTCTTACACTAG
32782148 TACACATATC
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
93 41 0.40
94 60 0.58
95 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (92 bp):
TATGTCCCAGACATGTCTTACACTAGCTAGTATAGCTCGAGGCCATGAATGTCCCAGACATGTCT
TACACTAGCTCTAATATAATGCCGATA
Found at i:32783969 original size:46 final size:46
Alignment explanation
Indices: 32783887--32783979 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
32783877 ATAGTTTTAC
* *
32783887 AAGTTGTGTATCAGCCAAGCTCCCTACGCGAGCTCTCTAG-GATAAG
1 AAGTTGTGTATCAACCAAGCTCCCTACGCGAACTCTCT-GTGATAAG
* *
32783933 AAGTTGTGTATCAACCAAGCTCCCTATGTGAACTCTCTGTGATAAG
1 AAGTTGTGTATCAACCAAGCTCCCTACGCGAACTCTCTGTGATAAG
32783979 A
1 A
32783980 TTTTATTCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 1 0.02
46 41 0.98
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (46 bp):
AAGTTGTGTATCAACCAAGCTCCCTACGCGAACTCTCTGTGATAAG
Found at i:32785459 original size:40 final size:39
Alignment explanation
Indices: 32785422--32785553 Score: 219
Period size: 40 Copynumber: 3.3 Consensus size: 39
32785412 GCTACTCGTT
* *
32785422 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
32785462 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
*
32785502 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
32785541 CAAATGCCTTCGG
1 CAAATGCCTTCGG
32785554 ATCTTACCGG
Statistics
Matches: 88, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
39 26 0.30
40 60 0.68
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:32793373 original size:40 final size:40
Alignment explanation
Indices: 32793336--32793559 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
32793326 GCTACTCGTT
* *
32793336 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
32793376 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
32793416 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
32793456 CAAATGCCTTC-GGATCTT-ATCCGGA-TTAGTAAATCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
32793494 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
32793535 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
32793560 CATCATTCAA
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 29 0.18
39 15 0.09
40 109 0.66
41 12 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:32802902 original size:26 final size:26
Alignment explanation
Indices: 32802866--32802918 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
32802856 CTTTTGCTAT
32802866 TAGTAAGTGGAATGTTAGAGGTTAGG
1 TAGTAAGTGGAATGTTAGAGGTTAGG
32802892 TAGTAAGTGGAATGTTAGAGGTTAGG
1 TAGTAAGTGGAATGTTAGAGGTTAGG
32802918 T
1 T
32802919 TAGGAGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.38, T:0.32
Consensus pattern (26 bp):
TAGTAAGTGGAATGTTAGAGGTTAGG
Found at i:32807032 original size:15 final size:15
Alignment explanation
Indices: 32806999--32807032 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
32806989 TAATTAAAAG
*
32806999 AATAATAATGAGAAT
1 AATAATAATGAGAAC
*
32807014 AATAATAATGATAAC
1 AATAATAATGAGAAC
32807029 AATA
1 AATA
32807033 TCTCAAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (15 bp):
AATAATAATGAGAAC
Found at i:32807369 original size:16 final size:16
Alignment explanation
Indices: 32807348--32807378 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32807338 TTATTAAAAT
*
32807348 TAATTAATTAATTTTA
1 TAATTAAATAATTTTA
32807364 TAATTAAATAATTTT
1 TAATTAAATAATTTT
32807379 CTAAACCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATTAAATAATTTTA
Found at i:32812233 original size:96 final size:96
Alignment explanation
Indices: 32812063--32812240 Score: 245
Period size: 96 Copynumber: 1.9 Consensus size: 96
32812053 TTATTTTTGC
* *
32812063 TCCTTTTTGCTCTATTGGTTTCGGCTTTTCCTTTGCTCGAACTAAGCTTCTTGGGCTCATTGTCT
1 TCCTCTTTGCTCTATTGGTTTCGGCTTTTCCTTTACTCGAACTAAGCTTCTTGGGCTCATTGTCT
*
32812128 GTTCCATCGTTCCCTTCGATGACAGACTTGT
66 GCTCCATCGTTCCCTTCGATGACAGACTTGT
*
32812159 TCCTCTTTGCTCTCTTGGTTTCGGCTTTTTCC-TTACTCGAA-TCAAGCTTCTTGGGCCTC-TTG
1 TCCTCTTTGCTCTATTGGTTTCGGC-TTTTCCTTTACTCGAACT-AAGCTTCTTGGG-CTCATTG
* * *
32812221 TTTGCTCTATCGTTCTCTTC
63 TCTGCTCCATCGTTCCCTTC
32812241 AATAAAAGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
95 1 0.01
96 62 0.86
97 9 0.12
ACGTcount: A:0.10, C:0.28, G:0.17, T:0.46
Consensus pattern (96 bp):
TCCTCTTTGCTCTATTGGTTTCGGCTTTTCCTTTACTCGAACTAAGCTTCTTGGGCTCATTGTCT
GCTCCATCGTTCCCTTCGATGACAGACTTGT
Found at i:32832241 original size:24 final size:22
Alignment explanation
Indices: 32832184--32832243 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 22
32832174 TTAGATTAAT
* *
32832184 TTATATTTTAGATATTATTATA
1 TTATATTTTAAATATCATTATA
*
32832206 TTAAATTATTTAAATATCATTTATTA
1 TTATA-T-TTTAAATATCA-TTA-TA
32832232 TTATATTTTAAA
1 TTATATTTTAAA
32832244 ATTTTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
22 4 0.13
23 1 0.03
24 15 0.50
25 4 0.13
26 6 0.20
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATATTTTAAATATCATTATA
Found at i:32832660 original size:20 final size:20
Alignment explanation
Indices: 32832618--32832670 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
32832608 TTCAATTGCT
* * *
32832618 TTTTTAGTCGGTTCAATCGA
1 TTTTTAGTTGGTTCAACCAA
*
32832638 TTTTTAGTTGGTTTAACCAA
1 TTTTTAGTTGGTTCAACCAA
*
32832658 TTTGTA-TTGGTTC
1 TTTTTAGTTGGTTC
32832671 TCAATTCAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.51
Consensus pattern (20 bp):
TTTTTAGTTGGTTCAACCAA
Found at i:32833755 original size:50 final size:52
Alignment explanation
Indices: 32833694--32833792 Score: 148
Period size: 50 Copynumber: 1.9 Consensus size: 52
32833684 TTAATAAAAT
* ** *
32833694 CATGCATTATGTAACTCTTGTGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGAATTATGTAACTCTCATGTTAGTTAAAATTTGCATCATTAAATTATGA
32833744 CATGAATTATGTAACTCTCATGTTAGTTAAAATTTGCATCATTAAATTA
1 CATGAATTATGTAACTCTCATGTTAGTTAAAATTTGCATCATTAAATTA
32833793 ATTCATGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 25 0.58
