Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
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: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 14 of 30
Found at i:2287575 original size:103 final size:103
Alignment explanation
Indices: 2287451--2287673 Score: 331
Period size: 103 Copynumber: 2.2 Consensus size: 103
2287441 TTGGAATATG
** * * *
2287451 GGGTTGGAGTATCCCTATGGATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCTTGATAAAT
1 GGGTTGGAGTATCCCTATGGATAACAAATAATTTTGACAAAAGACAAGCTCAAACCTAGATAAAT
*
2287516 TTTGAAGAGCGAGGTTAGAGTATCCCCTCAAAATGTTA
66 TTTGAAGAGCGAGGTTAGAGTATCCCCTCAAAAGGTTA
* *
2287554 GGGTTGGAGTAT-CCTCGTGGATAACAAATAATTTTGACAAAGGACAAGCTCAAACCTAGATAAA
1 GGGTTGGAGTATCCCT-ATGGATAACAAATAATTTTGACAAAAGACAAGCTCAAACCTAGATAAA
* *
2287618 TTTTGAAGAGCGAGGTTGGAGTATCCCCTCAAAAGGTTG
65 TTTTGAAGAGCGAGGTTAGAGTATCCCCTCAAAAGGTTA
*
2287657 GGGTTGGAATATCCCTA
1 GGGTTGGAGTATCCCTA
2287674 CGAATAAAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
102 3 0.03
103 100 0.94
104 3 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (103 bp):
GGGTTGGAGTATCCCTATGGATAACAAATAATTTTGACAAAAGACAAGCTCAAACCTAGATAAAT
TTTGAAGAGCGAGGTTAGAGTATCCCCTCAAAAGGTTA
Found at i:2290966 original size:52 final size:52
Alignment explanation
Indices: 2290806--2291259 Score: 352
Period size: 52 Copynumber: 8.7 Consensus size: 52
2290796 TGCAAAAGCA
* * * *
2290806 CCAATATGCTGATCCTAGGCTAGTGACGTTGGATTTAAAGATGAT-AAGGATG
1 CCAATATGCTGATCCAAGGCCAGTGACATTGGACTTAAAGATGATAAAGG-TG
** * * * * ** * * **
2290858 CTGATATGCTGATTCAAGGCTAGTGATACTGGTTTTAGAGATGAAAAAGGCA
1 CCAATATGCTGATCCAAGGCCAGTGACATTGGACTTAAAGATGATAAAGGTG
* * * *
2290910 CCAATGTGCTGATCCGAGGCCAGTGACATTGGACTTAGAGATGACAAAGGTG
1 CCAATATGCTGATCCAAGGCCAGTGACATTGGACTTAAAGATGATAAAGGTG
* * * *
2290962 CCAATATGTTGATCCAAGGCCAGCGACATTAGACTTAAAGATGATAAAGATG
1 CCAATATGCTGATCCAAGGCCAGTGACATTGGACTTAAAGATGATAAAGGTG
* * *
2291014 CCAATATGTTGATCCAAGGCCGGTGACATTGGACTTAAAGATGATAAGGGTG
1 CCAATATGCTGATCCAAGGCCAGTGACATTGGACTTAAAGATGATAAAGGTG
* ** ** * * *
2291066 CCAATATGTTGATATAAGGCCAACGATATTGGACTTAAAGATGATAAAAGAG
1 CCAATATGCTGATCCAAGGCCAGTGACATTGGACTTAAAGATGATAAAGGTG
* * * ** * * * * *
2291118 CCTATGTACTGATTTAAAGCCAGCGACATTAGACTTAAAGATGATAAAAGAG
1 CCAATATGCTGATCCAAGGCCAGTGACATTGGACTTAAAGATGATAAAGGTG
* * * ** * * * *
2291170 CCTATGTACTGATTTAAGGCCAGCGACATTAGACTTAAAGATGAGAAAATGTG
1 CCAATATGCTGATCCAAGGCCAGTGACATTGGACTTAAAGATGA-TAAAGGTG
* * * * *
2291223 TCAATGTGTTGATTCAAGGCCAGTGACATTGGGCTTA
1 CCAATATGCTGATCCAAGGCCAGTGACATTGGACTTA
2291260 GAAGGAAATG
Statistics
Matches: 332, Mismatches: 68, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
52 294 0.89
53 38 0.11
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (52 bp):
CCAATATGCTGATCCAAGGCCAGTGACATTGGACTTAAAGATGATAAAGGTG
Found at i:2290969 original size:104 final size:103
Alignment explanation
Indices: 2290733--2291259 Score: 326
Period size: 104 Copynumber: 5.0 Consensus size: 103
2290723 GCGACATTAA
** * * * * * * * *
2290733 ACTTAAAGATGACTCAGGTGTCAATGTGTTGATTTCAAAGCCAGCGACATTGGTCTTAAGGATTG
1 ACTTAAAGATGA-AAAGGTGCCAATATGTTGA-TCCAAGGCCAGCGACACTAGACTTAAAGA-TG
* * * *
2290798 CAAAA-GCACCAATATGCTGATCCTAGGCTAGTGACGTTGG
63 AAAAAGGCACCAATATGCTGATCCAAGGCCAGTGACATTGG
* * ** * * * * * * ** *
2290838 ATTTAAAGATGATAAGGATGCTGATATGCTGATTCAAGGCTAGTGATACTGGTTTTAGAGATGAA
1 ACTTAAAGATGAAAAGG-TGCCAATATGTTGATCCAAGGCCAGCGACACTAGACTTAAAGATGAA
* *
2290903 AAAGGCACCAATGTGCTGATCCGAGGCCAGTGACATTGG
65 AAAGGCACCAATATGCTGATCCAAGGCCAGTGACATTGG
* * *
2290942 ACTTAGAGATGACAAAGGTGCCAATATGTTGATCCAAGGCCAGCGACATTAGACTTAAAGATGAT
1 ACTTAAAGATGA-AAAGGTGCCAATATGTTGATCCAAGGCCAGCGACACTAGACTTAAAGATGAA
*** * *
2291007 AAAGATGCCAATATGTTGATCCAAGGCCGGTGACATTGG
65 AAAGGCACCAATATGCTGATCCAAGGCCAGTGACATTGG
* ** * * * *
2291046 ACTTAAAGATGATAAGGGTGCCAATATGTTGATATAAGGCCAACGATATTGGACTTAAAGATGAT
1 ACTTAAAGATGA-AAAGGTGCCAATATGTTGATCCAAGGCCAGCGACACTAGACTTAAAGATGA-
* * * ** * * *
2291111 AAAA-G-AGCCTATGTACTGATTTAAAGCCAGCGACATTAG
64 AAAAGGCA-CCAATATGCTGATCCAAGGCCAGTGACATTGG
* * ** *
2291150 ACTTAAAGATGATAAAAGAGCC--TATGTACTGATTTAAGGCCAGCGACATTAGACTTAAAGATG
1 ACTTAAAGATGA-AAAGGTGCCAATATGT--TGATCCAAGGCCAGCGACACTAGACTTAAAGATG
* *** * * *
2291213 AGAAAATGTGTCAATGTGTTGATTCAAGGCCAGTGACATTGG
63 A-AAAAGGCACCAATATGCTGATCCAAGGCCAGTGACATTGG
*
2291255 GCTTA
1 ACTTA
2291260 GAAGGAAATG
Statistics
Matches: 331, Mismatches: 82, Indels: 18
0.77 0.19 0.04
Matches are distributed among these distances:
102 5 0.02
103 6 0.02
104 264 0.80
105 56 0.17
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (103 bp):
ACTTAAAGATGAAAAGGTGCCAATATGTTGATCCAAGGCCAGCGACACTAGACTTAAAGATGAAA
AAGGCACCAATATGCTGATCCAAGGCCAGTGACATTGG
Found at i:2291056 original size:156 final size:155
Alignment explanation
Indices: 2290711--2291261 Score: 434
Period size: 156 Copynumber: 3.5 Consensus size: 155
2290701 CTAATGTACA
* ** *** * * *
2290711 GATTCAAGGACC-GCGACATTAAACTTAAAGATGACTCAGGTGTCAATGTGTTGATTTCAAAGCC
1 GATTCAAGG-CCAGTGACATTGGACTTAAAGATGAAAAAGGTGCCAATGTGTTGA-TACAAGGCC
* * * * * * * *
2290775 AGCGACATTGGTCTTA-AGGATTG-CAAAAGCA-CCAATATGCTGATCCTAGGCTAGTGACGTTG
64 AGTGACATTGGACTTAGA-GA-TGACAAAAG-AGCCAATATGTTGATCCAAGGCCAGCGACATTA
* * * *
2290837 GATTTAAAGATGATAAGGATGCTGATATGCT
126 GACTTAAAGATGATAAAGATGC-CATATGTT
* * * ** * ** * * *
2290868 GATTCAAGGCTAGTGATACTGGTTTTAGAGATGAAAAAGGCACCAATGTGCTGATCCGAGGCCAG
1 GATTCAAGGCCAGTGACATTGGACTTAAAGATGAAAAAGGTGCCAATGTGTTGATACAAGGCCAG
* *
2290933 TGACATTGGACTTAGAGATGACAAAGGTGCCAATATGTTGATCCAAGGCCAGCGACATTAGACTT
66 TGACATTGGACTTAGAGATGACAAAAGAGCCAATATGTTGATCCAAGGCCAGCGACATTAGACTT
2290998 AAAGATGATAAAGATGCCAATATGTT
131 AAAGATGATAAAGATGCC-ATATGTT
* * * * * * *
2291024 GATCCAAGGCCGGTGACATTGGACTTAAAGATGATAAGGGTGCCAATATGTTGATATAAGGCCAA
1 GATTCAAGGCCAGTGACATTGGACTTAAAGATGAAAAAGGTGCCAATGTGTTGATACAAGGCCAG
* * * * ** *
2291089 CGATATTGGACTTAAAGATGATAAAAGAGCC--TATGTACTGATTTAAAGCCAGCGACATTAGAC
66 TGACATTGGACTTAGAGATGACAAAAGAGCCAATATGT--TGATCCAAGGCCAGCGACATTAGAC
2291152 TTAAAGATGATAAAAGA-GCC-TATGTACT
129 TTAAAGATGAT-AAAGATGCCATATGT--T
* * * * * *
2291180 GATTTAAGGCCAGCGACATTAGACTTAAAGATGAGAAAATGTGTCAATGTGTTGATTCAAGGCCA
1 GATTCAAGGCCAGTGACATTGGACTTAAAGATGA-AAAAGGTGCCAATGTGTTGATACAAGGCCA
*
2291245 GTGACATTGGGCTTAGA
65 GTGACATTGGACTTAGA
2291262 AGGAAATGCC
Statistics
Matches: 306, Mismatches: 77, Indels: 22
0.76 0.19 0.05
Matches are distributed among these distances:
154 10 0.03
155 2 0.01
156 217 0.71
157 77 0.25
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (155 bp):
GATTCAAGGCCAGTGACATTGGACTTAAAGATGAAAAAGGTGCCAATGTGTTGATACAAGGCCAG
TGACATTGGACTTAGAGATGACAAAAGAGCCAATATGTTGATCCAAGGCCAGCGACATTAGACTT
AAAGATGATAAAGATGCCATATGTT
Found at i:2291566 original size:31 final size:31
Alignment explanation
Indices: 2291379--2291636 Score: 157
Period size: 31 Copynumber: 8.7 Consensus size: 31
2291369 CATGCAAGCC
* ** * *
2291379 TTTAAAAGGTTACCACGTATTCATATGGGCT
1 TTTAAAAGGTTGCCACCAACTCATGTGGGCT
* * * *
2291410 TTGAAGAGGTTGCCACCAACTTATGTGGAC-
1 TTTAAAAGGTTGCCACCAACTCATGTGGGCT
* **
2291440 TTAAGAAGAGGTTGCCACCAACTTGTGTGGGCT
1 TTTA-AA-AGGTTGCCACCAACTCATGTGGGCT
* * ** *
2291473 TTTAAAAGGTTGCTACGAACTCGGGTAGGCT
1 TTTAAAAGGTTGCCACCAACTCATGTGGGCT
* ** *
2291504 TTTAAGAGGTTAACACCAACTCGTGTGGGCT
1 TTTAAAAGGTTGCCACCAACTCATGTGGGCT
*
2291535 TTTAAAAGGTTGCCACCAACTCATGTTGGC-
1 TTTAAAAGGTTGCCACCAACTCATGTGGGCT
2291565 TTT--AA---TGCCACCAACTCATGCT-GGC-
1 TTTAAAAGGTTGCCACCAACTCATG-TGGGCT
* *
2291590 TTT-----GATGCCACCAACTCTTGTGGGCT
1 TTTAAAAGGTTGCCACCAACTCATGTGGGCT
* *
2291616 TTGAAGAGGTTGCCACCAACT
1 TTTAAAAGGTTGCCACCAACT
2291637 TGTATGGGCT
Statistics
Matches: 180, Mismatches: 34, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
24 1 0.01
25 38 0.21
26 3 0.02
28 2 0.01
30 6 0.03
31 103 0.57
32 24 0.13
33 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (31 bp):
TTTAAAAGGTTGCCACCAACTCATGTGGGCT
Found at i:2291566 original size:62 final size:62
Alignment explanation
Indices: 2291404--2291567 Score: 186
Period size: 62 Copynumber: 2.6 Consensus size: 62
2291394 CGTATTCATA
* * * * ** *
2291404 TGGGCTTTGAAGAGGTTGCCACCAACTTATG-TGGACTTAAGAAGAGGTTGCCACCAACTTGTG
1 TGGGCTTTTAAAAGGTTGCCACCAACTCATGTTGG-CTT-TGAAGAGGTTAACACCAACTCGTG
* * ** * *
2291467 TGGGCTTTTAAAAGGTTGCTACGAACTCGGGTAGGCTTTTAAGAGGTTAACACCAACTCGTG
1 TGGGCTTTTAAAAGGTTGCCACCAACTCATGTTGGCTTTGAAGAGGTTAACACCAACTCGTG
2291529 TGGGCTTTTAAAAGGTTGCCACCAACTCATGTTGGCTTT
1 TGGGCTTTTAAAAGGTTGCCACCAACTCATGTTGGCTTT
2291568 AATGCCACCA
Statistics
Matches: 82, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
62 53 0.65
63 27 0.33
64 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (62 bp):
TGGGCTTTTAAAAGGTTGCCACCAACTCATGTTGGCTTTGAAGAGGTTAACACCAACTCGTG
Found at i:2291579 original size:25 final size:25
Alignment explanation
Indices: 2291545--2291617 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
2291535 TTTAAAAGGT
2291545 TGCCACCAACTCATGTTGGCTTTAA
1 TGCCACCAACTCATGTTGGCTTTAA
* *
2291570 TGCCACCAACTCATGCTGGCTTTGA
1 TGCCACCAACTCATGTTGGCTTTAA
* *
2291595 TGCCACCAACTCTTGTGGGCTTT
1 TGCCACCAACTCATGTTGGCTTT
2291618 GAAGAGGTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (25 bp):
TGCCACCAACTCATGTTGGCTTTAA
Found at i:2291645 original size:31 final size:31
Alignment explanation
Indices: 2291595--2291657 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
2291585 CTGGCTTTGA
* * *
2291595 TGCCACCAACTCTTGTGGGCTTTGAAGAGGT
1 TGCCACCAACTCTTATGGGCTGTGAAAAGGT
2291626 TGCCACCAACT-TGTATGGGCTGTGAAAAGGT
1 TGCCACCAACTCT-TATGGGCTGTGAAAAGGT
2291657 T
1 T
2291658 TCCCTTGACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (31 bp):
TGCCACCAACTCTTATGGGCTGTGAAAAGGT
Found at i:2291929 original size:141 final size:141
Alignment explanation
Indices: 2291675--2291940 Score: 462
Period size: 141 Copynumber: 1.9 Consensus size: 141
2291665 ACTTGTGGAC
* *
2291675 TTTAGGAAAGGATACCACTGGCTTGTGGACTTTGAGAAAAGGTTGGTTGACAAAAATTTCTTGAC
1 TTTAGGAAAGGATACCACTGACTTATGGACTTTGAGAAAAGGTTGGTTGACAAAAATTTCTTGAC
2291740 ATGTGTTTCACTTGACAAAGATTTTTGATAAAAGTTCTCAAAAAACTTCTTGACATGAAGGCTTA
66 ATGTGTTTCACTTGACAAAGATTTTTGATAAAAGTTCTCAAAAAACTTCTTGACATGAAGGCTTA
2291805 AAGAAACAAGA
131 AAGAAACAAGA
* * *
2291816 TTTAGGAAGGGATACCACTGACTTATGGACTTT-AGGAAAGGGTTGGTTGACAAATATTTCTTGA
1 TTTAGGAAAGGATACCACTGACTTATGGACTTTGA-GAAAAGGTTGGTTGACAAAAATTTCTTGA
*
2291880 CATGTGTTTCACTTGACAAAGATTTTTGATAAAAGTTCTCAAAAAACTTCTTGGCATGAAG
65 CATGTGTTTCACTTGACAAAGATTTTTGATAAAAGTTCTCAAAAAACTTCTTGACATGAAG
2291941 ATTTGAAGAA
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
140 1 0.01
141 117 0.99
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (141 bp):
TTTAGGAAAGGATACCACTGACTTATGGACTTTGAGAAAAGGTTGGTTGACAAAAATTTCTTGAC
ATGTGTTTCACTTGACAAAGATTTTTGATAAAAGTTCTCAAAAAACTTCTTGACATGAAGGCTTA
AAGAAACAAGA
Found at i:2294821 original size:21 final size:21
Alignment explanation
Indices: 2294796--2294845 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
2294786 TTTTTCACCA
**
2294796 AAAAAAAAGAAGGCAGAATAC
1 AAAAAAAAGAAGAAAGAATAC
2294817 AAAAAAAAGAAGAAAGAATAC
1 AAAAAAAAGAAGAAAGAATAC
2294838 AAAAAAAA
1 AAAAAAAA
2294846 TCAGCATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.76, C:0.06, G:0.14, T:0.04
Consensus pattern (21 bp):
AAAAAAAAGAAGAAAGAATAC
Found at i:2295869 original size:15 final size:16
Alignment explanation
Indices: 2295849--2295879 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2295839 TATGATTATT
2295849 TTGCAAGAA-TAGAAA
1 TTGCAAGAAGTAGAAA
2295864 TTGCAAGAAGTAGAAA
1 TTGCAAGAAGTAGAAA
2295880 AAAATAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (16 bp):
TTGCAAGAAGTAGAAA
Found at i:2300646 original size:51 final size:51
Alignment explanation
Indices: 2300526--2300646 Score: 183
Period size: 51 Copynumber: 2.4 Consensus size: 51
2300516 TCGGAAATAA
*
2300526 CGGGGTTGGAGTATCCC-CGACTATGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTT-GAGTATCCCTCGACTATGAAAAATTGATGTTTCAGAAATAAAAC
* *
2300577 CAGGGTTGAAGTGT-CCTCGACTATGAAAAATTGATGTTTCAGAAATAAAAC
1 CGGGGTTG-AGTATCCCTCGACTATGAAAAATTGATGTTTCAGAAATAAAAC
2300628 CGGGGTTGAGTATCCCTCG
1 CGGGGTTGAGTATCCCTCG
2300647 GAAATAACGG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
50 7 0.11
51 55 0.89
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (51 bp):
CGGGGTTGAGTATCCCTCGACTATGAAAAATTGATGTTTCAGAAATAAAAC
Found at i:2300699 original size:128 final size:130
Alignment explanation
Indices: 2300498--2300772 Score: 351
Period size: 128 Copynumber: 2.1 Consensus size: 130
2300488 GAGATAATAA
*
2300498 CGGGGTTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGACTATGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGACTATGAAAAATAGATGT
* * *
2300563 TTTAGAAATAAAACCAGG-GTTGAAGTGTCCTCGACTATGAAAAATTGATGTTTCAGAAATAAAA
66 TTTAGAAATAAAACC-GGAGTTGAAGTATCCCCGACTATGAAAAATGGATGTTTCAGAAATAAAA
2300627 C
130 C
* * * *
2300628 CGGGGTT-GAGTATCCC-TCGGAAATAACGGGGTTGGAGTATCTCCGATTGTGAAAAGTCAG-TG
1 CGGGGTTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGACTATGAAAAAT-AGATG
* * * * * * *
2300690 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAA
65 TTTTAGAAATAAAACCGGAGTTGAAGTATCCCCGACTATGAAAAATGGATGTTTCAGAAATAAAA
*
2300755 T
130 C
*
2300756 CGGAGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
2300773 CGATTAAGAA
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
127 2 0.02
128 97 0.78
129 19 0.15
130 7 0.06
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGACTATGAAAAATAGATGT
TTTAGAAATAAAACCGGAGTTGAAGTATCCCCGACTATGAAAAATGGATGTTTCAGAAATAAAAC
Found at i:2300719 original size:51 final size:50
Alignment explanation
Indices: 2300658--2300834 Score: 207
Period size: 51 Copynumber: 3.5 Consensus size: 50
2300648 AAATAACGGG
* *
2300658 GTTGGAGTATCTCCGATTGTGAAAAGTCAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAA-TCAGTGTTTTGGAAATAAAATCGGA
** *
2300709 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAATCAGTGTTTTGGAAATAAAATCGGA
* * *
2300760 GTTGGAGTATCCCCGATTAAGAAAAACTGATGTTTTGGAAATGAAAA-CGG-
