Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold3038.1
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: 167335
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.25
Warning! 11965 characters in sequence are not A, C, G, or T
Found at i:1663 original size:14 final size:14
Alignment explanation
Indices: 1644--1672 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1634 ACAGGTGAAG
1644 AGGTGATGAAAAAA
1 AGGTGATGAAAAAA
1658 AGGTGATGAAAAAA
1 AGGTGATGAAAAAA
1672 A
1 A
1673 TGGGCAAAGC
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:0.59, C:0.00, G:0.28, T:0.14
Consensus pattern (14 bp):
AGGTGATGAAAAAA
Found at i:4204 original size:24 final size:25
Alignment explanation
Indices: 4150--4204 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
4140 GCCGGTTAGG
* *
4150 TTCCCGGCGGTGCTCCGACGATCTA
1 TTCCCGGAGGTGCTCCGACGAGCTA
* *
4175 TT-CCGGAGGTGGTCCGGCGAGCT-
1 TTCCCGGAGGTGCTCCGACGAGCTA
4198 TTCCCGG
1 TTCCCGG
4205 CGGTACTCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 21 0.84
25 2 0.08
ACGTcount: A:0.09, C:0.33, G:0.35, T:0.24
Consensus pattern (25 bp):
TTCCCGGAGGTGCTCCGACGAGCTA
Found at i:17726 original size:92 final size:92
Alignment explanation
Indices: 17560--17742 Score: 294
Period size: 92 Copynumber: 2.0 Consensus size: 92
17550 ACGCACGCGC
17560 CCGTCGCCCGATTGCCGACCCGCAGTAGGGGCCTCTGGCCCCCAAGGGCACGTGTCGTAGGTGCA
1 CCGTCGCCCGATTGCCGACCCGCAGTAGGGGCCTCTGGCCCCCAAGGGCACGTGTCGTAGGTGCA
**
17625 GCGGCCGCGGCGGACAAGTCGCGGGCT
66 GCAACCGCGGCGGACAAGTCGCGGGCT
* * *
17652 CCGTTGCCCGATTGCCGACCCGTAGTAGGGGCCTTTGGCCCCCAAGGGCACGTGTCGTAGGTGCA
1 CCGTCGCCCGATTGCCGACCCGCAGTAGGGGCCTCTGGCCCCCAAGGGCACGTGTCGTAGGTGCA
* * *
17717 GCAATCGCGGTGGACCAGTCGCGGGC
66 GCAACCGCGGCGGACAAGTCGCGGGC
17743 GCCTCCTTGG
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 83 1.00
ACGTcount: A:0.14, C:0.34, G:0.37, T:0.15
Consensus pattern (92 bp):
CCGTCGCCCGATTGCCGACCCGCAGTAGGGGCCTCTGGCCCCCAAGGGCACGTGTCGTAGGTGCA
GCAACCGCGGCGGACAAGTCGCGGGCT
Found at i:18836 original size:58 final size:59
Alignment explanation
Indices: 18758--18878 Score: 174
Period size: 58 Copynumber: 2.1 Consensus size: 59
18748 CCCTCCCTAA
* **
18758 TCCCAAAAGGTAGAATTCAGATACCGTTACATGTTC-GATACCCAGTAATGAATGAACCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCAG-TACCCAACAATGAATGAACCG
* *
18817 TCCC-AAAGCTAGAATTCAGATACCGTTGCATGTTCAGTACCCAACAATGAATGAATCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCAGTACCCAACAATGAATGAACCG
18875 TCCC
1 TCCC
18879 TGTCCCTGCC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
58 51 0.91
59 5 0.09
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (59 bp):
TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCAGTACCCAACAATGAATGAACCG
Found at i:23736 original size:13 final size:13
Alignment explanation
Indices: 23718--23744 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23708 TGAGGCTGAA
23718 TGTGTTTTCTTTT
1 TGTGTTTTCTTTT
23731 TGTGTTTTCTTTT
1 TGTGTTTTCTTTT
23744 T
1 T
23745 CTAGTGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.15, T:0.78
Consensus pattern (13 bp):
TGTGTTTTCTTTT
Found at i:28950 original size:43 final size:43
Alignment explanation
Indices: 28928--29186 Score: 323
Period size: 43 Copynumber: 6.1 Consensus size: 43
28918 GCCTTGGATA
*
28928 TGCAGGAGCCTCGGACACCATC-GCAACCTAGGCCCTTGATCG
1 TGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCG
* * * *
28970 TGCGGGAGCCTCGGGCACCACCAGCAACCTAGGCCCTTGGTCG
1 TGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCG
* *
29013 TGCAGGAGCCTCAGACACCATCGGCGACCTAGGCCCTTGGTCG
1 TGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCG
* *
29056 TGC-GAGAGCCTCGGGCACCATCGGCAATCTAGGCCCTTGGTCG
1 TGCAG-GAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCG
*
29099 TGC-GAGAGCCTCGGACACCATCGGTAACCTAGGGCCC-TGGTCG
1 TGCAG-GAGCCTCGGACACCATCGGCAACCTA-GGCCCTTGGTCG
* * *
29142 TGCAAGAGCCTCAGACACCAAT-GG-AACCTAGGCCCCTGGTCG
1 TGCAGGAGCCTCGGACACC-ATCGGCAACCTAGGCCCTTGGTCG
29184 TGC
1 TGC
29187 GGAAGCTNNN
Statistics
Matches: 192, Mismatches: 19, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
41 5 0.03
42 35 0.18
43 145 0.76
44 7 0.04
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.16
Consensus pattern (43 bp):
TGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCG
Found at i:28973 original size:85 final size:85
Alignment explanation
Indices: 28884--29182 Score: 302
Period size: 86 Copynumber: 3.5 Consensus size: 85
28874 GACGTCAGTG
* * * * * *
28884 GTGCGTGAGCCTCGAGCAGCATCGGCACCTTGGTGCCTTGGAT-ATGCAGGAGCCTCGGACACCA
1 GTGCGAGAGCCTCGGGCACCATCGGCACCTAGG-CCCTTGG-TCATGCAGGAGCCTCAGACACCA
28948 TC-GCAACCTAGGCCCTTGATC
64 TCGGCAACCTAGGCCCTTGATC
* * * *
28969 GTGCGGGAGCCTCGGGCACCACCAGCAACCTAGGCCCTTGGTCGTGCAGGAGCCTCAGACACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCATGCAGGAGCCTCAGACACCAT
* *
29034 CGGCGACCTAGGCCCTTGGTC
65 CGGCAACCTAGGCCCTTGATC
* * *
29055 GTGCGAGAGCCTCGGGCACCATCGGCAATCTAGGCCCTTGGTCGTGC-GAGAGCCTCGGACACCA
1 GTGCGAGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCATGCAG-GAGCCTCAGACACCA
* *
29119 TCGGTAACCTAGGGCCC-TGGTC
64 TCGGCAACCTA-GGCCCTTGATC
* * * * *
29141 GTGCAAGAGCCTCAGACACCAAT-GGAACCTAGGCCCCTGGTC
1 GTGCGAGAGCCTCGGGCACC-ATCGGCACCTAGGCCCTTGGTC
29183 GTGCGGAAGC
Statistics
Matches: 184, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.01
85 63 0.34
86 113 0.61
87 7 0.04
ACGTcount: A:0.19, C:0.33, G:0.30, T:0.17
Consensus pattern (85 bp):
GTGCGAGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCATGCAGGAGCCTCAGACACCATC
GGCAACCTAGGCCCTTGATC
Found at i:29130 original size:129 final size:127
Alignment explanation
Indices: 28933--29187 Score: 361
Period size: 129 Copynumber: 2.0 Consensus size: 127
28923 GGATATGCAG
* *
28933 GAGCCTCGGACACCATCGCAACCTAGGCCCTTGATCGTGCGGGAGCCTCGGGCACCACCAGCAAC
1 GAGCCTCGGACACCATCGCAACCTAGGCCCTTGATCGTGCGAGAGCCTCGGACACCACCAGCAAC
* * *
28998 CTA-GGCCCTTGGTCGTGCAGGAGCCTCAGACACC-ATCGGCGACCTAGGCCCTTGGTCGTGCGA
66 CTAGGGCCC-TGGTCGTGCAAGAGCCTCAGACACCAAT-GG-AACCTAGGCCCCTGGTCGTGCGA
* * * * * *
29061 GAGCCTCGGGCACCATCGGCAATCTAGGCCCTTGGTCGTGCGAGAGCCTCGGACACCATCGGTAA
1 GAGCCTCGGACACCATC-GCAACCTAGGCCCTTGATCGTGCGAGAGCCTCGGACACCACCAGCAA
29126 CCTAGGGCCCTGGTCGTGCAAGAGCCTCAGACACCAATGGAACCTAGGCCCCTGGTCGTGCG
65 CCTAGGGCCCTGGTCGTGCAAGAGCCTCAGACACCAATGGAACCTAGGCCCCTGGTCGTGCG
29188 GAAGCTNNNN
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
128 36 0.32
129 70 0.62
130 7 0.06
ACGTcount: A:0.19, C:0.35, G:0.30, T:0.16
Consensus pattern (127 bp):
GAGCCTCGGACACCATCGCAACCTAGGCCCTTGATCGTGCGAGAGCCTCGGACACCACCAGCAAC
CTAGGGCCCTGGTCGTGCAAGAGCCTCAGACACCAATGGAACCTAGGCCCCTGGTCGTGCGA
Found at i:33310 original size:24 final size:24
Alignment explanation
Indices: 33235--33312 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
33225 CTGGTACGGT
** *
33235 TCCCGGCGGTGCTCCGACGATCCA
1 TCCCGGCGGTGCTCCGGTGAGCCA
* * **
33259 TTCCGGCGGTGGTCCGGTGAGCTT
1 TCCCGGCGGTGCTCCGGTGAGCCA
33283 TCCCGGCGGTGCTCCGGTGAGCCA
1 TCCCGGCGGTGCTCCGGTGAGCCA
33307 TCCCGG
1 TCCCGG
33313 AATATAGAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.08, C:0.36, G:0.36, T:0.21
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGTGAGCCA
Found at i:33593 original size:43 final size:40
Alignment explanation
Indices: 33546--33795 Score: 155
Period size: 43 Copynumber: 5.8 Consensus size: 40
33536 GTGGTGCGTA
* *
33546 AGCCTCGAGCAGCATCGGCACCTTGGTGCCTTGGAT-ATGTAGG
1 AGCCTCG-GCA-CATCGGCACCTAGG-CCCTTGG-TCATGTAGG
*
33589 AGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCATGTGGG
1 AGCCTCGG-CA-CATCGGC-ACCTAGGCCCTTGGTCATGTAGG
* * *
33632 AGCCTCGGGCACTATCGGCAACCTAGGCCTTTGGTCGTG-CGAG
1 AGCCTC-GGCAC-ATCGGC-ACCTAGGCCCTTGGTCATGTAG-G
* * *
33675 AGCCTCGGGGACCATCGGCAACCTAGGCCCTTGGTCGTG-CGAG
1 AGCCTC-GGCA-CATCGGC-ACCTAGGCCCTTGGTCATGTAG-G
* * **
33718 AGCCTCGGACATCATCGGCAACCTAGGCCCCTGGTCGTGCGGG
1 AGCCTCGG-CA-CATCGGC-ACCTAGGCCCTTGGTCATGTAGG
* * *
33761 AGCCTCAGACACCATCGGAACCTAGGCCCCTGGTC
1 AGCCTC-GGCA-CATCGGCACCTAGGCCCTTGGTC
33796 GTGCCGCCCC
Statistics
Matches: 181, Mismatches: 16, Indels: 21
0.83 0.07 0.10
Matches are distributed among these distances:
42 22 0.12
43 148 0.82
44 11 0.06
ACGTcount: A:0.18, C:0.32, G:0.31, T:0.18
Consensus pattern (40 bp):
AGCCTCGGCACATCGGCACCTAGGCCCTTGGTCATGTAGG
Found at i:33637 original size:86 final size:82
Alignment explanation
Indices: 33546--33795 Score: 218
Period size: 86 Copynumber: 2.9 Consensus size: 82
33536 GTGGTGCGTA
33546 AGCCTCGAGCAGCATCGGC-ACCTTGGTGCCTTGGATATGTAGGAGCCTCGGACACCATCGGCAA
1 AGCCTCG-GCA-CATCGGCAACCTTGG-GCCTTGG-T-TGTAGGAGCCTCGGACACCATCGGCAA
* *
33610 CCTAGGCCCTTGGTCATGTGGG
61 CCTAGGCCCTTGGTCATGCGAG
* * * **
33632 AGCCTCGGGCACTATCGGCAACC-TAGGCCTTTGGTCGTGCGAGAGCCTCGGGGACCATCGGCAA
1 AGCCTC-GGCAC-ATCGGCAACCTTGGGCC-TTGGTTGT-AG-GAGCCTCGGACACCATCGGCAA
*
33696 CCTAGGCCCTTGGTCGTGCGAG
61 CCTAGGCCCTTGGTCATGCGAG
* * * ** *
33718 AGCCTCGGACATCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCAGACACCATCGG-AAC
1 AGCCTCGG-CA-CATCGGCAACCTTGGGCCTTGGT--TGTAGGAGCCTCGGACACCATCGGCAAC
*
33782 CTAGGCCCCTGGTC
62 CTAGGCCCTTGGTC
33796 GTGCCGCCCC
Statistics
Matches: 134, Mismatches: 19, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
84 2 0.01
85 24 0.18
86 98 0.73
87 9 0.07
88 1 0.01
ACGTcount: A:0.18, C:0.32, G:0.31, T:0.18
Consensus pattern (82 bp):
AGCCTCGGCACATCGGCAACCTTGGGCCTTGGTTGTAGGAGCCTCGGACACCATCGGCAACCTAG
GCCCTTGGTCATGCGAG
Found at i:33681 original size:129 final size:128
Alignment explanation
Indices: 33546--33799 Score: 307
Period size: 129 Copynumber: 2.0 Consensus size: 128
33536 GTGGTGCGTA
* * * *
33546 AGCCTCGAGCAGCATCGGC-ACCTTGGTGCCTTGGAT-ATGTAG-GAGCCTCGGACACCATCGGC
1 AGCCTCGAGCACCATCGGCAACCTAGG-CCCTTGG-TCGTG-AGAGAGCCTCGGACACCATCGGC
* * * * * **
33608 AACCTAGGCCCTTGGTCATGTGGGAGCCTCGGGCACTATCGGCAACCTAGGCCTTTGGTCGTGCG