51 11 0.26
52 7 0.16
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (52 bp):
CATGAATTATGTAACTCTCATGTTAGTTAAAATTTGCATCATTAAATTATGA
Found at i:32833811 original size:52 final size:50
Alignment explanation
Indices: 32833693--32833812 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
32833683 TTTAATAAAA
** *
32833693 TCATGCATTATGTAACTCTTGTGTTAGTTAAGTTTGCATCATAAATTATG
1 TCATGCATTATGTAACTCTCATGTTAGTTAAATTTGCATCATAAATTATG
* *
32833743 ACATGAATTATGTAACTCTCATGTTAGTTAAAATTTGCATCATTAAATTAAT-
1 TCATGCATTATGTAACTCTCATGTTAGTT-AAATTTGCATCA-TAAATT-ATG
32833795 TCATGCATTGA-GTAACTC
1 TCATGCATT-ATGTAACTC
32833813 ATTTGTTCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 25 0.42
51 11 0.19
52 20 0.34
53 3 0.05
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (50 bp):
TCATGCATTATGTAACTCTCATGTTAGTTAAATTTGCATCATAAATTATG
Found at i:32839083 original size:14 final size:14
Alignment explanation
Indices: 32839052--32839100 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 14
32839042 TATTATACAC
*
32839052 ATATACAAATACA-
1 ATATACAAATATAT
32839065 A-ATACAAATATAT
1 ATATACAAATATAT
32839078 ATATACACACATATAT
1 ATATACA-A-ATATAT
32839094 ATATACA
1 ATATACA
32839101 TCTATGCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 10 0.32
13 2 0.06
14 5 0.16
15 1 0.03
16 13 0.42
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
ATATACAAATATAT
Found at i:32840303 original size:10 final size:10
Alignment explanation
Indices: 32840288--32840333 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
32840278 TAATTTTAGG
32840288 ATTTAT-TTT
1 ATTTATCTTT
32840297 CATTTATCTTT
1 -ATTTATCTTT
*
32840308 AATTATCTTT
1 ATTTATCTTT
32840318 ATTTAT-TTGT
1 ATTTATCTT-T
32840328 ATTTAT
1 ATTTAT
32840334 ATTTTAGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:32841072 original size:17 final size:18
Alignment explanation
Indices: 32841040--32841073 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32841030 TATTCTTCAT
32841040 TTTAATTTCTGTAATTTA
1 TTTAATTTCTGTAATTTA
32841058 TTTAATTTC-GTAATTT
1 TTTAATTTCTGTAATTT
32841074 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTAATTTCTGTAATTTA
Found at i:32848200 original size:5 final size:5
Alignment explanation
Indices: 32848190--32848226 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
32848180 GTAGATGAAG
*
32848190 AGAAA AGAAA AGGAA AGAAA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
32848227 AACTGGATCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:32848208 original size:15 final size:16
Alignment explanation
Indices: 32848163--32848226 Score: 60
Period size: 15 Copynumber: 4.0 Consensus size: 16
32848153 AGCTATGGGG
*
32848163 GAAAAGAAGAAGGGAAA
1 GAAAAGAAGAA-GAAAA
* *
32848180 GTAGATGAAG-AGAAAA
1 G-AAAAGAAGAAGAAAA
*
32848196 GAAAAGGA-AAGAAAA
1 GAAAAGAAGAAGAAAA
32848211 GAAAAGAAGAAGAAAA
1 GAAAAGAAGAAGAAAA
32848227 AACTGGATCC
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
15 17 0.46
16 12 0.32
17 2 0.05
18 6 0.16
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (16 bp):
GAAAAGAAGAAGAAAA
Found at i:32850469 original size:8 final size:7
Alignment explanation
Indices: 32850452--32850527 Score: 57
Period size: 7 Copynumber: 10.4 Consensus size: 7
32850442 GGCAACCCAA
*
32850452 TTTTAAT
1 TTTTTAT
32850459 TTTTTAT
1 TTTTTAT
32850466 TTTTTA-
1 TTTTTAT
*
32850472 TTTTCAT
1 TTTTTAT
32850479 TTTCATTAT
1 TTT--TTAT
32850488 TTTATT-T
1 TTT-TTAT
32850495 TATTTTAT
1 T-TTTTAT
*
32850503 TTATTAT
1 TTTTTAT
32850510 TTATTTAT
1 TT-TTTAT
*
32850518 TTGTTAT
1 TTTTTAT
32850525 TTT
1 TTT
32850528 ATTAATAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
6 5 0.09
7 32 0.57
8 13 0.23
9 6 0.11
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (7 bp):
TTTTTAT
Found at i:32850500 original size:25 final size:21
Alignment explanation
Indices: 32850452--32850519 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 21
32850442 GGCAACCCAA
* *
32850452 TTTTAATTT-TTTATTTTTTA
1 TTTTATTTTATTTATTATTTA
32850472 TTTTCATTTTCA-TTA-T-TTTA
1 TTTT-ATTTT-ATTTATTATTTA
32850492 TTTTATTTTATTTATTATTTA
1 TTTTATTTTATTTATTATTTA
32850513 -TTTATTT
1 TTTTATTT
32850520 GTTATTTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
18 1 0.02
19 8 0.20
20 20 0.49
21 9 0.22
22 3 0.07
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTATTTTATTTATTATTTA
Found at i:32852527 original size:40 final size:40
Alignment explanation
Indices: 32852437--32852621 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
32852427 TCGAATGATG
* *
32852437 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
32852476 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * * *
32852517 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAATCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
32852556 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
32852595 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
32852622 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:32852580 original size:79 final size:81
Alignment explanation
Indices: 32852437--32852619 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
32852427 TCGAATGATG
* * * *
32852437 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
32852501 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* **
32852516 TTCCGAGCTAAG-CCCGAAGGCATTGGTGCGAA-TCACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCA
32852578 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
32852596 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
32852620 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:32852643 original size:79 final size:79
Alignment explanation
Indices: 32852438--32852644 Score: 219
Period size: 79 Copynumber: 2.6 Consensus size: 79
32852428 CGAATGATGT
* *
32852438 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
*