1 GTTGGAGTATCCCCGATTATGAAAATCAG-TGTTTTGGAAAT-AAAATCGGA
*
2300810 GATTGGAGTATCCCCGA-GATGAAAA
1 G-TTGGAGTATCCCCGATTATGAAAA
2300835 ATCTAGAAAT
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
50 13 0.12
51 88 0.80
52 9 0.08
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAATCAGTGTTTTGGAAATAAAATCGGA
Found at i:2303189 original size:40 final size:38
Alignment explanation
Indices: 2303125--2303251 Score: 131
Period size: 40 Copynumber: 3.4 Consensus size: 38
2303115 AAAATGCCTG
* *
2303125 AATGTATCGATACATTGTA-AAATGTATCGATACAATGAGC
1 AATGTATCGATACAATG-AGCAATGTATCGAT-CAATGA-C
2303165 AATGTATCGATACAATGAGCAATGTATCG----AT-AC
1 AATGTATCGATACAATGAGCAATGTATCGATCAATGAC
*
2303198 AATGTATCGATACAATGAGCAATGTATCGATGCAATGCAA
1 AATGTATCGATACAATGAGCAATGTATCGAT-CAATG-AC
*
2303238 AATGTGTCGATACA
1 AATGTATCGATACA
2303252 TCTGAGTAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
33 30 0.40
34 1 0.01
35 2 0.03
38 2 0.03
39 1 0.01
40 39 0.52
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (38 bp):
AATGTATCGATACAATGAGCAATGTATCGATCAATGAC
Found at i:2303206 original size:33 final size:33
Alignment explanation
Indices: 2303164--2303335 Score: 134
Period size: 33 Copynumber: 5.1 Consensus size: 33
2303154 ATACAATGAG
2303164 CAATGTATCGATACAATGAGCAATGTATCGATA
1 CAATGTATCGATACAATGAGCAATGTATCGATA
2303197 CAATGTATCGATACAATGAGCAATGTATCGATGCAA
1 CAATGTATCGATACAATGAGCAATGTATCGAT---A
* * * ** *
2303233 TGCAAAATGTGTCGATACATCTGAGTAAACT-TC-CTA
1 --C--AATGTATCGATACA-ATGAGCAATGTATCGATA
* * * *
2303269 -GATGTATCGATACAAAGATCGATGTATCGATA
1 CAATGTATCGATACAATGAGCAATGTATCGATA
* **
2303301 CAATGTATCGATACATTGAATAATGTATCGATA
1 CAATGTATCGATACAATGAGCAATGTATCGATA
2303334 CA
1 CA
2303336 TTGAATAATG
Statistics
Matches: 106, Mismatches: 22, Indels: 22
0.71 0.15 0.15
Matches are distributed among these distances:
30 4 0.04
31 14 0.13
32 2 0.02
33 60 0.57
36 2 0.02
38 1 0.01
39 1 0.01
40 15 0.14
41 7 0.07
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (33 bp):
CAATGTATCGATACAATGAGCAATGTATCGATA
Found at i:2303225 original size:53 final size:52
Alignment explanation
Indices: 2303145--2303355 Score: 191
Period size: 53 Copynumber: 4.0 Consensus size: 52
2303135 TACATTGTAA
2303145 AATGTATCGATACAATGAGCAATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATACAATGA-CAATGTATCGATAC
* * *
2303198 AATGTATCGATACAATGAGCAATGTATCGATGCAATGCAAAATGTGTCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATACAATG-ACAATGTATCGATAC
* ** * *
2303251 -A--TCT-GAGTA-AACT-TCCTAGATGTATCGATACAAAGATCGATGTATCGATAC
1 AATGTATCGA-TACAA-TGAGC-A-ATGTATCGATACAATGA-CAATGTATCGATAC
* ** * *
2303302 AATGTATCGATACATTGAATAATGTATCGATACATTGAATAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATACAATG-ACAATGTATCGATAC
2303355 A
1 A
2303356 TTTCCTTGGC
Statistics
Matches: 125, Mismatches: 20, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
49 5 0.04
50 7 0.06
51 25 0.20
52 2 0.02
53 75 0.60
54 8 0.06
55 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (52 bp):
AATGTATCGATACAATGAGCAATGTATCGATACAATGACAATGTATCGATAC
Found at i:2303234 original size:13 final size:13
Alignment explanation
Indices: 2303184--2303214 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2303174 ATACAATGAG
2303184 CAATGTATCGATA
1 CAATGTATCGATA
2303197 CAATGTATCGATA
1 CAATGTATCGATA
2303210 CAATG
1 CAATG
2303215 AGCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2303242 original size:20 final size:20
Alignment explanation
Indices: 2303125--2303234 Score: 128
Period size: 20 Copynumber: 5.8 Consensus size: 20
2303115 AAAATGCCTG
* *
2303125 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGC
2303145 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
2303165 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
2303185 AATGTATCG-----AT-A-C
1 AATGTATCGATACAATGAGC
2303198 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
*
2303218 AATGTATCGATGCAATG
1 AATGTATCGATACAATG
2303235 CAAAATGTGT
Statistics
Matches: 79, Mismatches: 3, Indels: 16
0.81 0.03 0.16
Matches are distributed among these distances:
13 10 0.13
14 1 0.01
15 2 0.03
18 2 0.03
19 2 0.03
20 62 0.78
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:2303308 original size:13 final size:13
Alignment explanation
Indices: 2303290--2303315 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2303280 ACAAAGATCG
2303290 ATGTATCGATACA
1 ATGTATCGATACA
2303303 ATGTATCGATACA
1 ATGTATCGATACA
2303316 TTGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2303327 original size:20 final size:20
Alignment explanation
Indices: 2303302--2303357 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
2303292 GTATCGATAC
2303302 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
2303322 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
2303342 AATGTATCGATACATT
1 AATGTATCGATACATT
2303358 TCCTTGGCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:2303346 original size:104 final size:104
Alignment explanation
Indices: 2303166--2303356 Score: 285
Period size: 104 Copynumber: 1.8 Consensus size: 104
2303156 ACAATGAGCA
* * *
2303166 ATGTATCGATACAATGAGCAATGTATCGATACAATGTATCGATACAATGAGCAATGTATCGATGC
1 ATGTATCGATACAAAGAGCAATGTATCGATACAATGTATCGATACAATGAACAATGTATCGATAC
*
2303231 AATGCAAAATGTGTCGATACATCTGAGTAAACTTCCTAG
66 AATGCAAAATGTATCGATACATCTGAGTAAACTTCCTAG
* * * *
2303270 ATGTATCGATACAAAGATCGATGTATCGATACAATGTATCGATACATTGAATAATGTATCGATAC
1 ATGTATCGATACAAAGAGCAATGTATCGATACAATGTATCGATACAATGAACAATGTATCGATAC
*
2303335 ATTG-AATAATGTATCGATACAT
66 AATGCAA-AATGTATCGATACAT
2303357 TTCCTTGGCA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 2 0.03
104 75 0.97
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (104 bp):
ATGTATCGATACAAAGAGCAATGTATCGATACAATGTATCGATACAATGAACAATGTATCGATAC
AATGCAAAATGTATCGATACATCTGAGTAAACTTCCTAG
Found at i:2313286 original size:79 final size:79
Alignment explanation
Indices: 2313203--2313350 Score: 185
Period size: 79 Copynumber: 1.9 Consensus size: 79
2313193 AAATAAGACA
* * * *
2313203 AGGGTTGAAGTGTCCCCGATTAT-AGAAAAT-AGATGTTTCAAAAATAAAGTC-GGGATTGGAGT
1 AGGGTTGAAGTATCCCCAATTATGAG-AAATCA-ATATTTCAAAAATAAAGCCAGGG-TTGGAGT
2313265 ATCCCCTTGAAAATAAT
63 ATCCCCTTGAAAATAAT
* * *
2313282 AGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTATC
1 AGGGTTGAAGTATCCCCAATTATGAGAAATCAATATTTCAAAAATAAAGCCAGGGTTGGAGTATC
2313347 CCCT
66 CCCT
2313351 CAGAAGTAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 53 0.90
80 6 0.10
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (79 bp):
AGGGTTGAAGTATCCCCAATTATGAGAAATCAATATTTCAAAAATAAAGCCAGGGTTGGAGTATC
CCCTTGAAAATAAT
Found at i:2313376 original size:28 final size:28
Alignment explanation
Indices: 2313334--2313403 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
2313324 AATAAAGCCA
*
2313334 GGGTTGGAGTATCCCCTCA-GAAGTAACG
1 GGGTTGGAGTATCCCC-CATGAAATAACG
* *
2313362 GGGTTGGAGTGTCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCCATGAAATAACG
*
2313390 AGGTTGGAGTATCC
1 GGGTTGGAGTATCC
2313404 TCGATTGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCCATGAAATAACG
Found at i:2313454 original size:51 final size:51
Alignment explanation
Indices: 2313392--2313507 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
2313382 AAATAACGAG
* * * *
2313392 GTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAACATCGGA
1 GTTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
* * * *
2313443 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGG
1 GTTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
* *
2313494 GTTCGAGTATCCCC
1 GTTGGAATATCCCC
2313508 TCGAAAATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (51 bp):
GTTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
Found at i:2313543 original size:237 final size:238
Alignment explanation
Indices: 2313125--2313698 Score: 630
Period size: 237 Copynumber: 2.4 Consensus size: 238
2313115 GATAATAATA
* * *
2313125 GGGTTGGAGTATCCCCTCGA-AAATAAC-AGGGTTGAAGAATCCCTGATTGTGAAAAATT-GATG
1 GGGTTGGAGTAT-CCC-CGATGAATAACGA-GGTTGGAGTATCCCTGATTGTGAAAAATTAG-TG
* * * * * * * * * * * *
2313187 -ATTTAGAAATAAGACAAGG-GTT-GAAGTGTCCCCGATTATAGAAAATAGATGTTTCAAAAATA
62 TTTTTGGAAATAAAAC-CGGAGTTGGAA-TATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATA
* * * * *
2313249 AAGTCGGGATTGGAGTATCCCCTTGAAAATAATAGGGTTGGAGTATCCCCAATTATGAGAAATCA
125 AAATCGGGATTCGAGTATCCCCTCGAAAATAATAGGGTTGAAGTATCCCCAATTATGAAAAATCA
* *
2313314 ATATTTTAGAAATAAAGCC-AGGGTTGGAGTATCCCCTCAG-AAGTAACG
190 ATATTTTAGAAATAAAACCGAGGGTTGGAGTATCCCCT-AGAAAATAACG
*
2313362 GGGTTGGAGTGTCCCCGATGAAATAACGAGGTTGGAGTAT-CCTCGATTGTGAAAAATTAGTG-T
1 GGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCT-GATTGTGAAAAATTAGTGTT
* *
2313425 TTTGGAAATAACATCGGAGTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAAT
64 TTTGGAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAAT
* * * ** *
2313490 CGGGGTTCGAGTATCCCCTCGAAAATAA-CGGAGTTGAAGTATCCCCGATTATGAAAAATTGATG
129 CGGGATTCGAGTATCCCCTCGAAAATAATAGG-GTTGAAGTATCCCCAATTATGAAAAATCAATA
* *
2313554 TTTTAGAAATAAAACCGGGGGTTGGAGTATCCCCTTGAAAATAACG
193 TTTTAGAAATAAAACCGAGGGTTGGAGTATCCCCTAGAAAATAACG
* * * *
2313600 GGGTTGGAGTATCCCCGATGATTAATGGGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTT
1 GGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATTAGTGTTTT
* *
2313665 TGGAAATAAAACCGGGGTTGGAGTATCCCCGATT
66 TGGAAATAAAACCGGAGTTGGAATATCCCCGATT
2313699 ATGAAAAATT
Statistics
Matches: 284, Mismatches: 41, Indels: 23
0.82 0.12 0.07
Matches are distributed among these distances:
235 3 0.01
236 10 0.04
237 187 0.66
238 84 0.30
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (238 bp):
GGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATTAGTGTTTT
TGGAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCG
GGATTCGAGTATCCCCTCGAAAATAATAGGGTTGAAGTATCCCCAATTATGAAAAATCAATATTT
TAGAAATAAAACCGAGGGTTGGAGTATCCCCTAGAAAATAACG
Found at i:2313615 original size:80 final size:79
Alignment explanation
Indices: 2313439--2313618 Score: 261
Period size: 79 Copynumber: 2.3 Consensus size: 79
2313429 GAAATAACAT
* * * * * *
2313439 CGGAGTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGGGTTCGAGTAT
1 CGGAGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTCGAGTAT
2313504 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
2313518 CGGAGTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGGTTGGAGTA
1 CGGAGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC-GGGGTTCGAGTA
*
2313583 TCCCCTTGAAAATAA
65 TCCCCTCGAAAATAA
*
2313598 CGGGGTTGGAGTATCCCCGAT
1 CGGAGTTGGAGTATCCCCGAT
2313619 GATTAATGGG
Statistics
Matches: 89, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 45 0.51
80 44 0.49
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGAGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTCGAGTAT
CCCCTCGAAAATAA
Found at i:2313637 original size:27 final size:27
Alignment explanation
Indices: 2313571--2313641 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
2313561 AATAAAACCG
2313571 GGGGTTGGAGTATCCCCTTGAAAATAAC
1 GGGGTTGGAGTATCCCC-TGAAAATAAC
* * *
2313599 GGGGTTGGAGTATCCCC-GATGATTAAT
1 GGGGTTGGAGTATCCCCTGA-AAATAAC
2313626 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
2313642 TGATTGTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.05
27 20 0.51
28 17 0.44
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.27
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCTGAAAATAAC
Found at i:2316087 original size:13 final size:13
Alignment explanation
Indices: 2316069--2316094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2316059 ACAAAGATCG
2316069 ATGTATCGATACA
1 ATGTATCGATACA
2316082 ATGTATCGATACA
1 ATGTATCGATACA
2316095 TTCTACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2316172 original size:19 final size:21
Alignment explanation
Indices: 2316148--2316199 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
2316138 GCGATACACC
*
2316148 GTATCGATA-AATTACT-TAT
1 GTATCGATACAATTACTAAAT
*
2316167 GTATCGATACATTTACTAAAT
1 GTATCGATACAATTACTAAAT
2316188 GTATCGATACAA
1 GTATCGATACAA
2316200 ATTATTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 9 0.32
20 6 0.21
21 13 0.46
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (21 bp):
GTATCGATACAATTACTAAAT
Found at i:2317597 original size:44 final size:44
Alignment explanation
Indices: 2317526--2317662 Score: 211
Period size: 44 Copynumber: 3.1 Consensus size: 44
2317516 ACATTAACGC
*
2317526 AAACCCTGATGGACTTATTGTGCTAACAAGCCCAATTCTTAATT
1 AAACCCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATT
* * *
2317570 AAACCCTAATAGACTTATTATGTTAACAAGCCCAATTCTTAATT
1 AAACCCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATT
* * *
2317614 AAACCCTAATGGACTTATTGTGCTGATAAGCCCAATTCATAATT
1 AAACCCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATT
2317658 AAACC
1 AAACC
2317663 AAAACAACAA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 83 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (44 bp):
AAACCCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATT
Found at i:2319267 original size:24 final size:24
Alignment explanation
Indices: 2319240--2319297 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
2319230 TCACCTCTTC
*
2319240 TTTCATCTTTAGAAGCATCTCAAG
1 TTTCATCCTTAGAAGCATCTCAAG
2319264 TTTCATCCTTAGAAGCATCTCAAG
1 TTTCATCCTTAGAAGCATCTCAAG
2319288 TTTCATCCTT
1 TTTCATCCTT
2319298 CTCAACTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (24 bp):
TTTCATCCTTAGAAGCATCTCAAG
Found at i:2323045 original size:13 final size:13
Alignment explanation
Indices: 2323027--2323052 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2323017 CAATTTTTTG
2323027 TGTATCGATACAT
1 TGTATCGATACAT
2323040 TGTATCGATACAT
1 TGTATCGATACAT
2323053 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2323117 original size:21 final size:21
Alignment explanation
Indices: 2323091--2323166 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2323081 CTGCCAAGAA
2323091 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