63 AACCTAGGCCCCTGGTCATGCGGGAGCCTCAGACACCATCGG-AACCTAGGCCCCTGGTCGTGCG
33673 AG
127 AG
* * * *
33675 AGCCTCGGGGACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGACATCATCGGCAAC
1 AGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTGAGAGAGCCTCGGACACCATCGGCAAC
*
33740 CTAGGCCCCTGGTCGTGCGGGAGCCTCAGACACCATCGGAACCTAGGCCCCTGGTCGTGC
66 CTAGGCCCCTGGTCATGCGGGAGCCTCAGACACCATCGGAACCTAGGCCCCTGGTCGTGC
33800 CGCCCCCTCA
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
128 21 0.20
129 79 0.75
130 6 0.06
ACGTcount: A:0.18, C:0.32, G:0.31, T:0.19
Consensus pattern (128 bp):
AGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTGAGAGAGCCTCGGACACCATCGGCAAC
CTAGGCCCCTGGTCATGCGGGAGCCTCAGACACCATCGGAACCTAGGCCCCTGGTCGTGCGAG
Found at i:33810 original size:42 final size:43
Alignment explanation
Indices: 33587--33801 Score: 238
Period size: 43 Copynumber: 5.0 Consensus size: 43
33577 TGGATATGTA
* * * **
33587 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCATGTG
1 GGAGCCTCAGACACCATCGGCAACCTAGGCCCCTGGTCGTGCC
* * * **
33630 GGAGCCTCGGGCACTATCGGCAACCTAGGCCTTTGGTCGTG-C
1 GGAGCCTCAGACACCATCGGCAACCTAGGCCCCTGGTCGTGCC
* ** *
33672 GAGAGCCTCGGGGACCATCGGCAACCTAGGCCCTTGGTCGTG-C
1 G-GAGCCTCAGACACCATCGGCAACCTAGGCCCCTGGTCGTGCC
* * *
33715 GAGAGCCTCGGACATCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 G-GAGCCTCAGACACCATCGGCAACCTAGGCCCCTGGTCGTGCC
33759 GGAGCCTCAGACACCATCGG-AACCTAGGCCCCTGGTCGTGCC
1 GGAGCCTCAGACACCATCGGCAACCTAGGCCCCTGGTCGTGCC
33801 G
1 G
33802 CCCCCTCAGG
Statistics
Matches: 154, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
42 23 0.15
43 130 0.84
44 1 0.01
ACGTcount: A:0.17, C:0.33, G:0.32, T:0.17
Consensus pattern (43 bp):
GGAGCCTCAGACACCATCGGCAACCTAGGCCCCTGGTCGTGCC
Found at i:38320 original size:28 final size:28
Alignment explanation
Indices: 38278--38332 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
38268 CCGATTTGCT
*
38278 CCCTCCGTTTCTTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTTTTCTTTTCTG
*
38306 CCCTCTGTTTATTTTCTTTTCTTTTCT
1 CCCTCCGTTTATTTTCTTTTCTTTTCT
38333 ACCGATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.64
Consensus pattern (28 bp):
CCCTCCGTTTATTTTCTTTTCTTTTCTG
Found at i:38353 original size:38 final size:39
Alignment explanation
Indices: 38306--38379 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
38296 TTCTTTTCTG
*
38306 CCCTCTGTTTATTTTC-TTTTCTTTTCTACCGATTTGCT
1 CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
* * * *
38344 CCCTTTGTTTCTTCTCATTTTCTTTTTTGCCGATTT
1 CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTT
38380 CTGAGTTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 13 0.43
39 17 0.57
ACGTcount: A:0.07, C:0.26, G:0.08, T:0.59
Consensus pattern (39 bp):
CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
Found at i:41018 original size:18 final size:17
Alignment explanation
Indices: 40990--41024 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
40980 ATTATTAAGA
*
40990 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
41007 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
41025 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:41285 original size:16 final size:16
Alignment explanation
Indices: 41260--41311 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
41250 GATTTGCTAT
41260 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
41276 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
41292 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
41308 TACA
1 TACA
41312 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:44403 original size:24 final size:24
Alignment explanation
Indices: 44327--44404 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
44317 CCGGTTAGGT
** *
44327 TCCCGGCGGTGCTCCGACGATCCA
1 TCCCGGCGGTGCTCCGGTGAGCCA
* * * *
44351 TTCCGGCAGTGGTCCGGTGAG-CT
1 TCCCGGCGGTGCTCCGGTGAGCCA
*
44374 TACCCGGCGGTACTCCGGTGAGCCA
1 T-CCCGGCGGTGCTCCGGTGAGCCA
44399 TCCCGG
1 TCCCGG
44405 AATATAGAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.12, C:0.36, G:0.33, T:0.19
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGTGAGCCA
Found at i:44708 original size:43 final size:43
Alignment explanation
Indices: 44640--45075 Score: 397
Period size: 43 Copynumber: 10.2 Consensus size: 43
44630 GACGTTAGTG
* * *
44640 GTGCGAGAGCCTTCGAGCAGCATCGGCACCTTGGTGCCTTGGAT
1 GTGCGGGAGCC-TCGGGCACCATCGGCACCTTGGTGCCTTGGAT
* * * * *
44684 ATGCAGGAGCCTCGGACACCATCGGCAACCTAGG-CCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCCTTGGAT
* * *
44726 CGTGCAGGAGCCTCGTGCACCATCGACACCTTGGTG-CTTGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCCTTGGAT
* * * **
44769 GTGCCGGAACCTCGGGCACCATCGGCAACC-TAGACCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCCTTGGAT
* * ** * *
44811 CGTGCGAGAGGCTCGGGCACCATCGGCAAAATAGG-CCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCCTTGGAT
* * * *
44854 CGTGCGGGGGCCTCGGCCACCATCGGCACCTCGG-CCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCCTTGGAT
* *
44896 CGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGGCTCGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCCTTGGAT
* * * * *
44940 GTGCGGGAGCCTCGGGCAGCATCGGCACCTCGGTGGCTAGGAG
1 GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCCTTGGAT
* *
44983 GTGCGGGAGCCTCGGACACCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCCTTGGAT
*
45025 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGGCA-CCATCGGCACCTTGGTGCCTTGGAT
45069 GTGCGGG
1 GTGCGGG
45076 CTAAAGAAGA
Statistics
Matches: 325, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
42 102 0.31
43 194 0.60
44 29 0.09
ACGTcount: A:0.15, C:0.31, G:0.36, T:0.18
Consensus pattern (43 bp):
GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCCTTGGAT
Found at i:44807 original size:85 final size:85
Alignment explanation
Indices: 44640--45052 Score: 454
Period size: 85 Copynumber: 4.8 Consensus size: 85
44630 GACGTTAGTG
* * * * * *
44640 GTGCGAGAGCCTTCGAGCAGCATCGGCACCTTGGTGCCTTGGATATGCAGGAGCCTCGGACACCA
1 GTGCGGGAGCC-TCGGGCACCATCGGCACCTTGGTG-CTTGGATGTGCGGGAGCCTCGGGCACCA
44705 TCGGCAACCTAGGCCCTTGGTC
64 TCGGCAACCTAGGCCCTTGGTC
* * * * *
44727 GTGCAGGAGCCTCGTGCACCATCGACACCTTGGTGCTTGGATGTGCCGGAACCTCGGGCACCATC
1 GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACCATC
*
44792 GGCAACCTAGACCCTTGGTC
66 GGCAACCTAGGCCCTTGGTC
* * ** * ** * *
44812 GTGCGAGAGGCTCGGGCACCATCGGCAAAATAGGCCCTTGG-TCGTGCGGGGGCCTCGGCCACCA
1 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGGCACCA
*
44876 TCGGC-ACCTCGGCCCTTGGTC
64 TCGGCAACCTAGGCCCTTGGTC
* *
44897 GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGGGCAGCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGT-GCTTGGATGTGCGGGAGCCTCGGGCACCAT
* ** * **
44962 CGGC-ACCTCGGTGGCTAGGAG
65 CGGCAACCTAGG-CCCTTGGTC
* *
44983 GTGCGGGAGCCTCGGACACCATCGGCAACTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACCCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGGGCA-CCAT
45048 CGGCA
65 CGGCA
45053 CCTTGGTGCC
Statistics
Matches: 273, Mismatches: 46, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
84 4 0.01
85 164 0.60
86 96 0.35
87 9 0.03
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (85 bp):
GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACCATC
GGCAACCTAGGCCCTTGGTC
Found at i:44837 original size:128 final size:129
Alignment explanation
Indices: 44690--45056 Score: 397
Period size: 128 Copynumber: 2.9 Consensus size: 129
44680 GGATATGCAG
* * *
44690 GAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCAGGAGCCTCGTG-CACCATCGACA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG-GACACCATCGGCA
* * *
44754 CCTTGGTGCTTGGATGTGCCGGAACCTCGGGCACCATCGGCAACC-TAGACCCTTGG-TCGTGCG
65 CCTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACCATCGGCAACCTTAGACCCTCGGAT-GTGCG
44817 A
129 A
* ** * *
44818 GAGGCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATCGGCAC
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAC
* ** * *** *
44883 CTCGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGGCTCGGATGTGCGG
66 CTTGGTGCTTGGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTTAGACCCTCGGATGTGCGA
* * ** * **
44946 GAGCCTCGGGCAGCATCGGC-ACCTCGGTGGCTAGGAGGTGCGGGAGCCTCGGACACCATCGGCA
1 GAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCA
*
45010 ACTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACCCATCGGC-ACCTT
65 CCTTGGTGCTTGGATGTGCGGGAGCCTCGGGCA-CCATCGGCAACCTT
45057 GGTGCCTGGG
Statistics
Matches: 198, Mismatches: 34, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
127 9 0.05
128 174 0.88
129 15 0.08
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.18
Consensus pattern (129 bp):
GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAC
CTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACCATCGGCAACCTTAGACCCTCGGATGTGCGA
Found at i:46278 original size:207 final size:208
Alignment explanation
Indices: 45922--46335 Score: 686
Period size: 207 Copynumber: 2.0 Consensus size: 208
45912 ATGTGTTGCC
* * *
45922 GTCCCTTCTCCATCCCGTGCCCTTCGGGGTGCGTGGTGGACCTCAATCGTGCCTTGTGTCCCGAG
1 GTCCCTTCTCCATCCCGTGCCCTTCGGGCTGCGTGGTGGACCACAATCGTGCCCTGTGTCCCGAG
*
45987 TGCGCCCCCTTAAATCGGTGTGGCCTCGTCGGTGCACTGGTGCTCGATCGTGCTTTCGGATGCGG
66 TGCGCCCCCTTAAATCGGTGTGGCCTCGTCGGTGCACTGGTGCTCGATCGTGCTTTCGGATGCAG
* *
46052 AAAATGTTTTTGAGAGTAGGGTTCATGCCCTCATCTCTCGATGCCTATGCATTTTGTCTCTTGAC
131 AAAATATTTTTGAGAGTAGGGTTCAGGCCCTCATCTCTCGATGCCTATGCATTTTGTCTCTTGAC
46117 ACGGACGATGCTT
196 ACGGACGATGCTT
* *
46130 GTCCCTTCTCCATCTCGTGCCCTTTGGGCTGC-TGGTGGACCACAATCGTGCCCTGTGTCCCGAG
1 GTCCCTTCTCCATCCCGTGCCCTTCGGGCTGCGTGGTGGACCACAATCGTGCCCTGTGTCCCGAG
* *
46194 TGTGCCCCCTTAAATCGGTGTGGCCTCGTCGGTGCACTGGTGCTCGTTCGTGCTTTCGGATGCAG
66 TGCGCCCCCTTAAATCGGTGTGGCCTCGTCGGTGCACTGGTGCTCGATCGTGCTTTCGGATGCAG
* ** * *
46259 AAAATATTTTTGAGAGTAGGGTTTAGGCCCTTGTCTCTCGGTGCCTATGTATTTTGTCTCTTGAC