32852501 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* * * *
32852518 CCGAGCTAAG-CCCGAAGGCATTGGTGCGAATCA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-AGCTATATCC-GGTTAAGAT-CCGAAGGCATT
32852580 TGTGCGAGTTACT-ATAA
63 TGTGCGAGTTACTAAT-A
* **
32852597 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAA
32852645 ATTCTGAAGG
Statistics
Matches: 105, Mismatches: 14, Indels: 17
0.77 0.10 0.12
Matches are distributed among these distances:
78 3 0.03
79 61 0.58
80 41 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:32857389 original size:50 final size:49
Alignment explanation
Indices: 32857269--32857498 Score: 232
Period size: 50 Copynumber: 4.6 Consensus size: 49
32857259 CTGATACGCA
* * * **
32857269 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTC-ACCATCTAGTACACG
*
32857318 TAGTAGCCTGCACTTAGTACTACACACGTGATCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTCACCATCTAGTACACG
* * * * *
32857368 TAGTAGCCTGCACTTACTACTACACACGTTA-TCA-AAGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCACCA-TC--T-AGTACACG
* * * * *
32857419 TAGTAGCCTGCACTTAGTACTACACATGTGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCACCA-TCTAGTACACG
32857469 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
32857499 TATTCACAAT
Statistics
Matches: 151, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 5 0.03
49 29 0.19
50 76 0.50
51 35 0.23
52 2 0.01
53 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTCACCATCTAGTACACG
Found at i:32863687 original size:69 final size:69
Alignment explanation
Indices: 32863576--32863716 Score: 282
Period size: 69 Copynumber: 2.0 Consensus size: 69
32863566 AGAAAAGAAG
32863576 GTAAGCATATAGCTTAGTAAGTAAGTACGAAATTGATATTCAATTTATCAAAGTAAATCAATCAT
1 GTAAGCATATAGCTTAGTAAGTAAGTACGAAATTGATATTCAATTTATCAAAGTAAATCAATCAT
32863641 ACTA
66 ACTA
32863645 GTAAGCATATAGCTTAGTAAGTAAGTACGAAATTGATATTCAATTTATCAAAGTAAATCAATCAT
1 GTAAGCATATAGCTTAGTAAGTAAGTACGAAATTGATATTCAATTTATCAAAGTAAATCAATCAT
32863710 ACTA
66 ACTA
32863714 GTA
1 GTA
32863717 TATAATCACA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.32
Consensus pattern (69 bp):
GTAAGCATATAGCTTAGTAAGTAAGTACGAAATTGATATTCAATTTATCAAAGTAAATCAATCAT
ACTA
Found at i:32864593 original size:49 final size:49
Alignment explanation
Indices: 32864521--32864647 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 49
32864511 CTGATACGCA
* *
32864521 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAACC-CAG-TACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AC-ACCACAGATACACG
* * *
32864570 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCACACCA-CAGATACACG
*
32864620 TAGTAGCCTGCACTTACTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
32864648 TTATCGAAGT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
47 3 0.04
48 1 0.01
49 33 0.48
50 32 0.46
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCACACCACAGATACACG
Found at i:32864750 original size:50 final size:50
Alignment explanation
Indices: 32864521--32864750 Score: 216
Period size: 50 Copynumber: 4.6 Consensus size: 50
32864511 CTGATACGCA
* ***** *
32864521 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAACCCAGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACTCAACAGTATGGTACACG
* * * *
32864570 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CTCAACAGTATGGTACACG
* * * * * *
32864620 TAGTAGCCTGCACTTACTACTACACACGTTA-TCGA-AGTAATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACTCAACAGT-A-TG-GTACACG
* * *
32864671 TAGTAGCTTGCACTTAGTACTACATATGTGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACTCAACAGTATGGTACACG
32864721 TAGTAGCCTGCACTTAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
32864751 TATTCACAAT
Statistics
Matches: 146, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 29 0.20
50 71 0.49
51 36 0.25
52 3 0.02
53 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACTCAACAGTATGGTACACG
Found at i:32867426 original size:10 final size:10
Alignment explanation
Indices: 32867398--32867447 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
32867388 TAATTTTAGG
32867398 ATTTAT-TTT
1 ATTTATCTTT
*
32867407 CATTTTTCTTT
1 -ATTTATCTTT
*
32867418 AATTATCTTT
1 ATTTATCTTT
32867428 ATTTAT-TTGT
1 ATTTATCTT-T
32867438 ATTTATCTTT
1 ATTTATCTTT
32867448 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 2 0.06
10 26 0.79
11 5 0.15
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:32877580 original size:46 final size:46
Alignment explanation
Indices: 32877513--32877687 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
32877503 TGTAACCCGC
*
32877513 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTTGCAT
* *
32877559 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * ** * * ** *
32877609 -C-TCA-CGAACTTGGACTTAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTTGCAT
*
32877652 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
32877688 ATGCCCAAAT
Statistics
Matches: 102, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 60 0.59
47 23 0.23
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:32879288 original size:50 final size:50
Alignment explanation
Indices: 32879164--32879412 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
32879154 GATAATAACA
* * ** * *
32879164 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
32879215 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
32879265 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
32879315 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
32879370 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
32879413 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:32879342 original size:100 final size:104
Alignment explanation
Indices: 32879163--32879412 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
32879153 TGATAATAAC
**
32879163 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
