Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 130 of 292
Found at i:38852197 original size:21 final size:21
Alignment explanation
Indices: 38852173--38852212 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38852163 TACATTTTAT
38852173 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
*
38852194 ACATGATATGTCATGATAT
1 ACATGATATGCCATGATAT
38852213 ATTCATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:38852309 original size:23 final size:24
Alignment explanation
Indices: 38852253--38852316 Score: 103
Period size: 23 Copynumber: 2.7 Consensus size: 24
38852243 GAATGAAGTG
38852253 CAAAAGGGCTTTGCCCTAATTTAT
1 CAAAAGGGCTTTGCCCTAATTTAT
*
38852277 CGAAAAGGGCTTTGCCC-AGTTTAT
1 C-AAAAGGGCTTTGCCCTAATTTAT
38852301 CAAAAGGGCTTTGCCC
1 CAAAAGGGCTTTGCCC
38852317 CAGCTATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
23 15 0.39
24 8 0.21
25 15 0.39
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCTAATTTAT
Found at i:38852318 original size:24 final size:24
Alignment explanation
Indices: 38852253--38852319 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
38852243 GAATGAAGTG
* *
38852253 CAAAAGGGCTTTGCCCTAATTTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
38852277 CGAAAAGGGCTTTG-CCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
38852301 CAAAAGGGCTTTGCCCCAG
1 CAAAAGGGCTTTGCCCCAG
38852320 CTATTAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.31
24 15 0.38
25 12 0.31
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:38852328 original size:23 final size:23
Alignment explanation
Indices: 38852253--38852329 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
38852243 GAATGAAGTG
* *
38852253 CAAAAGGGCTTTGCCCTAATTTAT
1 CAAAAGGGCTTTGCCC-AGTCTAT
*
38852277 CGAAAAGGGCTTTGCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCAGTCTAT
38852301 CAAAAGGGCTTTGCCCCAG-CTAT
1 CAAAAGGGCTTTG-CCCAGTCTAT
*
38852324 TAAAAG
1 CAAAAG
38852330 AGACTAGGCC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
23 20 0.42
24 13 0.27
25 15 0.31
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
CAAAAGGGCTTTGCCCAGTCTAT
Found at i:38852577 original size:31 final size:31
Alignment explanation
Indices: 38852542--38852618 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
38852532 TGTTTACAGT
38852542 AAAGGCTTCGGCCCAGTGATATGAATTATGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
38852573 AAAGGCTTCGGCCCAGTGATATGAATTATGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
38852604 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
38852619 ATAACCGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:38855475 original size:28 final size:28
Alignment explanation
Indices: 38855435--38855490 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
38855425 AAGAATATGC
38855435 ATTTTACGAGTCCGCATATGAAAGATAT
1 ATTTTACGAGTCCGCATATGAAAGATAT
38855463 ATTTTACGAGTCCGCATATGAAAGATAT
1 ATTTTACGAGTCCGCATATGAAAGATAT
38855491 GATAGTCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (28 bp):
ATTTTACGAGTCCGCATATGAAAGATAT
Found at i:38857442 original size:28 final size:28
Alignment explanation
Indices: 38857385--38857448 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
38857375 TAGGAAGTAG
* *
38857385 TTGGGCCTGATGAGCCATATGAATGTGA
1 TTGGGCCTGATGAGCCATATGAACGAGA
* *
38857413 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGAGCCATATGAACGAGA
*
38857441 TTAGGCCT
1 TTGGGCCT
38857449 AAAGGGGCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGAGCCATATGAACGAGA
Found at i:38857846 original size:27 final size:27
Alignment explanation
Indices: 38857783--38857849 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
38857773 AATACCACCG
*
38857783 ATTT-TTGAAACACCTTTGATTTTTAA
1 ATTTATTGAAACACCTTTGATTTTCAA
**
38857809 ATTTACCGAAACACCTTTGATTTGTCAA
1 ATTTATTGAAACACCTTTGATTT-TCAA
38857837 A-TTATTGAAACAC
1 ATTTATTGAAACAC
38857850 TCTCAATTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.12
27 26 0.76
28 4 0.12
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.40
Consensus pattern (27 bp):
ATTTATTGAAACACCTTTGATTTTCAA
Found at i:38857858 original size:27 final size:27
Alignment explanation
Indices: 38857827--38858121 Score: 218
Period size: 27 Copynumber: 11.0 Consensus size: 27
38857817 AAACACCTTT
* * *
38857827 GATTTGTCAAATTATTGAAACACTCTC
1 GATTTGTAAAATTATTGAAATACCCTC
* * *
38857854 AATTTGAAAAATTATCGAAATACCCTC
1 GATTTGTAAAATTATTGAAATACCCTC
* * *
38857881 AATTTATAAAATTATCGAAATACCCTC
1 GATTTGTAAAATTATTGAAATACCCTC
* *
38857908 GA-TTGTAAAATTACTAAAATACCCTC
1 GATTTGTAAAATTATTGAAATACCCTC
***
38857934 GATTTG-AATAATTACCAAAATACCCTC
1 GATTTGTAA-AATTATTGAAATACCCTC
* * * *
38857961 GATTTGTGAAATTACTAAAACACCCTC
1 GATTTGTAAAATTATTGAAATACCCTC
* * *
38857988 GATTTGTAAAATTATTGAAACACTCTT
1 GATTTGTAAAATTATTGAAATACCCTC
* ** * *
38858015 GATTTGTAATATTACAGGAACACCCTC
1 GATTTGTAAAATTATTGAAATACCCTC
* * *
38858042 TATTTGTAAAATTATCGAAATACCTTC
1 GATTTGTAAAATTATTGAAATACCCTC
* ** ** *
38858069 GACTTGTAAAACCACCGAAACACCC-C
1 GATTTGTAAAATTATTGAAATACCCTC
* *
38858095 ATATTTGTAAAATTATCGAAATACCCT
1 -GATTTGTAAAATTATTGAAATACCCT
38858122 TGTCGTGAAA
Statistics
Matches: 215, Mismatches: 48, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
26 25 0.12
27 189 0.88
28 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
GATTTGTAAAATTATTGAAATACCCTC
Found at i:38858091 original size:54 final size:54
Alignment explanation
Indices: 38857800--38858121 Score: 290
Period size: 54 Copynumber: 6.0 Consensus size: 54
38857790 AAACACCTTT
* * * * * * * *
38857800 GATTTTTAAATTTACCGAAACACCTTTGATTTGTCAAATTATTGAAACACTCTC
1 GATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTC
* * * * * *
38857854 AATTTGAAAAATTATCGAAATACCCTCAATTTATAAAATTATCGAAATACCCTC
1 GATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTC
** * * *
38857908 GA-TTGTAAAATTACTAAAATACCCTCGATTTG-AATAATTACCAAAATACCCTC
1 GATTTGTAAAATTACCGAAACACCCTCGATTTGTAA-AATTATCGAAATACCCTC
* ** * * * *
38857961 GATTTGTGAAATTACTAAAACACCCTCGATTTGTAAAATTATTGAAACACTCTT
1 GATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTC
* * * * *
38858015 GATTTGTAATATTACAGGAACACCCTCTATTTGTAAAATTATCGAAATACCTTC
1 GATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTC
* ** *
38858069 GACTTGTAAAACCACCGAAACACCC-CATATTTGTAAAATTATCGAAATACCCT
1 GATTTGTAAAATTACCGAAACACCCTC-GATTTGTAAAATTATCGAAATACCCT
38858122 TGTCGTGAAA
Statistics
Matches: 215, Mismatches: 49, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
52 2 0.01
53 43 0.20
54 168 0.78
55 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (54 bp):
GATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTC
Found at i:38858121 original size:81 final size:79
Alignment explanation
Indices: 38857830--38858121 Score: 248
Period size: 81 Copynumber: 3.6 Consensus size: 79
38857820 CACCTTTGAT
* * * * * *
38857830 TTGTCAAATTATTGAAACACTCTCAATTTGAAAAATTATCGAAATACCCTCAATTTATAAAATTA
1 TTGTAAAATTACTGAAACAC-CCCTATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTA
38857895 TCGAAATACCCTCGA
65 TCGAAATACCCTCGA
* * * * * * *
38857910 TTGTAAAATTACTAAAATACCCTCGATTTG-AATAATTACCAAAATACCCTCGATTTGTGAAATT
1 TTGTAAAATTACTGAAACACCC-CTATTTGTAA-AATTATCGAAATACCCTCAATTTGTAAAATT
* *
38857974 A-CTAAAACACCCTCGA
64 ATC-GAAATACCCTCGA
* * * * * * *
38857990 TTTGTAAAATTATTGAAACACTCTTGATTTGTAATATTA-CAGGAACACCCTCTATTTGTAAAAT
1 -TTGTAAAATTACTGAAACACCCCT-ATTTGTAAAATTATC-GAAATACCCTCAATTTGTAAAAT
*
38858054 TATCGAAATACCTTCGA
63 TATCGAAATACCCTCGA
** *
38858071 CTTGTAAAACCACCGAAACACCCCATATTTGTAAAATTATCGAAATACCCT
1 -TTGTAAAATTACTGAAACACCCC-TATTTGTAAAATTATCGAAATACCCT
38858122 TGTCGTGAAA
Statistics
Matches: 164, Mismatches: 38, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
79 4 0.02
80 61 0.37
81 94 0.57
82 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (79 bp):
TTGTAAAATTACTGAAACACCCCTATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTAT
CGAAATACCCTCGA
Found at i:38858141 original size:27 final size:27
Alignment explanation
Indices: 38858100--38858188 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
38858090 ACCCCATATT
* *
38858100 TGTAAAATTATCGAAATACCCTTGTCG
1 TGTAAAATTACCGAAATACCCTTGTAG
38858127 TG-AAAACTTACCGAAATACCCTTGTAG
1 TGTAAAA-TTACCGAAATACCCTTGTAG
* * *
38858154 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
38858181 GGTAAAAT
1 TGTAAAAT
38858189 GACTGTTTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
26 4 0.07
27 46 0.85
28 4 0.07
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:38860536 original size:289 final size:284
Alignment explanation
Indices: 38860022--38860567 Score: 894
Period size: 289 Copynumber: 1.9 Consensus size: 284
38860012 AGTGGTGAGC
* * * *
38860022 GCTTGTTCATATAGTTGGAAATTTTGAGGACGAAATTTCTTTAAGGGGGTAGAAACGCCCCGAAT
1 GCTTGTTCAGATAGTTGGAAATTTCGAGGACAAAATTTCTTTAAGGGGGTAGAAACGCCCCAAAT
* *
38860087 TTGGGCCTAGAAGTATTGGGCCATTAGTTTGGGTCCGTAAGGGGGTTGTATATAAGCATTTAATT
66 TTGGGCCTAGAAGTACTGAGCCATTAGTTTGGGTCCGTAAGGGGGTTGTATATAAGCATTTAATT
*
38860152 GTACAAGGAAATGACACAATTAAATGTCTGCTTTAGTGGATAATGGCCCTAAGAAGTGTTGGAGA
131 GTACAAGGAAATGACACAATTAAATGTCTGCTTTAGTGGATAATGGACCTAAGAAGTGTTGGAGA
*
38860217 AATCTTGGGTTCAAACCTGGGTTTTAGCAAAAATTGTGGAAGTAAGTGAATAAAACCCTGGGAGC
196 AATCTTGGGTTCAAACCTGGGCTTTAGCAAAAATTGTGGAAGTAAGTGAATAAAACCCTGGGAGC
38860282 ATAGTGGTGTAGATTGAACTAAGT
261 ATAGTGGTGTAGATTGAACTAAGT
*
38860306 GCTTGTTCAGATAGTTGGAAATTTCGAGGACAAAATTTCTTTAAGGGGGTAGAAATGAAACGCCT
1 GCTTGTTCAGATAGTTGGAAATTTCGAGGACAAAATTTCTTTAAGGGGGT----A-GAAACGCCC
* *
38860371 CAAATTTGGGCCTAGAAGTACTGAGCCTTTAGTTTGGGTCCGTAAGGGGGTTGTATATAAGTATT
61 CAAATTTGGGCCTAGAAGTACTGAGCCATTAGTTTGGGTCCGTAAGGGGGTTGTATATAAGCATT
* * *
38860436 TAATTGTATACGGAAATGACAGAATTAAATGTCTGCTTTAGTGGATAATGGACCTAAGAAGTGTT
126 TAATTGTACAAGGAAATGACACAATTAAATGTCTGCTTTAGTGGATAATGGACCTAAGAAGTGTT
* * *
38860501 GGAGAAATCTTGGGTTCAAACCTGGGCTTTAGCAAAAATTTTGGTAGTAAGTGAATAGAACCCTG