131 AAAATATTTTTGAGAGTAGGGTTCAGGCCCTCATCTCTCGATGCCTATGCATTTTGTCTCTTGAC
46324 ACGGACGATGCT
196 ACGGACGATGCT
46336 CGTGCTCTGT
Statistics
Matches: 191, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
207 162 0.85
208 29 0.15
ACGTcount: A:0.13, C:0.28, G:0.28, T:0.32
Consensus pattern (208 bp):
GTCCCTTCTCCATCCCGTGCCCTTCGGGCTGCGTGGTGGACCACAATCGTGCCCTGTGTCCCGAG
TGCGCCCCCTTAAATCGGTGTGGCCTCGTCGGTGCACTGGTGCTCGATCGTGCTTTCGGATGCAG
AAAATATTTTTGAGAGTAGGGTTCAGGCCCTCATCTCTCGATGCCTATGCATTTTGTCTCTTGAC
ACGGACGATGCTT
Found at i:53054 original size:19 final size:20
Alignment explanation
Indices: 53030--53068 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53020 TGAATGTCTC
*
53030 CTGGTAGC-GCCTTGTAGCA
1 CTGGTAGCAGCCTGGTAGCA
53049 CTGGTAGCAGCCTGGTAGCA
1 CTGGTAGCAGCCTGGTAGCA
53069 GCAAGCTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.18, C:0.26, G:0.33, T:0.23
Consensus pattern (20 bp):
CTGGTAGCAGCCTGGTAGCA
Found at i:53065 original size:11 final size:11
Alignment explanation
Indices: 53029--53070 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
53019 ATGAATGTCT
53029 CCTGGTAGC-G
1 CCTGGTAGCAG
*
53039 CCTTGTAGCA-
1 CCTGGTAGCAG
53049 -CTGGTAGCAG
1 CCTGGTAGCAG
53059 CCTGGTAGCAG
1 CCTGGTAGCAG
53070 C
1 C
53071 AAGCTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 8 0.30
10 8 0.30
11 11 0.41
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (11 bp):
CCTGGTAGCAG
Found at i:58359 original size:24 final size:24
Alignment explanation
Indices: 58294--58364 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
58284 GCCGGTTAGG
* *
58294 TTCCCGGCGGTGCTCCGACGATCCA
1 TTCCCGGCGGTGCTCCGGCGA-GCA
* *
58319 TT-CCGGCGGTGGTCCGGCGAGCT
1 TTCCCGGCGGTGCTCCGGCGAGCA
*
58342 TTCCCGGCGGTGCTCCGGTGAGC
1 TTCCCGGCGGTGCTCCGGCGAGC
58365 CATTTCGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
23 3 0.08
24 34 0.87
25 2 0.05
ACGTcount: A:0.07, C:0.35, G:0.37, T:0.21
Consensus pattern (24 bp):
TTCCCGGCGGTGCTCCGGCGAGCA
Found at i:69395 original size:58 final size:59
Alignment explanation
Indices: 69304--69424 Score: 190
Period size: 58 Copynumber: 2.1 Consensus size: 59
69294 CCCTCCCCAA
* * *
69304 TCCCAAAAGGTAGAATTCAGATACCGTTACATGTTCGGTACCCAATAATGAATGAACCG
1 TCCCAAAAGCTAGAATTAAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
* *
69363 TCCC-AAAGCTAGAATTAAGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGCTAGAATTAAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
69421 TCCC
1 TCCC
69425 TGTCCCTCCC
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 53 0.93
59 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (59 bp):
TCCCAAAAGCTAGAATTAAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
Found at i:75434 original size:43 final size:41
Alignment explanation
Indices: 75368--75652 Score: 299
Period size: 43 Copynumber: 6.7 Consensus size: 41
75358 GACGTCAGTG
* * *
75368 GTGCGTGAGCCTC-GAGCAGCATCGGCACCTTGGTGCCTTGGAT-
1 GTGCG-GAGCCTCGGA-CACCATCGGCACCTAGG-CCCTTGG-TC
* *
75411 ATGCAGGAGCCTCGGACACCATC-GCAACCTAGGCCCTTGATC
1 GTGC-GGAGCCTCGGACACCATCGGC-ACCTAGGCCCTTGGTC
* * *
75453 GTGCGGGAGCCTCGGGCACCACCAGCAACCTAGGCCCTTGGTC
1 GTGC-GGAGCCTCGGACACCATCGGC-ACCTAGGCCCTTGGTC
*
75496 GTGCAGGAGCCTCAGACACCATCGGCGACCTAGGCCCTTGGTC
1 GTGC-GGAGCCTCGGACACCATCGGC-ACCTAGGCCCTTGGTC
*
75539 GTGCGAGAGCCTCGGGCACCATCGGCACCCTAGGCCCTTGGTC
1 GTGCG-GAGCCTCGGACACCATCGGCA-CCTAGGCCCTTGGTC
* *
75582 GTGCGAGAGCCTC-TAGACCATCGGCACCTAGGCCCTTGGTC
1 GTGCG-GAGCCTCGGACACCATCGGCACCTAGGCCCTTGGTC
*
75623 GTGCGGGAGCCTCGGGCACCATCGGCACCT
1 GTGC-GGAGCCTCGGACACCATCGGCACCT
75653 TGGTGCTTGG
Statistics
Matches: 209, Mismatches: 24, Indels: 19
0.83 0.10 0.08
Matches are distributed among these distances:
41 27 0.13
42 52 0.25
43 127 0.61
44 3 0.01
ACGTcount: A:0.17, C:0.35, G:0.31, T:0.17
Consensus pattern (41 bp):
GTGCGGAGCCTCGGACACCATCGGCACCTAGGCCCTTGGTC
Found at i:75457 original size:85 final size:83
Alignment explanation
Indices: 75368--75652 Score: 360
Period size: 86 Copynumber: 3.4 Consensus size: 83
75358 GACGTCAGTG
* * * * * *
75368 GTGCGTGAGCCTCGAGCAGCATCGGCACCTTGGTGCCTTGGAT-ATGCAGGAGCCTCGGACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCACCTAGG-CCCTTGG-TCGTGCAGGAGCCTC-GACACCA
*
75432 TC-GCAACCTAGGCCCTTGATC
63 TCGGC-ACCTAGGCCCTTGGTC
* *
75453 GTGCGGGAGCCTCGGGCACCACCAGCAACCTAGGCCCTTGGTCGTGCAGGAGCCTCAGACACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCAGGAGCCTC-GACACCAT
75518 CGGCGACCTAGGCCCTTGGTC
64 CGGC-ACCTAGGCCCTTGGTC
* * *
75539 GTGCGAGAGCCTCGGGCACCATCGGCACCCTAGGCCCTTGGTCGTGC-GAGAGCCTCTAGACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCA-CCTAGGCCCTTGGTCGTGCAG-GAGCCTCGACACCAT
75603 CGGCACCTAGGCCCTTGGTC
64 CGGCACCTAGGCCCTTGGTC
75623 GTGCGGGAGCCTCGGGCACCATCGGCACCT
1 GTGCGGGAGCCTCGGGCACCATCGGCACCT
75653 TGGTGCTTGG
Statistics
Matches: 178, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
83 3 0.02
84 43 0.24
85 60 0.34
86 72 0.40
ACGTcount: A:0.17, C:0.35, G:0.31, T:0.17
Consensus pattern (83 bp):
GTGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCAGGAGCCTCGACACCATCG
GCACCTAGGCCCTTGGTC
Found at i:82115 original size:200 final size:200
Alignment explanation
Indices: 81772--82171 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
81762 CAAGAGGAGT
81772 CATGGGCTGATGTTTGCAGACATCATGGTAGCTGGCAAAAAGTTGAATGCACTTGTCGACACAGG
1 CATGGGCTGATGTTTGCAGACATCATGGTAGCTGGCAAAAAGTTGAATGCACTTGTCGACACAGG
81837 TGCGTCTGATTTATTTATGTCCGAAGGGGCTGCGCATAAACTTGGTCTCAAGATTAAAAATGATC
66 TGCGTCTGATTTATTTATGTCCGAAGGGGCTGCGCATAAACTTGGTCTCAAGATTAAAAATGATC
81902 CGGGTCGAATTAAGACTGTGAATTCGGAAAGTGTTCCAATCAAGGGGGTCGCAAAGGGAGTAAAA
131 CGGGTCGAATTAAGACTGTGAATTCGGAAAGTGTTCCAATCAAGGGGGTCGCAAAGGGAGTAAAA
81967 CTCCA
196 CTCCA
*
81972 CATGGGCTGATGTTTGCGGACATCATGGTAGCTGGCAAAAAGTTGAATGCACTTGTCGACACAGG
1 CATGGGCTGATGTTTGCAGACATCATGGTAGCTGGCAAAAAGTTGAATGCACTTGTCGACACAGG
82037 TGCGTCTGATTTATTTATGTCCGAAGGGGCTGCGCATAAACTTGGTCTCAAGATTAAAAATGATC
66 TGCGTCTGATTTATTTATGTCCGAAGGGGCTGCGCATAAACTTGGTCTCAAGATTAAAAATGATC
82102 CGGGTCGAATTAAGACTGTGAATTCGGAAAGTGTTCCAATCAAGGGGGTCGCAAAGGGAGTAAAA
131 CGGGTCGAATTAAGACTGTGAATTCGGAAAGTGTTCCAATCAAGGGGGTCGCAAAGGGAGTAAAA
82167 CTCCA
196 CTCCA
82172 ATTTGGCGAT
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (200 bp):
CATGGGCTGATGTTTGCAGACATCATGGTAGCTGGCAAAAAGTTGAATGCACTTGTCGACACAGG
TGCGTCTGATTTATTTATGTCCGAAGGGGCTGCGCATAAACTTGGTCTCAAGATTAAAAATGATC
CGGGTCGAATTAAGACTGTGAATTCGGAAAGTGTTCCAATCAAGGGGGTCGCAAAGGGAGTAAAA
CTCCA
Found at i:86592 original size:36 final size:36
Alignment explanation
Indices: 86545--86615 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
86535 CTTTAAATCG
86545 GATTTATGGTTACGAAACCACTGTTCCGATAACATA
1 GATTTATGGTTACGAAACCACTGTTCCGATAACATA
*
86581 GATTTGTGGTTACGAAACCACTGTTCCGATAACAT
1 GATTTATGGTTACGAAACCACTGTTCCGATAACAT
86616 TGAATTTACG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (36 bp):
GATTTATGGTTACGAAACCACTGTTCCGATAACATA
Found at i:96047 original size:35 final size:35
Alignment explanation
Indices: 96008--96079 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
95998 CATCTCTGGA
*
96008 GCTTGGAAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
* * *
96043 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
96078 GC
1 GC
96080 GATCCCAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (35 bp):
GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:96464 original size:48 final size:50
Alignment explanation
Indices: 96391--96486 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 50
96381 GTTCCATTGA
* *
96391 ATCCTTAAATTGTTGTGAGACAGGCTGACTTAGGCG-TTTTGAGCGAAGG
1 ATCCTTAAATTGTTGCGAGACAGGCTGACCTAGGCGTTTTTGAGCGAAGG
*
96440 ATCCTT-AATTGTTGCGAGATAGGCTGACCTAGGCGTTTTTGAGCGAA
1 ATCCTTAAATTGTTGCGAGACAGGCTGACCTAGGCGTTTTTGAGCGAA
96487 AGAACGCTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 26 0.60
49 17 0.40
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (50 bp):
ATCCTTAAATTGTTGCGAGACAGGCTGACCTAGGCGTTTTTGAGCGAAGG
Found at i:99943 original size:58 final size:59
Alignment explanation
Indices: 99852--99972 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 59
99842 CCCTCCCTAA
* *
99852 TCCCAAAAGGTAGAATTCAGATACCGTTACATGTTCGGTAACCAATAATGAATGAACCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTAACCAACAATGAATGAACCG
* * * *
99911 TCCC-AAAGCTAGAATTTAGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTAACCAACAATGAATGAACCG
99969 TCCC
1 TCCC
99973 TGTCCCTCTC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 52 0.93
59 4 0.07
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (59 bp):
TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTAACCAACAATGAATGAACCG
Found at i:100582 original size:58 final size:59
Alignment explanation
Indices: 100462--100575 Score: 167
Period size: 58 Copynumber: 1.9 Consensus size: 59
100452 CCCTCCCCAA
* *
100462 TCCCAAAAGGTAGAATTCAGATACCGTTACATGTTCAGTAACCAATAATGAATGAACCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCAGTAACCAACAATGAATGAACCG
* * * *
100521 TCCC-AAAGCTAGAATTTAGATACCGTTGCATGTTCGGTACCCAACAATGAATGAA
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCAGTAACCAACAATGAATGAA
100576 TTGTCCCTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
58 45 0.92
59 4 0.08
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (59 bp):
TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCAGTAACCAACAATGAATGAACCG
Found at i:100768 original size:610 final size:610
Alignment explanation
Indices: 99603--101615 Score: 3697
Period size: 610 Copynumber: 3.3 Consensus size: 610
99593 CATCTGAAAC
* * * *
99603 CTGTCCCTGTTTCAGACACATGAATGTCGACTGGTAGTACATTGACCAAGTTTTTTTAGCTCTTT
1 CTGTCTCTGTTTCAGACACATGAATGTCGCCTGATAGCACATTGACCAAGTTTTTTTAGCTCTTT
* * *
99668 AGTGGGGAAGTGATATTGAGCAGCCAGGGGTTATCTAGGGCACTGCCCACGCCCATCGCATGCCC