2323112 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2323132 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2323153 ATGTATCGATACAT
1 ATGTATCGATACAT
2323167 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2323136 original size:20 final size:20
Alignment explanation
Indices: 2323111--2323184 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
2323101 ACATCTTTTT
2323111 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
2323131 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
2323152 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
*
2323172 CATGTATCAATAC
1 CATGTATCGATAC
2323185 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:2323148 original size:41 final size:41
Alignment explanation
Indices: 2323091--2323184 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2323081 CTGCCAAGAA
2323091 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2323132 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
2323173 ATGTATCAATAC
1 ATGTATCGATAC
2323185 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2325654 original size:13 final size:13
Alignment explanation
Indices: 2325636--2325674 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2325626 ATAATCACCC
*
2325636 TGTATCGATACAG
1 TGTATCGATACAA
2325649 TGTATCGATACAA
1 TGTATCGATACAA
2325662 TGTATCGATACAA
1 TGTATCGATACAA
2325675 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2325685 original size:20 final size:20
Alignment explanation
Indices: 2325660--2325738 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
2325650 GTATCGATAC
2325660 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
2325680 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
2325705 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
2325725 CATGTATCGATACA
1 AATGTATCGATACA
2325739 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:2329616 original size:21 final size:21
Alignment explanation
Indices: 2329587--2329631 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2329577 AAGTTTTCAT
*
2329587 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2329607 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2329629 TTT
1 TTT
2329632 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2331863 original size:13 final size:13
Alignment explanation
Indices: 2331845--2331870 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2331835 CAATTTTTTG
2331845 TGTATCGATACAT
1 TGTATCGATACAT
2331858 TGTATCGATACAT
1 TGTATCGATACAT
2331871 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2331935 original size:21 final size:21
Alignment explanation
Indices: 2331909--2331984 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2331899 CTGCCAAGAA
2331909 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
2331930 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2331950 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2331971 ATGTATCGATACAT
1 ATGTATCGATACAT
2331985 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2331954 original size:20 final size:20
Alignment explanation
Indices: 2331929--2332002 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2331919 ACATCTTTTT
2331929 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
2331949 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
2331970 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
2331990 CATGTATCGATAC
1 CATGTATCGATAC
2332003 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:2331966 original size:41 final size:41
Alignment explanation
Indices: 2331909--2332002 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
2331899 CTGCCAAGAA
2331909 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2331950 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2331991 ATGTATCGATAC
1 ATGTATCGATAC
2332003 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2336634 original size:20 final size:20
Alignment explanation
Indices: 2336611--2336686 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
2336601 AAAGTACACA
* *
2336611 AATGTATTGATACATTTTTT
1 AATGTATCGATACATTTTTC
* * *
2336631 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
* *
2336651 AATTTATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
*
2336671 AACGTATCGATACATT
1 AATGTATCGATACATT
2336687 CTATCTTTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:2350643 original size:9 final size:8
Alignment explanation
Indices: 2350624--2350665 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
2350614 TTCATACCCC
*
2350624 AAAAAATA
1 AAAAAACA
2350632 AAAAAACA
1 AAAAAACA
2350640 AAAAAACA
1 AAAAAACA
2350648 AAAAAACTA
1 AAAAAAC-A
2350657 AGAAAAACA
1 A-AAAAACA
2350666 TAACAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
8 22 0.71
9 3 0.10
10 6 0.19
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.05
Consensus pattern (8 bp):
AAAAAACA
Found at i:2351942 original size:28 final size:28
Alignment explanation
Indices: 2351896--2352692 Score: 827
Period size: 28 Copynumber: 27.9 Consensus size: 28
2351886 CGTTCATCTC
*
2351896 TTCAAAGCCCACAAATCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2351924 TTCAAAGCCCATAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2351952 TTCAAAGCCCACAAGCCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2351980 TTCAAAGCCCACAAG-CTAGTGGCATCCT
1 TTCAAAGCCCACAAGTC-AGTGGCACCCT
* *
2352008 TTCAAAGCCCACAAGCCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2352036 TTCAAAACCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2352064 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
** * *
2352093 TTCAAAGCCCACATGAGTTGGTGCCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
2352125 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** *
2352153 TTCAAAGCCCATGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
*
2352183 TTC-AAG-CC-C-A--CAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* *
2352207 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
2352235 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2352263 TTCAATGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-T
* *
2352292 TTCAAAGCCCACAAGTCAATGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
2352320 TTTAAAGCCCACAAGTCAATGGTACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
2352349 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** * *
2352377 TTCAAAGCTTACAAGTCAGTGGTACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
2352406 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
**
2352434 TTCAAAGCTTACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2352462 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
2352490 TTCAAAGCCCACAAATCAGTGGTACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
2352519 TTCAAAGCCCACAAGTCGGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2352547 TTCAAAGCCTACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
2352575 TTCAAAGCCCACAAATAAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
2352604 TTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CAC-CCT
* *
2352634 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
2352666 TTCAAAGCCCACACAAGTTAGTGGCAC
1 TTCAAAG-CC-CACAAGTCAGTGGCAC
2352693 TTTTTTTTAT
Statistics
Matches: 655, Mismatches: 87, Indels: 51
0.83 0.11 0.06
Matches are distributed among these distances:
24 17 0.03
25 3 0.00
26 3 0.00
27 2 0.00
28 393 0.60
29 138 0.21
30 37 0.06
31 9 0.01
32 46 0.07
33 3 0.00
34 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:2352201 original size:24 final size:25
Alignment explanation
Indices: 2352169--2352219 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
2352159 GCCCATGAGT
2352169 CAGTGGCAACTCTTTTC-AAGCCCA
1 CAGTGGCAACTCTTTTCAAAGCCCA
2352193 CAGTGGCAACTCTTTTCAAAGCCCA
1 CAGTGGCAACTCTTTTCAAAGCCCA
2352218 CA
1 CA
2352220 AGTTAGTGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (25 bp):
CAGTGGCAACTCTTTTCAAAGCCCA
Found at i:2352299 original size:57 final size:57
Alignment explanation
Indices: 2351896--2352692 Score: 857
Period size: 57 Copynumber: 13.9 Consensus size: 57
2351886 CGTTCATCTC
* *
2351896 TTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * *
2351952 TTCAAAGCCCACAAGCCAATGGCACCCTTTCAAAGCCCACAAG-CTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC-AGTGGCACCCTT
* * * *
2352008 TTCAAAGCCCACAAGCCAGTGGCATCCTTTCAAAACCCATAAGTCAGTGGCACCC-T
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* ** * *
2352064 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACATGAGTTGGTGCCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGGC-ACCCTT
* ** *
2352125 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ACCCTT
* * *
2352183 TTC-AAG-CC-C-A--CAGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* *
2352235 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAATGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * * * * *
2352292 TTCAAAGCCCACAAGTCAATGGCACCTTTTTAAAGCCCACAAGTCAATGGTACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * ** * *
2352349 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCTTACAAGTCAGTGGTACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* **
2352406 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCTTACAAGTCAGTGGCACCC-T
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * * *
2352462 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCAGTGGTACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * * *
2352519 TTCAAAGCCCACAAGTCGGTGGCATCCTTTCAAAGCCTACAAGTTAGTGGCACCC-T
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
2352575 TTCAAAGCCCACAAATAAGTGGCACTCTTTTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTC-AGTGG-CACCCTT
* * *
2352634 TTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCAC
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGCAC
2352693 TTTTTTTTAT
Statistics
Matches: 636, Mismatches: 77, Indels: 49
0.83 0.10 0.06
Matches are distributed among these distances:
52 11 0.02
53 6 0.01
54 25 0.04
55 3 0.00
56 222 0.35
57 245 0.39
58 27 0.04
59 21 0.03
60 16 0.03
61 32 0.05
62 13 0.02
63 4 0.01
64 11 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:2352327 original size:85 final size:85
Alignment explanation
Indices: 2351896--2352698 Score: 857
Period size: 85 Copynumber: 9.4 Consensus size: 85
2351886 CGTTCATCTC
* * *
2351896 TTCAAAGCCCACAAATCAGTGGCAC-CCTTTCAAAGCCCATAAGTCAGTGGCA-CCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
* *
2351959 CCCACAAGCCAATGGCACCCT
66 CCCACAAGTCAGTGGCA-CCT
* * *
2351980 TTCAAAGCCCACAAG-CTAGTGGCA-TCCTTTCAAAGCCCACAAGCCAGTGGCATCC-TTTCAAA
1 TTCAAAGCCCACAAGTC-AGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* *
2352042 ACCCATAAGTCAGTGGCACCCT
65 GCCCACAAGTCAGTGGCA-CCT
** * *
2352064 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACATGAGTTGGTGCCAACTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACCCTTTTCA
2352129 AAGCCCACAAGTCAGTGGCATCCT
63 AAGCCCACAAGTCAGTGGCA-CCT
** *
2352153 TTCAAAGCCCATGAGTCAGTGGCAACTCTTTTC-AAG-CC-C-A--CAGTGGCAACTCTTTTCAA
1 TTCAAAGCCCACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGC-ACCCTTTTCAA
*
2352212 AGCCCACAAGTTAGTGGCATCCT
64 AGCCCACAAGTCAGTGGCA-CCT
* * *
2352235 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAATGCCCACAAGTTAGTGGCACCCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
*
2352299 CCCACAAGTCAATGGCACCTT
66 CCCACAAGTCAGTGGCACC-T
* * * * *
2352320 TTTAAAGCCCACAAGTCAATGGTACTCTTTTCAAAGCCCACAAGTCAATGGCATCC-TTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
** *
2352384 CTTACAAGTCAGTGGTACTCTT
66 CCCACAAGTCAGTGGCAC-C-T
* **
2352406 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCTTACAAGTCAGTGGCACCC-TTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
2352469 CCCACAAGTCAGTGGCATCCT
66 CCCACAAGTCAGTGGCA-CCT
* * * *
2352490 TTCAAAGCCCACAAATCAGTGGTACTCTTTTCAAAGCCCACAAGTCGGTGGCATCC-TTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
* *
2352554 CCTACAAGTTAGTGGCACCCT
66 CCCACAAGTCAGTGGCA-CCT
* * * *
2352575 TTCAAAGCCCACAAATAAGTGGCACTCTTTTCAAAGCCCACAAG-CTAGTGGTAACTCTTTTCAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC-AGTGG-CACCCTTTTCAA
*
2352639 AGCCCACACGAGTCGGTGGCAACTCTT
64 AGCCCACA--AGTCAGTGGC-AC-C-T
* *
2352666 TTCAAAGCCCACACAAGTTAGTGGCACTTTTTT
1 TTCAAAG-CC-CACAAGTCAGTGGCACTCTTTT
2352699 TTATAAAAAA
Statistics
Matches: 612, Mismatches: 76, Indels: 53
0.83 0.10 0.07
Matches are distributed among these distances:
80 5 0.01
81 4 0.01
82 61 0.10
83 2 0.00
84 121 0.20
85 238 0.39
86 58 0.09
87 20 0.03
88 4 0.01
89 59 0.10
90 11 0.02
91 8 0.01
92 2 0.00
93 19 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (85 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
CCCACAAGTCAGTGGCACCT
Found at i:2354394 original size:17 final size:17
Alignment explanation
Indices: 2354341--2354395 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
2354331 CTTTTCACTT
2354341 TCATTTTAGTGAGCTTA
1 TCATTTTAGTGAGCTTA
* * * *
2354358 T-ATTTTTGTTATTCTCA
1 TCATTTTAGTGA-GCTTA
2354375 TCATTTTAGTGAGCTTA
1 TCATTTTAGTGAGCTTA
2354392 TCAT
1 TCAT
2354396 GCTTCCATGA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
16 8 0.29
17 12 0.43
18 8 0.29
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.53
Consensus pattern (17 bp):
TCATTTTAGTGAGCTTA
Found at i:2359316 original size:9 final size:9
Alignment explanation
Indices: 2359304--2359371 Score: 55
Period size: 9 Copynumber: 6.8 Consensus size: 9
2359294 CTTTCTCTAT
2359304 TATCTCTCC
1 TATCTCTCC
2359313 TATCTCACCTCC
1 TATCT---CTCC
*
2359325 TATCTCTAC
1 TATCTCTCC
2359334 TATCTCTCC
1 TATCTCTCC
*
2359343 TATACCCTCC
1 TAT-CTCTCC
2359353 TATCATCCCTCC
1 TATC-T--CTCC
2359365 TATCTCT
1 TATCTCT
2359372 TCTTTCTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
9 22 0.46
10 8 0.17
11 1 0.02
12 17 0.35
ACGTcount: A:0.16, C:0.44, G:0.00, T:0.40
Consensus pattern (9 bp):
TATCTCTCC
Found at i:2362300 original size:29 final size:29
Alignment explanation
Indices: 2362206--2362300 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
2362196 CTTGGAGCCA