191 GGAGAAATCTTGGGTTCAAACCTGGGCTTTAGCAAAAATTGTGGAAGTAAGTGAATAAAACCCTG
38860566 GG
256 GG
38860568 TGCTTGGATG
Statistics
Matches: 240, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
284 47 0.20
288 1 0.00
289 192 0.80
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (284 bp):
GCTTGTTCAGATAGTTGGAAATTTCGAGGACAAAATTTCTTTAAGGGGGTAGAAACGCCCCAAAT
TTGGGCCTAGAAGTACTGAGCCATTAGTTTGGGTCCGTAAGGGGGTTGTATATAAGCATTTAATT
GTACAAGGAAATGACACAATTAAATGTCTGCTTTAGTGGATAATGGACCTAAGAAGTGTTGGAGA
AATCTTGGGTTCAAACCTGGGCTTTAGCAAAAATTGTGGAAGTAAGTGAATAAAACCCTGGGAGC
ATAGTGGTGTAGATTGAACTAAGT
Found at i:38861656 original size:27 final size:27
Alignment explanation
Indices: 38861599--38861958 Score: 237
Period size: 27 Copynumber: 13.4 Consensus size: 27
38861589 TAATAAAGAG
* * *
38861599 AAATTACCGAAATACC-CCGATTTGTG
1 AAATTACCGAAACACCATCGATTTGTA
*
38861625 AAATTACCGAAACACCATCGATTTTTA
1 AAATTACCGAAACACCATCGATTTGTA
* * *
38861652 GAATTATCGAAACACCCTCGATTTGTA
1 AAATTACCGAAACACCATCGATTTGTA
* *
38861679 AAATTACCGAAATACCATTGATTTGTA
1 AAATTACCGAAACACCATCGATTTGTA
* * *
38861706 AAATTACTGAAATAACC-TCAATTATG--
1 AAATTACCGAAA-CACCATCGATT-TGTA
** * * *
38861732 AAATTACAAAAATACCTTCAATTTGTA
1 AAATTACCGAAACACCATCGATTTGTA
* ** *
38861759 AAATTACCGAAATACCCCCGATTTGTG
1 AAATTACCGAAACACCATCGATTTGTA
* * *
38861786 AAATTATCGAAACACCCTCAATTTGTA
1 AAATTACCGAAACACCATCGATTTGTA
* * ** *
38861813 AAATTATCGAAACACCCTAAATTTTTA
1 AAATTACCGAAACACCATCGATTTGTA
* * * *
38861840 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTACCGAAACACCATCGATTTGTA
* * * *
38861867 AAATTATCAAAATACCCTCGATTTGTA
1 AAATTACCGAAACACCATCGATTTGTA
* * * *
38861894 AAATCACCAAAACACC-CCTATTTGTA
1 AAATTACCGAAACACCATCGATTTGTA
* * * * *
38861920 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAACACCATCGAT-TTGTA
38861947 AAATTACCGAAA
1 AAATTACCGAAA
38861959 TACCCTTGTA
Statistics
Matches: 274, Mismatches: 52, Indels: 15
0.80 0.15 0.04
Matches are distributed among these distances:
25 5 0.02
26 52 0.19
27 212 0.77
28 5 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAACACCATCGATTTGTA
Found at i:38861683 original size:54 final size:54
Alignment explanation
Indices: 38861599--38861958 Score: 345
Period size: 54 Copynumber: 6.7 Consensus size: 54
38861589 TAATAAAGAG
* * * *
38861599 AAATTACCGAAATACCC-CGATTTGTGAAATTACCGAAACACCATCGATTTTTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
* * * **
38861652 GAATTATCGAAACACCCTCGATTTGTAAAATTACCGAAATACCATTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
* * ** * *
38861706 AAATTA-CTGAAATAACCTCAATTATG--AAATTACAAAAATACCTTCAATTTGTA
1 AAATTATC-GAAATACCCTCGATT-TGTAAAATTACCGAAACACCATCAATTTGTA
* * * * *
38861759 AAATTACCGAAATACCCCCGATTTGTGAAATTATCGAAACACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
* ** * * * *
38861813 AAATTATCGAAACACCCTAAATTTTTAAAATTATCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
* * * * *
38861867 AAATTATCAAAATACCCTCGATTTGTAAAATCACCAAAACACC-CCTATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
* *
38861920 AAATTATCGAAATACCCTTG-TAGTGTAAAATTACCGAAA
1 AAATTATCGAAATACCCTCGAT-TTGTAAAATTACCGAAA
38861959 TACCCTTGTA
Statistics
Matches: 252, Mismatches: 48, Indels: 14
0.80 0.15 0.04
Matches are distributed among these distances:
52 3 0.01
53 95 0.38
54 152 0.60
55 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
Found at i:38861859 original size:134 final size:133
Alignment explanation
Indices: 38861599--38861937 Score: 382
Period size: 134 Copynumber: 2.5 Consensus size: 133
38861589 TAATAAAGAG
* * * * ** * *
38861599 AAATTACCGAAATACCC-CGATTTGTGAAATTACCGAAACACCATCGATTTTTAGAATTATCGAA
1 AAATTATCAAAATACCCTCAATTTGTAAAATTACCGAAA-ACCCCCGATTTGTAAAATTATCGAA
* * **
38861663 ACACCCTCGATTTGTAAAATTACCGAAATACCATTGATTTGTAAAATTACTGAAATAACCTCAAT
65 ACACCCTCAATTTGTAAAATTACCGAAACACCATAAATTTGTAAAATTACTGAAATAACCTCAAT
38861728 TATG-
130 T-TGA
* *
38861732 AAATTA-CAAAAATACCTTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTGAAATTATCGA
1 AAATTATC-AAAATACCCTCAATTTGTAAAATTACCGAAA-ACCCCCGATTTGTAAAATTATCGA
* * * *
38861796 AACACCCTCAATTTGTAAAATTATCGAAACACCCTAAATTTTTAAAATTA-TCGAAATACCCTCA
64 AACACCCTCAATTTGTAAAATTACCGAAACACCATAAATTTGTAAAATTACT-GAAATAACCTCA
38861860 ATTTGTA
128 ATTTG-A
* * *
38861867 AAATTATCAAAATACCCTCGATTTGTAAAATCACC-AAAACACCCCTATTTGTAAAATTATCGAA
1 AAATTATCAAAATACCCTCAATTTGTAAAATTACCGAAAAC-CCCCGATTTGTAAAATTATCGAA
*
38861931 ATACCCT
65 ACACCCT
38861938 TGTAGTGTAA
Statistics
Matches: 175, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
132 1 0.01
133 18 0.10
134 125 0.71
135 30 0.17
136 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (133 bp):
AAATTATCAAAATACCCTCAATTTGTAAAATTACCGAAAACCCCCGATTTGTAAAATTATCGAAA
CACCCTCAATTTGTAAAATTACCGAAACACCATAAATTTGTAAAATTACTGAAATAACCTCAATT
TGA
Found at i:38861919 original size:161 final size:161
Alignment explanation
Indices: 38861599--38861936 Score: 432
Period size: 161 Copynumber: 2.1 Consensus size: 161
38861589 TAATAAAGAG
* * *
38861599 AAATTACCGAAATA-CCCCGATTTGTGAAATTACCGAAACACCATCGATTTTTAGAATTATCGAA
1 AAATTACCGAAATACCCCCGATTTGTGAAATTACCGAAACACCATCAATTTGTAAAATTATCGAA
** ** *
38861663 ACACCCTCGATTTGTAAAATTACCGAAATACCATTGATTTGTAAAATTACTGAAATAACCTCAAT
66 ACACCCTAAATTTGTAAAATTACCGAAATACCATCAATTTGTAAAATTACTAAAATAACCTCAAT
* * *
38861728 TATGAAATTACAAAAATACCTTCAATTTGTA
131 TATGAAATCACAAAAACACCTCCAATTTGTA
* *
38861759 AAATTACCGAAATACCCCCGATTTGTGAAATTATCGAAACACCCTCAATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCCCGATTTGTGAAATTACCGAAACACCATCAATTTGTAAAATTATCGAA
* * * * *
38861824 ACACCCTAAATTTTTAAAATTATCGAAATACCCTCAATTTGTAAAATTA-TCAAAATACCCTCGA
66 ACACCCTAAATTTGTAAAATTACCGAAATACCATCAATTTGTAAAATTACT-AAAATAACCTCAA
* *
38861888 TT-TGTAAAATCACCAAAACACC-CCTATTTGTA
130 TTATG--AAATCACAAAAACACCTCCAATTTGTA
*
38861920 AAATTATCGAAATACCC
1 AAATTACCGAAATACCC
38861937 TTGTAGTGTA
Statistics
Matches: 153, Mismatches: 21, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
160 17 0.11
161 123 0.80
162 13 0.08
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (161 bp):
AAATTACCGAAATACCCCCGATTTGTGAAATTACCGAAACACCATCAATTTGTAAAATTATCGAA
ACACCCTAAATTTGTAAAATTACCGAAATACCATCAATTTGTAAAATTACTAAAATAACCTCAAT
TATGAAATCACAAAAACACCTCCAATTTGTA
Found at i:38861940 original size:22 final size:23
Alignment explanation
Indices: 38861753--38861992 Score: 66
Period size: 27 Copynumber: 9.1 Consensus size: 23
38861743 ATACCTTCAA
38861753 TTTGTAAAATTACCGAAATACCCCC
1 TTTGTAAAATTACCGAAATA--CCC
* * *
38861778 GATTTGTGAAATTATCGAAACACCCTC
1 --TTTGTAAAATTACCGAAATA-CC-C
* *
38861805 AATTTGTAAAATTATCGAAACACCC
1 --TTTGTAAAATTACCGAAATACCC
* *
38861830 TAAATTTTTAAAATTATCGAAATACCCTC
1 ----TTTGTAAAATTACCGAAATA-CC-C
* *
38861859 AATTTGTAAAATTATCAAAATACCCTC
1 --TTTGTAAAATTACCGAAATA-CC-C
* * *
38861886 GATTTGTAAAATCACCAAAACACCCC
1 --TTTGTAAAATTACCGAAATA-CCC
*
38861912 TATTTGTAAAATTATCGAAATACCC
1 --TTTGTAAAATTACCGAAATACCC
38861937 TTGTAGTGTAAAATTACCGAAATACCC
1 -T-T--TGTAAAATTACCGAAATACCC
* *
38861964 TTGTAGTGTAAAATGACCGACATACCC
1 -T-T--TGTAAAATTACCGAAATACCC
38861991 TT
1 TT
38861993 GTTGGGTAAA
Statistics
Matches: 183, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.01
25 6 0.03
26 24 0.13
27 149 0.81
28 2 0.01
29 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (23 bp):
TTTGTAAAATTACCGAAATACCC
Found at i:38861947 original size:53 final size:53
Alignment explanation
Indices: 38861860--38862004 Score: 139
Period size: 53 Copynumber: 2.7 Consensus size: 53
38861850 AATACCCTCA
* * *
38861860 ATTTGTAAAATTATCAAAATACCCTCG-ATTTGTAAAATCACCAAAACACCCCT
1 ATTTGTAAAATTATCGAAATACCCTTGTA-GTGTAAAATCACCAAAACACCCCT
* * * *
38861913 ATTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCGAAATACCCTT
1 ATTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATCACCAAAACACCCCT
* * * * * * *
38861966 GTAGTGTAAAATGACCGACATACCCTTGTTGGGTAAAAT
1 AT-TTGTAAAATTATCGAAATACCCTTGTAGTGTAAAAT
38862005 GACTATTTTG
Statistics
Matches: 76, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
53 45 0.59
54 31 0.41
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (53 bp):
ATTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATCACCAAAACACCCCT
Found at i:38861959 original size:27 final size:27
Alignment explanation
Indices: 38861916--38862004 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
38861906 CACCCCTATT
*
38861916 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
38861943 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
38861970 TGTAAAATGACCGACATACCCTTGTTG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
38861997 GGTAAAAT
1 TGTAAAAT
38862005 GACTATTTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:38862461 original size:27 final size:26
Alignment explanation
Indices: 38862423--38862537 Score: 95
Period size: 27 Copynumber: 4.3 Consensus size: 26
38862413 AGCATGTCTG
* *
38862423 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
**
38862449 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * * *
38862476 CCAGAATAGATATTTGTGGCATAGCTA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * *
38862503 CCAAAAACAGATATTTGTGGCATAGCCA
1 CC-AGAACAGATA-TTGTGACAGAGCCA
38862531 CCAGAAC
1 CCAGAAC
38862538 GCTTCCTCCA
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
26 11 0.15
27 39 0.53
28 24 0.32
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:38862517 original size:54 final size:54
Alignment explanation
Indices: 38862423--38862536 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
38862413 AGCATGTCTG
* * *
38862423 CCAGAATAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGTAGAGCCA
1 CCAGAATAGATATTGTGACAGAGTCACCAAAAACAGATATTTGTGGCAGAGCCA
* * *
38862476 CCAGAATAGATATTTGTGGCATAG-CTACCAAAAACAGATATTTGTGGCATAGCCA
1 CCAGAATAGATA-TTGTGACAGAGTC-ACCAAAAACAGATATTTGTGGCAGAGCCA
38862531 CCAGAA
1 CCAGAA