66 AGGGGGGAGGTGATATTGAGCAGCCAGGGGTTATCTAGGGCAATGCCCACGCCCATCGCATGCCC
* * * * * *
99733 GGACGTCGGTGCCCCTCACCACCGGTTAGGTTCCCGGCAGTGCTCCGATGATCCATTCCAGCGAT
131 GGACGTCGGTGCCCCCCACCACCGGTTAGGTTCTCGACGGTGCTCCGACGATCCATCCCAGCGAT
*
99798 GATCCGGTGATCCATCCCGGGATATACAAAACGGCGCAACAAGTCCCTCCCTAATCCCAAAAGGT
196 GATCCGGCGATCCATCCCGGGATATACAAAACGGCGCAACAAGTCCCTCCCTAATCCCAAAAGGT
*
99863 AGAATTCAGATACCGTTACATGTTCGGTAACCAATAATGAATGAACCGTCCCAAAGCTAGAATTT
261 AGAATTCAGATACCGTTACATGTTCAGTAACCAATAATGAATGAACCGTCCCAAAGCTAGAATTT
*
99928 AGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATCGTCCCTGTCCCTCTCCTTTTGCAAG
326 AGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATTGTCCCTGTCCCTCTCCTTTTGCAAG
* * *
99993 AAGGGCCTCCGGCACCTTTGGCCCCGATCGTACGGTATCCTCGTACACCATCGGTAGCGTGTGCC
391 AAGAGCCTCCGGCACCTTCGGCCCCGATCGTACGGTATCCTCGTACACCATCGGCAGCGTGTGCC
*
100058 ATCCCGTGGTGCGGGGCCATCGGGGCGCCACCGGCCCCTTCGATGTGTCGGAGCATCGGGCAGCA
456 ATCCCGTGGTGCGGGGCCATCGGGGCGCCACCGGCCCCTTCGATGTGTCGGAGCATCGGACAGCA
* *
100123 CCGGTACCTTGGTGCATCGGATGTGCGGGAGGGTCGAGCACCAAAACTAATTTTGGGCCCCCGTT
521 CCAGTACCTTGGTGCATCGGATGTGCGGGAGGGTCGAGCACCAAAGCTAATTTTGGGCCCCCGTT
100188 GGTGCAGAAGTGTCGGGACCATAAA
586 GGTGCAGAAGTGTCGGGACCATAAA
100213 CTGTCTCTGTTTCAGACACATGAATGTCGCCTGATAGCACATTGACCAAGTTTTTTTAGCTCTTT
1 CTGTCTCTGTTTCAGACACATGAATGTCGCCTGATAGCACATTGACCAAGTTTTTTTAGCTCTTT
100278 AGGGGGGAGGTGATATTGAGCAGCCAGGGGTTATCTAGGGCAATGCCCACGCCCATCGCATGCCC
66 AGGGGGGAGGTGATATTGAGCAGCCAGGGGTTATCTAGGGCAATGCCCACGCCCATCGCATGCCC
100343 GGACGTCGGTGCCCCCCACCACCGGTTAGGTTCTCGACGGTGCTCCGACGATCCATCCCAGCGAT
131 GGACGTCGGTGCCCCCCACCACCGGTTAGGTTCTCGACGGTGCTCCGACGATCCATCCCAGCGAT
*
100408 GATCCGGCGATCCATCCCGGGATATACAAAACGGCGCAACAAGTCCCTCCCCAATCCCAAAAGGT
196 GATCCGGCGATCCATCCCGGGATATACAAAACGGCGCAACAAGTCCCTCCCTAATCCCAAAAGGT
100473 AGAATTCAGATACCGTTACATGTTCAGTAACCAATAATGAATGAACCGTCCCAAAGCTAGAATTT
261 AGAATTCAGATACCGTTACATGTTCAGTAACCAATAATGAATGAACCGTCCCAAAGCTAGAATTT
100538 AGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATTGTCCCTGTCCCTCTCCTTTTGCAAG
326 AGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATTGTCCCTGTCCCTCTCCTTTTGCAAG
100603 AAGAGCCTCCGGCACCTTCGGCCCCGATCGTACGGTATCCTCGTACACCATCGGCAGCGTGTGCC
391 AAGAGCCTCCGGCACCTTCGGCCCCGATCGTACGGTATCCTCGTACACCATCGGCAGCGTGTGCC
100668 ATCCCGTGGTGCGGGGCCATCGGGGCGCCACCGGCCCCTTCGATGTGTCGGAGCATCGGACAGCA
456 ATCCCGTGGTGCGGGGCCATCGGGGCGCCACCGGCCCCTTCGATGTGTCGGAGCATCGGACAGCA
100733 CCAGTACCTTGGTGCATCGGATGTGCGGGAGGGTCGAGCACCAAAGCTAATTTTGGGCCCCCGTT
521 CCAGTACCTTGGTGCATCGGATGTGCGGGAGGGTCGAGCACCAAAGCTAATTTTGGGCCCCCGTT
100798 GGTGCAGAAGTGTCGGGACCATAAA
586 GGTGCAGAAGTGTCGGGACCATAAA
100823 CTGTCTCTGTTTCAGACACATGAATGTCGCCTGATAGCACATTGACCAAGTTTTTTTAGCTCTTT
1 CTGTCTCTGTTTCAGACACATGAATGTCGCCTGATAGCACATTGACCAAGTTTTTTTAGCTCTTT
100888 AGGGGGGAGGTGATATTGAGCAGCCAGGGGTTATCTAGGGCAATGCCCACGCCCATCGCATGCCC
66 AGGGGGGAGGTGATATTGAGCAGCCAGGGGTTATCTAGGGCAATGCCCACGCCCATCGCATGCCC
100953 GGACGTCGGTGCCCCCCACCACCGGTTAGGTTCTCGACGGTGCTCCGACGATCCATCCCAGCGAT
131 GGACGTCGGTGCCCCCCACCACCGGTTAGGTTCTCGACGGTGCTCCGACGATCCATCCCAGCGAT
101018 GATCCGGCGATCCATCCCGGGATATACAAAACGGCGCAACAAGTCCCTCCCTAATCCCAAAAGGT
196 GATCCGGCGATCCATCCCGGGATATACAAAACGGCGCAACAAGTCCCTCCCTAATCCCAAAAGGT
101083 AGAATTCAGATACCGTTACATGTTCAGTAACCAATAATGAATGAACCGTCCCAAAGCTAGAATTT
261 AGAATTCAGATACCGTTACATGTTCAGTAACCAATAATGAATGAACCGTCCCAAAGCTAGAATTT
101148 AGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATTGTCCCTGTCCCTCTCCTTTTGCAAG
326 AGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATTGTCCCTGTCCCTCTCCTTTTGCAAG
101213 AAGAGCCTCCGGCACCTTCGGCCCCGATCGTACGGTATCCTCGTACACCATCGGCAGCGTGTGCC
391 AAGAGCCTCCGGCACCTTCGGCCCCGATCGTACGGTATCCTCGTACACCATCGGCAGCGTGTGCC
101278 ATCCCGTGGTGCGGGGCCATCGGGGCGCCACCGGCCCCTTCGATGTGTCGGAGCATCGGACAGCA
456 ATCCCGTGGTGCGGGGCCATCGGGGCGCCACCGGCCCCTTCGATGTGTCGGAGCATCGGACAGCA
101343 CCAGTACCTTGGTGCATCGGATGTGCGGGAGGGTCGAGCACCAAAGCTAATTTTGGGCCCCCGTT
521 CCAGTACCTTGGTGCATCGGATGTGCGGGAGGGTCGAGCACCAAAGCTAATTTTGGGCCCCCGTT
101408 GGTGCAGAAGTGTCGGGACCATAAA
586 GGTGCAGAAGTGTCGGGACCATAAA
101433 CTGTCTCTGTTTCAGACACATGAATGTCGCCTGATAGCACATTGACCAAGTTTTTTTAGCTCTTT
1 CTGTCTCTGTTTCAGACACATGAATGTCGCCTGATAGCACATTGACCAAGTTTTTTTAGCTCTTT
* * * * *
101498 AGGGGGGAGGTGATATTGAGC-GAACAGGGGTTGTCCAGGGCACTGCCCACGCCCATCTCATGCC
66 AGGGGGGAGGTGATATTGAGCAG-CCAGGGGTTATCTAGGGCAATGCCCACGCCCATCGCATGCC
* * * * *
101562 CAGATGTCGGTGCCCCCCATCGCCGGTTAGGTTC-CCAGCGGTGCTCCGACGATC
130 CGGACGTCGGTGCCCCCCACCACCGGTTAGGTTCTCGA-CGGTGCTCCGACGATC
101616 TATTCCGGCG
Statistics
Matches: 1367, Mismatches: 34, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
609 3 0.00
610 1364 1.00
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (610 bp):
CTGTCTCTGTTTCAGACACATGAATGTCGCCTGATAGCACATTGACCAAGTTTTTTTAGCTCTTT
AGGGGGGAGGTGATATTGAGCAGCCAGGGGTTATCTAGGGCAATGCCCACGCCCATCGCATGCCC
GGACGTCGGTGCCCCCCACCACCGGTTAGGTTCTCGACGGTGCTCCGACGATCCATCCCAGCGAT
GATCCGGCGATCCATCCCGGGATATACAAAACGGCGCAACAAGTCCCTCCCTAATCCCAAAAGGT
AGAATTCAGATACCGTTACATGTTCAGTAACCAATAATGAATGAACCGTCCCAAAGCTAGAATTT
AGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATTGTCCCTGTCCCTCTCCTTTTGCAAG
AAGAGCCTCCGGCACCTTCGGCCCCGATCGTACGGTATCCTCGTACACCATCGGCAGCGTGTGCC
ATCCCGTGGTGCGGGGCCATCGGGGCGCCACCGGCCCCTTCGATGTGTCGGAGCATCGGACAGCA
CCAGTACCTTGGTGCATCGGATGTGCGGGAGGGTCGAGCACCAAAGCTAATTTTGGGCCCCCGTT
GGTGCAGAAGTGTCGGGACCATAAA
Found at i:101192 original size:58 final size:59
Alignment explanation
Indices: 101072--101185 Score: 167
Period size: 58 Copynumber: 1.9 Consensus size: 59
101062 CCCTCCCTAA
* *
101072 TCCCAAAAGGTAGAATTCAGATACCGTTACATGTTCAGTAACCAATAATGAATGAACCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCAGTAACCAACAATGAATGAACCG
* * * *
101131 TCCC-AAAGCTAGAATTTAGATACCGTTGCATGTTCGGTACCCAACAATGAATGAA
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCAGTAACCAACAATGAATGAA
101186 TTGTCCCTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
58 45 0.92
59 4 0.08
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (59 bp):
TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCAGTAACCAACAATGAATGAACCG
Found at i:101964 original size:43 final size:42
Alignment explanation
Indices: 101898--102607 Score: 648
Period size: 43 Copynumber: 16.7 Consensus size: 42
101888 GACGTTAGTG
* * * *
101898 GTGCGTGAGCCTC-GAGCAGCATCGGCACCTTGGTGCCTTGGAT-
1 GTGCGGGAGCCTCAGA-CACCATCGGCACCTAGG-CCCTTGG-TC
* * *
101941 ATGCAGGAGCCTCAGACACCATCGGTAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCAGACACCATCGG-CACCTAGGCCCTTGGTC
* *
101984 GTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCAGACACCATCGGC-ACCTAGGCCCTTGGTC
* * *
102027 GTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGTCCTTGGTC
1 GTGCGGGAGCCTCAGACACCATCGGC-ACCTAGGCCCTTGGTC
* *
102070 GTGCGAGAGCCTCAGACACCATCGGCAACCTAGACCC-TGGTC
1 GTGCGGGAGCCTCAGACACCATCGGC-ACCTAGGCCCTTGGTC
* * *
102112 GTGCGGGAGCCTCAGACACCATCAGAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCAGACACCATCGGCACCTAGGCCCTTGGTC
* *
102154 GTGCGGGAG-CTCGGAGACCATCGGCAACCTAGGCTCC-TGGTC
1 GTGCGGGAGCCTCAGACACCATCGGC-ACCTAGGC-CCTTGGTC
* * *
102196 GTGTGGGAGCCTCAG-GACCATCGGCAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCAGACACCATCGGC-ACCTAGGCCCTTGGTC
* * *
102238 GTGCGGGAGCCTCGGGCACCATCGGCACCCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCAGACACCATCGGCA-CCTAGGCCCTTGGTC
* * * * * *
102281 ATGCGGAAACCTCGGGCACCATCGGCACCCTAGGCCTTTGGTC
1 GTGCGGGAGCCTCAGACACCATCGGCA-CCTAGGCCCTTGGTC
* * **
102324 GTGCGAGCGCCTC-GGGACCATCGGCACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCAGACACCATCGGCACCTAGGCCCTTGGTC
* * * * **
102365 GTGCGGGAACCTCGGGCACCATCGGCACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCAGACACCATCGGCACCTAGGCCCTTGG-TC
* ** * *
102407 GTGCGAGAGCCTGGGACACCATCGGTAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCAGACACCATCGG-CACCTAGGCCCTTGGTC
* * * * **
102450 CTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCAGACACCATCGGCACCTAGGCCCTTGG-TC
* * *
102492 GTGTGGGAGCCTCGGACACCATCGGCACCCTAGGCCTTTGGTC
1 GTGCGGGAGCCTCAGACACCATCGGCA-CCTAGGCCCTTGGTC
* * * *
102535 GTGCCGGAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCAGACACCATCGG-CACCTAGGCCCTTGGTC
*
102578 GTGCAGGAGCCTC-GAGCACCATCGGCACCT
1 GTGCGGGAGCCTCAGA-CACCATCGGCACCT
102608 TGGTGCCTCG
Statistics
Matches: 564, Mismatches: 83, Indels: 41
0.82 0.12 0.06
Matches are distributed among these distances:
41 47 0.08
42 198 0.35
43 310 0.55
44 9 0.02
ACGTcount: A:0.16, C:0.34, G:0.32, T:0.18
Consensus pattern (42 bp):
GTGCGGGAGCCTCAGACACCATCGGCACCTAGGCCCTTGGTC
Found at i:102239 original size:254 final size:254
Alignment explanation
Indices: 101946--102604 Score: 819
Period size: 254 Copynumber: 2.6 Consensus size: 254
101936 TGGATATGCA
* * *
101946 GGAGCCTCAGACACCATCGGTAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCA
1 GGAGCCTCAG-GACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCA
* *
102011 ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGTCCTTGGTCGTGCGA
65 CCCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCTTGGTCGTGCGA
*
102076 GAGCCTCAGACACCATCGGCAACCTAGACCC-TGGTCGTGCGGGAGCCTCAGACACCATCAGAAC
129 GAGCCTC-GACACCATCGGCAACCTAGACCCTTGGTCGTGCGGGAACCTCAGACACCATCAGAAC
* * * * *
102140 CTAGGCCCCTGG-TCGTGCGGGAG-CTCGGAGACCATCGGCAACCTAGGCTCCTGGTCGTGTG
193 CTAGGCCCCTGGAT-GTGCGAGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCCTGCG
* *
102201 GGAGCCTCAGGACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAC
1 GGAGCCTCAGGACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAC
* * * * *
102266 CCTAGGCCCCTGGTCATGCGGAAACCTCGGGCACCATCGGCACCCTAGGCCTTTGGTCGTGCGAG
66 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC-TTGGTCGTGCGAG
* ** * * * * *
102331 CGCCTCGGGACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAACCTCGGGCACCATCGGCACCT
130 AGCCTCGACACCATCGGCAACCTAGACCCTTGGTCGTGCGGGAACCTCAGACACCATCAGAACCT