2362206 CCCAATTCATATGTCCAAGAAGAGTGAAG
1 CCCAATTCATATGTCCAAGAAGAGTGAAG
* ** ** *
2362235 CCCAATTTTACATATAT-TTA-AAGCTTGGAG
1 CCCAA--TT-CATATGTCCAAGAAGAGTGAAG
*
2362265 CCCAATTCGTATGTCCAAGAAGAGTGAAG
1 CCCAATTCATATGTCCAAGAAGAGTGAAG
2362294 CCCAATT
1 CCCAATT
2362301 GGCATATATT
Statistics
Matches: 48, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
27 5 0.10
28 3 0.06
29 19 0.40
30 12 0.25
31 3 0.06
32 6 0.12
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (29 bp):
CCCAATTCATATGTCCAAGAAGAGTGAAG
Found at i:2363149 original size:29 final size:28
Alignment explanation
Indices: 2363116--2363174 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
2363106 TTCTTTATTC
* * *
2363116 TTCTTTATTGATTTCTTTTCCTTTGAAAT
1 TTCTTGATT-ATTTCGTTTCCTTTCAAAT
*
2363145 TTCTTGCTTATTTCGTTTCCTTTCAAAT
1 TTCTTGATTATTTCGTTTCCTTTCAAAT
2363173 TT
1 TT
2363175 ATTGTTGAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.15, C:0.17, G:0.07, T:0.61
Consensus pattern (28 bp):
TTCTTGATTATTTCGTTTCCTTTCAAAT
Found at i:2365474 original size:79 final size:79
Alignment explanation
Indices: 2365347--2365833 Score: 452
Period size: 79 Copynumber: 6.2 Consensus size: 79
2365337 AAAAGAAATA
* * ** * *
2365347 AGGTTGGAGTATCCCCT--GAAATAACAAGGTTGGAGTATCCCTGATGGTGGAAAATCAATATTT
1 AGGTTGGAGTATCCCCTCAAAAATAACAGGGTCAGAGTATCCCCGATGGTGGAAAATCGATATTT
2365410 TCA-AAATAAAATCG
66 T-AGAAATAAAATCG
* * * ** *
2365424 AGGTTGGAGTATCCCCTCAAAAATGATAGGGTCGGAGTATCCCTAATGGTGAAAAATCGATATTT
1 AGGTTGGAGTATCCCCTCAAAAATAACAGGGTCAGAGTATCCCCGATGGTGGAAAATCGATATTT
*
2365489 TAGAAATAAAACCG
66 TAGAAATAAAATCG
* ** * * *
2365503 AGGTTGGAGTGTCTGCTCAGAAACAACAGGGTCAGAGTATCCCCGATGGT-GAAAATTTGATATT
1 AGGTTGGAGTATCCCCTCAAAAATAACAGGGTCAGAGTATCCCCGATGGTGGAAAA-TCGATATT
*
2365567 TTAGAAATAAAA-CTA
65 TTAGAAATAAAATC-G
* * * ** * * * *
2365582 AGGCTGGAGTGTCCCGT-AAGAAATAATGGGGTCAGAGTATCCCCGATGGTAGAAAATTGGTGTT
1 AGGTTGGAGTATCCCCTCAA-AAATAACAGGGTCAGAGTATCCCCGATGGTGGAAAATCGATATT
*
2365646 TTAGAAATAAAACCG
65 TTAGAAATAAAATCG
* ** * *
2365661 -GAGTTGGAGTATCCCTTCAAAAATAACAGGGTTGGAGTATCCTCGATGGTGGAAAATCGATGTT
1 AG-GTTGGAGTATCCCCTCAAAAATAACAGGGTCAGAGTATCCCCGATGGTGGAAAATCGATATT
2365725 TTAGAAAT-AAATCG
65 TTAGAAATAAAATCG
* * * * * * *
2365739 GGGTTGAAGTGTCCCCTCAAAAATAACAGGGTTAGAGTATCCCCGATGGTAGAAAAT-TAGTGTT
1 AGGTTGGAGTATCCCCTCAAAAATAACAGGGTCAGAGTATCCCCGATGGTGGAAAATCGA-TATT
** *
2365803 TTCCAAATAAAATCA
65 TTAGAAATAAAATCG
2365818 AGGTTGGAGTATCCCC
1 AGGTTGGAGTATCCCC
2365834 GAGGGTGAAA
Statistics
Matches: 339, Mismatches: 58, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
77 18 0.05
78 72 0.21
79 241 0.71
80 8 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.26
Consensus pattern (79 bp):
AGGTTGGAGTATCCCCTCAAAAATAACAGGGTCAGAGTATCCCCGATGGTGGAAAATCGATATTT
TAGAAATAAAATCG
Found at i:2365828 original size:51 final size:51
Alignment explanation
Indices: 2365768--2365865 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
2365758 AAAATAACAG
* *
2365768 GGTTAGAGTATCCCCGATGGT-AGAAAATTAGTGTTTTCCAAATAAAATCAA
1 GGTTAGAGTATCCCCGAGGGTGA-AAAATTAGTGTTTTACAAATAAAATCAA
* * *
2365819 GGTTGGAGTATCCCCGAGGGTGAAAAATTGGTGTTTTAGAAATAAAA
1 GGTTAGAGTATCCCCGAGGGTGAAAAATTAGTGTTTTACAAATAAAA
2365866 CATCAATGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (51 bp):
GGTTAGAGTATCCCCGAGGGTGAAAAATTAGTGTTTTACAAATAAAATCAA
Found at i:2372170 original size:178 final size:179
Alignment explanation
Indices: 2371823--2372177 Score: 502
Period size: 178 Copynumber: 2.0 Consensus size: 179
2371813 AGTAGTGAAT
2371823 TTTTATTTTTTAGTGCTGCAACAAGCTTAGTACACATGGCAATATCATAATAATCAATCAAAAAA
1 TTTTATTTTTTAGTGCT--AACAAGCTTAGTACACATGGCAATATCATAATAATCAATCAAAAAA
*
2371888 CACAATATAAATACCAAAGGGATAATGGTTGAATACTGACTATAATTGACAAAAATTGACATTTG
64 CACAATATAAATACCAAAGGGATAATGGTTGAATACTGACTATAATCGACAAAAATTGACATTTG
* * *
2371953 GATAACGTGCTACTACTCTAAGGCTTGACTCTCTAAGATGTCCCTAGTGGA
129 GATAACATGCGACTACTCTAAGGCATGACTCTCTAAGATGTCCCTAGTGGA
* *
2372004 TTTT-TTTTTTAGTGCT-ACAAGGTTAGTACACATGGCAATATCATAATAATCAATCAACAAACA
1 TTTTATTTTTTAGTGCTAACAAGCTTAGTACACATGGCAATATCATAATAATCAATCAAAAAACA
* * *
2372067 CAATAATAAATACC-AAGGAGATTATGGTTGAATACTGACTCA-AATCGAGAAATATTGACATTT
66 CAAT-ATAAATACCAAAGG-GATAATGGTTGAATACTGACT-ATAATCGACAAAAATTGACATTT
* * * * * *
2372130 GGATAACATGCGACTAGTTTGAGGCATGACTTTTTAAGATGTTCCTAG
128 GGATAACATGCGACTACTCTAAGGCATGACTCTCTAAGATGTCCCTAG
2372178 AGAGTCGCCA
Statistics
Matches: 156, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
177 53 0.34
178 86 0.55
179 1 0.01
180 12 0.08
181 4 0.03
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (179 bp):
TTTTATTTTTTAGTGCTAACAAGCTTAGTACACATGGCAATATCATAATAATCAATCAAAAAACA
CAATATAAATACCAAAGGGATAATGGTTGAATACTGACTATAATCGACAAAAATTGACATTTGGA
TAACATGCGACTACTCTAAGGCATGACTCTCTAAGATGTCCCTAGTGGA
Found at i:2373718 original size:14 final size:15
Alignment explanation
Indices: 2373699--2373753 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 15
2373689 TTAGTTTTTC
2373699 AAAAAAAAAAAG-AG
1 AAAAAAAAAAAGAAG
2373713 AAAAAAAAAAAGAAG
1 AAAAAAAAAAAGAAG
* *
2373728 AAAGAATACAAAAAAAAC
1 AAA-AA-A-AAAAAGAAG
2373746 AAAAAAAA
1 AAAAAAAA
2373754 CCAGCATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 12 0.34
15 7 0.20
16 3 0.09
17 3 0.09
18 10 0.29
ACGTcount: A:0.85, C:0.04, G:0.09, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAAGAAG
Found at i:2377944 original size:13 final size:13
Alignment explanation
Indices: 2377926--2377950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2377916 CAAAGACCAG
2377926 TGTATCGATACAA
1 TGTATCGATACAA
2377939 TGTATCGATACA
1 TGTATCGATACA
2377951 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2378017 original size:19 final size:18
Alignment explanation
Indices: 2377993--2378090 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
2377983 TAGCTTAAAT
2377993 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2378012 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2378025 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
2378044 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
2378057 TGTATCGACACAATACTTTA
1 TGTATCGATACAA-AC-TTA
2378077 TGTATCGATACAAA
1 TGTATCGATACAAA
2378091 TCGTTGAATT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.38
20 12 0.19
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2378030 original size:13 final size:13
Alignment explanation
Indices: 2378012--2378064 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 13
2378002 ACAAAACTTA
2378012 TGTATCGATACAT
1 TGTATCGATACAT
2378025 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
2378043 ATGTATCGATACAT
1 -TGTATCGATACAT
2378057 TGTATCGA
1 TGTATCGA
2378065 CACAATACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 17 0.50
14 1 0.03
16 6 0.18
18 1 0.03
19 9 0.26
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2378032 original size:32 final size:32
Alignment explanation
Indices: 2377991--2378088 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
2377981 AGTAGCTTAA
2377991 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
2378023 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
* *
2378055 ATTGTATCGACACAATACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAC-TTATGTATCGATAC
2378088 A
1 A
2378089 AATCGTTGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 47 0.76
33 15 0.24
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:2382538 original size:42 final size:43
Alignment explanation
Indices: 2382474--2382586 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 43
2382464 TAGCCCTTAA
* *
2382474 AGAGAAAGAAGAGATA-AGAGGGATGATATG-ACGAGAGATA-GG
1 AGAGATAGTAGAGATAGA-AGGGATGATA-GAACGAGAGATATGG
*
2382516 AGAGATAGTAGAGATAGAAGGGATGATAGAAGGAGAGATATGG
1 AGAGATAGTAGAGATAGAAGGGATGATAGAACGAGAGATATGG
* * *
2382559 -GAGATAATAGAGAGAGGAGGGATGATAG
1 AGAGATAGTAGAGATAGAAGGGATGATAG
2382587 GAGGAGGAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
41 1 0.02
42 58 0.94
43 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.40, T:0.14
Consensus pattern (43 bp):
AGAGATAGTAGAGATAGAAGGGATGATAGAACGAGAGATATGG
Found at i:2382592 original size:42 final size:42
Alignment explanation
Indices: 2382491--2382592 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
2382481 GAAGAGATAA
* * * *
2382491 GAGGGATGATATGACGAGAGATAGGAGAGATAGTAGAGATAG
1 GAGGGATGATAGGAGGAGAGATAGGAGAGATAATAGAGAGAG
* *
2382533 AAGGGATGATAGAAGGAGAGATATGG-GAGATAATAGAGAGAG
1 GAGGGATGATAGGAGGAGAGATA-GGAGAGATAATAGAGAGAG
2382575 GAGGGATGATAGGAGGAG
1 GAGGGATGATAGGAGGAG
2382593 GAGAGAAGGA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 49 0.96
43 2 0.04
ACGTcount: A:0.41, C:0.01, G:0.43, T:0.15
Consensus pattern (42 bp):
GAGGGATGATAGGAGGAGAGATAGGAGAGATAATAGAGAGAG
Found at i:2382619 original size:10 final size:10
Alignment explanation
Indices: 2382604--2382628 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2382594 AGAGAAGGAG
2382604 GAGAAAATAA
1 GAGAAAATAA
2382614 GAGAAAATAA
1 GAGAAAATAA
2382624 GAGAA
1 GAGAA
2382629 TTGGTGGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (10 bp):
GAGAAAATAA
Found at i:2388193 original size:371 final size:366
Alignment explanation
Indices: 2387438--2388259 Score: 1294
Period size: 371 Copynumber: 2.2 Consensus size: 366
2387428 GGTTGTCATC
*
2387438 ATATAAG-CTCTTGTAAATAGATTTGGAAGGAGGTAGACAATGATATTTTGCAGATTAAACACAT
1 ATATAAGCCT-TTGTAAACAGATTTGGAAGGAGGTAGACAATGATATTTTGCAGATTAAACACAT
* * *
2387502 TTTGTGTGAGAGTGTGATTCTTAGGTTCTTGAGTGAGCCAATTTTTCTAGATCTTATCAAGAGGC
65 TTTGTGTGAGAATGGGATTTTTAGGTTCTTGAGTGAGCCAATTTTTCTAGATCTTATCAAGAGGC
2387567 CAAGACTTTTATGGCGATCATTCCTTTTGGCGTATCAATCTTGTGATTGTGGCGCCATCCTTCAT
130 CAAGACTTTTATGGCGATCATTCCTTTTGGCGTATCAATCTTGTGATTGTGGCGCCATCCTTCAT
2387632 CTCTATTCCAGTTTTGCTATTTTTTCTTCTTCTTTCAATTTCTGTTCTTGCATTAATAATTCTGT
195 CTCTATTCCAGTTTTGCTATTTTTTCTTCTTCTTTCAATTTCTGTTCTTGCATTAATAATTCTGT
* * *
2387697 TTTGTTATTAGAGATCCATCTCAAGATCGTTATTTAGGCAACCTTAGATCATGTTTGTTATCAAT
260 TTTGTTATTAGAAATCCATCTCAAGATCGTTATTTAGGCAAACTTAGATCATGTTTGTCATCAAT
** *
2387762 GGACCTTCCTTGGTACTCATCAACTATGGCTTATGAGGGTAT
325 GGACCTTCCTTGGTACTCATCAACTATGGCTTACAAGGGCAT
* * * * *
2387804 ATACAAGCCTTTGTAAACAGATTTGGAAGGAGGTAAAGAATGATACTTTGCAGATTAATCACATT
1 ATATAAGCCTTTGTAAACAGATTTGGAAGGAGGTAGACAATGATATTTTGCAGATTAAACACATT
2387869 TTGTGTGAGAATGGGATTTTTAGGTTCTTGAGTGAGCCAATTTTTCT-GCATCTTATCAAGAGGC
66 TTGTGTGAGAATGGGATTTTTAGGTTCTTGAGTGAGCCAATTTTTCTAG-ATCTTATCAAGAGGC
* * *
2387933 CAAGACTCTTT-TGGTGATCATTCCTTTTGGCTTATCAATCTTGTGATTGTGGTGCCATCCTTCA
130 CAAGACT-TTTATGGCGATCATTCCTTTTGGCGTATCAATCTTGTGATTGTGGCGCCATCCTTCA
*
2387997 TCTCTATTCTATTCCAGTTTTGTTATTTTTTCTTCTTCTTTCAATTGT-TGTTCTTGCATTAATA
194 --TC---TCTATTCCAGTTTTGCTATTTTTTCTTCTTCTTTCAATT-TCTGTTCTTGCATTAATA
* *
2388061 ATTCTGTTTTGTTGTTAGAAATCCGTCTCAAGATCGTTATTTAGGCAAACTTAGATCATGTTTGT
253 ATTCTGTTTTGTTATTAGAAATCCATCTCAAGATCGTTATTTAGGCAAACTTAGATCATGTTTGT
* *
2388126 CATCAATGGACTTTCCTTGGTTCTCATCAACTATGGCTTACAAGGGCAT
318 CATCAATGGACCTTCCTTGGTACTCATCAACTATGGCTTACAAGGGCAT
* *
2388175 TTATAAGCCTTTGTAAACAGATTTGGAAGGAGGCAG-CTAATGATATTTTGCAGATTAAACACAT
1 ATATAAGCCTTTGTAAACAGATTTGGAAGGAGGTAGAC-AATGATATTTTGCAGATTAAACACAT
2388239 TTTGTGTGAGAATGGGATTTT
65 TTTGTGTGAGAATGGGATTTT
2388260 GTTAGAAATG
Statistics
Matches: 416, Mismatches: 30, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
365 1 0.00
366 172 0.41
367 5 0.01
368 2 0.00
371 235 0.56
372 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (366 bp):
ATATAAGCCTTTGTAAACAGATTTGGAAGGAGGTAGACAATGATATTTTGCAGATTAAACACATT
TTGTGTGAGAATGGGATTTTTAGGTTCTTGAGTGAGCCAATTTTTCTAGATCTTATCAAGAGGCC
AAGACTTTTATGGCGATCATTCCTTTTGGCGTATCAATCTTGTGATTGTGGCGCCATCCTTCATC
TCTATTCCAGTTTTGCTATTTTTTCTTCTTCTTTCAATTTCTGTTCTTGCATTAATAATTCTGTT
TTGTTATTAGAAATCCATCTCAAGATCGTTATTTAGGCAAACTTAGATCATGTTTGTCATCAATG
GACCTTCCTTGGTACTCATCAACTATGGCTTACAAGGGCAT
Found at i:2393408 original size:32 final size:33
Alignment explanation
Indices: 2393372--2393436 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2393362 AGTTTGTTGG
2393372 AAAT-AACCAAA-TCATATCACCATTCTTGTCAA
1 AAATAAACCAAACT-ATATCACCATTCTTGTCAA
* *
2393404 AAATAAATCAAACTATATCACCTTTCTTGTCAA
1 AAATAAACCAAACTATATCACCATTCTTGTCAA
2393437 GCAAGACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 4 0.14
33 24 0.83
34 1 0.03
ACGTcount: A:0.43, C:0.23, G:0.03, T:0.31
Consensus pattern (33 bp):
AAATAAACCAAACTATATCACCATTCTTGTCAA
Found at i:2393534 original size:34 final size:34
Alignment explanation
Indices: 2393442--2393534 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 34
2393432 GTCAAGCAAG
* *
2393442 ACTTTTGTAAAAAATGATCCAAATTGTACTACCT
1 ACTTTTGTAAAAAATGAACCAAATTTTACTACCT
* *
2393476 AC-TTTGTAAAAAATGAAGCAAATTTTACTACTT
1 ACTTTTGTAAAAAATGAACCAAATTTTACTACCT
2393509 ACTTTTGTAAAAAATGAACCAAATTT
1 ACTTTTGTAAAAAATGAACCAAATTT
2393535 CATTGGCCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
33 29 0.55
34 24 0.45
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (34 bp):
ACTTTTGTAAAAAATGAACCAAATTTTACTACCT
Found at i:2398256 original size:17 final size:17
Alignment explanation
Indices: 2398234--2398270 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
2398224 AAAAAATTGC
2398234 AAACAATACCTTTTCTA
1 AAACAATACCTTTTCTA
2398251 AAACAATACCTTTTCTA
1 AAACAATACCTTTTCTA
2398268 AAA
1 AAA
2398271 GGGAATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (17 bp):
AAACAATACCTTTTCTA
Found at i:2399141 original size:14 final size:15
Alignment explanation
Indices: 2399124--2399159 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
2399114 TTTTTTTTCC
2399124 TTTTTTATTATTA-T
1 TTTTTTATTATTACT
2399138 TTTTTTATTATTACT
1 TTTTTTATTATTACT
2399153 TTTTTTA
1 TTTTTTA
2399160 ATTTGATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTATTATTACT
Found at i:2399856 original size:153 final size:152
Alignment explanation
Indices: 2399472--2399896 Score: 486
Period size: 149 Copynumber: 2.8 Consensus size: 152
2399462 AATTTAATAT
* * * * * * *
2399472 AAATAAATTGAA-TTTTCACAAACTAATTTAATATGAATTTAATAAAAATATTTGATA-AATTTC