38862537 CGCTTCCTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 13 0.25
54 21 0.40
55 18 0.35
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (54 bp):
CCAGAATAGATATTGTGACAGAGTCACCAAAAACAGATATTTGTGGCAGAGCCA
Found at i:38862675 original size:26 final size:27
Alignment explanation
Indices: 38862639--38862702 Score: 103
Period size: 26 Copynumber: 2.4 Consensus size: 27
38862629 TAAGATTAAC
38862639 CCTAGGGGTATAATGGTAATTTT-ACA
1 CCTAGGGGTATAATGGTAATTTTCACA
*
38862665 CCTAGGGGTATAATGGTAATTTTCATA
1 CCTAGGGGTATAATGGTAATTTTCACA
*
38862692 CTTAGGGGTAT
1 CCTAGGGGTAT
38862703 TTTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 23 0.66
27 12 0.34
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATGGTAATTTTCACA
Found at i:38863648 original size:17 final size:16
Alignment explanation
Indices: 38863622--38863654 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
38863612 GGGTTCGGCT
38863622 ATGGAGAAAAGAAAAG
1 ATGGAGAAAAGAAAAG
38863638 ATGGAAGAAAAGAAAAG
1 ATGG-AGAAAAGAAAAG
38863655 GTGAGAAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.30, T:0.06
Consensus pattern (16 bp):
ATGGAGAAAAGAAAAG
Found at i:38866105 original size:27 final size:27
Alignment explanation
Indices: 38866068--38866182 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
38866058 AGCATGGCTG
* *
38866068 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
**
38866094 CCAGATACAGATA-TCATGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
* *
38866121 CCAGAACAGATATTTGTGGCATAGCTA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
38866148 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
38866176 CCAGAAC
1 CCAGAAC
38866183 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 12 0.16
27 39 0.51
28 26 0.34
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:38867636 original size:50 final size:50
Alignment explanation
Indices: 38867561--38867795 Score: 217
Period size: 50 Copynumber: 4.7 Consensus size: 50
38867551 TGAGTACACG
* * *
38867561 TGTGTAGTACTAAGTGCAGACTACTACGTGTAACATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGTCACA
* * **
38867611 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TC-AT-ACTGTTAAGTCACA
* * *
38867662 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACT-GTTAAGTCACA
* * * * * * *
38867712 TGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAAATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGTCACA
* * * *
38867761 TGTGAAGTACTAAGTGCAAGCTACTATGCGTATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA
38867796 GATAGCTTCG
Statistics
Matches: 154, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 39 0.25
50 70 0.45
51 36 0.23
52 4 0.03
53 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGTCACA
Found at i:38867736 original size:101 final size:98
Alignment explanation
Indices: 38867561--38867798 Score: 282
Period size: 101 Copynumber: 2.4 Consensus size: 98
38867551 TGAGTACACG
* * * * *
38867561 TGTGTAGTACTAAGTGCAGACTACTACGTGTAACATACTGTTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTGAAGTCACATGTGTAGTACTAAGT
*
38867626 GCAGGCTACTATGCGTACTC-AA-TGACTTCGATCACA
65 GCAAGCTACTATGCGTAC-CAAATTG--TT-GATCACA
*
38867662 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAAGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTGAAGTCACATGTGTAGTACTAAGT
* * *
38867727 GCAAGCTACTATGTGTACCAAATTGTTGGTCGCA
65 GCAAGCTACTATGCGTACCAAATTGTTGATCACA
* * * *
38867761 TGTGAAGTACTAAGTGCAAGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
38867799 AGCTTCGGCT
Statistics
Matches: 120, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
99 39 0.32
100 4 0.03
101 75 0.62
102 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (98 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTGAAGTCACATGTGTAGTACTAAGTG
CAAGCTACTATGCGTACCAAATTGTTGATCACA
Found at i:38869829 original size:16 final size:17
Alignment explanation
Indices: 38869808--38869840 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38869798 TGGGTTCGGC
38869808 TATGG-AGAAAAGAAAA
1 TATGGAAGAAAAGAAAA
38869824 TATGGAAGAAAAGAAAA
1 TATGGAAGAAAAGAAAA
38869841 GGTGAGAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (17 bp):
TATGGAAGAAAAGAAAA
Found at i:38870995 original size:22 final size:22
Alignment explanation
Indices: 38870969--38871013 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
38870959 AGATCAACAC
38870969 AAATATC-ATCACATACATATCA
1 AAATATCAATCACAT-CATATCA
*
38870991 AAATATCAATCTCATCATATCA
1 AAATATCAATCACATCATATCA
38871013 A
1 A
38871014 CCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATATCAATCACATCATATCA
Found at i:38877234 original size:21 final size:21
Alignment explanation
Indices: 38877203--38877250 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
38877193 TAAAAAATTT
38877203 ATTTA-ATATAAATATATTGA
1 ATTTATATATAAATATATTGA
38877223 ATTTATATATAAATATATTGA
1 ATTTATATATAAATATATTGA
38877244 AGTTTAT
1 A-TTTAT
38877251 CTTTGGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.19
21 16 0.62
22 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (21 bp):
ATTTATATATAAATATATTGA
Found at i:38881996 original size:10 final size:10
Alignment explanation
Indices: 38881985--38882029 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
38881975 TTTGTACATA
*
38881985 ATATGCCATA
1 ATATGCCATG
38881995 ATATGCCATG
1 ATATGCCATG
*
38882005 ATATGAACATG
1 ATATG-CCATG
38882016 ATATGCCATG
1 ATATGCCATG
38882026 ATAT
1 ATAT
38882030 ATGTATATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:38882142 original size:25 final size:25
Alignment explanation
Indices: 38882074--38882142 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
38882064 AGGAAGTGAT
*
38882074 AAAGGGCTGTTCCCCAA-TTTACCAA
1 AAAGGGCT-TTGCCCAAGTTTACCAA
** *
38882099 AAAGGGCTTTGCCGTAGTTTATCAA
1 AAAGGGCTTTGCCCAAGTTTACCAA
38882124 AAAGGGCTTTGCCCAAGTT
1 AAAGGGCTTTGCCCAAGTT
38882143 ATTTAAAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 5 0.14
25 32 0.86
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTTGCCCAAGTTTACCAA
Found at i:38884668 original size:20 final size:20
Alignment explanation
Indices: 38884643--38884686 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
38884633 GCTCGATAGC
*
38884643 CGGCGTTGGTTTATGCTACA
1 CGGCGTCGGTTTATGCTACA
*
38884663 CGGCGTCGGTTTATGCTGCA
1 CGGCGTCGGTTTATGCTACA
38884683 CGGC
1 CGGC
38884687 ATCGTGAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.25, G:0.34, T:0.30
Consensus pattern (20 bp):
CGGCGTCGGTTTATGCTACA
Found at i:38889717 original size:10 final size:10
Alignment explanation
Indices: 38889706--38889750 Score: 72
Period size: 10 Copynumber: 4.4 Consensus size: 10
38889696 TTTGTACATA
*
38889706 ATATGCCATA
1 ATATGCCATG
38889716 ATATGCCATG
1 ATATGCCATG
38889726 ATATGCACATG
1 ATATGC-CATG
38889737 ATATGCCATG
1 ATATGCCATG
38889747 ATAT
1 ATAT
38889751 ATGTATATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
10 23 0.70
11 10 0.30
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:38889742 original size:21 final size:20
Alignment explanation
Indices: 38889706--38889750 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
38889696 TTTGTACATA
38889706 ATATGCCATAATATGCCATG
1 ATATGCCATAATATGCCATG
*
38889726 ATATGCACATGATATGCCATG
1 ATATGC-CATAATATGCCATG
38889747 ATAT
1 ATAT
38889751 ATGTATATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
ATATGCCATAATATGCCATG
Found at i:38891663 original size:39 final size:39
Alignment explanation
Indices: 38891604--38891806 Score: 316
Period size: 39 Copynumber: 5.2 Consensus size: 39
38891594 TGTGAATGTA
38891604 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
38891643 TGTGTGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
38891682 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** **
38891721 TGTGCGAGCTACGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
38891760 TGTGCGAGTTGTGATATCTGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
38891800 TGTGCGA
1 TGTGCGA
38891807 GTTACCATAA
Statistics
Matches: 151, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 133 0.88
40 18 0.12
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:38891737 original size:78 final size:78
Alignment explanation
Indices: 38891604--38891835 Score: 338
Period size: 78 Copynumber: 2.9 Consensus size: 78
38891594 TGTGAATGTA
* * **
38891604 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAATTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACGATATCCGGGCTAA
38891669 GCCCGAAGGCAAT
66 GCCCGAAGGCAAT
*
38891682 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACGATATCCGGGCTAA
38891747 GCCCGAAGGCAAT
66 GCCCGAAGGCAAT
* * * * * *
38891760 TGTGCGAGTTGTGATATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACGATATCCGGGCTA
*
38891825 TGTCCCGAAGG
65 AG-CCCGAAGG
38891836 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
78 97 0.70
79 34 0.24
80 8 0.06
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (78 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACGATATCCGGGCTAA
GCCCGAAGGCAAT
Found at i:38891830 original size:40 final size:39
Alignment explanation
Indices: 38891616--38891835 Score: 278
Period size: 39 Copynumber: 5.6 Consensus size: 39
38891606 TGCGAATTGT
* * **
38891616 GATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAATTGT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTAC
* **
38891655 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTAC
*
38891694 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTAC
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTAC
**
38891733 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTAC
* * *
38891772 GATATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 GATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTAC
* * *
38891812 CATAACCGGGCTATGTCCCGAAGG
1 GATATCCGGGCTAAG-CCCGAAGG
38891836 TGTTTTGAAC
Statistics