* ** * * *
102395 TGGTGCTTGGATGTGCGAGAGCCTGGGACACCATCGGTAACCTAGGCCCCTGGTCCTGCG
195 AGGCCCCTGGATGTGCGAGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCCTGCG
* * ** *
102455 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGTGGGAGCCTCGGACACCATCGGC
1 GGAGCCTCAGG-ACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGACACCATCGGC
* * *
102518 ACCCTAGGCCTTTGGTCGTGCCGGAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTCGTGC-
64 ACCCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCTTGGTCGTGCG
102582 AGGAGCCTCGAGCACCATCGGCA
128 A-GAGCCTCGA-CACCATCGGCA
102605 CCTTGGTGCC
Statistics
Matches: 345, Mismatches: 49, Indels: 19
0.84 0.12 0.05
Matches are distributed among these distances:
252 9 0.03
253 57 0.17
254 248 0.72
255 31 0.09
ACGTcount: A:0.16, C:0.34, G:0.32, T:0.17
Consensus pattern (254 bp):
GGAGCCTCAGGACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAC
CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCTTGGTCGTGCGAGA
GCCTCGACACCATCGGCAACCTAGACCCTTGGTCGTGCGGGAACCTCAGACACCATCAGAACCTA
GGCCCCTGGATGTGCGAGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCCTGCG
Found at i:102346 original size:85 final size:85
Alignment explanation
Indices: 101946--102604 Score: 744
Period size: 85 Copynumber: 7.8 Consensus size: 85
101936 TGGATATGCA
* * * *
101946 GGAGCCTCAGACACCATCGGTAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGG-CACCATCGGCA
*
102011 ACCTAGGCCCTTGGTCGTGCG
65 ACCTAGGCCCCTGGTCGTGCG
* * *
102032 GGAGCCTCGGCCACCATCGGCAACCTAGGTCCTTGGTCGTGCGAGAGCCTCAGACACCATCGGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTC-GGCACCATCGGCA
*
102097 ACCTA-GACCCTGGTCGTGCG
65 ACCTAGGCCCCTGGTCGTGCG
* * * * * *
102117 GGAGCCTCAGACACCATCAG-AACCTAGGCCCCTGGTCGTGCGGGAG-CTCGGAGACCATCGGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGG-CACCATCGGCA
* *
102180 ACCTAGGCTCCTGGTCGTGTG
65 ACCTAGGCCCCTGGTCGTGCG
* * *
102201 GGAGCCTCAGG-ACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTC-GGCACCATCGGCA
* *
102265 CCCTAGGCCCCTGGTCATGCG
65 ACCTAGGCCCCTGGTCGTGCG
* * * * * *
102286 GAAACCTCGGGCACCATCGGCACCCTAGGCCTTTGGTCGTGCGAGCGCCTCGGGACCATCGGC-A
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGCACCATCGGCAA
*
102350 CCTAGGCCCTTGGTCGTGCG
66 CCTAGGCCCCTGGTCGTGCG
* * ** * *
102370 GGAACCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGAGCCTGGGACACCATCGGT
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGCCTCGG-CACCATCGGC
*
102433 AACCTAGGCCCCTGGTCCTGCG
64 AACCTAGGCCCCTGGTCGTGCG
* ** * *
102455 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGTGGGAGCCTCGGACACCATCGGC
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGCCTCGG-CACCATCGGC
* ** *
102518 ACCCTAGGCCTTTGGTCGTGCC
64 AACCTAGGCCCCTGGTCGTGCG
*
102540 GGAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTCGTGC-AGGAGCCTCGAGCACCATCGGC
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGA-GAGCCTCG-GCACCATCGGC
102604 A
64 A
102605 CCTTGGTGCC
Statistics
Matches: 493, Mismatches: 66, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
82 1 0.00
83 47 0.10
84 118 0.24
85 194 0.39
86 131 0.27
87 2 0.00
ACGTcount: A:0.16, C:0.34, G:0.32, T:0.17
Consensus pattern (85 bp):
GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGCACCATCGGCAA
CCTAGGCCCCTGGTCGTGCG
Found at i:102631 original size:43 final size:42
Alignment explanation
Indices: 101898--102723 Score: 604
Period size: 43 Copynumber: 19.4 Consensus size: 42
101888 GACGTTAGTG
* * *
101898 GTGCGTGAGCCTCGAGCAGCATCGGCACCTTGGTGCCTTGGAT-
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTAGG-GCCTTGG-TC
* * * *
101941 ATGCAGGAGCCTC-AGACACCATCGGTAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGAG-CACCATCGG-CACCTAGGGCCTTGGTC
*
101984 GTGCGGGAGCCTCG-GCCACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGAG-CACCATCGGC-ACCTAGGGCCTTGGTC
*
102027 GTGCGGGAGCCTCG-GCCACCATCGGCAACCTAGGTCCTTGGTC
1 GTGCGGGAGCCTCGAG-CACCATCGGC-ACCTAGGGCCTTGGTC
* * *
102070 GTGCGAGAGCCTC-AGACACCATCGGCAACCTA-GACCCTGGTC
1 GTGCGGGAGCCTCGAG-CACCATCGGC-ACCTAGGGCCTTGGTC
* * * *
102112 GTGCGGGAGCCTC-AGACACCATCAGAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGAG-CACCATCGGCACCTAGGGCCTTGGTC
*
102154 GTGCGGGAG-CTCGGAG-ACCATCGGCAACCTA-GGCTCCTGGTC
1 GTGCGGGAGCCTC-GAGCACCATCGGC-ACCTAGGGC-CTTGGTC
* * * *
102196 GTGTGGGAGCCTC-AGGACCATCGGCAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGAGCACCATCGGC-ACCTAGGGCCTTGGTC
* * *
102238 GTGCGGGAGCCTCGGGCACCATCGGCACCCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGAGCACCATCGGCA-CCTAGGGCCTTGGTC
* * * *
102281 ATGCGGAAACCTCGGGCACCATCGGCACCCTA-GGCCTTTGGTC
1 GTGCGGGAGCCTCGAGCACCATCGGCA-CCTAGGGCC-TTGGTC
* * * *
102324 GTGCGAGCGCCTCG-GGACCATCGGCACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTAGGGCCTTGGTC
* * *
102365 GTGCGGGAACCTCGGGCACCATCGGCACCTTGGTG-CTTGGAT-
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTAGG-GCCTTGG-TC
* * * * *
102407 GTGCGAGAGCCT-GGGACACCATCGGTAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGAG-CACCATCGG-CACCTAGGGCCTTGGTC
* * *
102450 CTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTG-CTTGGAT-
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTAGG-GCCTTGG-TC
*
102492 GTGTGGGAGCCTCG-GACACCATCGGCACCCTA-GGCCTTTGGTC
1 GTGCGGGAGCCTCGAG-CACCATCGGCA-CCTAGGGCC-TTGGTC
* * * *
102535 GTGCCGGAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGAGCACCATCGG-CACCTAGGGCCTTGGTC
* * *
102578 GTGCAGGAGCCTCGAGCACCATCGGCACCTTGGTGCCTCGGAT-
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTAGG-GCCTTGG-TC
* * * * *
102621 GTGCGAGAGCCTCGAGTAGCATTGGCACCTTGGTG-CTTGGAT-
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTAGG-GCCTTGG-TC
* * * *
102663 GTACGGGAGCCTCG-GACACCATAGGCAACCTAGGACGTTGGAT-
1 GTGCGGGAGCCTCGAG-CACCATCGGC-ACCTAGGGCCTTGG-TC
* *
102706 GTGCGAGTGCCTCGAGCA
1 GTGCGGGAGCCTCGAGCA
102724 GCAGGGGCAC
Statistics
Matches: 653, Mismatches: 88, Indels: 84
0.79 0.11 0.10
Matches are distributed among these distances:
41 46 0.07
42 232 0.36
43 359 0.55
44 16 0.02
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (42 bp):
GTGCGGGAGCCTCGAGCACCATCGGCACCTAGGGCCTTGGTC
Found at i:102672 original size:128 final size:127
Alignment explanation
Indices: 101984--102755 Score: 607
Period size: 128 Copynumber: 6.1 Consensus size: 127
101974 GCCCTTGGTC
* ** *
101984 GTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGCCACCA
1 GTGCGGGAGCCTCGG-CACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGGCACCA
* * **
102048 TCGGCAACCTAGGTCCTTGGTCGTGCGAGAGCCTC-AGACACCATCGGCAACC-TAGACCCT-GG
63 TCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAG-CACCATCGGC-ACCTTGGTGCCTCGG
102110 -T
126 AT
* * * * ** *
102111 CGTGCGGGAGCCTCAGACACCATCAGAACCTAGGCCCCTGG-TCGTGCGGGAG-CTCGGAG-ACC
1 -GTGCGGGAGCCTC-GGCACCATCGGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGG-GCACC
* * * * **
102173 ATCGGCAACCTAGGCTCC-TGGTCGTGTGGGAGCCTC-AGGACCATCGGCAACCTAGGCCCCT-G
62 ATCGGCAACCTAGGC-CCTTGGTCGTGCGAGAGCCTCGAGCACCATCGGC-ACCTTGGTGCCTCG
102235 G-T
125 GAT
* ** * * * *
102237 CGTGCGGGAGCCTCGGGCACCATCGGCACCCTAGGCCCCTGG-TCATGCGGAAACCTCGGGCACC
1 -GTGCGGGAGCCTC-GGCACCATCGGCA-CCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGGCACC
* * * * * * *
102301 ATCGGCACCCTAGGCCTTTGGTCGTGCGAGCGCCTCG-GGACCATCGGCACCTAGG-CCCTTGG-
62 ATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCATCGGCACCTTGGTGCCTCGGA
102363 T
127 T
* *
102364 CGTGCGGGAACCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAGCCT-GGGACACCA
1 -GTGCGGGAGCCTC-GGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGGG-CACCA
* * * * * *
102428 TCGGTAACCTAGGCCCCTGGTCCTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTG-CTTGGAT
63 TCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCATCGGCACCTTGGTGCCTCGGAT
* * * *
102492 GTGTGGGAGCCTCGGACACCATCGGCACCCTAGG-CCTTTGG-TCGTGCCGGAGCCTCGGGCACC
1 GTGCGGGAGCCTCGG-CACCATCGGCA-CCTTGGTGC-TTGGAT-GTGCGGGAGCCTCGGGCACC
*
102555 ATCGGTAACCTAGGCCCTTGGTCGTGC-AGGAGCCTCGAGCACCATCGGCACCTTGGTGCCTCGG
62 ATCGGCAACCTAGGCCCTTGGTCGTGCGA-GAGCCTCGAGCACCATCGGCACCTTGGTGCCTCGG
102619 AT
126 AT
* * * * * * *
102621 GTGCGAGAGCCTCGAGTAGCATTGGCACCTTGGTGCTTGGATGTACGGGAGCCTCGGACACCATA
1 GTGCGGGAGCCTCG-GCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACCATC
* * * * ** *
102686 GGCAACCTAGGACGTTGGAT-GTGCGAGTGCCTCGAGCAGCAGGGGCACCCTGGTGCCTCGGAT
65 GGCAACCTAGGCCCTTGG-TCGTGCGAGAGCCTCGAGCACCATCGGCACCTTGGTGCCTCGGAT
102749 GTGCGGG
1 GTGCGGG
102756 CTAAAGAAAA
Statistics
Matches: 543, Mismatches: 74, Indels: 54
0.81 0.11 0.08
Matches are distributed among these distances:
125 16 0.03
126 129 0.24
127 132 0.24
128 231 0.43
129 34 0.06
130 1 0.00
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (127 bp):
GTGCGGGAGCCTCGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACCATCG
GCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCATCGGCACCTTGGTGCCTCGGAT
Found at i:102706 original size:85 final size:85
Alignment explanation
Indices: 101984--102755 Score: 612
Period size: 85 Copynumber: 9.1 Consensus size: 85
101974 GCCCTTGGTC
* *
101984 GTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG-GCCACCA
1 GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAG-CACCA
* *
102048 TCGGCAACCTAGGTCCTTGG-T
65 TCGGC-ACCTTGGTGCTTGGAT
* * * *
102069 CGTGCGAGAGCCTCAGACACCATCGGCAACCTAGACCC-TGGTCGTGCGGGAGCCTC-AGACACC
1 -GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAG-CACC
* * * ** *
102132 ATCAGAACCTAGGCCCCTGG-T
64 ATCGGCACCTTGGTGCTTGGAT
* * * *
102153 CGTGCGGGAG-CTCGGAGACCATCGGCAACCTAGGCTCC-TGGTCGTGTGGGAGCCTC-AGGACC
1 -GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGC-CCTTGGTCGTGCGAGAGCCTCGAGCACC
* ** *
102215 ATCGGCAACCTAGGCCCCTGG-T
64 ATCGGC-ACCTTGGTGCTTGGAT
* * * * * *
102237 CGTGCGGGAGCCTCGGGCACCATCGGCACCCTAGGCCCCTGGTCATGCG-GAAACCTCGGGCACC