32879228 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
32879265 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
32879328 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
32879370 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
32879413 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:32879528 original size:13 final size:13
Alignment explanation
Indices: 32879507--32879538 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
32879497 GCTTGGATCA
*
32879507 TCATCAAATAAAT
1 TCATAAAATAAAT
32879520 TCATAAAATAAAT
1 TCATAAAATAAAT
32879533 TCATAA
1 TCATAA
32879539 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:32879785 original size:30 final size:30
Alignment explanation
Indices: 32879750--32879807 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32879740 CCTCGACTCT
*
32879750 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
32879780 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
32879808 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:32884184 original size:29 final size:29
Alignment explanation
Indices: 32884151--32884208 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
32884141 GATGGCACTA
32884151 AAAGAGAAAAAAGGATGATGTTTTGTTTT
1 AAAGAGAAAAAAGGATGATGTTTTGTTTT
*
32884180 AAAGAGAAAGAAGGATGATGTTTTGTTTT
1 AAAGAGAAAAAAGGATGATGTTTTGTTTT
32884209 TCTTCCCACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (29 bp):
AAAGAGAAAAAAGGATGATGTTTTGTTTT
Found at i:32895586 original size:41 final size:41
Alignment explanation
Indices: 32895541--32895621 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
32895531 ATCTAATTGA
* *
32895541 GAAAATAATTTCCTTATTCTATTAAACTACTAAAAGATTAG
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATTAG
*
32895582 GAAAATAATTCCCTTTTTCTAATAAACTACTAAAAGATTA
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATTA
32895622 AAAAAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (41 bp):
GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATTAG
Found at i:32895681 original size:19 final size:19
Alignment explanation
Indices: 32895657--32895716 Score: 111
Period size: 19 Copynumber: 3.2 Consensus size: 19
32895647 ATATTTTTTC
32895657 TAAGATTTATCTACTTAAA
1 TAAGATTTATCTACTTAAA
32895676 TAAGATTTATCTACTTAAA
1 TAAGATTTATCTACTTAAA
*
32895695 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACTTAAA
32895714 TAA
1 TAA
32895717 CTTTAAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (19 bp):
TAAGATTTATCTACTTAAA
Found at i:32900312 original size:42 final size:41
Alignment explanation
Indices: 32900216--32900312 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 41
32900206 TCCTAATTGG
*
32900216 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
1 AAAAATAGTTCCTTTATTCTAATAAACTACTAAAACATAAA
* *
32900257 AGAAATTAGTTCCTTTATTCTAATAAACTACTAAAAGATATAA
1 A-AAAATAGTTCCTTTATTCTAATAAACTACTAAAACATA-AA
32900300 TAAAAATA-TTCCT
1 -AAAAATAGTTCCT
32900313 AGAATATGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 1 0.02
42 40 0.82
43 7 0.14
44 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.33
Consensus pattern (41 bp):
AAAAATAGTTCCTTTATTCTAATAAACTACTAAAACATAAA
Found at i:32907419 original size:24 final size:25
Alignment explanation
Indices: 32907387--32907439 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
32907377 AAAGGTTCCA
* *
32907387 GTATATGAGTG-CCCTTTATGGGAC
1 GTATATGAGAGCCCCTTTATAGGAC
*
32907411 GTATATGAGAGCCCCTTTATAGGAT
1 GTATATGAGAGCCCCTTTATAGGAC
32907436 GTAT
1 GTAT
32907440 GAATGTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (25 bp):
GTATATGAGAGCCCCTTTATAGGAC
Found at i:32909436 original size:11 final size:10
Alignment explanation
Indices: 32909411--32909471 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32909401 ACCAATAAAA
32909411 TAAA-TGAGC
1 TAAATTGAGC
*
32909420 TGAATTGTAGC
1 TAAATTG-AGC
32909431 TAAATTGAGC
1 TAAATTGAGC
**
32909441 TCGATTGAGC
1 TAAATTGAGC
32909451 TGAAA-TGAGC
1 T-AAATTGAGC
*
32909461 TCAATTGAGC
1 TAAATTGAGC
32909471 T
1 T
32909472 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32909472 original size:20 final size:20
Alignment explanation
Indices: 32909412--32909472 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32909402 CCAATAAAAT
*
32909412 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32909432 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32909453 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32909473 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32910263 original size:43 final size:43
Alignment explanation
Indices: 32910216--32910342 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 43
32910206 TATTCACTTA
*
32910216 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
1 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATT
* * * *
32910259 TGATTT-TGTGTAAGACCCTGTCTGGGACAGTGGGATTGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATTG-TATT
* * *
32910302 TGA-TTACATGTAAGACCACGTCTGGAACATTGGCATTGTAT
1 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
32910343 GAGCTTTTCG
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 32 0.46
43 38 0.54
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATT
Found at i:32915742 original size:30 final size:30
Alignment explanation
Indices: 32915698--32915760 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
32915688 TCAAAAAAAA
32915698 AAATTCGAA-TTTTTTTCTAAATTTTTTTTG
1 AAATTCGAACTTTTTTTCTAAA-TTTTTTTG
* * *
32915728 AAATTTGAACTTTTTTTTTTAATTTTTTTG
1 AAATTCGAACTTTTTTTCTAAATTTTTTTG
32915758 AAA
1 AAA
32915761 CCTTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (30 bp):
AAATTCGAACTTTTTTTCTAAATTTTTTTG
Found at i:32920103 original size:99 final size:100
Alignment explanation
Indices: 32919990--32920176 Score: 322
Period size: 99 Copynumber: 1.9 Consensus size: 100
32919980 GAAGCTATCT
* * *
32919990 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTA-AT