Matches: 162, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 122 0.75
40 40 0.25
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTAC
Found at i:38893292 original size:25 final size:25
Alignment explanation
Indices: 38893264--38893332 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
38893254 AGGAAGTGAT
* *
38893264 AAAGGGCTATGCCCCAGTTTACCGA
1 AAAGGGCTTTGCCCCAGTTTACCAA
*
38893289 AAAGGGCTTTGCCCCAGTTTATCAA
1 AAAGGGCTTTGCCCCAGTTTACCAA
*
38893314 AAAGGGCTTTGCCTCAGTT
1 AAAGGGCTTTGCCCCAGTT
38893333 ATTTAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTACCAA
Found at i:38894359 original size:7 final size:7
Alignment explanation
Indices: 38894347--38894371 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38894337 GTTGTCTTCT
38894347 TGTTTGA
1 TGTTTGA
38894354 TGTTTGA
1 TGTTTGA
38894361 TGTTTGA
1 TGTTTGA
38894368 TGTT
1 TGTT
38894372 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:38895304 original size:27 final size:28
Alignment explanation
Indices: 38895248--38895317 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
38895238 AAATTTGTAC
38895248 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
38895276 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
38895303 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38895318 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:38902832 original size:29 final size:29
Alignment explanation
Indices: 38902800--38902872 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
38902790 CTTCGAGCTC
38902800 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38902829 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38902858 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
38902873 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:38905206 original size:7 final size:7
Alignment explanation
Indices: 38905194--38905218 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38905184 GTTGTCTTCT
38905194 TGTTTGA
1 TGTTTGA
38905201 TGTTTGA
1 TGTTTGA
38905208 TGTTTGA
1 TGTTTGA
38905215 TGTT
1 TGTT
38905219 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:38906151 original size:27 final size:28
Alignment explanation
Indices: 38906095--38906164 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
38906085 AAATTTGTAC
38906095 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
38906123 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
38906150 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38906165 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:38912830 original size:23 final size:24
Alignment explanation
Indices: 38912784--38912830 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
38912774 ATACACAGAT
* **
38912784 TCCAACCCAAACACACCTGTAATA
1 TCCAACCAAAACACACCTAAAATA
38912808 TCCAACCAAAACACACC-AAAATA
1 TCCAACCAAAACACACCTAAAATA
38912831 ATCATTAAAT
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:0.49, C:0.36, G:0.02, T:0.13
Consensus pattern (24 bp):
TCCAACCAAAACACACCTAAAATA
Found at i:38913154 original size:27 final size:26
Alignment explanation
Indices: 38913123--38913192 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
38913113 CTTCATAATT
* *
38913123 ATTTCATGCAACTATTTTTGTATAAAC
1 ATTTCATACAACCA-TTTTGTATAAAC
* *
38913150 ATTTCACACAACCATTTTGTATAACC
1 ATTTCATACAACCATTTTGTATAAAC
* *
38913176 AATTCATATAACCATTT
1 ATTTCATACAACCATTT
38913193 GTCATCTGGT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 25 0.69
27 11 0.31
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (26 bp):
ATTTCATACAACCATTTTGTATAAAC
Found at i:38913340 original size:46 final size:46
Alignment explanation
Indices: 38913275--38913545 Score: 373
Period size: 46 Copynumber: 5.9 Consensus size: 46
38913265 TTATCTTCGA
* * * * *
38913275 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * ** *
38913321 AAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * *
38913367 CACGTTGCCATGGTATCTTTCAACCATTGACTTACATATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
38913413 CATGTTGCCATGGTATCTTTCAACCAGGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
38913459 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACGCATTTCATAA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
38913505 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
38913546 GAATCGCAAT
Statistics
Matches: 199, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.02
46 195 0.98
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:38913579 original size:45 final size:45
Alignment explanation
Indices: 38913510--38913629 Score: 123
Period size: 45 Copynumber: 2.7 Consensus size: 45
38913500 CATAACATGT
* * * * * *
38913510 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTGAATCGCAA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACACATCTGAATCACAA
* * **
38913555 TGCCATAGCATCTTTCAGCTATGGTCTTACTCGTCTGAATCATGA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACACATCTGAATCACAA
* * *
38913600 TGCCATAGCGTCTTTTAGTTATGGTCTTAC
1 TGCCATAGCATCTTTCAGCTATGGTCTTAC
38913630 TCGTTTCTGG
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (45 bp):
TGCCATAGCATCTTTCAGCTATGGTCTTACACATCTGAATCACAA
Found at i:38916315 original size:20 final size:20
Alignment explanation
Indices: 38916290--38916343 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
38916280 ATATATATAC
38916290 TAAATAAAATAATAAAATAA
1 TAAATAAAATAATAAAATAA
*** * *
38916310 TAAATATCTTATTAAAATAT
1 TAAATAAAATAATAAAATAA
38916330 TAAAT-AAATAATAA
1 TAAATAAAATAATAA
38916344 TTATCTAATT
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATAAAATAATAAAATAA
Found at i:38923020 original size:12 final size:11
Alignment explanation
Indices: 38923005--38923079 Score: 66
Period size: 11 Copynumber: 6.7 Consensus size: 11
38922995 AAAAAACATG
38923005 CAAAAAGAAGTT
1 CAAAAA-AAGTT
38923017 CAAAAAAA-TT
1 CAAAAAAAGTT
38923027 CGAAAAAAAGTT
1 C-AAAAAAAGTT
*
38923039 C-AAAAAATTT
1 CAAAAAAAGTT
*
38923049 GAATAAAAA-TT
1 CAA-AAAAAGTT
*
38923060 CGGAAAAAAGTT
1 C-AAAAAAAGTT
38923072 CAAAAAAA
1 CAAAAAAA
38923080 AGTTTGAAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
10 11 0.21
11 23 0.44
12 18 0.35
ACGTcount: A:0.63, C:0.08, G:0.11, T:0.19
Consensus pattern (11 bp):
CAAAAAAAGTT
Found at i:38923021 original size:11 final size:10
Alignment explanation
Indices: 38923007--38923078 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
38922997 AAAACATGCA
38923007 AAAAGAAGTTC
1 AAAA-AAGTTC
*
38923018 AAAAAAATTC
1 AAAAAAGTTC
38923028 GAAAAAAAGTTC
1 --AAAAAAGTTC
* *
38923040 AAAAAATTTG
1 AAAAAAGTTC
*
38923050 AATAAAAATTC
1 AA-AAAAGTTC
38923061 GGAAAAAAGTTC
1 --AAAAAAGTTC
38923073 AAAAAA
1 AAAAAA
38923079 AAGTTTGAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
10 21 0.43
11 10 0.20
12 16 0.33
13 2 0.04
ACGTcount: A:0.62, C:0.07, G:0.11, T:0.19
Consensus pattern (10 bp):
AAAAAAGTTC
Found at i:38923056 original size:13 final size:13
Alignment explanation
Indices: 38923040--38923113 Score: 57
Period size: 13 Copynumber: 5.9 Consensus size: 13
38923030 AAAAAAGTTC
38923040 AAAAAATTTGAA-
1 AAAAAATTTGAAG
* *
38923052 TAAAAATTCG--G
1 AAAAAATTTGAAG
* *
38923063 AAAAAAGTTCAA-
1 AAAAAATTTGAAG
38923075 AAAAAAGTTTGAAG
1 AAAAAA-TTTGAAG
* *
38923089 AAAAAATTTTAAA
1 AAAAAATTTGAAG
38923102 AAAAAATTTGAA
1 AAAAAATTTGAA
38923114 ATTAGAACAT
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
11 6 0.13
12 14 0.30
13 20 0.43
14 6 0.13
ACGTcount: A:0.62, C:0.03, G:0.11, T:0.24
Consensus pattern (13 bp):
AAAAAATTTGAAG
Found at i:38923080 original size:12 final size:12
Alignment explanation
Indices: 38923005--38923106 Score: 61
Period size: 12 Copynumber: 8.8 Consensus size: 12
38922995 AAAAAACATG
*
38923005 CAAAAAGAAGTT
1 CAAAAAAAAGTT
38923017 C-AAAAAAA-TT
1 CAAAAAAAAGTT
*
38923027 CGAAAAAAAGTT
1 CAAAAAAAAGTT
*
38923039 C--AAAAAATTT
1 CAAAAAAAAGTT
* *
38923049 GAATAAAAA-TT
1 CAAAAAAAAGTT
**
38923060 CGGAAAAAAGTT
1 CAAAAAAAAGTT
38923072 CAAAAAAAAGTTT
1 CAAAAAAAAG-TT
* *
38923085 GAAGAAAAAATTT
1 CAA-AAAAAAGTT
*
38923098 TAAAAAAAA
1 CAAAAAAAA
38923107 ATTTGAAATT
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
10 11 0.16
11 20 0.29
12 25 0.36
13 8 0.11
14 6 0.09
ACGTcount: A:0.63, C:0.06, G:0.11, T:0.21
Consensus pattern (12 bp):
CAAAAAAAAGTT
Found at i:38923102 original size:26 final size:26
Alignment explanation
Indices: 38923062--38923113 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
38923052 TAAAAATTCG
*
38923062 GAAAAAAGTTCAAAAAAAAGTTTGAA
1 GAAAAAAGTTCAAAAAAAAATTTGAA
* *
38923088 GAAAAAATTTTAAAAAAAAATTTGAA
1 GAAAAAAGTTCAAAAAAAAATTTGAA
38923114 ATTAGAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (26 bp):
GAAAAAAGTTCAAAAAAAAATTTGAA
Found at i:38923104 original size:36 final size:33
Alignment explanation
Indices: 38923018--38923096 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 33
38923008 AAAGAAGTTC
*
38923018 AAAAAAATTCGAAAAAAAGTTCAAAAAATTTGA
1 AAAAAAATTCGGAAAAAAGTTCAAAAAATTTGA
*
38923051 ATAAAAATTCGGAAAAAAGTTCAAAAAAAAGTTTGA
1 AAAAAAATTCGGAAAAAAGTTC--AAAAAA-TTTGA
38923087 AGAAAAAATT
1 A-AAAAAATT
38923097 TTAAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
33 20 0.51
35 6 0.15
36 6 0.15
37 7 0.18
ACGTcount: A:0.62, C:0.05, G:0.11, T:0.22
Consensus pattern (33 bp):
AAAAAAATTCGGAAAAAAGTTCAAAAAATTTGA
Found at i:38923682 original size:21 final size:21
Alignment explanation
Indices: 38923656--38923695 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38923646 AGCAACGTGG
* *
38923656 AAGACCTCCTGAAGTAGTCGA
1 AAGACCTCCTAAAGCAGTCGA
38923677 AAGACCTCCTAAAGCAGTC
1 AAGACCTCCTAAAGCAGTC
38923696 CAACCTAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (21 bp):
AAGACCTCCTAAAGCAGTCGA
Found at i:38925240 original size:16 final size:17
Alignment explanation
Indices: 38925221--38925257 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
38925211 AGAAGATTGT
*
38925221 AAAAAAATAA-AAGAAG