1 AAATAAATTGAATTTTTCA-AAATTGATTTAATAAGAATTAAACAATAATATTTGA-AGAATTTT
* * * * * * *
2399535 AAAAATTTTAAATTGAGAAAAATCTAACTGGAGAAATTTACAGATTAAAAAACTCTATATCTTGG
64 GAAAATTATAAATTTAGAAAAATCT-ATTGAAGAAATTTACAGAGTAGAAAACTCTATATCTTGG
* **
2399600 TATCAAAAAATTTTTAAAACTCATA
128 TAACAAAAAAAATTTAAAACTCATA
*
2399625 AAAT-AA---AATTTTTCAAAATTGATTTAATATAG-GTTAAACAATAATATTTGAAGAATTTTG
1 AAATAAATTGAATTTTTCAAAATTGATTTAATA-AGAATTAAACAATAATATTTGAAGAATTTTG
* * *
2399685 AAAATTATAAACTTAGAAAAATCATATTGCAGAAATTTACAGAGTAGAAAACTCTGTATCTTGGT
65 AAAATTATAAATTTAGAAAAATC-TATTGAAGAAATTTACAGAGTAGAAAACTCTATATCTTGGT
2399750 AACAAAAAAAATTTAAAACTCATA
129 AACAAAAAAAATTTAAAACTCATA
2399774 AAATAAATTGAATTTTTCAAAATTGATTTAATAAGAATTAAACAATAATATTTGAAGAATTTTGA
1 AAATAAATTGAATTTTTCAAAATTGATTTAATAAGAATTAAACAATAATATTTGAAGAATTTTGA
* * * * ** * *
2399839 ATATTGTGAATTTAGAAAAATCTTATTGAAAAAATTTATGGAGTAGATAACTCCATAT
66 AAATTATAAATTTAGAAAAATC-TATTGAAGAAATTTACAGAGTAGAAAACTCTATAT
2399897 TTTAAAAATA
Statistics
Matches: 230, Mismatches: 33, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
148 1 0.00
149 114 0.50
150 10 0.04
152 4 0.02
153 101 0.44
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.35
Consensus pattern (152 bp):
AAATAAATTGAATTTTTCAAAATTGATTTAATAAGAATTAAACAATAATATTTGAAGAATTTTGA
AAATTATAAATTTAGAAAAATCTATTGAAGAAATTTACAGAGTAGAAAACTCTATATCTTGGTAA
CAAAAAAAATTTAAAACTCATA
Found at i:2399910 original size:153 final size:149
Alignment explanation
Indices: 2399568--2399914 Score: 399
Period size: 153 Copynumber: 2.3 Consensus size: 149
2399558 CTAACTGGAG
* * * *** * **
2399568 AAATTTACAGATTAAAAAACTCTATATCTTGGTATCAAAAAATTTTTAAAACTCATAAAATAAAA
1 AAATTTACAGAGTAGAAAACTCCATATCTTAAAAACAAAAAAAATTTAAAACTCATAAAATAAAA
*
2399633 TTTTTCAAAATTGATTTAATATAGGTTAAACAATAATATTTGAAGAATTTTGAAAATTATAAACT
66 TTTTTCAAAATTGATTTAATATAGATTAAACAATAATATTTGAAGAATTTTGAAAATTATAAACT
* *
2399698 TAGAAAAATCATATTGCAG
131 TAGAAAAATCATATTGAAA
** ***
2399717 AAATTTACAGAGTAGAAAACTCTGTATCTTGGTAACAAAAAAAATTTAAAACTCATAAAATAAAT
1 AAATTTACAGAGTAGAAAACTCCATATCTTAAAAACAAAAAAAATTTAAAACTCATAAAAT-AA-
* *
2399782 TGAATTTTTCAAAATTGATTTAATA-AGAATTAAACAATAATATTTGAAGAATTTTGAATATTGT
64 --AATTTTTCAAAATTGATTTAATATAG-ATTAAACAATAATATTTGAAGAATTTTGAAAATTAT
* * *
2399846 GAATTTAGAAAAATCTTATTGAAA
126 AAACTTAGAAAAATCATATTGAAA
** * * *
2399870 AAATTTATGGAGTAGATAACTCCATATTTTAAAAATAAAAAAAAT
1 AAATTTACAGAGTAGAAAACTCCATATCTTAAAAACAAAAAAAAT
2399915 AAGAAAATGC
Statistics
Matches: 169, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
149 55 0.33
150 2 0.01
152 2 0.01
153 110 0.65
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (149 bp):
AAATTTACAGAGTAGAAAACTCCATATCTTAAAAACAAAAAAAATTTAAAACTCATAAAATAAAA
TTTTTCAAAATTGATTTAATATAGATTAAACAATAATATTTGAAGAATTTTGAAAATTATAAACT
TAGAAAAATCATATTGAAA
Found at i:2401132 original size:86 final size:86
Alignment explanation
Indices: 2401042--2401536 Score: 355
Period size: 86 Copynumber: 5.8 Consensus size: 86
2401032 ATCGGGACAT
* * * **
2401042 AACCATACATACCAATAAGTTAGAAACGTGTTGGCCAAGACAAAACCATATAAACCAACGAGTTA
1 AACCATACGTACCAATGAGTTAGAAAGGTGTTGGCCAAGACAAAACCATACGAACCAACGAGTTA
*
2401107 GAAGGGTGTTGGCTAGGATAA
66 GAAGGGTGTTGGCTAGGATGA
* * * * * * * **
2401128 AACCATTCGTATCAATGAGTTAGAATGATGTTGGTCGAGACAAAACCATACGTACCAATAAGTTA
1 AACCATACGTACCAATGAGTTAGAAAGGTGTTGGCCAAGACAAAACCATACGAACCAACGAGTTA
* *
2401193 GAAGGGTGTTGG-TCGGGACGA
66 GAAGGGTGTTGGCT-AGGATGA
* * *** * * * *
2401214 AAACATACGTACCAATGAGTTA-AGAAGATGTTGGCTGGGACAAAACCATATGTACCCATGAGTT
1 AACCATACGTACCAATGAGTTAGA-AAGGTGTTGGCCAAGACAAAACCATACGAACCAACGAGTT
* * **
2401278 AAAAGGGTATTCACTAGGATGA
65 AGAAGGGTGTTGGCTAGGATGA
* ** * * *** ** * * *
2401300 AACCACACAAATCAACGAGTTAGAAAAAAGTTGGCCAAGATGAAAGCATACAAACCAATGAGTTA
1 AACCATACGTACCAATGAGTTAGAAAGGTGTTGGCCAAGACAAAACCATACGAACCAACGAGTTA
* * *
2401365 GAAAGGTGTTGGCCAAGATGA
66 GAAGGGTGTTGGCTAGGATGA
* ** * * ** * * ** *
2401386 AACCATATGTACCAACAAGTTTGAAGGGTGTTCACTAGGATGAAACCATACGAACCAACAAGTTA
1 AACCATACGTACCAATGAGTTAGAAAGGTGTTGGCCAAGACAAAACCATACGAACCAACGAGTTA
* * *
2401451 GAAAGGTATTGGCTGGGATGA
66 GAAGGGTGTTGGCTAGGATGA
* * * * * *
2401472 AACCATAGGTACCAATGAGTTAGAAGGGTATAGGTCAAGACAAAACCATATGAACCAACGAGTTA
1 AACCATACGTACCAATGAGTTAGAAAGGTGTTGGCCAAGACAAAACCATACGAACCAACGAGTTA
2401537 TTAAAGTGTG
Statistics
Matches: 309, Mismatches: 96, Indels: 8
0.75 0.23 0.02
Matches are distributed among these distances:
85 2 0.01
86 305 0.99
87 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (86 bp):
AACCATACGTACCAATGAGTTAGAAAGGTGTTGGCCAAGACAAAACCATACGAACCAACGAGTTA
GAAGGGTGTTGGCTAGGATGA
Found at i:2401246 original size:129 final size:129
Alignment explanation
Indices: 2401016--2401262 Score: 302
Period size: 129 Copynumber: 1.9 Consensus size: 129
2401006 CTAATAAGTT
* *
2401016 AGTTAGAAATGTGTTGATCGGGACATAACCATACATACCAATAAGTTAGAAACGTGTTGGCCAAG
1 AGTTAGAAATGTGTTGATCGAGACAAAACCATACATACCAATAAGTTAGAAACGTGTTGGCCAAG
* * *
2401081 ACAAAACCATATAAACCAACGAGTTAGAAGGGTGTTGGCTAGGATAAAACCATTCGTATCAATG
66 ACAAAACCATACAAACCAACGAGTTAGAAGGATGTTGGCTAGGACAAAACCATTCGTATCAATG
* * ** * **
2401145 AGTTAG-AATGATGTTGGTCGAGACAAAACCATACGTACCAATAAGTTAGAAGGGTGTTGGTCGG
1 AGTTAGAAATG-TGTTGATCGAGACAAAACCATACATACCAATAAGTTAGAAACGTGTTGGCCAA
** * *
2401209 GACGAAAA-CATACGTACCAATGAGTTAAGAA-GATGTTGGCTGGGACAAAACCAT
65 GAC-AAAACCATACAAACCAACGAGTT-AGAAGGATGTTGGCTAGGACAAAACCAT
2401263 ATGTACCCAT
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
128 4 0.04
129 87 0.88
130 8 0.08
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (129 bp):
AGTTAGAAATGTGTTGATCGAGACAAAACCATACATACCAATAAGTTAGAAACGTGTTGGCCAAG
ACAAAACCATACAAACCAACGAGTTAGAAGGATGTTGGCTAGGACAAAACCATTCGTATCAATG
Found at i:2401303 original size:129 final size:127
Alignment explanation
Indices: 2401170--2401536 Score: 349
Period size: 129 Copynumber: 2.8 Consensus size: 127
2401160 GGTCGAGACA
* * * *
2401170 AAACCATACGTACCAATAAGTTAGAAGGGTGTTGGTCGGGACGAAAACATACGTACCAATGAGTT
1 AAACCATACGAACCAACAAGTTAGAAAGGTGTTGG-CGGGATGAAAACATACGTACCAATGAGTT
*** * **
2401235 AAGAAGATGTTGGCTGGGACAAAACCATATGTACCCATGAGTTAAAAGGGTATTCACTAGGATG
65 -AGAAGATGTTGGCCAAGACAAAACCATATGTACCAACAAGTTAAAAGGGTATTCACTAGGATG
* * * * *** ** * **
2401299 AAACCACACAAATCAACGAGTTAGAAAAAAGTTGGCCAAGATGAAAGCATACAAACCAATGAGTT
1 AAACCATACGAACCAACAAGTTAGAAAGGTGTTGG-CGGGATGAAAACATACGTACCAATGAGTT
* ** ** *
2401364 AGAAAGGTGTTGGCCAAGATGAAACCATATGTACCAACAAGTTTGAAGGGTGTTCACTAGGATG
65 AG-AAGATGTTGGCCAAGACAAAACCATATGTACCAACAAGTTAAAAGGGTATTCACTAGGATG
* * *
2401428 AAACCATACGAACCAACAAGTTAGAAAGGTATTGGCTGGGATGAAACCATAGGTACCAATGAGTT
1 AAACCATACGAACCAACAAGTTAGAAAGGTGTTGGC-GGGATGAAAACATACGTACCAATGAGTT
* * * *
2401493 AGAAG-GGTATAGGTCAAGACAAAACCATATGAACCAACGAGTTA
65 AGAAGATGT-T-GGCCAAGACAAAACCATATGTACCAACAAGTTA
2401537 TTAAAGTGTG
Statistics
Matches: 184, Mismatches: 50, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
127 2 0.01
128 7 0.04
129 175 0.95
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (127 bp):
AAACCATACGAACCAACAAGTTAGAAAGGTGTTGGCGGGATGAAAACATACGTACCAATGAGTTA
GAAGATGTTGGCCAAGACAAAACCATATGTACCAACAAGTTAAAAGGGTATTCACTAGGATG
Found at i:2401502 original size:43 final size:43
Alignment explanation
Indices: 2401042--2401500 Score: 294
Period size: 43 Copynumber: 10.7 Consensus size: 43
2401032 ATCGGGACAT
* * ** * * **
2401042 AACCATACATACCAATAAGTTAGAAACGTGTTGGCCAAGACAA
1 AACCATACGTACCAATGAGTTAGAAGGGTGTTGGCTAGGATGA
*** * *
2401085 AACCATATAAACCAACGAGTTAGAAGGGTGTTGGCTAGGATAA
1 AACCATACGTACCAATGAGTTAGAAGGGTGTTGGCTAGGATGA
* * * * * **
2401128 AACCATTCGTATCAATGAGTTAGAATGATGTTGG-TCGAGACAA
1 AACCATACGTACCAATGAGTTAGAAGGGTGTTGGCTAG-GATGA
* * *
2401171 AACCATACGTACCAATAAGTTAGAAGGGTGTTGG-TCGGGACGA
1 AACCATACGTACCAATGAGTTAGAAGGGTGTTGGCT-AGGATGA
* * * **
2401214 AAACATACGTACCAATGAGTTAAGAA-GATGTTGGCTGGGACAA
1 AACCATACGTACCAATGAGTT-AGAAGGGTGTTGGCTAGGATGA
* * * * **
2401257 AACCATATGTACCCATGAGTTAAAAGGGTATTCACTAGGATGA
1 AACCATACGTACCAATGAGTTAGAAGGGTGTTGGCTAGGATGA
* ** * * **** * *
2401300 AACCACACAAATCAACGAGTTAGAAAAAAGTTGGCCAAGATGA
1 AACCATACGTACCAATGAGTTAGAAGGGTGTTGGCTAGGATGA
* ** * * *
2401343 AAGCATACAAACCAATGAGTTAGAAAGGTGTTGGCCAAGATGA
1 AACCATACGTACCAATGAGTTAGAAGGGTGTTGGCTAGGATGA
* ** * **
2401386 AACCATATGTACCAACAAGTTTGAAGGGTGTTCACTAGGATGA
1 AACCATACGTACCAATGAGTTAGAAGGGTGTTGGCTAGGATGA
* ** * * *
2401429 AACCATACGAACCAACAAGTTAGAAAGGTATTGGCTGGGATGA
1 AACCATACGTACCAATGAGTTAGAAGGGTGTTGGCTAGGATGA
*
2401472 AACCATAGGTACCAATGAGTTAGAAGGGT
1 AACCATACGTACCAATGAGTTAGAAGGGT
2401501 ATAGGTCAAG
Statistics
Matches: 321, Mismatches: 90, Indels: 10
0.76 0.21 0.02
Matches are distributed among these distances:
42 5 0.02
43 310 0.97
44 6 0.02
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (43 bp):
AACCATACGTACCAATGAGTTAGAAGGGTGTTGGCTAGGATGA
Found at i:2409072 original size:50 final size:50
Alignment explanation
Indices: 2408975--2409072 Score: 124
Period size: 50 Copynumber: 2.0 Consensus size: 50
2408965 TTTTACAATT
* * * ***
2408975 TGTATTGATGCATTCTTCATTGTATCGATACATTATGGGTTTTACCCAAA
1 TGTATTAATACATTCTTCATTGTATCGATACATTATAGGTCAAACCCAAA
* *
2409025 TGTATTAATACATTCTTCATTGTATCGATATATTTTAGGTCAAACCCA
1 TGTATTAATACATTCTTCATTGTATCGATACATTATAGGTCAAACCCA
2409073 GAATTTATCG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (50 bp):
TGTATTAATACATTCTTCATTGTATCGATACATTATAGGTCAAACCCAAA
Found at i:2411547 original size:79 final size:79
Alignment explanation
Indices: 2411454--2411998 Score: 398
Period size: 79 Copynumber: 6.9 Consensus size: 79
2411444 CCATTGATGT
* * *
2411454 TTTTATTTCTAAAATACCGATTTTCCATCATCGGGGATACTCCAACCCCATCATTTCTGAGGGGA
1 TTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
*
2411519 CACTCCAACCCTGG
66 TACTCCAACCCTGG
* ** * **
2411533 TTTTATTTTCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCATTACTTTC-GAGGGG
1 TTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCCATTA-TTTCTGAGGGG
* **
2411597 ATACTCTAACCCTAA
65 ATACTCCAACCCTGG
* ** * * * * * * *
2411612 TTTTATTTCCAAAACACTAATTTTCCACCATCGAGGATACTCTAACCTCGTTATTTCCGAAGAGA
1 TTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
*
2411677 TACTCCAACTC-GG
66 TACTCCAACCCTGG
* * * * * * *
2411690 TTTTATTTCTAAAATACCAATTTTCTACCATTGGGGATACTCCAACCCTATCATTT-TCGAGGGC
1 TTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTCT-GAGGGG
* *
2411754 ATACTCCAACCTTGA
65 ATACTCCAACCCTGG
* * * ** * * *
2411769 TTTTGTTTCCAAAATATCGATTTTTCATAATCGAGGATACT-CAACCCTATTATTTCTGAAGGGA
1 TTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
** *
2411833 TACTTTAACCCCGG
66 TACTCCAACCCTGG
* * * ** * * * ***
2411847 TTTTATTTCCAAAACACTGATTTTTCACCATTAGGGATACTCCAACCTCGTTATTTTTGAAAAGA
1 TTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
* **
2411912 TACTCCAAATCC-AA
66 TACTCC-AACCCTGG
* * * * * * * ** * *
2411926 TTTTACTTCCAAAACATCGATTTTTCACAATCGAGGATGCTCCAACCCTGTTATTTTTTAGGGGA
1 TTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
*
2411991 TATTCCAA
66 TACTCCAA
2411999 TCTTGTTATT
Statistics
Matches: 360, Mismatches: 99, Indels: 15
0.76 0.21 0.03
Matches are distributed among these distances:
78 123 0.34
79 229 0.64
80 8 0.02
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (79 bp):
TTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
TACTCCAACCCTGG
Found at i:2411749 original size:157 final size:157
Alignment explanation
Indices: 2411454--2411981 Score: 413
Period size: 157 Copynumber: 3.4 Consensus size: 157
2411444 CCATTGATGT
* * * * * * * * * *
2411454 TTTTATTTCTAAAATACCGATTTTCCATC-ATCGGGGATACTCCAACCCCATCATTTCTGAGGGG
1 TTTTATTTCCAAAACATCAATTTTCCA-CAATCGAGGATACT-CAACCCTATTATTTCCGAAGAG
* * * * *** ** *
2411518 ACACTCCAACCCTGGTTTTATTTTCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCA
64 ATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACCATTGGGGATACTCCAACCCCA
* * *
2411583 TTACTTTCGAGGGGATACTCTAACCCTAA
129 TCACTTTCGAGGGCATACTCCAACCCTAA
* *
2411612 TTTTATTTCCAAAACA-CTAATTTTCCACCATCGAGGATACTCTAA-CCTCGTTATTTCCGAAGA
1 TTTTATTTCCAAAACATC-AATTTTCCACAATCGAGGATACTC-AACCCT-ATTATTTCCGAAGA
* * *
2411675 GATACTCCAA-CTCGGTTTTATTTCTAAAATACCAA-TTTTCTACCATTGGGGATACTCCAACCC
63 GATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTC-ACCATTGGGGATACTCCAACCC
* * * *
2411738 TATCATTTTCGAGGGCATACTCCAACCTTGA
127 CATCACTTTCGAGGGCATACTCCAACCCTAA
* * * * * * *
2411769 TTTTGTTTCCAAAATATCGATTTTTCATAATCGAGGATACTCAACCCTATTATTTCTGAAGGGAT
1 TTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCAACCCTATTATTTCCGAAGAGAT
** ** * * * *
2411834 ACTTTAACCCCGGTTTTATTTCCAAAACACTGATTTTTCACCATTAGGGATACTCCAACCTCGTT
66 ACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACCATTGGGGATACTCCAACCCCATC
* * ** *
2411899 ATTTTTGAAAAG-ATACTCCAAATCC-AA
131 ACTTTCG-AGGGCATACTCC-AACCCTAA
* * * * *
2411926 TTTTACTTCCAAAACATCGATTTTTCACAATCGAGGATGCTCCAACCCTGTTATTT
1 TTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACT-CAACCCTATTATTT
2411982 TTTAGGGGAT
Statistics
Matches: 297, Mismatches: 61, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
156 26 0.09
157 194 0.65
158 77 0.26
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (157 bp):
TTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCAACCCTATTATTTCCGAAGAGAT
ACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACCATTGGGGATACTCCAACCCCATC
ACTTTCGAGGGCATACTCCAACCCTAA
Found at i:2412007 original size:107 final size:107
Alignment explanation
Indices: 2411880--2412088 Score: 238
Period size: 107 Copynumber: 2.0 Consensus size: 107
2411870 TTCACCATTA
* * *
2411880 GGGATACTCCAACCTCGTTATTTTTGAAAAGATACTCCAAATCCAATTTTACTTCCAAAACATCG
1 GGGATACTCCAACCTCGTTATTTTCGAAAAGATACTCCAAACCCAATTTTACTTCCAAAACACCG
* *
2411945 ATTTTTCACAATCGAGGATGCTCCAACCCTGTTATTTTTTAG
66 ATTTTTCACAATCGAGGATACTCCAACCCTATTATTTTTTAG
* * * *** * * * ** *
2411987 GGGATATTCCAATCTTGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTTTAAAATACCG
1 GGGATACTCCAACCTCGTTATTTTCGAAAAGATACTCCAAACCCAATTTTACTTCCAAAACACCG
* * *
2412052 ATTTTTCATAATCGGGGATACTCCAACCTTATTATTT
66 ATTTTTCACAATCGAGGATACTCCAACCCTATTATTT