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGAC
32920054 TGCACTTAGTACTACACACGTGATCACAGTTTTTG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTTG
* *
32920089 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGAC
32920154 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
32920177 CCTCACAATA
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 59 0.72
100 23 0.28
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGAC
TGCACTTAGTACTACACACGTGATCACAGTTTTTG
Found at i:32920119 original size:51 final size:49
Alignment explanation
Indices: 32919985--32920178 Score: 183
Period size: 49 Copynumber: 3.9 Consensus size: 49
32919975 TAGCCGAAGC
* * * * *
32919985 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCAAT
* * * ** * *
32920034 AATCTGGTACACGTAGTA-ATTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGA-C-CAAT
* ** * * *
32920084 TTTTGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCAAT
* *
32920133 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACC
32920179 TCACAATAGT
Statistics
Matches: 114, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
48 21 0.18
49 57 0.50
50 16 0.14
51 20 0.18
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCAAT
Found at i:32920160 original size:49 final size:49
Alignment explanation
Indices: 32919998--32920171 Score: 206
Period size: 49 Copynumber: 3.5 Consensus size: 49
32919988 CTGGTACGCA
* *
32919998 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
** * * * * ** * *
32920047 TAGTA-ATTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCGGTACACG
*
32920097 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
32920146 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
32920172 CGTGACCTCA
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
48 21 0.21
49 42 0.42
50 16 0.16
51 20 0.20
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:32921726 original size:21 final size:22
Alignment explanation
Indices: 32921700--32921740 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
32921690 CATTTAACAC
32921700 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
32921721 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
32921741 ACAATTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:32924801 original size:42 final size:43
Alignment explanation
Indices: 32924641--32924843 Score: 275
Period size: 43 Copynumber: 4.8 Consensus size: 43
32924631 TTACTATTCA
* *
32924641 GGCTTCGAACCTAGCAGGCTATAATGCCGGTTAGTTAATATCG
1 GGCTTCGATCCTAGCAGGCTATAATGCCGGTGAGTTAATATCG
* * * *
32924684 AGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATTG
1 GGCTTCGATCCTAGCAGGCTATAATGCCGGTGAGTTAATATCG
* *
32924727 GGCTTCGATCCTAGAAGGCTATAATGCTGGTGAGTTAATATCG
1 GGCTTCGATCCTAGCAGGCTATAATGCCGGTGAGTTAATATCG
* * *
32924770 GGCTTCG-TCCTGGCAGGCTATAATGCTGGTGAGTTAATATCA
1 GGCTTCGATCCTAGCAGGCTATAATGCCGGTGAGTTAATATCG
* *
32924812 GGCTTCGAGCCTAGCAGGC-GTAATGCCGGTGA
1 GGCTTCGATCCTAGCAGGCTATAATGCCGGTGA
32924844 ATGAGTTCAG
Statistics
Matches: 141, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 50 0.35
43 91 0.65
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
GGCTTCGATCCTAGCAGGCTATAATGCCGGTGAGTTAATATCG
Found at i:32925439 original size:16 final size:18
Alignment explanation
Indices: 32925408--32925440 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
32925398 AACTCGTCAC
32925408 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
32925426 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
32925441 AATTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:32933221 original size:28 final size:28
Alignment explanation
Indices: 32933158--32933311 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
32933148 ATATTAAGTC
*
32933158 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
32933185 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
32933213 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
32933241 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
32933269 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
32933298 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32933312 CAATCTCATG
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 22 0.18
28 79 0.66
29 19 0.16
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:32941003 original size:28 final size:28
Alignment explanation
Indices: 32940940--32941149 Score: 332
Period size: 28 Copynumber: 7.5 Consensus size: 28
32940930 ATATTAAGTC
*
32940940 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
32940967 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
32940995 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
32941023 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
32941051 CGCACACTTAGTGCTATATAATTAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
32941079 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
32941107 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
32941136 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32941150 CAATCTCATG
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 22 0.13
28 129 0.76
29 19 0.11
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:32942965 original size:20 final size:20
Alignment explanation
Indices: 32942928--32942966 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32942918 CTATTCTGAC
*
32942928 TTTAAAAAATCTTAAAAATT
1 TTTAAAAAATATTAAAAATT
32942948 TTTAAAAAATAATTAAAAA
1 TTTAAAAAAT-ATTAAAAA
32942967 ATATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAAAAAATATTAAAAATT
Found at i:32953595 original size:43 final size:43
Alignment explanation
Indices: 32953534--32953740 Score: 326
Period size: 43 Copynumber: 4.8 Consensus size: 43
32953524 ACGTTACTAT
*
32953534 TCGGGCTTCGAGCCTAGCAGGCTATAATGCTGGTGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
*