1 AAAAAAATAAGAAAAAG
38925237 AAAAAAATAAGAAAAAG
1 AAAAAAATAAGAAAAAG
38925254 AAAA
1 AAAA
38925258 CAAAAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAAAATAAGAAAAAG
Found at i:38928383 original size:150 final size:150
Alignment explanation
Indices: 38928157--38928789 Score: 1016
Period size: 150 Copynumber: 4.2 Consensus size: 150
38928147 CTGGTATGCA
* ** ** *
38928157 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* * *
38928221 AGTACTATACACGTGATCGAAGTTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGC
66 AGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
* * *
38928286 GACCAATTATCTGGTACACG
131 GACCAATAATCCGATACACG
* *
38928306 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGGCTGCACTC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* *
38928371 AGTACTACACACGTGATCGAAGTTATCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
66 AGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
* *
38928436 GACCAATTATCTGATACACG
131 GACCAATAATCCGATACACG
*
38928456 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAATAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* *
38928521 AGTACTACACACGTGATCAAAGTTATTGGGTACGCATAGTAGCCTGTACTTAGTACTACACATGC
66 AGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
*
38928586 GACCAATAATCCGGTACACG
131 GACCAATAATCCGATACACG
* *
38928606 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* *
38928671 AGTACTACAGACGTGATCAAAGTTATCGGGTACGCATAGTATCCTGCACTTAGTACTACACATGC
66 AGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
*
38928736 GACCAATAATCCAATACACG
131 GACCAATAATCCGATACACG
38928756 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
38928790 CATAATAGAT
Statistics
Matches: 451, Mismatches: 32, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
149 30 0.07
150 421 0.93
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (150 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
GACCAATAATCCGATACACG
Found at i:38928785 original size:100 final size:98
Alignment explanation
Indices: 38928157--38928788 Score: 719
Period size: 100 Copynumber: 6.3 Consensus size: 98
38928147 CTGGTATGCA
* **
38928157 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
* * * * *
38928222 GTACTATACACGTGATCGAAGTTATCGGGTACACA
66 GTACTACACACGTGA-CCAA-TTATCTGATACACG
* *
38928257 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
**
38928322 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACC-AATTATCTGATACACG
* * * * *
38928356 TAGTAGGCTGCACTCAGTACTACACACGTGATCGAAGTTATC-GAGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTG-GTACACGTAGTAGCCTGCAC
* *
38928420 TTAGTACTACACATGCGACCAATTATCTGATACACG
63 TTAGTACTACACACGTGACCAATTATCTGATACACG
** * *
38928456 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAATAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACGTAGTAGCCTGCACTT
* * * *
38928521 AGTACTACACACGTGATCAAAGTTAT-TGGGTACGCA
65 AGTACTACACACGTGA-CCAA-TTATCT-GATACACG
* * * * *
38928557 TAGTAGCCTGTACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
* **
38928622 GTACTACACACATGACCTAACAATCTGATACACG
66 GTACTACACACGTGACC-AATTATCTGATACACG
* * * * * *
38928656 TAGTAGCCTGCACTTAGTACTACAGACGTGATCAAAGTTATCGGGTACGCATAGTATCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGGTACACGTAGTAGCCTGCACT
* * * **
38928721 TAGTACTACACATGCGACCAATAATCCAATACACG
64 TAGTACTACACACGTGACCAATTATCTGATACACG
38928756 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
38928789 TCATAATAGA
Statistics
Matches: 452, Mismatches: 67, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
99 109 0.24
100 224 0.50
101 119 0.26
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
GTACTACACACGTGACCAATTATCTGATACACG
Found at i:38944494 original size:10 final size:10
Alignment explanation
Indices: 38944479--38944504 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
38944469 TGGAAACTTT
38944479 AAACTACACA
1 AAACTACACA
38944489 AAACTACACA
1 AAACTACACA
38944499 AAACTA
1 AAACTA
38944505 TACGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (10 bp):
AAACTACACA
Found at i:38945685 original size:15 final size:15
Alignment explanation
Indices: 38945665--38945693 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38945655 CTCGGTTCAT
38945665 TAACCCAATTTTTAA
1 TAACCCAATTTTTAA
38945680 TAACCCAATTTTTA
1 TAACCCAATTTTTA
38945694 GGATGTGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (15 bp):
TAACCCAATTTTTAA
Found at i:38947667 original size:26 final size:27
Alignment explanation
Indices: 38947606--38947667 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
38947596 CCACAAGGAA
*
38947606 CATTTCTTTAGGGTACGCCACGAAAGC
1 CATTTCTTTAGAGTACGCCACGAAAGC
* *
38947633 CATTCCTTTAGAGTACGCCAC-AAAGG
1 CATTTCTTTAGAGTACGCCACGAAAGC
38947659 CATTTCTTT
1 CATTTCTTT
38947668 CAGTTTATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 12 0.39
27 19 0.61
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (27 bp):
CATTTCTTTAGAGTACGCCACGAAAGC
Found at i:38947732 original size:27 final size:27
Alignment explanation
Indices: 38947702--38947779 Score: 138
Period size: 27 Copynumber: 2.9 Consensus size: 27
38947692 TTTTTAGAGA
*
38947702 TTTCCACAAATGCTATTCTTTCATAAT
1 TTTCCACAAAAGCTATTCTTTCATAAT
*
38947729 TTTCCACAAAAGTTATTCTTTCATAAT
1 TTTCCACAAAAGCTATTCTTTCATAAT
38947756 TTTCCACAAAAGCTATTCTTTCAT
1 TTTCCACAAAAGCTATTCTTTCAT
38947780 GACATGTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.44
Consensus pattern (27 bp):
TTTCCACAAAAGCTATTCTTTCATAAT
Found at i:38949523 original size:29 final size:29
Alignment explanation
Indices: 38949491--38949620 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
38949481 TTTATCAAGC
38949491 ACTATGTACCGGTGTTATATTTATTAGGT
1 ACTATGTACCGGTGTTATATTTATTAGGT
* **
38949520 ACTATGTATCGGTGACCATA-TTATTAGGT
1 ACTATGTACCGGTG-TTATATTTATTAGGT
* * *
38949549 ACTTTGTATCGGTGTTATATTTATTAGGC
1 ACTATGTACCGGTGTTATATTTATTAGGT
* * *
38949578 ATTATATACCGGTGTTATATTTATAAGGT
1 ACTATGTACCGGTGTTATATTTATTAGGT
*
38949607 ACTATGTACTGGTG
1 ACTATGTACCGGTG
38949621 GTGGATACCA
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
28 3 0.04
29 77 0.93
30 3 0.04
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (29 bp):
ACTATGTACCGGTGTTATATTTATTAGGT
Found at i:38949924 original size:25 final size:25
Alignment explanation
Indices: 38949869--38949921 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
38949859 AAGGAAGAGT
* *
38949869 AAACGAACTAGATTGAAATGTTGCA
1 AAACGAACTAGATTGAAATGATACA
38949894 AAACGAAC-ATGATTGAATATGATACA
1 AAACGAACTA-GATTGAA-ATGATACA
38949920 AA
1 AA
38949922 CGAGAACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 15 0.62
26 8 0.33
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (25 bp):
AAACGAACTAGATTGAAATGATACA
Found at i:38957152 original size:6 final size:6
Alignment explanation
Indices: 38957141--38957327 Score: 156
Period size: 6 Copynumber: 30.8 Consensus size: 6
38957131 AACCAAAATG
* *
38957141 AGAATC AGAATC AGAATC AGTAA-C AGAATT AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
38957189 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
38957238 AAAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
*
38957286 AGAATC AGAATC AAAATTAC ATG-A-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAA-T-C A-GAATC AGAATC AGAATC AGAAT
38957328 GTGAATGCAA
Statistics
Matches: 147, Mismatches: 16, Indels: 36
0.74 0.08 0.18
Matches are distributed among these distances:
4 1 0.01
5 13 0.09
6 119 0.81
7 9 0.06
8 5 0.03
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:38957156 original size:30 final size:29
Alignment explanation
Indices: 38957120--38957327 Score: 194
Period size: 30 Copynumber: 7.1 Consensus size: 29
38957110 AAGAAATATT
* * *
38957120 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
* *
38957150 ATCAGAATCAGTAACAGAATTAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
38957180 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
* *
38957210 ATCAGAATTAGGTGACAGAATCAGAATCAAA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
38957241 ATC---A--GTAACAGAATCAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
*
38957265 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
* * *
38957295 ATCAAAATTACATGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
38957326 AT
1 AT
38957328 GTGAATGCAA
Statistics
Matches: 150, Mismatches: 16, Indels: 23
0.79 0.08 0.12
Matches are distributed among these distances:
24 21 0.14
27 1 0.01
28 1 0.01
29 1 0.01
30 81 0.54
31 45 0.30
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:38957244 original size:85 final size:85
Alignment explanation
Indices: 38957141--38957323 Score: 312
Period size: 85 Copynumber: 2.2 Consensus size: 85
38957131 AACCAAAATG
* *
38957141 AGAATCAGAATCAGAATCAGTAACAGAATTAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
* **
38957206 CAGAATCAGAATTAGGTGAC
66 CAGAATCAAAATTACATGAC
*
38957226 AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
38957291 CAGAATCAAAATTACATGAC
66 CAGAATCAAAATTACATGAC
38957311 AGAATCAGAATCA
1 AGAATCAGAATCA
38957324 GAATGTGAAT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAAAATTACATGAC
Found at i:38957482 original size:27 final size:26
Alignment explanation
Indices: 38957445--38957510 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
38957435 AGCATGGCTG
*
38957445 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
38957471 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
38957498 CCAGAATCAGATA
1 CCAGAA-CAGATA
38957511 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:38957515 original size:27 final size:27
Alignment explanation
Indices: 38957445--38957518 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
38957435 AGCATGGCTG
* *
38957445 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
38957471 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