2412089 CCGAGATGAT
Statistics
Matches: 82, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
107 82 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (107 bp):
GGGATACTCCAACCTCGTTATTTTCGAAAAGATACTCCAAACCCAATTTTACTTCCAAAACACCG
ATTTTTCACAATCGAGGATACTCCAACCCTATTATTTTTTAG
Found at i:2412070 original size:79 final size:79
Alignment explanation
Indices: 2411986--2412159 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 79
2411976 TTATTTTTTA
* * * * * * *
2411986 GGGGATATTCCAATCTTGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTTTAAAATACC
1 GGGGATACTCCAACCTTATTATTTCCGAGAGGATACTCCAACCCCAGTTTTATTTCTAAAACACC
* *
2412051 GATTTTTCATAATC
66 AATTTTTCACAATC
* ** *
2412065 GGGGATACTCCAACCTTATTATTTCCGAGATGATACTCCAACCTTAGTTTTATTTCTAAAACACT
1 GGGGATACTCCAACCTTATTATTTCCGAGAGGATACTCCAACCCCAGTTTTATTTCTAAAACACC
*
2412130 AATTTTTCACCATC
66 AATTTTTCACAATC
2412144 GGGGATACTCCAACCT
1 GGGGATACTCCAACCT
2412160 CGATTTTATT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (79 bp):
GGGGATACTCCAACCTTATTATTTCCGAGAGGATACTCCAACCCCAGTTTTATTTCTAAAACACC
AATTTTTCACAATC
Found at i:2412172 original size:51 final size:51
Alignment explanation
Indices: 2412096--2412210 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
2412086 TTTCCGAGAT
* * * * *
2412096 GATACTCCAACCTTAGTTTTATTTCTAAAACACTAATTTTTCACCATCGGG
1 GATACTCCAACCTGAGTTTTATTTCTAAAACACCAATTTTCCACAATCAGG
* *
2412147 GATACTCCAACCTCGA-TTTTATTTCTAAAACACCAATTTTCCATAATTAGG
1 GATACTCCAACCT-GAGTTTTATTTCTAAAACACCAATTTTCCACAATCAGG
2412198 GATACTCCAACCT
1 GATACTCCAACCT
2412211 TGTTATTTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (51 bp):
GATACTCCAACCTGAGTTTTATTTCTAAAACACCAATTTTCCACAATCAGG
Found at i:2415915 original size:13 final size:14
Alignment explanation
Indices: 2415899--2415927 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2415889 TAATGTGCTT
2415899 AAGAAAT-GAAAAG
1 AAGAAATAGAAAAG
2415912 AAGAAATAGAAAAG
1 AAGAAATAGAAAAG
2415926 AA
1 AA
2415928 AATAACTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (14 bp):
AAGAAATAGAAAAG
Found at i:2417377 original size:13 final size:13
Alignment explanation
Indices: 2417359--2417384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2417349 TACACCAAGT
2417359 ATGTATCGATACA
1 ATGTATCGATACA
2417372 ATGTATCGATACA
1 ATGTATCGATACA
2417385 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2417399 original size:21 final size:21
Alignment explanation
Indices: 2417373--2417426 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
2417363 ATCGATACAA
2417373 TGTATCGATACACAAAAAAAT
1 TGTATCGATACACAAAAAAAT
2417394 TGTATCGATACACAAAAAAAT
1 TGTATCGATACACAAAAAAAT
2417415 TGTATCGATACA
1 TGTATCGATACA
2417427 TTGGCTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (21 bp):
TGTATCGATACACAAAAAAAT
Found at i:2421126 original size:13 final size:13
Alignment explanation
Indices: 2421108--2421166 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
2421098 ACAATATTCT
2421108 TTGTATCGATACA
1 TTGTATCGATACA
2421121 TTGTATCGAT--A
1 TTGTATCGATACA
* *
2421132 TAGTAT---T-CT
1 TTGTATCGATACA
2421141 TTGTATCGATACA
1 TTGTATCGATACA
2421154 TTGTATCGATACA
1 TTGTATCGATACA
2421167 AGGGTTACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
8 1 0.03
9 5 0.14
11 6 0.16
12 1 0.03
13 24 0.65
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2421131 original size:33 final size:33
Alignment explanation
Indices: 2421089--2421167 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
2421079 AAAACCCAGA
2421089 TGTATCGATACAATATTCTTTGTATCGATACAT
1 TGTATCGATACAATATTCTTTGTATCGATACAT
* *
2421122 TGTATCGATATAGTATTCTTTGTATCGATACAT
1 TGTATCGATACAATATTCTTTGTATCGATACAT
2421155 TGTATCGATACAA
1 TGTATCGATACAA
2421168 GGGTTACTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATATTCTTTGTATCGATACAT
Found at i:2423031 original size:24 final size:24
Alignment explanation
Indices: 2423004--2423051 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
2422994 AAAGGGGGAG
2423004 AAATATTACTTTGAAAATAAATTT
1 AAATATTACTTTGAAAATAAATTT
* *
2423028 AAATATTGCTTTGCAAATAAATTT
1 AAATATTACTTTGAAAATAAATTT
2423052 TTTATCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (24 bp):
AAATATTACTTTGAAAATAAATTT
Found at i:2423079 original size:20 final size:19
Alignment explanation
Indices: 2423046--2423094 Score: 73
Period size: 18 Copynumber: 2.5 Consensus size: 19
2423036 CTTTGCAAAT
2423046 AAATTTTTTATCAAAGGGGA
1 AAATTTTTTATCAAA-GGGA
2423066 GAAATTTTTT-TCAAAGGGA
1 -AAATTTTTTATCAAAGGGA
2423085 AAATTTTTTA
1 AAATTTTTTA
2423095 ACGAGAGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.33
19 4 0.15
20 5 0.19
21 9 0.33
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (19 bp):
AAATTTTTTATCAAAGGGA
Found at i:2423800 original size:13 final size:13
Alignment explanation
Indices: 2423782--2423806 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2423772 CATGGCACAT
2423782 TGTATCGATACAA
1 TGTATCGATACAA
2423795 TGTATCGATACA
1 TGTATCGATACA
2423807 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2423801 original size:33 final size:32
Alignment explanation
Indices: 2423764--2423826 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
2423754 CCACTGTTTC
2423764 TATCGATACATG-GCACATTGTATCGATACAATG
1 TATCGATACATGAG-A-ATTGTATCGATACAATG
2423797 TATCGATACATGATGAATTGTATCGATACA
1 TATCGATACATGA-GAATTGTATCGATACA
2423827 TTGCTTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (32 bp):
TATCGATACATGAGAATTGTATCGATACAATG
Found at i:2425082 original size:19 final size:19
Alignment explanation
Indices: 2425058--2425139 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
2425048 AAACAGTAAC
*
2425058 TGTATCGATATATAAGTGT
1 TGTATCGATACATAAGTGT
2425077 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
2425090 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
2425109 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
2425128 TGTATCGATACA
1 TGTATCGATACA
2425140 ATGTATCGCT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 40 0.73
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:2425095 original size:13 final size:13
Alignment explanation
Indices: 2425077--2425101 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2425067 ATATAAGTGT
2425077 TGTATCGATACAA
1 TGTATCGATACAA
2425090 TGTATCGATACA
1 TGTATCGATACA
2425102 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2425099 original size:32 final size:32
Alignment explanation
Indices: 2425058--2425120 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2425048 AAACAGTAAC
*
2425058 TGTATCGATATATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2425090 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
2425121 TAAGTTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2425194 original size:20 final size:20
Alignment explanation
Indices: 2425169--2425223 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2425159 CTGCCAAGGA
2425169 AATGTATCGATACATT-ACTC
1 AATGTATCGATACATTGA-TC
2425189 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
2425209 TTTGTATCGATACAT
1 AATGTATCGATACAT
2425224 CTGAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:2442039 original size:14 final size:14
Alignment explanation
Indices: 2442020--2442052 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
2442010 CCAAACTATT
2442020 TTGGCCAGGTGAGA
1 TTGGCCAGGTGAGA
2442034 TTGGCCAGGTGAGA
1 TTGGCCAGGTGAGA
2442048 TTGGC
1 TTGGC
2442053 TACCTGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.15, G:0.42, T:0.24
Consensus pattern (14 bp):
TTGGCCAGGTGAGA
Found at i:2443802 original size:158 final size:158
Alignment explanation
Indices: 2443640--2444042 Score: 531
Period size: 158 Copynumber: 2.6 Consensus size: 158
2443630 TGGAAAATCA
* * * *
2443640 AAAAGATACAAAAAGTTTTTAAAACCTTTTATACCCCTACAAAACCCTATAGGAATATAAAAGAT
1 AAAAGATACGAAAAGTTTTTAAAATCTTTTATACCCCTACAGAACCCCATAGGAATATAAAAGAT
* ** * *
2443705 TAAAAAAAATTAAAATTTCTCTT-GGTTATGAAAGTATTAATTTTATTTTATTTATTTTTAAAAA
66 TAAAAAAAATTAAAATTTAT-TTCAATTATGAAAGTATTAATTTAATGTTATTTATTTTTAAAAA
2443769 ATACCATTTCATACCTTAATGAAAACCCG
130 ATACCATTTCATACCTTAATGAAAACCCG
* * * *
2443798 AAAAGATACGAAATGTTTTTAAAATCTTTTTTACCCCTATAGATCCCCATAGGAATATAAAAGAT
1 AAAAGATACGAAAAGTTTTTAAAATCTTTTATACCCCTACAGAACCCCATAGGAATATAAAAGAT
** * *
2443863 TAAAAATGATTAATATTTATTTCAATTATGAAAGTATTAATTTAATGTTATTTATTTTTTAAAAA
66 TAAAAAAAATTAAAATTTATTTCAATTATGAAAGTATTAATTTAATGTTATTTATTTTTAAAAAA
* * *
2443928 TACTATTTCGTACCTTAATGGAAACCCG
131 TACCATTTCATACCTTAATGAAAACCCG
* * * * *
2443956 AAAAGATACGAAAAGATTTTCAAATATTTTATACCCTTACAGACCCCCATAGGAATATAAAA-AT
1 AAAAGATACGAAAAGTTTTTAAAATCTTTTATACCCCTACAGAACCCCATAGGAATATAAAAGAT
* *
2444020 TAAAAAATGATTAATATTTATTT
66 TAAAAAA-AATTAAAATTTATTT
2444043 TTACCACTAA
Statistics
Matches: 214, Mismatches: 29, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
157 10 0.05
158 204 0.95
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (158 bp):
AAAAGATACGAAAAGTTTTTAAAATCTTTTATACCCCTACAGAACCCCATAGGAATATAAAAGAT
TAAAAAAAATTAAAATTTATTTCAATTATGAAAGTATTAATTTAATGTTATTTATTTTTAAAAAA
TACCATTTCATACCTTAATGAAAACCCG
Found at i:2444989 original size:11 final size:10
Alignment explanation
Indices: 2444953--2444986 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2444943 ACTAGCTTAG
2444953 TTTTTTCTAT
1 TTTTTTCTAT
*
2444963 TTTTTCCTAT
1 TTTTTTCTAT
*
2444973 TTTCTTCTAT
1 TTTTTTCTAT
2444983 TTTT
1 TTTT
2444987 CTTGCCTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTCTAT
Found at i:2445854 original size:162 final size:167
Alignment explanation
Indices: 2445626--2446073 Score: 579
Period size: 162 Copynumber: 2.7 Consensus size: 167
2445616 AAAAGGGAAA
* *
2445626 TTTCAAGGAAAAAATTCAAAAA-CTCATGAAAATAAATGAATTTTTGAAAACTAATTTAATATGA
1 TTTCAAGG-AAAAATTCAAAAATCTC-TGAAAATAAATGAATTTTTGAAAACTGACTTAATATGA
* *
2445690 ATTAAATAATGATATTTGATGAATTTTAAAAATTCAAAACCAACGAAAATCCTCCCA-AAAAAA-
64 ATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACC-ACGAAAATCCTCCCAGAAAAAAT
* **
2445753 TTACGAAGAAGAAAACTTCATA-TTT-AAAAAAA-A-GAG
128 TTACGAAAAAGAAAACACCATATTTTAAAAAAAAGAGGAG
* * * *
2445789 TTTCAAGGAAAAATTCAAAAATCTCTGAAAATTAATGAATTTTTGAAAGCTGGCTTACTATGAAT
1 TTTCAAGGAAAAATTCAAAAATCTCTGAAAATAAATGAATTTTTGAAAACTGACTTAATATGAAT
* * * *
2445854 TAAATAATAACATTTAATGAATTATAAAAATTAAAAACCACTAAAAATCCT-CCAGAAAAAATTT
66 TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAC-GAAAATCCTCCCAGAAAAAATTT
* *
2445918 ATGAAAAAGAAAACACCGTATTTTAAAAAAAAGAGGAG
130 ACGAAAAAGAAAACACCATATTTTAAAAAAAAGAGGAG
* * *
2445956 TTTCAAAGAAAAAATTCAAAAATCTCTAAAAATAAATGAATTTTTGAAAATTGACTTAATATGAA
1 TTTC-AAGGAAAAATTCAAAAATCTCTGAAAATAAATGAATTTTTGAAAACTGACTTAATATGAA
* * *
2446021 TTAAATAATAATATTTGATGAATTTTAAAAATTTTAAACCCATGAAAATCCTC
65 TTAAATAATAATATTTGATGAATTTTAAAAA-TTAAAAACCACGAAAATCCTC
2446074 TTAAAAAATT
Statistics
Matches: 243, Mismatches: 31, Indels: 16
0.84 0.11 0.06
Matches are distributed among these distances:
161 5 0.02
162 95 0.39
163 28 0.12
164 3 0.01
165 7 0.03
166 1 0.00
167 7 0.03
168 89 0.37
169 8 0.03
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.29
Consensus pattern (167 bp):
TTTCAAGGAAAAATTCAAAAATCTCTGAAAATAAATGAATTTTTGAAAACTGACTTAATATGAAT
TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCACGAAAATCCTCCCAGAAAAAATTTA
CGAAAAAGAAAACACCATATTTTAAAAAAAAGAGGAG
Found at i:2446098 original size:168 final size:162
Alignment explanation
Indices: 2445626--2446098 Score: 574
Period size: 168 Copynumber: 2.9 Consensus size: 162
2445616 AAAAGGGAAA
* * *
2445626 TTTCAAGGAAAAAATTCAAAAA-CTCATGAAAATAAATGAATTTTTGAAAACTAATTTAATATGA
1 TTTCAAAGAAAAAATTCAAAAATCTC-TGAAAATAAATGAATTTTTGAAAACTGACTTAATATGA
* * * * *
2445690 ATTAAATAATGATATTTGATGAATTTTAAAAATTCAAAACCAACGAAAATCCTCCCAAAAAAATT
65 ATTAAATAATAATATTTGATGAATTTTAAAAATTTAAAACCCATGAAAATCCT-CCAAAAAATTT
* **
2445755 ACGAAGAAGAAAACTTCATATTTAAAAAAAAGAG
129 ATGAAGAAGAAAACACCATATTTAAAAAAAAGAG
* * * * *
2445789 TTTC-AAGGAAAAATTCAAAAATCTCTGAAAATTAATGAATTTTTGAAAGCTGGCTTACTATGAA
1 TTTCAAAGAAAAAATTCAAAAATCTCTGAAAATAAATGAATTTTTGAAAACTGACTTAATATGAA
* * * * *
2445853 TTAAATAATAACATTTAATGAATTATAAAAA-TTAAAAACCACTAAAAATCCTCCAGAAAAAATT
66 TTAAATAATAATATTTGATGAATTTTAAAAATTTAAAACCCA-TGAAAATCCTCC--AAAAAATT
* *
2445917 TATGAAAAAGAAAACACCGTATTTTAAAAAAAAGAGGAG
128 TATGAAGAAGAAAACACCATA-TTT-AAAAAAA-A-GAG
* *
2445956 TTTCAAAGAAAAAATTCAAAAATCTCTAAAAATAAATGAATTTTTGAAAATTGACTTAATATGAA
1 TTTCAAAGAAAAAATTCAAAAATCTCTGAAAATAAATGAATTTTTGAAAACTGACTTAATATGAA
* *
2446021 TTAAATAATAATATTTGATGAATTTTAAAAATTTTAAACCCATGAAAATCCTCTTAAAAAATTTT
66 TTAAATAATAATATTTGATGAATTTTAAAAATTTAAAACCCATGAAAATCCTC-CAAAAAA-TTT
*
2446086 ATGGAGAAGAAAA
129 ATGAAGAAGAAAA
2446099 TCTCGTAATT
Statistics
Matches: 259, Mismatches: 39, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
161 9 0.03
162 83 0.32
163 30 0.12
164 3 0.01
165 7 0.03
166 1 0.00
167 13 0.05
168 105 0.41
169 8 0.03
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (162 bp):
TTTCAAAGAAAAAATTCAAAAATCTCTGAAAATAAATGAATTTTTGAAAACTGACTTAATATGAA
TTAAATAATAATATTTGATGAATTTTAAAAATTTAAAACCCATGAAAATCCTCCAAAAAATTTAT
GAAGAAGAAAACACCATATTTAAAAAAAAGAG
Found at i:2447019 original size:38 final size:37
Alignment explanation
Indices: 2446977--2447179 Score: 142
Period size: 38 Copynumber: 5.2 Consensus size: 37
2446967 TGGCCAATAC
2446977 AAAACCATATGAACCAACGAAAGAAAGTTGATCGAGAT
1 AAAACCATATGAACCAAC-AAAGAAAGTTGATCGAGAT
**
2447015 AAAACCATATGAGTCAACAAAGGAAAGATGTTG-TC-AGGAT
1 AAAACCATATGAACCAACAAA-G-AA-A-GTTGATCGA-GAT
* * * *
2447055 AAAA-CATACGAACCAACAAAAGGAAGTTAACCGAGAT
1 AAAACCATATGAACCAAC-AAAGAAAGTTGATCGAGAT
* ** * * *
2447092 GAAACCATATGAGTCAACAAAGAAAAGGTGTTGGTTAGGAT
1 AAAACCATATGAACCAACAAAG-AAAGTTGATCG--A-GAT
* *
2447133 GAAACCATATGAACCAACGAAAGAAAGTTGATCTAGAT
1 AAAACCATATGAACCAAC-AAAGAAAGTTGATCGAGAT
*
2447171 GAAACCATA
1 AAAACCATA
2447180 CGAGTCAACA
Statistics
Matches: 127, Mismatches: 24, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
36 3 0.02
37 15 0.12
38 46 0.36
39 15 0.12
40 14 0.11
41 30 0.24
42 4 0.03