1 -GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAG-AGCCTCGAGCACC
* *
102301 ATCGGCACCCTAGG-CCTTTGG-T
64 ATCGGCA-CCTTGGTGC-TTGGAT
* * * * * *
102323 CGTGCGAGCGCCTCGG-GACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAACCTCGGGCACCA
1 -GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCA
102386 TCGGCACCTTGGTGCTTGGAT
65 TCGGCACCTTGGTGCTTGGAT
* * * * * * *
102407 GTGCGAGAGCCTGGGACACCATCGGTAACCTAGGCCCCTGGTCCTGCGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCAT
102472 CGGCACCTTGGTGCTTGGAT
66 CGGCACCTTGGTGCTTGGAT
* * * *
102492 GTGTGGGAGCCTCGGACACCATCGGCACCCTAGGCCTTTGGTCGTGCCG-GAGCCTCGGGCACCA
1 GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTG-CGAGAGCCTCGAGCACCA
* * **
102556 TCGGTAACCTAGGCCCTTGG-T
65 TCGG-CACCTTGGTGCTTGGAT
* * * * *
102577 CGTGCAGGAGCCTC-GAGCACCATCGGC-ACCTTGGTGCCTCGGAT-GTGCGAGAGCCTCGAGTA
1 -GTGCGGGAGCCTCGGA-CACCATCGGCAACCTAGG-CCCTTGG-TCGTGCGAGAGCCTCGAGCA
* *
102639 GCATTGGCACCTTGGTGCTTGGAT
62 CCATCGGCACCTTGGTGCTTGGAT
* * * * * *
102663 GTACGGGAGCCTCGGACACCATAGGCAACCTAGGACGTTGGAT-GTGCGAGTGCCTCGAGCAGCA
1 GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGCCTCGAGCACCA
** * *
102727 GGGGCACCCTGGTGCCTCGGAT
65 TCGGCACCTTGGTG-CTTGGAT
102749 GTGCGGG
1 GTGCGGG
102756 CTAAAGAAAA
Statistics
Matches: 579, Mismatches: 82, Indels: 50
0.81 0.12 0.07
Matches are distributed among these distances:
83 51 0.09
84 119 0.21
85 264 0.46
86 144 0.25
87 1 0.00
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (85 bp):
GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCAT
CGGCACCTTGGTGCTTGGAT
Found at i:102842 original size:15 final size:15
Alignment explanation
Indices: 102822--102852 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
102812 AGACACATGA
102822 ATGTCGACTGGTAGT
1 ATGTCGACTGGTAGT
*
102837 ATGTCGCCTGGTAGT
1 ATGTCGACTGGTAGT
102852 A
1 A
102853 GCGCGTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.32
Consensus pattern (15 bp):
ATGTCGACTGGTAGT
Found at i:123012 original size:58 final size:58
Alignment explanation
Indices: 122922--123039 Score: 173
Period size: 58 Copynumber: 2.0 Consensus size: 58
122912 CTCCCCAAAC
* * *
122922 CCAAAAGGTAGAATTCAGATACCGTTACATGTTCGGTACCCAATAATGAATGAACCGT
1 CCAAAAGCTAGAATTCAGATACCATTACATGTTCGGTACCCAACAATGAATGAACCGT
* * * *
122980 CCAAAAGCTAGAATTTAGATACCATTGCATGTTCGGTCCCCAACAATGAATGAATCGT
1 CCAAAAGCTAGAATTCAGATACCATTACATGTTCGGTACCCAACAATGAATGAACCGT
123038 CC
1 CC
123040 CTGTCCCTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (58 bp):
CCAAAAGCTAGAATTCAGATACCATTACATGTTCGGTACCCAACAATGAATGAACCGT
Found at i:123325 original size:13 final size:13
Alignment explanation
Indices: 123307--123334 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
123297 ACACATGAAT
123307 GTCGCCTGGTAGC
1 GTCGCCTGGTAGC
123320 GTCGCCTGGTAGC
1 GTCGCCTGGTAGC
123333 GT
1 GT
123335 AGCAGCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.29, G:0.39, T:0.25
Consensus pattern (13 bp):
GTCGCCTGGTAGC
Found at i:128757 original size:24 final size:23
Alignment explanation
Indices: 128712--128758 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
128702 CGACGATCCA
*
128712 TTCCGGCGGTGGTCCGGCGAGCT
1 TTCCGGCGGTGCTCCGGCGAGCT
* *
128735 TTCCTGGCGGTGCTCTGGTGAGCT
1 TTCC-GGCGGTGCTCCGGCGAGCT
128759 ATCTTAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.04, C:0.28, G:0.40, T:0.28
Consensus pattern (23 bp):
TTCCGGCGGTGCTCCGGCGAGCT
Found at i:129087 original size:43 final size:43
Alignment explanation
Indices: 129040--130123 Score: 1302
Period size: 43 Copynumber: 25.4 Consensus size: 43
129030 TGGATATGTA
* * * * *
129040 GGAGCCTCGGACACCATCGGTAACCTAGGCCATTAGTCATGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
129083 GGAGCCTCGGCCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
129126 GGAGCCTCGGGCACCATCGGAAACCTAGGCCCTTGGTCGTGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
129169 AGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
129212 AGAGCCTCAGGCACCATCGGCAACCTAGGCCCGTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
129255 AGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
129298 GGAGCCTCGGGCACCATCGGAAACCTAGGCCCTTGGTCGTGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* **
129341 AGAGCCTCGGGCACCATCGAAAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * *
129384 AGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGTG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
129427 GGAGCCTCAGACACCATCGG-AACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
129469 GGAG-CTCGGACACTATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
129511 GGAGCCTCGGG-ACCATCGGCAACCTAGACCCTTGGTCGTGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
129553 GGAGCCTCGGGCACCATCGGCACCCTAGG-CCTCTGGTCGTGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCG
* *
129596 GGAGCCTCGGGCACCATCGGCACCCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
129639 GGAGCCTCGGGCACCATCGGCACCCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
129682 AGAGCCTCGGG-ACCATCGG-AACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * ** *
129723 GGAGCCTCGGGCACCATCGTC-ACCTTGGTGCTTGGAT-GTGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
* * *
129765 AGAGCCT-GGGACACCATCGGTAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * ** *
129808 GGAGCCTCGGGCACCATCGTC-ACCTTGGTGCTTGGAT-GTGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
* * *
129850 AGAGCCT-GGGACACCATCGGTAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * ** *
129893 GGAGCCTCGGGCACCATCGTC-ACCTTGGTGCTTGGAT-GTGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
* * *
129935 AGAGCCT-GGGACACCATCGGTAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * * *
129978 GGAGCCTCGGGCACTATCGGC-ACCTTGGCGCTTGGAT-GTACA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
* * * *
130020 GGAGCGTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCC
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * *
130063 GGAGCCTCGAGCACCATCGGTAACCTAGGCCCTTGATCGTGTG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
130106 GGAGCCTCGGGCACCATC
1 GGAGCCTCGGGCACCATC
130124 AGGACCTTGG
Statistics
Matches: 901, Mismatches: 115, Indels: 50
0.85 0.11 0.05
Matches are distributed among these distances:
41 53 0.06
42 227 0.25
43 610 0.68
44 11 0.01
ACGTcount: A:0.17, C:0.33, G:0.32, T:0.17
Consensus pattern (43 bp):
GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
Found at i:130233 original size:43 final size:43
Alignment explanation
Indices: 130170--130305 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
130160 GCCCCTGGTC
* *
130170 GTGCGGGAGCCTCGGGCACCATTGGCACCTTGGTGCCTCGGAT
1 GTGCGGGAGCCTCGGACACCATAGGCACCTTGGTGCCTCGGAT
* * * *
130213 GTGCGGGAGCCTCGGACACCATAGGCAACCTAGG-ACGTTGGAT
1 GTGCGGGAGCCTCGGACACCATAGGC-ACCTTGGTGCCTCGGAT
* * ** *
130256 GTGCGGGTGCCTC-GAGCAGCAGGGGCACCCTGGTGCCTCGGAT
1 GTGCGGGAGCCTCGGA-CACCATAGGCACCTTGGTGCCTCGGAT
130299 GTGCGGG
1 GTGCGGG
130306 CTAAAGAAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
42 7 0.09
43 62 0.83
44 6 0.08
ACGTcount: A:0.15, C:0.28, G:0.40, T:0.18
Consensus pattern (43 bp):
GTGCGGGAGCCTCGGACACCATAGGCACCTTGGTGCCTCGGAT
Found at i:134251 original size:12 final size:12
Alignment explanation
Indices: 134234--134260 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
134224 GTGTAACAAC
134234 TCACCTGCCGAA
1 TCACCTGCCGAA
134246 TCACCTGCCGAA
1 TCACCTGCCGAA
134258 TCA
1 TCA
134261 ACTTATACCC
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:0.26, C:0.41, G:0.15, T:0.19
Consensus pattern (12 bp):
TCACCTGCCGAA
Found at i:135769 original size:81 final size:81
Alignment explanation
Indices: 135634--135798 Score: 330
Period size: 81 Copynumber: 2.0 Consensus size: 81
135624 AAGGGTAAAA
135634 GCTCGTTTGATTCTGATTTACAGTACGAATACGAACCGTGAAAGCGTGGCCTATCGATCCTTTAG
1 GCTCGTTTGATTCTGATTTACAGTACGAATACGAACCGTGAAAGCGTGGCCTATCGATCCTTTAG
135699 ACCTTCGAAATTTGAT
66 ACCTTCGAAATTTGAT
135715 GCTCGTTTGATTCTGATTTACAGTACGAATACGAACCGTGAAAGCGTGGCCTATCGATCCTTTAG
1 GCTCGTTTGATTCTGATTTACAGTACGAATACGAACCGTGAAAGCGTGGCCTATCGATCCTTTAG
135780 ACCTTCGAAATTTGAT
66 ACCTTCGAAATTTGAT
135796 GCT
1 GCT
135799 AGAGGTGTCA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (81 bp):
GCTCGTTTGATTCTGATTTACAGTACGAATACGAACCGTGAAAGCGTGGCCTATCGATCCTTTAG
ACCTTCGAAATTTGAT
Found at i:137065 original size:16 final size:16
Alignment explanation
Indices: 137044--137074 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
137034 GACACATGAA
*
137044 TGTCGCTTGGTAGCAT
1 TGTCGCCTGGTAGCAT
137060 TGTCGCCTGGTAGCA
1 TGTCGCCTGGTAGCA
137075 GCGTAGCGTG
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:0.13, C:0.23, G:0.32, T:0.32
Consensus pattern (16 bp):
TGTCGCCTGGTAGCAT
Found at i:138423 original size:54 final size:54
Alignment explanation
Indices: 138341--138449 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
138331 TGGAAATGCC
*
138341 GAACCAAACAAAAGACAATGCTCGTGGAATATGCTGAGAAGGGTGGGTCAGTCT
1 GAACCAAACAAAAGACAATGCTCATGGAATATGCTGAGAAGGGTGGGTCAGTCT
* *
138395 GAACCGAACAAAAGACAATGCTTATGGAATATGCTGAGAAGGGTGGGTCAGTCT
1 GAACCAAACAAAAGACAATGCTCATGGAATATGCTGAGAAGGGTGGGTCAGTCT
138449 G
1 G
138450 TTACGGAGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (54 bp):
GAACCAAACAAAAGACAATGCTCATGGAATATGCTGAGAAGGGTGGGTCAGTCT
Found at i:142371 original size:24 final size:25
Alignment explanation
Indices: 142317--142371 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
142307 GCCGGTTAGG
* *
142317 TTCCCGGCGGTGCTCCGACGATCTA
1 TTCCCGGAGGTGCTCCGACGAGCTA
* *
142342 TT-CCGGAGGTGGTCCGGCGAGCT-
1 TTCCCGGAGGTGCTCCGACGAGCTA
142365 TTCCCGG
1 TTCCCGG
142372 CGGTACTCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 21 0.84
25 2 0.08
ACGTcount: A:0.09, C:0.33, G:0.35, T:0.24
Consensus pattern (25 bp):
TTCCCGGAGGTGCTCCGACGAGCTA