38957498 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
38957519 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:38957525 original size:27 final size:27
Alignment explanation
Indices: 38957469--38957526 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
38957459 GTGACAGAGT
* * *
38957469 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
38957496 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
38957523 CACC
1 CACC
38957527 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:38957731 original size:22 final size:22
Alignment explanation
Indices: 38957683--38957741 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
38957673 GTAAATACGT
*
38957683 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
38957705 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
38957727 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
38957742 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:38957894 original size:27 final size:26
Alignment explanation
Indices: 38957829--38957911 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
38957819 TCGATCGGTC
* * *
38957829 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
38957855 ATACAGAAATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
38957882 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
38957909 AAC
1 AAC
38957912 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.14
27 42 0.86
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:38958028 original size:22 final size:23
Alignment explanation
Indices: 38957981--38958028 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
38957971 CATATTTGAA
*
38957981 TCAAACAATCACAGTCAAGTCCG
1 TCAAACAATCACAGTCAAGTCAG
38958004 TCAAAC-A-CACAGTCCAAGTCAG
1 TCAAACAATCACAGT-CAAGTCAG
38958026 TCA
1 TCA
38958029 CTTGCCCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 11 0.48
23 6 0.26
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.17
Consensus pattern (23 bp):
TCAAACAATCACAGTCAAGTCAG
Found at i:38958106 original size:27 final size:27
Alignment explanation
Indices: 38958076--38958271 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
38958066 GGGGCAAAAT
* * *
38958076 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38958103 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38958130 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
38958157 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
38958184 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
38958211 AGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
38958238 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38958265 AGTAATT
1 GGTAATT
38958272 TCATAATCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:38958272 original size:54 final size:54
Alignment explanation
Indices: 38958076--38958271 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
38958066 GGGGCAAAAT
* * * *
38958076 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
38958130 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * * *
38958184 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * *
38958238 AGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
38958272 TCATAATCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.98
55 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:38958310 original size:27 final size:27
Alignment explanation
Indices: 38958276--38958448 Score: 215
Period size: 27 Copynumber: 6.4 Consensus size: 27
38958266 GTAATTTCAT
* *
38958276 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** * *
38958303 AATTAAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38958330 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38958357 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
38958384 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38958411 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
38958438 AATCAAGGGTA
1 AATCGAGGGTA
38958449 CTTTGGTAAT
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.02
27 123 0.97
28 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:38958350 original size:54 final size:54
Alignment explanation
Indices: 38958276--38958448 Score: 256
Period size: 54 Copynumber: 3.2 Consensus size: 54
38958266 GTAATTTCAT
* * * * * *
38958276 AATCAAGGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAACGATAATTTTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
* *
38958330 AATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATA
1 AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
* *
38958384 AATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
38958438 AATCAAGGGTA
1 AATCAAGGGTA
38958449 CTTTGGTAAT
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
Found at i:38958512 original size:27 final size:28
Alignment explanation
Indices: 38958454--38958519 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
38958444 GGGTACTTTG
38958454 GTAATTTTACAAGTCGAAGGTATGTCTA
1 GTAATTTTACAAGTCGAAGGTATGTCTA
* * *
38958482 -TAATTTTACAGGTCGAGGGTATTTC-A
1 GTAATTTTACAAGTCGAAGGTATGTCTA
*
38958508 GTAATTTCACAA
1 GTAATTTTACAA
38958520 ATCAGGAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (28 bp):
GTAATTTTACAAGTCGAAGGTATGTCTA
Found at i:38958547 original size:27 final size:27
Alignment explanation
Indices: 38958498--38958676 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
38958488 TACAGGTCGA
** * *
38958498 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
38958525 GAATATTTTGGTAATTTTCCAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
38958552 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
38958579 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
38958606 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
38958633 GGTTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
38958660 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
38958677 GGTAAACTAA
Statistics
Matches: 128, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:38960640 original size:29 final size:30
Alignment explanation
Indices: 38960607--38960668 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
38960597 CCTTTTCATA
38960607 TTTCATATTTCATAACACTGGGCCGAA-CC
1 TTTCATATTTCATAACACTGGGCCGAAGCC
**
38960636 TTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTCATATTTCATAACACTGGGCCGAAGCC
38960666 TTT
1 TTT
38960669 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (30 bp):
TTTCATATTTCATAACACTGGGCCGAAGCC
Found at i:38960914 original size:24 final size:24
Alignment explanation
Indices: 38960882--38960957 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
38960872 GCCTAGCCTG
*
38960882 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
38960906 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
38960930 -TTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
38960953 TTTTA
1 TTTTA
38960958 CACTTCCTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 23 0.46
24 27 0.54
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:38960937 original size:23 final size:23
Alignment explanation
Indices: 38960883--38960955 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
38960873 CCTAGCCTGT
*
38960883 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
38960906 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
38960930 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
38960953 TTT
1 TTT
38960956 TACACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:38961031 original size:20 final size:20
Alignment explanation
Indices: 38961006--38961072 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
38960996 TTATGATTAC
38961006 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
38961026 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
38961046 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
38961066 ACCATGT
1 ATCATGT
38961073 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:38961037 original size:11 final size:11
Alignment explanation
Indices: 38961006--38961061 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
38960996 TTATGATTAC
38961006 ATCATGTGCAT
1 ATCATGTGCAT
*
38961017 ATCA--TACAT
1 ATCATGTGCAT
38961026 ATCATGTGCAT
1 ATCATGTGCAT
*
38961037 ATCA--TACAT
1 ATCATGTGCAT
*
38961046 GTCATGTGCAT
1 ATCATGTGCAT
38961057 ATCAT
1 ATCAT
38961062 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:38967059 original size:37 final size:38
Alignment explanation
Indices: 38966995--38967118 Score: 146
Period size: 40 Copynumber: 3.2 Consensus size: 38
38966985 CGGAATACAA
*
38966995 CCGGATATAACCACGTGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATAGAA-CAC-TGCACGAATGCCTTCGGGTCTTAGC
38967034 CCGGATAGAACACTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACACTGCACGAATGCCTTCGGGTCTTAGC
* *
38967072 CCGGAT-GTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATAG-A-ACACT-GCACGAA-TGCCTTCGGGTCTTAGC
38967112 CCGGATA
1 CCGGATA
38967119 TAATTTCCAG
Statistics
Matches: 76, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
37 16 0.21
38 19 0.25
39 15 0.20
40 26 0.34
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (38 bp):
CCGGATAGAACACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:38975114 original size:40 final size:39
Alignment explanation
Indices: 38975069--38975196 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
38975059 CGGAATACAA
38975069 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
38975109 CCGGATAGAACGACT-CACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
* * *
38975147 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
38975187 CCGGATATAA
1 CCGGATATAA
38975197 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
38 34 0.45
39 3 0.04
40 39 0.51
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:38976320 original size:27 final size:27
Alignment explanation
Indices: 38976286--38976458 Score: 215
Period size: 27 Copynumber: 6.4 Consensus size: 27