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (37 bp):
AAAACCATATGAACCAACAAAGAAAGTTGATCGAGAT
Found at i:2447179 original size:79 final size:78
Alignment explanation
Indices: 2446978--2447890 Score: 468
Period size: 79 Copynumber: 11.6 Consensus size: 78
2446968 GGCCAATACA
* * * * *
2446978 AAACCATATGAACCAACGAAAGAAAGTTGATCGAGATAAAACCATATGAGTCAACAAAGGAAAGA
1 AAACCATACGAACCAAC-AAAGAAAGTTGACCGAGATGAAACCATACGAGTCAACAAAGGAAAGG
2447043 TGTT-GTCAGGAT-
65 TGTTGGTCAGGATG
* * * * *
2447055 AAAACATACGAACCAACAAAAGGAAGTTAACCGAGATGAAACCATATGAGTCAACAAAGAAAAGG
1 AAACCATACGAACCAAC-AAAGAAAGTTGACCGAGATGAAACCATACGAGTCAACAAAGGAAAGG
*
2447120 TGTTGGTTAGGATG
65 TGTTGGTCAGGATG
* * * *
2447134 AAACCATATGAACCAACGAAAGAAAGTTGATCTAGATGAAACCATACGAGTCAACAAAGGAAAAG
1 AAACCATACGAACCAAC-AAAGAAAGTTGACCGAGATGAAACCATACGAGTCAACAAAGGAAAGG
* **
2447199 TGTTGG-CTGGGACA
65 TGTTGGTC-AGGATG
* * * * *
2447213 AAACCATACAAACCAACAAAAGAAAGTTGACCGGGATGAAACCATACGAGTTAACAGAGGAAAGA
1 AAACCATACGAACCAAC-AAAGAAAGTTGACCGAGATGAAACCATACGAGTCAACAAAGGAAAGG
*
2447278 TGTTGGTCAAGATG
65 TGTTGGTCAGGATG
* * * ** *
2447292 AAACCATACGAACCAACAAAGGATGTTGA-CTAGGACAAAACCATACAAGTCAACAAAGGAAAGG
1 AAACCATACGAACCAACAAAGAAAGTTGACCGA-GATGAAACCATACGAGTCAACAAAGGAAAGG
*
2447356 TGTTGG-CCGAGATG
65 TGTTGGTCAG-GATG
* * * * * **
2447370 AAACCATATGAACTAACAAAGGAAAGATGTAGGCCGAGACGAAACCATACGTA-CCAAGGAAGGA
1 AAACCATACGAACCAACAAA-GAAAG-T-T-GACCGAGATGAAACCATACG-AGTCAACAAAGGA
* * * *
2447434 AA---ATTGATGAAGATG
61 AAGGTGTTGGTCAGGATG
* * * * **
2447449 AAACCATAC-AAGCCAACAAAAGAAAAGTATTGGCCGGGATAAAACCATATGAACCAACAAA--A
1 AAACCATACGAA-CCAAC-AAAG-AAAG--TTGACCGAGATGAAACCATACGAGTCAACAAAGGA
** * *
2447511 AA-AAGTT-GACTGGGATG
61 AAGGTGTTGGTC-AGGATG
** * * ** ** *
2447528 AAACCATACGAGTCAACAAAAGAAAGGTGTTGGCCAAGATGAAACCATACGAACCAATGAAGAAA
1 AAACCATACGAACCAAC-AAAGAAA---GTTGACCGAGATGAAACCATACGAGTCAACAAAGGAA
* * **
2447593 AGGTGTTGGCCAAGACA
62 AGGTGTTGGTCAGGATG
* * * * * * * *
2447610 AAACCATATGTACCAATGAAGGAAAGTTAACTG-GATGAAACCATACGAGTCAACGAA-GAATGG
1 AAACCATACGAACCAA-CAAAGAAAGTTGACCGAGATGAAACCATACGAGTCAACAAAGGAA-AG
* *
2447673 GTGTTGGCCGGGATG
64 GTGTTGGTCAGGATG
* * * * ** *
2447688 CAACCATATGAACCAACAAAGAAAAGTTAACCG-G--GACAACCATACAAGTCAATGAA-G-AGG
1 AAACCATACGAACCAACAAAG-AAAGTTGACCGAGATGA-AACCATACGAGTCAACAAAGGAAAG
*
2447748 GTGTTGGTC-GAAATG
64 GTGTTGGTCAG-GATG
* * * * ** * * *
2447763 AAACCATACGAACCAATGAAGGAGAGTTGACCTAGACAAAACCGTACAAGTCAACGAATTAGAAA
1 AAACCATACGAACCAA-CAAAGAAAGTTGACCGAGATGAAACCATACGAGTCAAC-AA--AGGAA
* **
2447828 AGGTGTTGG-CCGAGACA
62 AGGTGTTGGTCAG-GATG
* * * * *
2447845 AAACCATATGAACCAACAAAGGAAAGTTTATCGTGACGAAACCATA
1 AAACCATACGAACCAACAAA-GAAAGTTGACCGAGATGAAACCATA
2447891 TAAGTCAATG
Statistics
Matches: 641, Mismatches: 150, Indels: 85
0.73 0.17 0.10
Matches are distributed among these distances:
74 1 0.00
75 35 0.05
76 7 0.01
77 102 0.16
78 136 0.21
79 242 0.38
80 12 0.02
81 10 0.02
82 91 0.14
83 5 0.01
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.16
Consensus pattern (78 bp):
AAACCATACGAACCAACAAAGAAAGTTGACCGAGATGAAACCATACGAGTCAACAAAGGAAAGGT
GTTGGTCAGGATG
Found at i:2447391 original size:198 final size:197
Alignment explanation
Indices: 2447167--2447775 Score: 590
Period size: 198 Copynumber: 3.1 Consensus size: 197
2447157 AAGTTGATCT
* * * ** *
2447167 AGATGAAACCATACG-AGTCAACAAAGGAAAAGTGTTGGCTGGGACAAAACCATACAAACCAACA
1 AGATGAAACCATACGAACT-AACAAAGGAAAAGTGTTGGCCGAGACAAAACCATACGTACCAACG
* * * * **
2447231 AAAGAAAGTTGACCGGGATGAAACCATACGAGTTAACAGAGGAAAGATGTTGGTCAAGATGAAAC
65 AAGGAAAGTTGA-CGGGATGAAACCATACGAGTCAACAGAAGAAAGATGTTGGCCGGGATGAAAC
* * * *
2447296 CATACGAACCAACAAAGGATGTTGACTAGGACAAAACCATACAAGTCAACAAAGGAAAGGTGTTG
129 CATATGAACCAACAAAGAAAGTTGACTAGGACAAAACCATACAAGTCAACAAAAGAAAGGTGTTG
*
2447361 GCCG
194 GCCA
* * * *
2447365 AGATGAAACCATATGAACTAACAAAGG-AAAGATGTAGGCCGAGACGAAACCATACGTACCAAGG
1 AGATGAAACCATACGAACTAACAAAGGAAAAG-TGTTGGCCGAGACAAAACCATACGTACCAACG
* * * * * * * *
2447429 AAGGAAAATTGATGAAGATGAAACCATACAAGCCAACAAAAGAAA-AGTATTGGCCGGGATAAAA
65 AAGGAAAGTTGACG-GGATGAAACCATACGAGTCAACAGAAGAAAGA-TGTTGGCCGGGATGAAA
* * ** *
2447493 CCATATGAACCAACAAAAAAAAGTTGACTGGGATGAAACCATACGAGTCAACAAAAGAAAGGTGT
128 CCATATGAACCAAC-AAAGAAAGTTGACTAGGACAAAACCATACAAGTCAACAAAAGAAAGGTGT
2447558 TGGCCA
192 TGGCCA
* ** * * *
2447564 AGATGAAACCATACGAACCAATGAA-GAAAAGGTGTTGGCCAAGACAAAACCATATGTACCAATG
1 AGATGAAACCATACGAACTAACAAAGGAAAA-GTGTTGGCCGAGACAAAACCATACGTACCAACG
* * * * *
2447628 AAGGAAAGTTAACTGGATGAAACCATACGAGTCAAC-GAAGAATGGGTGTTGGCCGGGATGCAAC
65 AAGGAAAGTTGACGGGATGAAACCATACGAGTCAACAGAAGAA-AGATGTTGGCCGGGATGAAAC
* ** ** *
2447692 CATATGAACCAACAAAGAAAAGTTAACCGGGAC--AACCATACAAGTCAA-TGAAG-AGGGTGTT
129 CATATGAACCAACAAAG-AAAGTTGACTAGGACAAAACCATACAAGTCAACAAAAGAAAGGTGTT
*
2447753 GGTCGA
193 GG-CCA
2447759 A-ATGAAACCATACGAAC
1 AGATGAAACCATACGAAC
2447776 CAATGAAGGA
Statistics
Matches: 335, Mismatches: 65, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
194 25 0.07
195 6 0.02
196 14 0.04
197 14 0.04
198 165 0.49
199 110 0.33
200 1 0.00
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.15
Consensus pattern (197 bp):
AGATGAAACCATACGAACTAACAAAGGAAAAGTGTTGGCCGAGACAAAACCATACGTACCAACGA
AGGAAAGTTGACGGGATGAAACCATACGAGTCAACAGAAGAAAGATGTTGGCCGGGATGAAACCA
TATGAACCAACAAAGAAAGTTGACTAGGACAAAACCATACAAGTCAACAAAAGAAAGGTGTTGGC
CA
Found at i:2447416 original size:277 final size:277
Alignment explanation
Indices: 2447085--2447584 Score: 707
Period size: 277 Copynumber: 1.8 Consensus size: 277
2447075 AGGAAGTTAA
* * * ** * *
2447085 CCGAGATGAAACCATATGAGTCAACAAAGAAAAGGTGTTGGTTAGGATGAAACCATATGAACCAA
1 CCGAGATGAAACCATATGACTCAACAAAGAAAAGATGTAGGCGAGGACGAAACCATACGAACCAA
* * * * * * *
2447150 CGAAAGAAAGTTGATCTAGATGAAACCATACGAGTCAACAAAGGAAAAGTGTTGGCTGGGACAAA
66 CGAAAGAAAATTGATCAAGATGAAACCATACAAGCCAACAAAAGAAAAGTATTGGCCGGGACAAA
* * * *
2447215 ACCATACAAACCAACAAAAGAAAGTTGACCGGGATGAAACCATACGAGTTAACAGAGGAAAGATG
131 ACCATACAAACCAACAAAAAAAAGTTGACCGGGATGAAACCATACGAGTCAACAAAAGAAAGATG
*
2447280 TTGGTCAAGATGAAACCATACGAACCAACAAAGGATGTTGACTAGGACAAAACCATACAAGTCAA
196 TTGGCCAAGATGAAACCATACGAACCAACAAAGGATGTTGACTAGGACAAAACCATACAAGTCAA
2447345 CAAAGGAAAGGTGTTGG
261 CAAAGGAAAGGTGTTGG
* *
2447362 CCGAGATGAAACCATATGAACT-AACAAAGGAAAGATGTAGGCCGA-GACGAAACCATACGTACC
1 CCGAGATGAAACCATATG-ACTCAACAAAGAAAAGATGTAGG-CGAGGACGAAACCATACGAACC
* * * *
2447425 AAGGAAGGAAAATTGATGAAGATGAAACCATACAAGCCAACAAAAGAAAAGTATTGGCCGGGATA
64 AACGAAAGAAAATTGATCAAGATGAAACCATACAAGCCAACAAAAGAAAAGTATTGGCCGGGACA
** * *
2447490 AAACCATATGAACCAACAAAAAAAAGTTGACTGGGATGAAACCATACGAGTCAACAAAAGAAAGG
129 AAACCATACAAACCAACAAAAAAAAGTTGACCGGGATGAAACCATACGAGTCAACAAAAGAAAGA
2447555 TGTTGGCCAAGATGAAACCATACGAACCAA
194 TGTTGGCCAAGATGAAACCATACGAACCAA
2447585 TGAAGAAAAG
Statistics
Matches: 192, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
277 189 0.98
278 3 0.02
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (277 bp):
CCGAGATGAAACCATATGACTCAACAAAGAAAAGATGTAGGCGAGGACGAAACCATACGAACCAA
CGAAAGAAAATTGATCAAGATGAAACCATACAAGCCAACAAAAGAAAAGTATTGGCCGGGACAAA
ACCATACAAACCAACAAAAAAAAGTTGACCGGGATGAAACCATACGAGTCAACAAAAGAAAGATG
TTGGCCAAGATGAAACCATACGAACCAACAAAGGATGTTGACTAGGACAAAACCATACAAGTCAA
CAAAGGAAAGGTGTTGG
Found at i:2447532 original size:38 final size:38
Alignment explanation
Indices: 2447445--2447553 Score: 103
Period size: 38 Copynumber: 2.8 Consensus size: 38
2447435 AATTGATGAA
* *
2447445 GATGAAACCATACAAGCCAACAAAAGAAAAGTATTGGCCGG
1 GATGAAACCATAGAA-CCAACAAAA-AAAAG-ATTGACCGG
* *
2447486 GATAAAACCATATGAACCAACAAAAAAAAG-TTGACTGG
1 GATGAAACCATA-GAACCAACAAAAAAAAGATTGACCGG
** *
2447524 GATGAAACCATACGAGTCAACAAAAGAAAG
1 GATGAAACCATA-GAACCAACAAAAAAAAG
2447554 GTGTTGGCCA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
38 31 0.53
40 5 0.09
41 20 0.34
42 2 0.03
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.13
Consensus pattern (38 bp):
GATGAAACCATAGAACCAACAAAAAAAAGATTGACCGG
Found at i:2447575 original size:199 final size:198
Alignment explanation
Indices: 2447292--2447778 Score: 531
Period size: 199 Copynumber: 2.5 Consensus size: 198
2447282 GGTCAAGATG
* ** * *
2447292 AAACCATACGAACCAAC-AAAGGATGTTGACTAGGACAAAACCATACAAGTCAACAAAGGAAAGG
1 AAACCATATGAACCAACAAAAAAAAGTTGACTAGGACAAAACCATACAAGTCAACAAAAGAAAGG
* * * * * *
2447356 TGTTGGCCGAGATGAAACCATATGAACTAACAAAGGAAAGATGTAGGCCGAGACGAAACCATACG
66 TGTTGGCCAAGATGAAACCATACGAACCAACAAAGAAAAGATGTAGGCCAAGACAAAACCATACG
*
2447421 TACCAAGGAAGGAAAATTGA-TGAAGATGAAACCATACAAGCCAACAAAAGAA-AAGTATTGGCC
131 TACCAAGGAAGGAAAATTAACTG--GATGAAACCATACAAGCCAAC-AAAGAATAAGTATTGGCC
2447484 GGGATA
193 GGGATA
* ** *
2447490 AAACCATATGAACCAACAAAAAAAAGTTGACTGGGATGAAACCATACGAGTCAACAAAAGAAAGG
1 AAACCATATGAACCAACAAAAAAAAGTTGACTAGGACAAAACCATACAAGTCAACAAAAGAAAGG
** * * *
2447555 TGTTGGCCAAGATGAAACCATACGAACCAATGAAGAAAAGGTGTTGGCCAAGACAAAACCATATG
66 TGTTGGCCAAGATGAAACCATACGAACCAACAAAGAAAAGATGTAGGCCAAGACAAAACCATACG
* * * * * ** *
2447620 TACCAATGAAGGAAAGTTAACTGGATGAAACCATACGAGTCAACGAAGAATGGGTGTTGGCCGGG
131 TACCAAGGAAGGAAAATTAACTGGATGAAACCATACAAGCCAACAAAGAATAAGTATTGGCCGGG
*
2447685 ATG
196 ATA
* * * ** ** *
2447688 CAACCATATGAACCAACAAAGAAAAGTTAACCGGGAC--AACCATACAAGTCAA-TGAAG-AGGG
1 AAACCATATGAACCAACAAAAAAAAGTTGACTAGGACAAAACCATACAAGTCAACAAAAGAAAGG
*
2447749 TGTTGGTCGAA-ATGAAACCATACGAACCAA
66 TGTTGG-CCAAGATGAAACCATACGAACCAA
2447779 TGAAGGAGAG
Statistics
Matches: 245, Mismatches: 40, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
194 28 0.11
195 6 0.02
196 14 0.06
197 5 0.02
198 80 0.33
199 110 0.45
200 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (198 bp):
AAACCATATGAACCAACAAAAAAAAGTTGACTAGGACAAAACCATACAAGTCAACAAAAGAAAGG
TGTTGGCCAAGATGAAACCATACGAACCAACAAAGAAAAGATGTAGGCCAAGACAAAACCATACG
TACCAAGGAAGGAAAATTAACTGGATGAAACCATACAAGCCAACAAAGAATAAGTATTGGCCGGG
ATA
Found at i:2447577 original size:41 final size:41
Alignment explanation
Indices: 2447011--2447617 Score: 238
Period size: 41 Copynumber: 15.3 Consensus size: 41
2447001 AAGTTGATCG
* * * * * *
2447011 AGATAAAACCATATGAGTCAACAAAGGAAAGATGTT-GTCA
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
* * * * ** *
2447051 GGAT-AAAACATACGAACCAACAAAAGGAA---GTTAACCG
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
* * **
2447088 AGATGAAACCATATGAGTCAAC-AAAGAAAAGGTGTTGGTTA
1 AGATGAAACCATACGAGCCAACAAAAG-AAAGGTGTTGGCCA
* * * * ** *
2447129 GGATGAAACCATATGAACCAACGAAAGAAA---GTTGATCT
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
* * * **
2447167 AGATGAAACCATACGAGTCAACAAAGGAAAAGTGTTGGCTG
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
* ** * * * *
2447208 GGACAAAACCATACAAACCAACAAAAGAAA---GTTGACCG
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
* ** * * * *
2447246 GGATGAAACCATACGAGTTAACAGAGGAAAGATGTTGGTCA
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
* * * *
2447287 AGATGAAACCATACGAACCAAC-AAAG---GATGTTGACTA
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
* ** * * * *
2447324 GGACAAAACCATACAAGTCAACAAAGGAAAGGTGTTGGCCG
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
* * * * * * *
2447365 AGATGAAACCATATGAACTAACAAAGGAAAGATGTAGGCCG
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
* ** * ** *
2447406 AGACGAAACCATACGTA-CCAAGGAAGGAAAATTGAT-G--A
1 AGATGAAACCATACG-AGCCAACAAAAGAAAGGTGTTGGCCA
* * * *
2447444 AGATGAAACCATACAAGCCAACAAAAGAAAAGTATTGGCCG
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
* * * * * * *
2447485 GGATAAAACCATATGAACCAACAAAAAAAAGTTGACTGG---
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTG-TTGGCCA
*
2447524 -GATGAAACCATACGAGTCAACAAAAGAAAGGTGTTGGCCA
1 AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
* **
2447564 AGATGAAACCATACGAACCAA-TGAAGAAAAGGTGTTGGCCA
1 AGATGAAACCATACGAGCCAACAAAAG-AAAGGTGTTGGCCA
**
2447605 AGACAAAACCATA
1 AGATGAAACCATA
2447618 TGTACCAATG
Statistics
Matches: 410, Mismatches: 129, Indels: 55
0.69 0.22 0.09
Matches are distributed among these distances:
36 3 0.01
37 36 0.09
38 128 0.31
39 20 0.05
40 9 0.02
41 206 0.50
42 8 0.02
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (41 bp):
AGATGAAACCATACGAGCCAACAAAAGAAAGGTGTTGGCCA
Found at i:2447625 original size:41 final size:41
Alignment explanation
Indices: 2447550--2447635 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
2447540 TCAACAAAAG
**
2447550 AAAGGTGTTGGCCAAGATGAAACCATACGAACCAATGAAGA
1 AAAGGTGTTGGCCAAGACAAAACCATACGAACCAATGAAGA
* * *
2447591 AAAGGTGTTGGCCAAGACAAAACCATATGTACCAATGAAGG
1 AAAGGTGTTGGCCAAGACAAAACCATACGAACCAATGAAGA
2447632 AAAG
1 AAAG
2447636 TTAACTGGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.15
Consensus pattern (41 bp):
AAAGGTGTTGGCCAAGACAAAACCATACGAACCAATGAAGA
Found at i:2447668 original size:78 final size:78
Alignment explanation
Indices: 2447568--2447950 Score: 319
Period size: 82 Copynumber: 4.8 Consensus size: 78
2447558 TGGCCAAGAT
* * * * *
2447568 GAAACCATACGAA-CCAATGAAGAAAAGGTGTTGGCCAAGACAAAACCATATGTACCAATGAAGG
1 GAAACCATAC-AAGTCAATGAAGAAAGGGTGTTGGCCGAGACAAAACCATATGAACCAACGAAGG
*
2447632 AAAGTTAACTGGAT
65 AAAGTTAACTGGAC
* * * * *** * *
2447646 GAAACCATACGAGTCAACGAAGAATGGGTGTTGGCCGGGATGCAACCATATGAACCAACAAAGAA
1 GAAACCATACAAGTCAATGAAGAAAGGGTGTTGGCCGAGACAAAACCATATGAACCAACGAAGGA
*
2447711 AAGTTAACCGG--
66 AAGTTAACTGGAC
* * ** * *
2447722 GACAACCATACAAGTCAATGAAG--AGGGTGTTGGTCGAAATGAAACCATACGAACCAATGAAGG
1 GA-AACCATACAAGTCAATGAAGAAAGGGTGTTGGCCGAGACAAAACCATATGAACCAACGAAGG
* * *
2447785 AGAGTTGACCTAGAC
65 AAAGTT-AACTGGAC
* * * * *
2447800 AAAACCGTACAAGTCAACGAATTAGAAAAGGTGTTGGCCGAGACAAAACCATATGAACCAACAAA
1 GAAACCATACAAGTCAATG-A--AGAAAGGGTGTTGGCCGAGACAAAACCATATGAACCAACGAA
*
2447865 GGAAAGTTTA-TCGTGAC
63 GGAAAGTTAACT-G-GAC
* * *
2447882 GAAACCATATAAGTCAATGAATTAGAAAGGGTGTTGGCCGGGACAAAACTATATGAACCAACGAA
1 GAAACCATACAAGTCAATG-A--AGAAAGGGTGTTGGCCGAGACAAAACCATATGAACCAACGAA
2447947 GGAA
63 GGAA
2447951 GGTGTTGGTT
Statistics
Matches: 240, Mismatches: 53, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
75 36 0.15
76 5 0.02
77 34 0.14
78 61 0.25
80 3 0.01
82 101 0.42