Found at i:142901 original size:42 final size:43
Alignment explanation
Indices: 142645--143546 Score: 962
Period size: 43 Copynumber: 21.2 Consensus size: 43
142635 TGGATATGCA
*
142645 GGAGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
142688 GGAGCTTCGGCCACCATCGGCAACCTAGGCCCTTGGTCGTGTG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
142731 AGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
142774 AGAGCCTCAGG-CACCATCGGCAACCTAGGCCCGTGGTCGTGCG
1 GGAGCCTC-GGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
142817 AGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * *
142860 GGAGCCTCAGACACTATCGG-AACTTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
142902 GGAG-CTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * *
142944 GGAGCCTCAGACACTATCGG-AACTTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
142986 GGAG-CTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
143028 GGAGCCTTAGG--ACCATCGGCAACCTAGGCCCCTAGTCGTGCG
1 GGAGCC-TCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * *
143070 GGACCCTCGGGCACCATCGGCACCCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * *
143113 GGAACCTCGGGCACCATCGGCACCCTAGGCCCTTGGTCATGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
143156 AGAGCCTC-GAGACCATCGG-AACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * ** *
143197 GGAGCCTCGGGCACCATCGTC-ACCTTGGTGCTTGGAT-GTGCA
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
* * * *
143239 AGAGCCTGGGACACCATCGGTAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * **
143282 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
* *
143324 GGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCC
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
143367 GGAGCCTCGGGA-ACCATCAGTAACCTAGGCCCTTGGTCGTGCC
1 GGAGCCTC-GGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * * *
143410 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCCTCAGAT-GTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGG-CCCT-TGGTCGTGCG
* * * ** *
143453 GGAGCCTC-GAGCAGCATTGGC-ACCTTGGTGCTTGGAT-GTGTG
1 GGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
* * * *
143495 GGAGCCTCGGACACCATAGGCAATCTAGGACGTTGGAT-GTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
*
143538 GGTGCCTCG
1 GGAGCCTCG
143547 AGCAGCAGGG
Statistics
Matches: 736, Mismatches: 98, Indels: 50
0.83 0.11 0.06
Matches are distributed among these distances:
41 57 0.08
42 253 0.34
43 417 0.57
44 9 0.01
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.18
Consensus pattern (43 bp):
GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
Found at i:142934 original size:84 final size:86
Alignment explanation
Indices: 142645--143523 Score: 968
Period size: 85 Copynumber: 10.3 Consensus size: 86
142635 TGGATATGCA
* * * *
142645 GGAGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCTTCGGCCACCATCGGCA
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGACACCATCGGCA
*
142710 ACCTAGGCCCTTGGTCGTGTG
66 ACCTAGGCCCTTGGTCGTGCG
* * * *
142731 AGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCAGG-CACCATCGGC
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTC-GGACACCATCGGC
*
142795 AACCTAGGCCCGTGGTCGTGCG
65 AACCTAGGCCCTTGGTCGTGCG
* * *
142817 AGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCAGACACTATCGG-A
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGACACCATCGGCA
* *
142881 ACTTAGGCCCCTGGTCGTGCG
66 ACCTAGGCCCTTGGTCGTGCG
* *
142902 GGAG-CTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCAGACACTATCGG-A
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGACACCATCGGCA
* *
142965 ACTTAGGCCCCTGGTCGTGCG
66 ACCTAGGCCCTTGGTCGTGCG
*
142986 GGAG-CTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTTAGG--ACCATCGGC
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCC-TCGGACACCATCGGC
* *
143048 AACCTAGGCCCCTAGTCGTGCG
65 AACCTAGGCCCTTGGTCGTGCG
* * * * *
143070 GGACCCTCGGGCACCATCGGCACCCTAGGCCCCTGGTCGTGCGGGAACCTCGGGCACCATCGGCA
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGACACCATCGGCA
* *
143135 CCCTAGGCCCTTGGTCATGCG
66 ACCTAGGCCCTTGGTCGTGCG
* * * * *
143156 AGAGCCTC-GAGACCATCGG-AACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGTC-
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGACACCATCGGCA
* ** *
143218 ACCTTGGTGCTTGGAT-GTGCA
66 ACCTAGGCCCTTGG-TCGTGCG
* * * *
143239 AGAGCCTGGGACACCATCGGTAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGACACCATCGGCA
* **
143303 ACCTTGGTGCTTGGAT-GTGCG
66 ACCTAGGCCCTTGG-TCGTGCG
* * * * *
143324 GGAGCCTCGAACACCATCGGCAACCTAGGCCCTTGGTCGTGCCGGAGCCTCGGGA-ACCATCAGT
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTC-GGACACCATCGGC
*
143388 AACCTAGGCCCTTGGTCGTGCC
65 AACCTAGGCCCTTGGTCGTGCG
* * * * * * *
143410 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCCTCAGAT-GTGCGGGAGCCTC-GAGCAGCATTG
1 GGAGCCTCGGACACCATCGGCAACC-TAG-GCCCCTGGTCGTGCGGGAGCCTCGGA-CACCATCG
* ** *
143472 GC-ACCTTGGTGCTTGGAT-GTGTG
63 GCAACCTAGGCCCTTGG-TCGTGCG
* *
143495 GGAGCCTCGGACACCATAGGCAATCTAGG
1 GGAGCCTCGGACACCATCGGCAACCTAGG
143524 ACGTTGGATG
Statistics
Matches: 692, Mismatches: 82, Indels: 40
0.85 0.10 0.05
Matches are distributed among these distances:
83 27 0.04
84 207 0.30
85 228 0.33
86 223 0.32
87 7 0.01
ACGTcount: A:0.17, C:0.33, G:0.32, T:0.18
Consensus pattern (86 bp):
GGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGACACCATCGGCA
ACCTAGGCCCTTGGTCGTGCG
Found at i:143577 original size:43 final size:43
Alignment explanation
Indices: 143405--143582 Score: 137
Period size: 43 Copynumber: 4.2 Consensus size: 43
143395 GCCCTTGGTC
* * * * *
143405 GTGCCGGAGCCTCGGGCACCATCGGCACCTTGGTGCCTCAGAT
1 GTGCGGGAGCCTCGAGCAGCATAGGCACCCTGGTGCCTCAGAT
* * **
143448 GTGCGGGAGCCTCGAGCAGCATTGGCACCTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGAGCAGCATAGGCACCCTGGTGCCTCAGAT
* * ** * * **
143490 GTGTGGGAGCCTCG-GACACCATAGGCAATCTAGG-ACGTTGGAT
1 GTGCGGGAGCCTCGAG-CAGCATAGGCACCCT-GGTGCCTCAGAT
* **
143533 GTGCGGGTGCCTCGAGCAGCAGGGGCACCCTGGTGCCTCAGAT
1 GTGCGGGAGCCTCGAGCAGCATAGGCACCCTGGTGCCTCAGAT
143576 GTGCGGG
1 GTGCGGG
143583 CTAAAGAAAA
Statistics
Matches: 105, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
41 1 0.01
42 30 0.29
43 73 0.70
44 1 0.01
ACGTcount: A:0.16, C:0.27, G:0.38, T:0.20
Consensus pattern (43 bp):
GTGCGGGAGCCTCGAGCAGCATAGGCACCCTGGTGCCTCAGAT
Found at i:145616 original size:135 final size:135
Alignment explanation
Indices: 145369--145637 Score: 448
Period size: 135 Copynumber: 2.0 Consensus size: 135
145359 AGAATCGGTC
* *
145369 GCCATCGGCGTCCGAATTGTAGTCTGGAGAAGCGTCCTCAGCGACGGACCGGGCCCAAGTCCCCT
1 GCCACCGGCGTCCGAATTGTAGTCTGAAGAAGCGTCCTCAGCGACGGACCGGGCCCAAGTCCCCT
*
145434 GGAAAGGGGCGCCAGAGAGGGTGAGAGCCCCGTCGTGCCCGGACCCTGTCGCACCACGAGGCGCT
66 AGAAAGGGGCGCCAGAGAGGGTGAGAGCCCCGTCGTGCCCGGACCCTGTCGCACCACGAGGCGCT
145499 GTCTT
131 GTCTT
* * * *
145504 GCCACCGGCGTTCTAATTGTAGTCTGAAGAAGCGTCCTCAGCGGCGGACCGGGCCCAAGTCGCCT
1 GCCACCGGCGTCCGAATTGTAGTCTGAAGAAGCGTCCTCAGCGACGGACCGGGCCCAAGTCCCCT
* * *
145569 AGAAAGGGGCGCCAGAGAGGGTGAGAGCCCCGTCGTGCCCGGGCCCTGTGGCACTACGAGGCGCT
66 AGAAAGGGGCGCCAGAGAGGGTGAGAGCCCCGTCGTGCCCGGACCCTGTCGCACCACGAGGCGCT
145634 GTCT
131 GTCT
145638 ACGAGTCGGG
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 124 1.00
ACGTcount: A:0.18, C:0.32, G:0.35, T:0.15
Consensus pattern (135 bp):
GCCACCGGCGTCCGAATTGTAGTCTGAAGAAGCGTCCTCAGCGACGGACCGGGCCCAAGTCCCCT
AGAAAGGGGCGCCAGAGAGGGTGAGAGCCCCGTCGTGCCCGGACCCTGTCGCACCACGAGGCGCT
GTCTT
Found at i:146817 original size:35 final size:35
Alignment explanation
Indices: 146778--146849 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
146768 AGTCTGGATC
* *
146778 GCATATCTTTGAAGATCCCCTTCCATATTTGCCAA
1 GCATATCCTTGAAGATCACCTTCCATATTTGCCAA
* * *
146813 GCATATCCTTGAAGATTACTTTCCATATTTTCCAA
1 GCATATCCTTGAAGATCACCTTCCATATTTGCCAA
146848 GC
1 GC
146850 TCCGGAGATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (35 bp):
GCATATCCTTGAAGATCACCTTCCATATTTGCCAA
Found at i:146971 original size:58 final size:58
Alignment explanation
Indices: 146902--147013 Score: 215
Period size: 58 Copynumber: 1.9 Consensus size: 58
146892 TGATTGGGCC
146902 AAATGACCTCCCTCAAAAGCGATAAATCGCACAAGTCCGTCATGGTTGCAAGTTTCCA
1 AAATGACCTCCCTCAAAAGCGATAAATCGCACAAGTCCGTCATGGTTGCAAGTTTCCA
*
146960 AAATGAGCTCCCTCAAAAGCGATAAATCGCACAAGTCCGTCATGGTTGCAAGTT
1 AAATGACCTCCCTCAAAAGCGATAAATCGCACAAGTCCGTCATGGTTGCAAGTT
147014 ACCCTTCACG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (58 bp):
AAATGACCTCCCTCAAAAGCGATAAATCGCACAAGTCCGTCATGGTTGCAAGTTTCCA
Found at i:152093 original size:35 final size:35
Alignment explanation
Indices: 152054--152125 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
152044 AGTCTGGATC
* *
152054 GCATATCTTTGAAGATCCCCTTCCATATTTGCCAA
1 GCATATCCTTGAAGATCACCTTCCATATTTGCCAA
* * *
152089 GCATATCCTTGAAGATTACTTTCCATATTTTCCAA
1 GCATATCCTTGAAGATCACCTTCCATATTTGCCAA
152124 GC
1 GC
152126 TCCGGAGATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (35 bp):
GCATATCCTTGAAGATCACCTTCCATATTTGCCAA
Found at i:152979 original size:46 final size:46
Alignment explanation
Indices: 152912--153002 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
152902 AAGGGAATCG
*
152912 GGTTAAAATTCCTGAACCGGGACGCGGTGGCTGACGGCAATGTTAA
1 GGTTAAAATTCCTGAACCGGGACGCGGCGGCTGACGGCAATGTTAA
*
152958 GGTTAAAATTCCTGAACCGGGATGCGGCGGCTGACGGCAATGTTA
1 GGTTAAAATTCCTGAACCGGGACGCGGCGGCTGACGGCAATGTTA
153003 GGGAGTCTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (46 bp):
GGTTAAAATTCCTGAACCGGGACGCGGCGGCTGACGGCAATGTTAA
Found at i:153680 original size:45 final size:45
Alignment explanation
Indices: 153614--153701 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
153604 ATGCCTCGTC
*
153614 ATCTAATTAGTGACGCGCATGAATGGATTAACGAGATTCCCACTT
1 ATCTAATTAGTGACGCACATGAATGGATTAACGAGATTCCCACTT
*
153659 ATCTAATTAGTGATGCACATGAATGGATTAACGAGATTCCCAC