38976276 GTAATTTCAT
* *
38976286 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** * *
38976313 AATTAAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38976340 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38976367 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
38976394 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38976421 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
38976448 AATCAAGGGTA
1 AATCGAGGGTA
38976459 CTTTGGTAAT
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.02
27 123 0.97
28 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:38976360 original size:54 final size:54
Alignment explanation
Indices: 38976286--38976458 Score: 256
Period size: 54 Copynumber: 3.2 Consensus size: 54
38976276 GTAATTTCAT
* * * * * *
38976286 AATCAAGGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAACGATAATTTTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
* *
38976340 AATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATA
1 AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
* *
38976394 AATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
38976448 AATCAAGGGTA
1 AATCAAGGGTA
38976459 CTTTGGTAAT
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
Found at i:38976522 original size:27 final size:28
Alignment explanation
Indices: 38976464--38976529 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
38976454 GGGTACTTTG
38976464 GTAATTTTACAAGTCGAAGGTATGTCTA
1 GTAATTTTACAAGTCGAAGGTATGTCTA
* * *
38976492 -TAATTTTACAGGTCGAGGGTATTTC-A
1 GTAATTTTACAAGTCGAAGGTATGTCTA
*
38976518 GTAATTTCACAA
1 GTAATTTTACAA
38976530 ATCAGGAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (28 bp):
GTAATTTTACAAGTCGAAGGTATGTCTA
Found at i:38976557 original size:27 final size:27
Alignment explanation
Indices: 38976508--38976686 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
38976498 TACAGGTCGA
** * *
38976508 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
38976535 GAATATTTTGGTAATTTTCCAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
38976562 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
38976589 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
38976616 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
38976643 GGTTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
38976670 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
38976687 GGTAAACTAA
Statistics
Matches: 128, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:38978914 original size:24 final size:24
Alignment explanation
Indices: 38978882--38978957 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
38978872 GCCTAGCCTG
*
38978882 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
38978906 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
38978930 -TTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
38978953 TTTTA
1 TTTTA
38978958 CACTTCCTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 23 0.46
24 27 0.54
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:38978937 original size:23 final size:23
Alignment explanation
Indices: 38978883--38978955 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
38978873 CCTAGCCTGT
*
38978883 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
38978906 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
38978930 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
38978953 TTT
1 TTT
38978956 TACACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:38979031 original size:20 final size:20
Alignment explanation
Indices: 38979006--38979072 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
38978996 TTATGATTAC
38979006 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
38979026 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
38979046 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
38979066 ACCATGT
1 ATCATGT
38979073 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:38979037 original size:11 final size:11
Alignment explanation
Indices: 38979006--38979061 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
38978996 TTATGATTAC
38979006 ATCATGTGCAT
1 ATCATGTGCAT
*
38979017 ATCA--TACAT
1 ATCATGTGCAT
38979026 ATCATGTGCAT
1 ATCATGTGCAT
*
38979037 ATCA--TACAT
1 ATCATGTGCAT
*
38979046 GTCATGTGCAT
1 ATCATGTGCAT
38979057 ATCAT
1 ATCAT
38979062 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:38985074 original size:6 final size:6
Alignment explanation
Indices: 38985063--38985249 Score: 156
Period size: 6 Copynumber: 30.8 Consensus size: 6
38985053 AACCAAAATG
* *
38985063 AGAATC AGAATC AGAATC AGTAA-C AGAATT AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
38985111 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
38985160 AAAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
*
38985208 AGAATC AGAATC AAAATTAC ATG-A-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAA-T-C A-GAATC AGAATC AGAATC AGAAT
38985250 GTGAATGCAA
Statistics
Matches: 147, Mismatches: 16, Indels: 36
0.74 0.08 0.18
Matches are distributed among these distances:
4 1 0.01
5 13 0.09
6 119 0.81
7 9 0.06
8 5 0.03
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:38985078 original size:30 final size:29
Alignment explanation
Indices: 38985042--38985249 Score: 194
Period size: 30 Copynumber: 7.1 Consensus size: 29
38985032 AAGAAATATT
* * *
38985042 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
* *
38985072 ATCAGAATCAGTAACAGAATTAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
38985102 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
* *
38985132 ATCAGAATTAGGTGACAGAATCAGAATCAAA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
38985163 ATC---A--GTAACAGAATCAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
*
38985187 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
* * *
38985217 ATCAAAATTACATGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
38985248 AT
1 AT
38985250 GTGAATGCAA
Statistics
Matches: 150, Mismatches: 16, Indels: 23
0.79 0.08 0.12
Matches are distributed among these distances:
24 21 0.14
27 1 0.01
28 1 0.01
29 1 0.01
30 81 0.54
31 45 0.30
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:38985166 original size:85 final size:85
Alignment explanation
Indices: 38985063--38985245 Score: 312
Period size: 85 Copynumber: 2.2 Consensus size: 85
38985053 AACCAAAATG
* *
38985063 AGAATCAGAATCAGAATCAGTAACAGAATTAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
* **
38985128 CAGAATCAGAATTAGGTGAC
66 CAGAATCAAAATTACATGAC
*
38985148 AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
38985213 CAGAATCAAAATTACATGAC
66 CAGAATCAAAATTACATGAC
38985233 AGAATCAGAATCA
1 AGAATCAGAATCA
38985246 GAATGTGAAT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAAAATTACATGAC
Found at i:38985404 original size:27 final size:26
Alignment explanation
Indices: 38985367--38985432 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
38985357 AGCATGGCTG
*
38985367 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
38985393 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
38985420 CCAGAATCAGATA
1 CCAGAA-CAGATA
38985433 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:38985437 original size:27 final size:27
Alignment explanation
Indices: 38985367--38985440 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
38985357 AGCATGGCTG
* *
38985367 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
38985393 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
38985420 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
38985441 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:38985447 original size:27 final size:27
Alignment explanation
Indices: 38985391--38985448 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
38985381 GTGACAGAGT
* * *
38985391 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
38985418 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
38985445 CACC
1 CACC
38985449 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:38985653 original size:22 final size:22
Alignment explanation
Indices: 38985605--38985663 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
38985595 GTAAATACGT
*
38985605 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
38985627 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
38985649 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
38985664 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:38985816 original size:27 final size:26
Alignment explanation
Indices: 38985751--38985833 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
38985741 TCGATCGGTC
* * *
38985751 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
38985777 ATACAGAAATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
38985804 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
38985831 AAC
1 AAC
38985834 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.14
27 42 0.86
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:38985949 original size:22 final size:23
Alignment explanation
Indices: 38985902--38985949 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
38985892 CCATATTGAA
*
38985902 TCAAACAATCACAGTCAAGTCCG
1 TCAAACAATCACAGTCAAGTCAG
38985925 TCAAAC-A-CACAGTCCAAGTCAG
1 TCAAACAATCACAGT-CAAGTCAG
38985947 TCA
1 TCA
38985950 CTTGCCCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 11 0.48
23 6 0.26
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.17
Consensus pattern (23 bp):
TCAAACAATCACAGTCAAGTCAG
Found at i:38986027 original size:27 final size:27
Alignment explanation
Indices: 38985997--38986192 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
38985987 GGGGCAAAAT
* * *
38985997 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38986024 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38986051 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