32953577 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGATGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* *
32953620 TCGGGCTTCGAGCCTAGTAGGCTATAATACCGGTGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* * *
32953663 TCGAGCTTCAAGCCTAGCAGGCTATAATACCGGTGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* *
32953706 TCAGGCTTCGAGCCTAGCAGGC-GTAATGCCGGTGA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
32953741 ATGAGTTCAG
Statistics
Matches: 151, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
42 11 0.07
43 140 0.93
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
Found at i:32953817 original size:40 final size:39
Alignment explanation
Indices: 32953672--32953822 Score: 115
Period size: 41 Copynumber: 3.7 Consensus size: 39
32953662 ATCGAGCTTC
* * * *
32953672 AAGCCTAGCAGGCTATAATACCGGTGAGTTAATATCAGGCTTC
1 AAGCCTAGCAGGC--TAATGCCGGTGA-TGAAT-TCAGACTTA
* *
32953715 GAGCCTAGCAGGCGTAATGCCGGTGAATGAGTTCAGACTTA
1 AAGCCTAGCAGGC-TAATGCCGGTG-ATGAATTCAGACTTA
* ** **
32953756 AAGTCTAGCAGGCTTCGTGCCGGTGATGAATTCAGGTTTTA
1 AAGCCTAGCAGGC-TAATGCCGGTGATGAATTCA-GACTTA
32953797 AA-CCTAGCAGGCTAATTGCCGGTGAT
1 AAGCCTAGCAGGCTAA-TGCCGGTGAT
32953823 TTGATATAAA
Statistics
Matches: 87, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
39 1 0.01
40 27 0.31
41 33 0.38
42 13 0.15
43 13 0.15
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
AAGCCTAGCAGGCTAATGCCGGTGATGAATTCAGACTTA
Found at i:32954335 original size:16 final size:18
Alignment explanation
Indices: 32954304--32954336 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
32954294 AACTCCTCAC
32954304 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
32954322 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
32954337 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:32956992 original size:4 final size:4
Alignment explanation
Indices: 32956983--32957009 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
32956973 AAGTTTTATT
32956983 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
32957010 TACTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:32963336 original size:4 final size:4
Alignment explanation
Indices: 32963327--32963353 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
32963317 AAGTTTTATT
32963327 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
32963354 TACTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:32966310 original size:26 final size:26
Alignment explanation
Indices: 32966280--32966338 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
32966270 AAGCTCTTCC
32966280 TTGTGCCATCCCTAAGCAGCCCCTCT
1 TTGTGCCATCCCTAAGCAGCCCCTCT
*
32966306 TTGTGCCATCCCTAAGCAGCCCCTTT
1 TTGTGCCATCCCTAAGCAGCCCCTCT
32966332 TTGTGCC
1 TTGTGCC
32966339 GTCCATGGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.14, C:0.39, G:0.17, T:0.31
Consensus pattern (26 bp):
TTGTGCCATCCCTAAGCAGCCCCTCT
Found at i:32967211 original size:21 final size:23
Alignment explanation
Indices: 32967175--32967216 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
32967165 CACGCAACTC
32967175 ATTAAGTCATTGTTTGATTGCAT
1 ATTAAGTCATTGTTTGATTGCAT
32967198 ATTAAGT-A-TGTTTGATTGC
1 ATTAAGTCATTGTTTGATTGC
32967217 GATGTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (23 bp):
ATTAAGTCATTGTTTGATTGCAT
Found at i:32967360 original size:40 final size:41
Alignment explanation
Indices: 32967266--32967362 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
32967256 TTACTAAAAC
*
32967266 TGTTACCATAAGAATG-TTAAGCACACCACTAAATTGAATA
1 TGTTACCATAAGCATGTTTAAGCACACCACTAAATTGAATA
* * ** *
32967306 TGTTACTATGAGCATGTTTAAGCATTCCA-TTAATTGAATA
1 TGTTACCATAAGCATGTTTAAGCACACCACTAAATTGAATA
*
32967346 TGTTACCGTAAGCATGT
1 TGTTACCATAAGCATGT
32967363 AAAACATGCC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 37 0.79
41 10 0.21
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (41 bp):
TGTTACCATAAGCATGTTTAAGCACACCACTAAATTGAATA
Found at i:32971577 original size:16 final size:16
Alignment explanation
Indices: 32971553--32971583 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32971543 GGGCCAAAAC
32971553 GGGCCTGTGGGCCCAT
1 GGGCCTGTGGGCCCAT
*
32971569 GGGCTTGTGGGCCCA
1 GGGCCTGTGGGCCCA
32971584 CACGGGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.29, G:0.45, T:0.19
Consensus pattern (16 bp):
GGGCCTGTGGGCCCAT
Found at i:32971782 original size:41 final size:41
Alignment explanation
Indices: 32971737--32971817 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
32971727 GTTTGACCGT
* *
32971737 TAAGGTTGTACGGGTCACCCGAGACGACTGTGGACCTACTA
1 TAAGGTTGCACGGGTCACCCAAGACGACTGTGGACCTACTA
*
32971778 TAAGGTTGCATGGGTCACCCAAGACGACTGTGGACCTACT
1 TAAGGTTGCACGGGTCACCCAAGACGACTGTGGACCTACT
32971818 CTTGGGTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (41 bp):
TAAGGTTGCACGGGTCACCCAAGACGACTGTGGACCTACTA
Found at i:32975449 original size:29 final size:29
Alignment explanation
Indices: 32975416--32975475 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
32975406 ATAACCAAAC
* *
32975416 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
32975445 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
32975474 CT
1 CT
32975476 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:32975468 original size:15 final size:15
Alignment explanation
Indices: 32975422--32975469 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
32975412 AAACCTACAA
*
32975422 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
32975437 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
32975451 AAACTTCATATCCAT
1 AAACTTCATATCCAT
32975466 AAAC
1 AAAC
32975470 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:32978133 original size:49 final size:49
Alignment explanation
Indices: 32978041--32978363 Score: 493
Period size: 49 Copynumber: 6.8 Consensus size: 49
32978031 TTAGGATTCT
*
32978041 ATGTGATGGATGTGAACA-TG--TATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCG