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.16
Consensus pattern (78 bp):
GAAACCATACAAGTCAATGAAGAAAGGGTGTTGGCCGAGACAAAACCATATGAACCAACGAAGGA
AAGTTAACTGGAC
Found at i:2447695 original size:277 final size:272
Alignment explanation
Indices: 2447068--2447712 Score: 699
Period size: 277 Copynumber: 2.3 Consensus size: 272
2447058 ACATACGAAC
***
2447068 CAACAAAAGG-AAGTTAACCGAGATGAAACCATATGAGTCAACAAAGAAAAGGTGTTGGTTAGGA
1 CAAC-AAAGGAAAGTTAACCGAGATGAAACCATATGAGTCAACAAAG-AAAGGTGTTGGCCGGGA
* * * * * *
2447132 TGAAACCATATGAACCAACGAAAGAAAGTTGATCTAGATGAAACCATACGAGTCAACAAAGGAAA
64 TGAAACCATACGAACCAACGAAAGAAAATTGATCAAGATGAAACCATACAAGCCAACAAAAGAAA
* * *
2447197 AGTGTTGGCTGGGACAAAACCATACAAACCAACAAAAGAAAGTTGACCGGGATGAAACCATACGA
129 AGTATTGGCCGGGACAAAACCATACAAACCAACAAAAAAAAGTTGACCGGGATGAAACCATACGA
* * * * * * *
2447262 GTTAACAGAGGAAAGATGTTGGTCAAGATGAAACCATACGAACCAACAAAGGATGTTGACTAGGA
194 GTCAACAAAAGAAAGATGTTGGCCAAGATGAAACCATACGAACCAAAAAAGGATGTTGACCAAGA
2447327 CAAAACCATACAAGT
259 CAAAACCATA-AAGT
** * * *
2447342 CAACAAAGGAAAGGTGTTGGCCGAGATGAAACCATATGA-ACTAACAAAGGAAAGATGTAGGCCG
1 CAACAAAGGAAA---GTTAACCGAGATGAAACCATATGAGTC-AACAAA-GAAAGGTGTTGGCCG
* * * * * *
2447406 AGACGAAACCATACGTACCAAGGAAGGAAAATTGATGAAGATGAAACCATACAAGCCAACAAAAG
61 GGATGAAACCATACGAACCAACGAAAGAAAATTGATCAAGATGAAACCATACAAGCCAACAAAAG
* ** *
2447471 AAAAGTATTGGCCGGGATAAAACCATATGAACCAACAAAAAAAAGTTGACTGGGATGAAACCATA
126 AAAAGTATTGGCCGGGACAAAACCATACAAACCAACAAAAAAAAGTTGACCGGGATGAAACCATA
*
2447536 CGAGTCAACAAAAGAAAGGTGTTGGCCAAGATGAAACCATACGAACCAATGAAGAAAAGG-TGTT
191 CGAGTCAACAAAAGAAAGATGTTGGCCAAGATGAAACCATACGAACC----AA-AAAAGGATGTT
* *
2447600 GGCCAAGACAAAACCAT-ATGT
251 GACCAAGACAAAACCATAAAGT
** * * * *
2447621 ACCAATGAAGGAAAGTTAACTG-GATGAAACCATACGAGTCAACGAAGAATGGGTGTTGGCCGGG
1 --CAACAAAGGAAAGTTAACCGAGATGAAACCATATGAGTCAACAAAGAA-AGGTGTTGGCCGGG
* *
2447685 ATGCAACCATATGAACCAAC-AAAGAAAA
63 ATGAAACCATACGAACCAACGAAAGAAAA
2447713 GTTAACCGGG
Statistics
Matches: 301, Mismatches: 55, Indels: 28
0.78 0.14 0.07
Matches are distributed among these distances:
273 5 0.02
274 6 0.02
276 11 0.04
277 234 0.78
278 7 0.02
279 3 0.01
281 30 0.10
282 5 0.02
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (272 bp):
CAACAAAGGAAAGTTAACCGAGATGAAACCATATGAGTCAACAAAGAAAGGTGTTGGCCGGGATG
AAACCATACGAACCAACGAAAGAAAATTGATCAAGATGAAACCATACAAGCCAACAAAAGAAAAG
TATTGGCCGGGACAAAACCATACAAACCAACAAAAAAAAGTTGACCGGGATGAAACCATACGAGT
CAACAAAAGAAAGATGTTGGCCAAGATGAAACCATACGAACCAAAAAAGGATGTTGACCAAGACA
AAACCATAAAGT
Found at i:2447701 original size:119 final size:120
Alignment explanation
Indices: 2447443--2447713 Score: 325
Period size: 119 Copynumber: 2.3 Consensus size: 120
2447433 AAAATTGATG
* ** *
2447443 AAGATGAAACCATAC-AAGCCAACAAAAGAAAA-GTATTGGCCGGGATAAAACCATATGAACCAA
1 AAGATGAAACCATACGAA-CCAAC-AAAGAAAAGGTGTTGGCCAAGACAAAACCATATGAACCAA
*
2447506 CAAAAAAAAGTTGACTGGGATGAAACCATACGAGTCAACAAAAGAAAGGTGTTGGCC
64 CAAAAAAAAGTTAACTGGGATGAAACCATACGAGTCAACAAAAGAAAGGTGTTGGCC
** * **
2447563 AAGATGAAACCATACGAACCAATGAAGAAAAGGTGTTGGCCAAGACAAAACCATATGTACCAATG
1 AAGATGAAACCATACGAACCAACAAAGAAAAGGTGTTGGCCAAGACAAAACCATATGAACCAACA
** * *
2447628 AAGGAAAGTTAACT-GGATGAAACCATACGAGTCAAC-GAAGAATGGGTGTTGGCC
66 AAAAAAAGTTAACTGGGATGAAACCATACGAGTCAACAAAAGAA-AGGTGTTGGCC
** * *
2447682 GGGATGCAACCATATGAACCAACAAAGAAAAG
1 AAGATGAAACCATACGAACCAACAAAGAAAAG
2447714 TTAACCGGGA
Statistics
Matches: 128, Mismatches: 20, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
118 5 0.04
119 65 0.51
120 56 0.44
121 2 0.02
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (120 bp):
AAGATGAAACCATACGAACCAACAAAGAAAAGGTGTTGGCCAAGACAAAACCATATGAACCAACA
AAAAAAAGTTAACTGGGATGAAACCATACGAGTCAACAAAAGAAAGGTGTTGGCC
Found at i:2448106 original size:118 final size:118
Alignment explanation
Indices: 2447856--2448212 Score: 385
Period size: 118 Copynumber: 3.0 Consensus size: 118
2447846 AACCATATGA
* * * * *
2447856 ACCAACAAAGGAAAGTTTATCGTGACGAAACCATATAAGTCAATGAATTAGAAAGGGTGTTGGCC
1 ACCAACGAAGGAAAGTTAATCGAGATGAAACCATATGAGTCAATGAA-TA-AAA--GTGTTGGCC
* * * *
2447921 GGGACAAAACTATATGAACCAACGAAGGAAGGTGTTGGTTGGGAGGAAACCATACAT
62 GAGACAAAACCATATGAACCAACGAAGGAAGGTGTTGGCTGGGATGAAACCATACAT
* * *
2447978 ACCAACGAAGGAATGTTAATCGAGATGAAACCATATGAGTCAATGAATAAAAG-GTTAGCCAAGA
1 ACCAACGAAGGAAAGTTAATCGAGATGAAACCATATGAGTCAATGAATAAAAGTGTTGGCCGAGA
* **
2448042 CAAAACCATATGAACCAAGGAAGGAGAGGTGTTGGCCAGGATGAAACCATACAT
66 CAAAACCATATGAACCAACGAAGGA-AGGTGTTGGCTGGGATGAAACCATACAT
* ** * * * * *
2448096 ACCAACGAAGGAAAGTTAA-CTGGGATGAAATTATACGGGTTAAAGAAGAAAAGATGTTGGCCGA
1 ACCAACGAAGGAAAGTTAATC-GAGATGAAACCATATGAGTCAATGAATAAAAG-TGTTGGCCGA
* * **
2448160 GACAAAACCAGATGAACTAATAAAGGAAAGGTGTTGGCTGGGATGAAACCATA
64 GACAAAACCATATGAACCAACGAAGG-AAGGTGTTGGCTGGGATGAAACCATA
2448213 TGTACCAATG
Statistics
Matches: 198, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
117 32 0.16
118 67 0.34
120 55 0.28
121 3 0.02
122 41 0.21
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (118 bp):
ACCAACGAAGGAAAGTTAATCGAGATGAAACCATATGAGTCAATGAATAAAAGTGTTGGCCGAGA
CAAAACCATATGAACCAACGAAGGAAGGTGTTGGCTGGGATGAAACCATACAT
Found at i:2448220 original size:120 final size:119
Alignment explanation
Indices: 2447093--2448212 Score: 375
Period size: 120 Copynumber: 9.4 Consensus size: 119
2447083 AACCGAGATG
** * * * * * *
2447093 AAACCATATGAGTCAACAAAGAAAAGGTGTTGGTTAGGATGAAACCATATGA-ACCAACGAAAGA
1 AAACCATATGAACCAACGAAGGAAAGGTGTTGGCTGGGATGAAACCATA-CATACCAACGAAGGA
* * * *
2447157 AAGTTGATCTAGATGAAACCATACGAGTCAACA-AAGGAAAAGTGTTGGCTGGGACA
65 AAGTTAATCGAGATGAAACCATACGAGTCAA-AGAA-GAAAAGTGTTGGCCGAGACA
** * * * * * *
2447213 AAACCATACAAACCAACAAAAGAAA---GTTGACCGGGATGAAACCATACGAGTTAACAGAGGAA
1 AAACCATATGAACCAACGAAGGAAAGGTGTTGGCTGGGATGAAACCATAC-A--TACCA-ACGAA
* * ** * ** * * *
2447275 AG-ATGTTGGTCAAGATGAAACCATACGAACCAACA-AAG--GA-TGTT-GACTAGGACA
62 GGAAAGTTAATCGAGATGAAACCATACGAGTCAA-AGAAGAAAAGTGTTGGCCGA-GACA
* * * * * * * *
2447329 AAACCATA-CAAGTCAACAAAGGAAAGGTGTTGGCCGAGATGAAACCATATGA-ACTAACAAAGG
1 AAACCATATGAA-CCAACGAAGGAAAGGTGTTGGCTGGGATGAAACCATA-CATACCAACGAAGG
** * * * * * * **
2447392 AAAGATGTAGGCCGAGACGAAACCATACGTA-CCAAGGAAGGAAAATTGAT-G--AAGATG
64 AAAG-T-TA-ATCGAGATGAAACCATACG-AGTCAAAGAA-GAAAAGTGTTGGCCGAGACA
* * * * * * * * * **
2447449 AAACCATA-CAAGCCAACAAAAGAAAAGTATTGGCCGGGATAAAACCATATGA-ACCAACAAAAA
1 AAACCATATGAA-CCAACGAAGGAAAGGTGTTGGCTGGGATGAAACCATA-CATACCAACGAAGG
* * * * * **
2447512 AAAGTTGA-CTGGGATGAAACCATACGAGTCAACAAAAGAAAGGTGTTGGCCAAGATG
64 AAAGTTAATC-GAGATGAAACCATACGAGTCAA-AGAAGAAAAGTGTTGGCCGAGACA
* * * *** ** ** *
2447569 AAACCATACGAACCAATGAAGAAAAGGTGTTGGCCAAGACAAAACCATATGTACCAATGAAGGAA
1 AAACCATATGAACCAACGAAGGAAAGGTGTTGGCTGGGATGAAACCATACATACCAACGAAGGAA
* ** * **
2447634 AGTTAA-CTG-GATGAAACCATACGAGTCAACGAAGAATGGGTGTTGGCCGGGATG
66 AGTTAATC-GAGATGAAACCATACGAGTCAAAGAAGAA-AAGTGTTGGCCGAGACA
* * * ** * * * *
2447688 CAACCATATGAACCAAC-AAAGAAA--AGTTAACCGGGA--CAACCATACA-AGTCAATGAAGAG
1 AAACCATATGAACCAACGAAGGAAAGGTGTTGGCTGGGATGAAACCATACATA-CCAACGAAG-G
*** ** * ** * * * * *
2447747 GGTGTTGGTCGAAATGAAACCATACGAACCAATGAAG--GAGAGTTGACCTAGACA
64 AAAGTTAATCGAGATGAAACCATACGAGTCAAAGAAGAAAAGTGTTGGCCGAGACA
* * * * * * ** * *
2447801 AAACCGTA-CAAGTCAACGAATTAGAAAAGGTGTTGGCCGAGACAAAACCATATGA-ACCAACAA
1 AAACCATATGAA-CCAACG-A--AGGAAAGGTGTTGGCTGGGATGAAACCATA-CATACCAACGA
* * * ** * * *
2447864 AGGAAAGTTTATCGTGACGAAACCATATAAGTCAATGAATTAGAAAGGGTGTTGGCCGGGACA
61 AGGAAAGTTAATCGAGATGAAACCATACGAGTCAAAG-A--AGAAA-AGTGTTGGCCGAGACA
* * *
2447927 AAACTATATGAACCAACGAAGG-AAGGTGTTGGTTGGGAGGAAACCATACATACCAACGAAGGAA
1 AAACCATATGAACCAACGAAGGAAAGGTGTTGGCTGGGATGAAACCATACATACCAACGAAGGAA
* * * * * *
2447991 TGTTAATCGAGATGAAACCATATGAGTCAATGAATAAAAG-GTTAGCCAAGACA
66 AGTTAATCGAGATGAAACCATACGAGTCAAAGAAGAAAAGTGTTGGCCGAGACA
* * **
2448044 AAACCATATGAACCAAGGAAGGAGAGGTGTTGGCCAGGATGAAACCATACATACCAACGAAGGAA
1 AAACCATATGAACCAACGAAGGAAAGGTGTTGGCTGGGATGAAACCATACATACCAACGAAGGAA
* ** * *
2448109 AGTTAA-CTGGGATGAAATTATACGGGTTAAAGAAGAAAAGATGTTGGCCGAGACA
66 AGTTAATC-GAGATGAAACCATACGAGTCAAAGAAGAAAAG-TGTTGGCCGAGACA
* * **
2448164 AAACCAGATGAACTAATAAAGGAAAGGTGTTGGCTGGGATGAAACCATA
1 AAACCATATGAACCAACGAAGGAAAGGTGTTGGCTGGGATGAAACCATA
2448213 TGTACCAATG
Statistics
Matches: 748, Mismatches: 196, Indels: 112
0.71 0.19 0.11
Matches are distributed among these distances:
112 2 0.00
113 21 0.03
114 15 0.02
115 13 0.02
116 62 0.08
117 79 0.11
118 82 0.11
119 104 0.14
120 249 0.33
121 25 0.03
122 63 0.08
123 8 0.01
125 1 0.00
126 22 0.03
127 2 0.00
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.16
Consensus pattern (119 bp):
AAACCATATGAACCAACGAAGGAAAGGTGTTGGCTGGGATGAAACCATACATACCAACGAAGGAA
AGTTAATCGAGATGAAACCATACGAGTCAAAGAAGAAAAGTGTTGGCCGAGACA
Found at i:2450473 original size:16 final size:15
Alignment explanation
Indices: 2450454--2450483 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
2450444 TCAAAAAAAG
2450454 TGTTTTGTTTTTTTTT
1 TGTTTT-TTTTTTTTT
2450470 TGTTTTTTTTTTTT
1 TGTTTTTTTTTTTT
2450484 GTAAACTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TGTTTTTTTTTTTTT
Found at i:2450479 original size:13 final size:13
Alignment explanation
Indices: 2450461--2450485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2450451 AAGTGTTTTG
2450461 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
2450474 TTTTTTTTTTGT
1 TTTTTTTTTTGT
2450486 AAACTTCTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:2450482 original size:12 final size:11
Alignment explanation
Indices: 2450456--2450481 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2450446 AAAAAAAGTG
2450456 TTTTGTTTTTT
1 TTTTGTTTTTT
2450467 TTTTGTTTTTT
1 TTTTGTTTTTT
2450478 TTTT
1 TTTT
2450482 TTGTAAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:2451314 original size:21 final size:21
Alignment explanation
Indices: 2451288--2451327 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2451278 ATTTTATGCT
* *
2451288 ATTTTTCGTTTTTCTTTTTCC
1 ATTTTTCCTCTTTCTTTTTCC
2451309 ATTTTTCCTCTTTCTTTTT
1 ATTTTTCCTCTTTCTTTTT
2451328 TCTTCTTATT
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:0.05, C:0.20, G:0.03, T:0.72
Consensus pattern (21 bp):
ATTTTTCCTCTTTCTTTTTCC
Found at i:2452527 original size:22 final size:22
Alignment explanation
Indices: 2452499--2452543 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2452489 TGTAATACAA
2452499 ACAAATATATACAAAAAGGTTC
1 ACAAATATATACAAAAAGGTTC
2452521 ACAAATATATACAAAAAGGTTC
1 ACAAATATATACAAAAAGGTTC
2452543 A
1 A
2452544 AAGACAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.13, G:0.09, T:0.22
Consensus pattern (22 bp):
ACAAATATATACAAAAAGGTTC
Found at i:2454502 original size:6 final size:6
Alignment explanation
Indices: 2454493--2454531 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
2454483 GTTAACTTTA
* *
2454493 ATTTTG ATTTTA ATTTTG ATTTTA ATTTTG ATTTT- ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
2454532 AGTTTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:2454506 original size:12 final size:12
Alignment explanation
Indices: 2454489--2454555 Score: 93
Period size: 12 Copynumber: 5.6 Consensus size: 12
2454479 AAGTGTTAAC
2454489 TTTAATTTTGAT
1 TTTAATTTTGAT
2454501 TTTAATTTTGAT
1 TTTAATTTTGAT
2454513 TTTAATTTTGAT
1 TTTAATTTTGAT
*
2454525 TTT-ATTTAG-T
1 TTTAATTTTGAT
2454535 TTTAATATTTGAT
1 TTTAAT-TTTGAT
2454548 ATTTAATT
1 -TTTAATT
2454556 ATAATTCTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
10 4 0.08
11 7 0.14
12 30 0.61
13 2 0.04
14 6 0.12
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (12 bp):
TTTAATTTTGAT
Found at i:2455303 original size:156 final size:157
Alignment explanation
Indices: 2455124--2455849 Score: 737
Period size: 156 Copynumber: 4.6 Consensus size: 157
2455114 AAAAGACTTA
* ** * * *
2455124 AAAATGATTATAAATGGGGCGAACCTGTCCTAAATACACACCTTTGGCATAAAAACATC-CAAGT
1 AAAATGATCATAAATGGGATGAACCTATCCTAAATACACACCTTCGGCATAAAAGCATCTC-AGT
* *
2455188 GACAACCTAGGACTTGGTTCTAGAAAAATTATGAAAATGCCCTTAGGGTATACCTTCGACATGAA
65 GACAACCTAAGACTTGATTCTAGAAAAATTATGAAAATGCCCTTAGGGTATACCTTCGACATGAA
2455253 AGTATCCCGA-TAACCCTAATAGG-CACT
130 AGTATCCCGAGTAACCCTAAT-GGACACT
* * * * * *
2455280 AAAATAATCATAAATTGG-TCGAACCTATCCTAAATGCACACCATCGGCATAAAAGCGTCTCGGT
1 AAAATGATCATAAATGGGAT-GAACCTATCCTAAATACACACCTTCGGCATAAAAGCATCTCAGT
* * *
2455344 GACAACCTAAGACTTGATTCTAAAAAAAATTATGAAAATGCCCTCAGGGTATACCTTCGACATTA
65 GACAACCTAAGACTTGATTCT-AGAAAAATTATGAAAATGCCCTTAGGGTATACCTTCGACATGA
* * *
2455409 AAGTATCTC-AGTAACCCTAATAGATACT
129 AAGTATCCCGAGTAACCCTAATGGACACT
* * * * * * * * *
2455437 AACATGATCATAAATGGGATAAACCTATCCTAAACACACACATTTGACATGAAAGTATC-CTAAT
1 AAAATGATCATAAATGGGATGAACCTATCCTAAATACACACCTTCGGCATAAAAGCATCTC-AGT
* * * * * * *
2455501 GACAACCTAAGACTTGATTTCAAG-AAAATTACGAAAATGTCCTT-GGGTTATACTTTTGATATT
65 GACAACCTAAGACTTGA-TTCTAGAAAAATTATGAAAATGCCCTTAGGG-TATACCTTCGACATG
*
2455564 AAAGTAT--CTAGTAACCCTAATGGACACT
128 AAAGTATCCCGAGTAACCCTAATGGACACT
* * *
2455592 AAAATGATCATAAATTGGATGAACCTATCCTAAATGCACACCTTCGGCATAAAAGCATCTCGGTG
1 AAAATGATCATAAATGGGATGAACCTATCCTAAATACACACCTTCGGCATAAAAGCATCTCAGTG
* * * *
2455657 ACAACCTAAAACTCGATTCTAGGAAAATTAT-AAGAATG-CCTTGAGGGTATACCTTGGACATGA
66 ACAACCTAAGACTTGATTCTAGAAAAATTATGAA-AATGCCCTT-AGGGTATACCTTCGACATGA
* * *
2455720 AAATAT-CCTAGTAACTCTAATGGACACT
129 AAGTATCCCGAGTAACCCTAATGGACACT
* * * * * *
2455748 AAAATGATCATAAATGGGATAAACATATCCAAAATACACACATTCGGCA-AGAAAGCATCTTAAT
1 AAAATGATCATAAATGGGATGAACCTATCCTAAATACACACCTTCGGCATA-AAAGCATCTCAGT
* *
2455812 TACAACCTAAGACTCGATT-TCA-AAAGAATTATGAAAAT
65 GACAACCTAAGACTTGATTCT-AGAAA-AATTATGAAAAT
2455850 ACCTAAAGGA
Statistics
Matches: 472, Mismatches: 78, Indels: 40
0.80 0.13 0.07
Matches are distributed among these distances:
154 12 0.03
155 117 0.25
156 212 0.45
157 127 0.27
158 4 0.01
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.26
Consensus pattern (157 bp):
AAAATGATCATAAATGGGATGAACCTATCCTAAATACACACCTTCGGCATAAAAGCATCTCAGTG
ACAACCTAAGACTTGATTCTAGAAAAATTATGAAAATGCCCTTAGGGTATACCTTCGACATGAAA
GTATCCCGAGTAACCCTAATGGACACT
Done.