38986078 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
38986105 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
38986132 AGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
38986159 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38986186 AGTAATT
1 GGTAATT
38986193 TCATAATCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:38986193 original size:54 final size:54
Alignment explanation
Indices: 38985997--38986192 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
38985987 GGGGCAAAAT
* * * *
38985997 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
38986051 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * * *
38986105 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * *
38986159 AGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
38986193 TCATAATCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.98
55 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:38986231 original size:27 final size:27
Alignment explanation
Indices: 38986197--38986369 Score: 215
Period size: 27 Copynumber: 6.4 Consensus size: 27
38986187 GTAATTTCAT
* *
38986197 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** * *
38986224 AATTAAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38986251 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38986278 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
38986305 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38986332 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
38986359 AATCAAGGGTA
1 AATCGAGGGTA
38986370 CTTTGGTAAT
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.02
27 123 0.97
28 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:38986271 original size:54 final size:54
Alignment explanation
Indices: 38986197--38986369 Score: 256
Period size: 54 Copynumber: 3.2 Consensus size: 54
38986187 GTAATTTCAT
* * * * * *
38986197 AATCAAGGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAACGATAATTTTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
* *
38986251 AATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATA
1 AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
* *
38986305 AATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
38986359 AATCAAGGGTA
1 AATCAAGGGTA
38986370 CTTTGGTAAT
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
AATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
Found at i:38986396 original size:27 final size:25
Alignment explanation
Indices: 38986366--38986439 Score: 67
Period size: 27 Copynumber: 2.8 Consensus size: 25
38986356 GTAAATCAAG
38986366 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTA-TTT-GTAATTTTACAAGTCGAA
* * *
38986393 GGTATGTCTATAATTTTACAGGTCGAG
1 GGTAT-T-TGTAATTTTACAAGTCGAA
*
38986420 GGTATTTAGTAATTTCACAA
1 GGTATTT-GTAATTTTACAA
38986440 ATCAGGAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
25 1 0.03
26 11 0.29
27 25 0.66
28 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (25 bp):
GGTATTTGTAATTTTACAAGTCGAA
Found at i:38986460 original size:27 final size:27
Alignment explanation
Indices: 38986419--38986596 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
38986409 TACAGGTCGA
* *
38986419 GGGTA-TTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTCACAAACCAG
** *
38986445 GAATATTTTGGTAATTTTC-CAAACTAG
1 GGGTATTTTGGTAA-TTTCACAAACCAG
* *
38986472 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTCACAAACCAG
*
38986499 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTCACAAACCAG
* * * *
38986526 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTCACAAACCAG
* * * *
38986553 GGTTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTCACAAACCAG
38986580 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
38986597 GGTAAACTAA
Statistics
Matches: 128, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.05
27 118 0.92
28 4 0.03
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAAACCAG
Found at i:38986506 original size:54 final size:54
Alignment explanation
Indices: 38986419--38986596 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
38986409 TACAGGTCGA
* * * * *
38986419 GGGTA-TTTAGTAATTTCACAAATCAGGAATATTTTGGTAATTTTCCAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAGGGATATTTTGGTAATTTTACAAACTAG
* * *
38986472 GGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAGGGATATTTTGGTAATTTTACAAACTAG
* * * * *
38986526 GGGTATTTTGGTAATTTTATAAACAAAGGTTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAGGGATATTTTGGTAATTTTACAAACTAG
38986580 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
38986597 GGTAAACTAA
Statistics
Matches: 109, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 5 0.05
54 104 0.95
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGATATTTTGGTAATTTTACAAACTAG
Found at i:38986542 original size:81 final size:81
Alignment explanation
Indices: 38986419--38986596 Score: 234
Period size: 81 Copynumber: 2.2 Consensus size: 81
38986409 TACAGGTCGA
* * * * *
38986419 GGGTA-TTTAGTAATTTCACAAATCAGGAATATTTTGGTAATTTTCCAAACTAGGGGTATTTT-G
1 GGGTATTTTGGTAATTTCACAAACCAGGAATATTTTGGTAATTTTACAAACAAAGGGTATTTTAG
38986482 ATAATTTTACAAACCAG
66 -TAATTTTACAAACCAG
* ** * *
38986499 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGTTATTTTAG
1 GGGTATTTTGGTAATTTCACAAACCAGGAATATTTTGGTAATTTTACAAACAAAGGGTATTTTAG
*
38986564 TAATTTTACAAACTAG
66 TAATTTTACAAACCAG
38986580 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
38986597 GGTAAACTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 5 0.06
81 79 0.93
82 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTCACAAACCAGGAATATTTTGGTAATTTTACAAACAAAGGGTATTTTAG
TAATTTTACAAACCAG
Found at i:38986605 original size:27 final size:27
Alignment explanation
Indices: 38986448--38986596 Score: 217
Period size: 27 Copynumber: 5.5 Consensus size: 27
38986438 AAATCAGGAA
*
38986448 TATTTTGGTAATTTTCCAAACTAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
* *
38986475 TATTTTGATAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
*
38986502 TATTTTGGTAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
* * * *
38986529 TATTTTGGTAATTTTATAAACAAAGGT
1 TATTTTGGTAATTTTACAAACTAGGGG
*
38986556 TATTTTAGTAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
38986583 TATTTTGGTAATTT
1 TATTTTGGTAATTT
38986597 GGTAAACTAA
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAACTAGGGG
Found at i:38988563 original size:30 final size:30
Alignment explanation
Indices: 38988527--38988589 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
38988517 CCTTTTCATA
38988527 TTTCATATTTCATAACACTGGGCCGAAACC
1 TTTCATATTTCATAACACTGGGCCGAAACC
** *
38988557 TTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTCATATTTCATAACACTGGGCCGAAACC
38988587 TTT
1 TTT
38988590 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (30 bp):
TTTCATATTTCATAACACTGGGCCGAAACC
Found at i:38988835 original size:24 final size:24
Alignment explanation
Indices: 38988803--38988878 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
38988793 GCCTAGCCTG
*
38988803 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
38988827 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
38988851 -TTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
38988874 TTTTA
1 TTTTA
38988879 CACTTCCTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 23 0.46
24 27 0.54
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:38988858 original size:23 final size:23
Alignment explanation
Indices: 38988804--38988876 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
38988794 CCTAGCCTGT
*
38988804 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
38988827 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
38988851 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
38988874 TTT
1 TTT
38988877 TACACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:38988952 original size:20 final size:20
Alignment explanation
Indices: 38988927--38988993 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
38988917 TTATGATTAC
38988927 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
38988947 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
38988967 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
38988987 ACCATGT
1 ATCATGT
38988994 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:38988958 original size:11 final size:11
Alignment explanation
Indices: 38988927--38988982 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
38988917 TTATGATTAC
38988927 ATCATGTGCAT
1 ATCATGTGCAT
*
38988938 ATCA--TACAT
1 ATCATGTGCAT
38988947 ATCATGTGCAT
1 ATCATGTGCAT
*
38988958 ATCA--TACAT
1 ATCATGTGCAT
*
38988967 GTCATGTGCAT
1 ATCATGTGCAT
38988978 ATCAT
1 ATCAT
38988983 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:38994958 original size:40 final size:40
Alignment explanation
Indices: 38994913--38995078 Score: 178
Period size: 39 Copynumber: 4.2 Consensus size: 40
38994903 CGGAATACAA
38994913 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* *
38994953 CCGGATAGAA-CACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
38994992 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
38995032 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
38995071 CCGGATAT
1 CCGGATAT
38995079 CATTCAATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 58 0.54
40 48 0.45
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:39003050 original size:40 final size:40
Alignment explanation
Indices: 39003005--39003134 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
39002995 CGGAATACAA
39003005 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
39003045 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
39003085 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
39003125 CCGGATATAA
1 CCGGATATAA
39003135 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Done.