32978088 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
32978137 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGGCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
32978186 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
32978235 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * *
32978282 ATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
32978329 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
32978364 TCCCGAAGGG
Statistics
Matches: 259, Mismatches: 12, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
46 1 0.00
47 112 0.43
48 1 0.00
49 145 0.56
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:32978538 original size:37 final size:37
Alignment explanation
Indices: 32978482--32978560 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
32978472 CCGAGCTCTA
* * *
32978482 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
32978519 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
32978556 AAGAC
1 AAGAC
32978561 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:32978966 original size:9 final size:9
Alignment explanation
Indices: 32978949--32978979 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32978939 TGCTTACTCC
*
32978949 GTTTACTCT
1 GTTTCCTCT
32978958 GTTTCCTCT
1 GTTTCCTCT
32978967 GTTTCCTCT
1 GTTTCCTCT
32978976 GTTT
1 GTTT
32978980 TATATATCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.03, C:0.26, G:0.13, T:0.58
Consensus pattern (9 bp):
GTTTCCTCT
Found at i:32984845 original size:38 final size:38
Alignment explanation
Indices: 32984794--32984877 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
32984784 ATTTGATGTG
* * * *
32984794 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGATAAATCCCGCAGGCCTAGTGCTAGTATTA
32984832 TATCCGGGATAAATCCCGCAGGCCTAGTGCTAGTATTA
1 TATCCGGGATAAATCCCGCAGGCCTAGTGCTAGTATTA
*
32984870 TATTCGGG
1 TATCCGGG
32984878 CCTTCGTGCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGATAAATCCCGCAGGCCTAGTGCTAGTATTA
Found at i:32984994 original size:43 final size:43
Alignment explanation
Indices: 32984870--32984981 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
32984860 GCTAGTATTA
*
32984870 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
32984913 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGGGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
32984956 TATTCGGGCCTTCGTACCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
32984982 GTAATGTCGG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.12, C:0.26, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:32990196 original size:43 final size:43
Alignment explanation
Indices: 32990072--32990183 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
32990062 GTTGGTATTA
32990072 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
32990115 TATTCGGGCTTTCGTGCCTAGCAGGCTTCGGGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
32990158 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
32990184 GTAATGTCGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.10, C:0.26, G:0.35, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:32993416 original size:10 final size:10
Alignment explanation
Indices: 32993400--32993457 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
32993390 CAACTTCGAC
32993400 CAGCTCAATT
1 CAGCTCAATT
* *
32993410 GAGCTCATTT
1 CAGCTCAATT
32993420 CAGCTCAA-T
1 CAGCTCAATT
32993429 CGAGCTCAATT
1 C-AGCTCAATT
*
32993440 TAGCTACAATT
1 CAGCT-CAATT
32993451 CAGCTCA
1 CAGCTCA
32993458 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:32993423 original size:20 final size:20
Alignment explanation
Indices: 32993400--32993460 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32993390 CAACTTCGAC
32993400 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
32993420 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
32993441 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
32993461 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:32994826 original size:13 final size:13
Alignment explanation
Indices: 32994807--32994894 Score: 67
Period size: 13 Copynumber: 6.6 Consensus size: 13
32994797 TTGGAGTAAC
32994807 AAAAAAAATC-AA
1 AAAAAAAATCGAA
*
32994819 ATAAAAAATCGAA
1 AAAAAAAATCGAA
*
32994832 AAAAAAAATTGATTGA
1 AAAAAAAATCGA---A
32994848 AAAAAAAATTC-AA
1 AAAAAAAA-TCGAA
*
32994861 AAAAAAAGT-G-A
1 AAAAAAAATCGAA
32994872 AAAAAAAATCGAGCA
1 AAAAAAAATCGA--A
32994887 AAAAAAAA
1 AAAAAAAA
32994895 GTGAGCAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
11 9 0.15
12 11 0.18
13 20 0.33
15 9 0.15
16 10 0.17
17 1 0.02
ACGTcount: A:0.74, C:0.06, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAAAAAATCGAA
Found at i:32994905 original size:30 final size:29
Alignment explanation
Indices: 32994857--32994928 Score: 103
Period size: 27 Copynumber: 2.5 Consensus size: 29
32994847 AAAAAAAAAT
*
32994857 TCAAAAAAAAAGTGA-AAAAAAAATCGAG
1 TCAAAAAAAAAGTGAGAAAAAAAATCAAG
32994885 -CAAAAAAAAAGTGAGCAAAAAAAATCAAG
1 TCAAAAAAAAAGTGAG-AAAAAAAATCAAG
*
32994914 TTAAAAAAAAAGTGA
1 TCAAAAAAAAAGTGA
32994929 AAAGTCTTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 14 0.36
29 12 0.31
30 13 0.33
ACGTcount: A:0.68, C:0.07, G:0.14, T:0.11
Consensus pattern (29 bp):
TCAAAAAAAAAGTGAGAAAAAAAATCAAG
Found at i:32994914 original size:18 final size:15
Alignment explanation
Indices: 32994858--32994908 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
32994848 AAAAAAAATT
32994858 CAAAAAAAAAGT--G
1 CAAAAAAAAAGTGAG
32994871 -AAAAAAAAA-TCGAG
1 CAAAAAAAAAGT-GAG
32994885 CAAAAAAAAAGTGAG
1 CAAAAAAAAAGTGAG
32994900 CAAAAAAAA
1 CAAAAAAAA
32994909 TCAAGTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 1 0.03
12 9 0.27
14 1 0.03
15 21 0.64
16 1 0.03
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.06
Consensus pattern (15 bp):
CAAAAAAAAAGTGAG
Found at i:32995846 original size:16 final size:18