1 ATCTAATTAGTGACGCACATGAATGGATTAACGAGATTCCCAC
153702 AGTCCCTGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (45 bp):
ATCTAATTAGTGACGCACATGAATGGATTAACGAGATTCCCACTT
Found at i:154720 original size:73 final size:74
Alignment explanation
Indices: 154628--154773 Score: 222
Period size: 73 Copynumber: 2.0 Consensus size: 74
154618 AAGTCGCGGG
* *
154628 CGCCTCCTTGGAGCGTAATTCCCACCGAGCAGCGGGTTGAATCCTTTGCAGACGACTTAAATACG
1 CGCCTCCTTGGAGCGTAATTCCCACCGAGCAGCAGGTAGAATCCTTTGCAGACGACTTAAATACG
154693 CGACGGGGA
66 CGACGGGGA
* * * * *
154702 CGCCT-CTTGGAGCGTAATTCCCACCGTGCGGTAGGTAGAATCCTTTTCAGATGACTTAAATACG
1 CGCCTCCTTGGAGCGTAATTCCCACCGAGCAGCAGGTAGAATCCTTTGCAGACGACTTAAATACG
154766 CGACGGGG
66 CGACGGGG
154774 TATTGTAAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 60 0.92
74 5 0.08
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.23
Consensus pattern (74 bp):
CGCCTCCTTGGAGCGTAATTCCCACCGAGCAGCAGGTAGAATCCTTTGCAGACGACTTAAATACG
CGACGGGGA
Found at i:155255 original size:63 final size:63
Alignment explanation
Indices: 155156--155281 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
155146 TGCCGCCCCC
* * *
155156 TCAGGAAACATGGCACAACGGGGGCCGTGGTCCAGGCACTTGTTCAATTTTCTGCCGTGCCAT
1 TCAGGAAACATGGCACAACGGAGGCCGTGGTCCAGGCACTTATTCAATTTTCTACCGTGCCAT
155219 TCAGGAAACATGGCACAACGGAGGCCGTGGTCCAGGCACTTATTCAATTTTCTACCGTGCCAT
1 TCAGGAAACATGGCACAACGGAGGCCGTGGTCCAGGCACTTATTCAATTTTCTACCGTGCCAT
155282 CATGCCATAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (63 bp):
TCAGGAAACATGGCACAACGGAGGCCGTGGTCCAGGCACTTATTCAATTTTCTACCGTGCCAT
Found at i:156321 original size:24 final size:24
Alignment explanation
Indices: 156246--156321 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 24
156236 CCGGTTAGGT
** *
156246 TCCCGGCGGTGCTCCGACGATCCA
1 TCCCGGCGGTGCTCCGGTGAGCCA
** * * **
156270 TTTCGGCGGTGGTCTGGTGAGCTT
1 TCCCGGCGGTGCTCCGGTGAGCCA
156294 TCCCGGCGGTGCTCCGGTGAGCCA
1 TCCCGGCGGTGCTCCGGTGAGCCA
156318 TCCC
1 TCCC
156322 AGAATATAGA
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.08, C:0.34, G:0.34, T:0.24
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGTGAGCCA
Found at i:156616 original size:43 final size:43
Alignment explanation
Indices: 156594--156884 Score: 355
Period size: 43 Copynumber: 6.8 Consensus size: 43
156584 GCCTTGGATA
*
156594 TGCAGGAGCCTCGGACACCATC-GCAACCTAGGCCCTTGATCG
1 TGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCG
* * * *
156636 TGCGGGAGCCTCGGCCACCACCAGCAACCTAGGCCCTTGGTCG
1 TGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCG
* *
156679 TGCAGGAGCCTCAGACACCATCGGCGACCTAGGCCCTTGGTCG
1 TGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCG
* *
156722 TGC-GAGAGCCTCGGGCACCATCGGCAATCTAGGCCCTTGGTCG
1 TGCAG-GAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCG
*
156765 TGC-GAGAGCCTCGGACACCATCGGTAACCTAGGGCCC-TGGTCG
1 TGCAG-GAGCCTCGGACACCATCGGCAACCTA-GGCCCTTGGTCG
* * *
156808 TGCAAGAGCCTCAGACACCAAT-GG-AACCTAGGCCCCTGGTCG
1 TGCAGGAGCCTCGGACACC-ATCGGCAACCTAGGCCCTTGGTCG
*
156850 TGC-GGAAG-CTCGGACACCATCGGCAGCCTAGGCCC
1 TGCAGG-AGCCTCGGACACCATCGGCAACCTAGGCCC
156885 CNNNNNNNNN
Statistics
Matches: 218, Mismatches: 22, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
40 2 0.01
41 17 0.08
42 47 0.22
43 145 0.67
44 7 0.03
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (43 bp):
TGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCG
Found at i:156639 original size:85 final size:84
Alignment explanation
Indices: 156550--156884 Score: 306
Period size: 86 Copynumber: 3.9 Consensus size: 84
156540 GACGTCAGTG
* * * * *
156550 GTGCGTGAGCCTCGAGCAGCATCGGCACCTTGGTGCCTTGGAT-ATGCAGGAGCCTCGGACACCA
1 GTGCGAGAGCCTCG-GCACCATCGGCACCTAGG-CCCTTGG-TCATGCAGGAGCCTCAGACACCA
156614 TC-GCAACCTAGGCCCTTGATC
63 TCGGCAACCTAGGCCCTTGATC
* * * *
156635 GTGCGGGAGCCTCGGCCACCACCAGCAACCTAGGCCCTTGGTCGTGCAGGAGCCTCAGACACCAT
1 GTGCGAGAGCCTCGG-CACCATCGGC-ACCTAGGCCCTTGGTCATGCAGGAGCCTCAGACACCAT
* *
156700 CGGCGACCTAGGCCCTTGGTC
64 CGGCAACCTAGGCCCTTGATC
* * *
156721 GTGCGAGAGCCTCGGGCACCATCGGCAATCTAGGCCCTTGGTCGTGC-GAGAGCCTCGGACACCA
1 GTGCGAGAGCCTC-GGCACCATCGGC-ACCTAGGCCCTTGGTCATGCAG-GAGCCTCAGACACCA
* *
156785 TCGGTAACCTAGGGCCC-TGGTC
63 TCGGCAACCTA-GGCCCTTGATC
* * * * * *
156807 GTGCAAGAGCCTCAGACACCAAT-GGAACCTAGGCCCCTGGTCGTGC-GGAAG-CTCGGACACCA
1 GTGCGAGAGCCTC-GGCACC-ATCGGCACCTAGGCCCTTGGTCATGCAGG-AGCCTCAGACACCA
*
156869 TCGGCAGCCTAGGCCC
63 TCGGCAACCTAGGCCC
156885 CNNNNNNNNN
Statistics
Matches: 216, Mismatches: 25, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
83 5 0.02
84 23 0.11
85 69 0.32
86 110 0.51
87 9 0.04
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.16
Consensus pattern (84 bp):
GTGCGAGAGCCTCGGCACCATCGGCACCTAGGCCCTTGGTCATGCAGGAGCCTCAGACACCATCG
GCAACCTAGGCCCTTGATC
Found at i:156796 original size:129 final size:127
Alignment explanation
Indices: 156598--156884 Score: 393
Period size: 129 Copynumber: 2.3 Consensus size: 127
156588 TGGATATGCA
* *
156598 GGAGCCTCGGACACCATC-GCAACCTAGGCCCTTGATCGTGCGGGAGCCTCGGCCACCACCAGCA
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGATCGTGCGAGAGCCTCGGACACCACCAGCA
* * *
156662 ACCTA-GGCCCTTGGTCGTGCAGGAGCCTCAGACACC-ATCGGCGACCTAGGCCCTTGGTCGTGC
66 ACCTAGGGCCC-TGGTCGTGCAAGAGCCTCAGACACCAAT-GG-AACCTAGGCCCCTGGTCGTGC
* * * * * *
156725 GAGAGCCTCGGGCACCATCGGCAATCTAGGCCCTTGGTCGTGCGAGAGCCTCGGACACCATCGGT
1 G-GAGCCTCGGACACCATCGGCAACCTAGGCCCTTGATCGTGCGAGAGCCTCGGACACCACCAGC
156790 AACCTAGGGCCCTGGTCGTGCAAGAGCCTCAGACACCAATGGAACCTAGGCCCCTGGTCGTGC
65 AACCTAGGGCCCTGGTCGTGCAAGAGCCTCAGACACCAATGGAACCTAGGCCCCTGGTCGTGC
*
156853 GGAAG-CTCGGACACCATCGGCAGCCTAGGCCC
1 GG-AGCCTCGGACACCATCGGCAACCTAGGCCC
156885 CNNNNNNNNN
Statistics
Matches: 141, Mismatches: 14, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
127 26 0.18
128 38 0.27
129 70 0.50
130 7 0.05
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (127 bp):
GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGATCGTGCGAGAGCCTCGGACACCACCAGCA
ACCTAGGGCCCTGGTCGTGCAAGAGCCTCAGACACCAATGGAACCTAGGCCCCTGGTCGTGC
Found at i:164110 original size:57 final size:57
Alignment explanation
Indices: 164046--164155 Score: 184
Period size: 57 Copynumber: 1.9 Consensus size: 57
164036 GGCCGTCGGA
* * * *
164046 GTAAGGGCCAGGCCCTGATGAGTAGGAGGGCGCGGCGGTCGCCGCAAAACCCGGGGT
1 GTAAGGGCCAGGCCCCGATGAGTAGGAGGGCACCGCGATCGCCGCAAAACCCGGGGT
164103 GTAAGGGCCAGGCCCCGATGAGTAGGAGGGCACCGCGATCGCCGCAAAACCCG
1 GTAAGGGCCAGGCCCCGATGAGTAGGAGGGCACCGCGATCGCCGCAAAACCCG
164156 CGGCCGTCGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.22, C:0.29, G:0.40, T:0.09
Consensus pattern (57 bp):
GTAAGGGCCAGGCCCCGATGAGTAGGAGGGCACCGCGATCGCCGCAAAACCCGGGGT
Found at i:164742 original size:52 final size:52
Alignment explanation
Indices: 164664--164768 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
164654 CTGTTTAACG
* * *
164664 GCCTGCCCATCCTGTAAACGACTCAGCTGGAGGTAGGGGCCAGCGGCCAGAA
1 GCCTGCCCACCCTGGAAACGACTCAGCCGGAGGTAGGGGCCAGCGGCCAGAA
* * *
164716 GCCTGCCCACCCTGGAAACGGCTCAGCCGGAGGTAGGGTCCAGCGGCCGGAA
1 GCCTGCCCACCCTGGAAACGACTCAGCCGGAGGTAGGGGCCAGCGGCCAGAA
164768 G
1 G
164769 AGCACCGCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.21, C:0.32, G:0.35, T:0.11
Consensus pattern (52 bp):
GCCTGCCCACCCTGGAAACGACTCAGCCGGAGGTAGGGGCCAGCGGCCAGAA
Found at i:167179 original size:268 final size:268
Alignment explanation
Indices: 166702--167237 Score: 1045
Period size: 268 Copynumber: 2.0 Consensus size: 268
166692 TGCCGCCCCC
*
166702 TCAGGAAACATGGCACAACGGGGGCCGTGGTCAAGGCACTTGTTCAATTTTCTGCCTTGCCATCA
1 TCAGGAAACATGGCACAACGGGGGCCGTGGTCAAGGCACTTGTTCAATTTTCTGCCGTGCCATCA
166767 TGCCATATTTCATTCGACTTCTTGTATTTCTTTTGGGCCAACAGAAGAAATTTTCAATTAAAAAT
66 TGCCATATTTCATTCGACTTCTTGTATTTCTTTTGGGCCAACAGAAGAAATTTTCAATTAAAAAT
166832 ACCAAGTGTAAGTGGCGTAAAAAAATTGCCCCTATTTCAGGCATGTACGGGAGCCTCGGGAAACA
131 ACCAAGTGTAAGTGGCGTAAAAAAATTGCCCCTATTTCAGGCATGTACGGGAGCCTCGGGAAACA
166897 TCCGCAACGTAGGCCATCCCGTGGTGCGGGTCATCGAGCAACATCGGCACCTTGGTGCCTCGGAT
196 TCCGCAACGTAGGCCATCCCGTGGTGCGGGTCATCGAGCAACATCGGCACCTTGGTGCCTCGGAT
166962 GTGCTGGA
261 GTGCTGGA
* *
166970 TCAGGAAACATGGCACAACGGGGGTCGTGGTCCAGGCACTTGTTCAATTTTCTGCCGTGCCATCA
1 TCAGGAAACATGGCACAACGGGGGCCGTGGTCAAGGCACTTGTTCAATTTTCTGCCGTGCCATCA
167035 TGCCATATTTCATTCGACTTCTTGTATTTCTTTTGGGCCAACAGAAGAAATTTTCAATTAAAAAT
66 TGCCATATTTCATTCGACTTCTTGTATTTCTTTTGGGCCAACAGAAGAAATTTTCAATTAAAAAT
167100 ACCAAGTGTAAGTGGCGTAAAAAAATTGCCCCTATTTCAGGCATGTACGGGAGCCTCGGGAAACA
131 ACCAAGTGTAAGTGGCGTAAAAAAATTGCCCCTATTTCAGGCATGTACGGGAGCCTCGGGAAACA
167165 TCCGCAACGTAGGCCATCCCGTGGTGCGGGTCATCGAGCAACATCGGCACCTTGGTGCCTCGGAT
196 TCCGCAACGTAGGCCATCCCGTGGTGCGGGTCATCGAGCAACATCGGCACCTTGGTGCCTCGGAT
167230 GTGCTGGA
261 GTGCTGGA
167238 GCATTGGGCT
Statistics
Matches: 265, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
268 265 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (268 bp):
TCAGGAAACATGGCACAACGGGGGCCGTGGTCAAGGCACTTGTTCAATTTTCTGCCGTGCCATCA
TGCCATATTTCATTCGACTTCTTGTATTTCTTTTGGGCCAACAGAAGAAATTTTCAATTAAAAAT
ACCAAGTGTAAGTGGCGTAAAAAAATTGCCCCTATTTCAGGCATGTACGGGAGCCTCGGGAAACA
TCCGCAACGTAGGCCATCCCGTGGTGCGGGTCATCGAGCAACATCGGCACCTTGGTGCCTCGGAT
GTGCTGGA
Found at i:167275 original size:69 final size:69
Alignment explanation
Indices: 167186--167323 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
167176 GGCCATCCCG
**
167186 TGGTGCGGGTCATCGAGCAACATCGGCACCTTGGTGCCTCGGATGTGCTGGAGCATTGGGCTGAA
1 TGGTGCGGGTCATCGAGCAACATCGGCACCTTCATGCCTCGGATGTGCTGGAGCATTGGGCTGAA
167251 AAAA
66 AAAA
* *
167255 TGGTGCGGGTCATCGGGCAACATCGGCACCTTCATGCCTCGGATGTGCTGGAGCGTTGGGCTGAA
1 TGGTGCGGGTCATCGAGCAACATCGGCACCTTCATGCCTCGGATGTGCTGGAGCATTGGGCTGAA
167320 AAAA
66 AAAA
167324 GTGTCCCTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.22
Consensus pattern (69 bp):
TGGTGCGGGTCATCGAGCAACATCGGCACCTTCATGCCTCGGATGTGCTGGAGCATTGGGCTGAA
AAAA
Done.