Alignment explanation
Indices: 32995825--32995863 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
32995815 ATTGAGATTG
32995825 AGAAAAA-AT-TTGAAAA
1 AGAAAAAGATGTTGAAAA
*
32995841 AGAAAAAGATGTTGAAGA
1 AGAAAAAGATGTTGAAAA
32995859 AGAAA
1 AGAAA
32995864 TGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 2 0.10
18 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (18 bp):
AGAAAAAGATGTTGAAAA
Found at i:32999365 original size:10 final size:10
Alignment explanation
Indices: 32999349--32999406 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
32999339 CAACTCCGAC
32999349 CAGCTCAATT
1 CAGCTCAATT
* *
32999359 GAGCTCATTT
1 CAGCTCAATT
32999369 CAGCTCAA-T
1 CAGCTCAATT
32999378 CGAGCTCAATT
1 C-AGCTCAATT
*
32999389 TAGCTACAATT
1 CAGCT-CAATT
32999400 CAGCTCA
1 CAGCTCA
32999407 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:32999372 original size:20 final size:20
Alignment explanation
Indices: 32999349--32999409 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32999339 CAACTCCGAC
32999349 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
32999369 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
32999390 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
32999410 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:33002200 original size:46 final size:47
Alignment explanation
Indices: 33002096--33002207 Score: 136
Period size: 48 Copynumber: 2.4 Consensus size: 47
33002086 TGTCTTCGAC
** * *
33002096 ATGGACTTACATGAATCATTCCTGTATCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTATCCAAAGCCA-ATATATATAAT
* * * *
33002144 ATGGGCTTACATGGCTCAATCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCAATCCTGTATCCAAAGCCAATATATATAAT
33002190 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
33002208 TTTCTGTCCT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 26 0.47
48 29 0.53
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (47 bp):
ATGGACTTACATGGCTCAATCCTGTATCCAAAGCCAATATATATAAT
Found at i:33002215 original size:46 final size:47
Alignment explanation
Indices: 33002096--33002215 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 47
33002086 TGTCTTCGAC
** * *
33002096 ATGGACTTACATGAATCATTCCTGTATCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATAAT
* * * *
33002144 ATGGGCTTACATGGCTCAATCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
*
33002190 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
33002216 CTGTCCTGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 32 0.52
48 29 0.48
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
Found at i:33003828 original size:19 final size:19
Alignment explanation
Indices: 33003794--33003832 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
33003784 GATTTCGTAC
33003794 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCATTTTCT-CGTT
33003814 TTTGGCCCA-TTTCTCGTT
1 TTTGGCCCATTTTCTCGTT
33003832 T
1 T
33003833 CTTTCGCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.05, C:0.28, G:0.15, T:0.51
Consensus pattern (19 bp):
TTTGGCCCATTTTCTCGTT
Found at i:33005818 original size:32 final size:32
Alignment explanation
Indices: 33005782--33005844 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
33005772 GCCCTTCCAT
33005782 CCAAACCAGGGTATCTTCTTCCATGACGAGAC
1 CCAAACCAGGGTATCTTCTTCCATGACGAGAC
*
33005814 CCAAACCAGGGTATCTTTTTCCATGACGAGA
1 CCAAACCAGGGTATCTTCTTCCATGACGAGA
33005845 GCTTGAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (32 bp):
CCAAACCAGGGTATCTTCTTCCATGACGAGAC
Found at i:33020576 original size:40 final size:39
Alignment explanation
Indices: 33020513--33020598 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
33020503 TAACGACTTA
**
33020513 TCGGCTAAAATGGCACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCT
* *
33020552 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTTGAAATAGCT
*
33020592 TTGGCTA
1 TCGGCTA
33020599 TATATATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.31
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCT
Found at i:33024857 original size:2 final size:2
Alignment explanation
Indices: 33024850--33024892 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
33024840 GTGCGACAGA
33024850 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33024892 A
1 A
33024893 ACGAATAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33028852 original size:39 final size:39
Alignment explanation
Indices: 33028809--33028991 Score: 303
Period size: 39 Copynumber: 4.7 Consensus size: 39
33028799 CATGGTATTT
33028809 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
**
33028848 GAAATATATCTAGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
33028887 GAAATATATCTGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
33028926 GGAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
33028965 GAAATATATCCGGACTTGAAGTCCGCA
1 GAAATATATCCGGACATGAGGTCCGCA
33028992 AGCCACGTGC
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 134 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
Found at i:33032905 original size:15 final size:15
Alignment explanation
Indices: 33032887--33032918 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33032877 ATAAAAAATT
33032887 TCAATACAAAACATA
1 TCAATACAAAACATA
*
33032902 TCAATCCAAAACATA
1 TCAATACAAAACATA
33032917 TC
1 TC
33032919 TTTCATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (15 bp):
TCAATACAAAACATA
Found at i:33040208 original size:22 final size:22
Alignment explanation
Indices: 33040180--33040235 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
33040170 AACCTATACA
33040180 CTACTCAAACATCAATTTTAAC
1 CTACTCAAACATCAATTTTAAC
33040202 CTACTCAAACATCAATTTTAAC
1 CTACTCAAACATCAATTTTAAC
* *
33040224 CAAATCAAACAT
1 CTACTCAAACAT
33040236 ATATGCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.29
Consensus pattern (22 bp):
CTACTCAAACATCAATTTTAAC
Done.