Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 112 of 349
Found at i:35202714 original size:27 final size:27
Alignment explanation
Indices: 35202677--35202860 Score: 212
Period size: 27 Copynumber: 6.8 Consensus size: 27
35202667 TTACCCTCGA
* *
35202677 TTGTGAAATTACTAAAATACCCC-AGT
1 TTGTAAAATTACCAAAATACCCCTAGT
** *
35202703 AGGATAGAATTACCAAAATACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTAGT
35202731 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
*
35202758 TTGTAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * *
35202785 TTGTGAAATTACCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
35202812 TTGTAAAATTACCAAAATACCCCT-GAT
1 TTGTAAAATTACCAAAATACCCCTAG-T
** *
35202839 TTACAAAATTACAAAAATACCC
1 TTGTAAAATTACCAAAATACCC
35202861 TTGACTTTCT
Statistics
Matches: 134, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
26 5 0.04
27 121 0.90
28 8 0.06
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:35202911 original size:27 final size:27
Alignment explanation
Indices: 35202872--35202923 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
35202862 TGACTTTCTA
35202872 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
35202899 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
35202924 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:35203007 original size:27 final size:27
Alignment explanation
Indices: 35202964--35203037 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
35202954 AAATGACTAA
*
35202964 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
35202991 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
35203018 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
35203038 TGATGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:35203890 original size:25 final size:25
Alignment explanation
Indices: 35203852--35203921 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
35203842 AGGAAGTGCT
* *
35203852 AAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
35203877 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
35203902 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
35203922 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:35203934 original size:24 final size:24
Alignment explanation
Indices: 35203851--35203934 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
35203841 GAGGAAGTGC
* *
35203851 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
35203876 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
35203900 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
35203924 TAAAAGAGGCT
1 TAAAAG-GGCT
35203935 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:35203945 original size:50 final size:50
Alignment explanation
Indices: 35203852--35203946 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
35203842 AGGAAGTGCT
**
35203852 AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
35203902 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTCTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
35203947 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:35204127 original size:42 final size:42
Alignment explanation
Indices: 35204068--35204159 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
35204058 TAGTCTCCCC
* ** *
35204068 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
35204110 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
35204152 AAAAGGGC
1 AAATGGGC
35204160 CTAAAGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:35204218 original size:31 final size:31
Alignment explanation
Indices: 35204183--35204297 Score: 214
Period size: 31 Copynumber: 3.7 Consensus size: 31
35204173 CATTTACAGT
35204183 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
35204214 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
35204245 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
35204276 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
35204298 TCAAGACTAA
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
30 5 0.06
31 78 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:35206635 original size:13 final size:13
Alignment explanation
Indices: 35206613--35206645 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35206603 AAGGGTTTGT
35206613 TTAT-TAAACTAA
1 TTATCTAAACTAA
35206625 TTATCTAAACTAA
1 TTATCTAAACTAA
*
35206638 TTAACTAA
1 TTATCTAA
35206646 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:35208287 original size:47 final size:45
Alignment explanation
Indices: 35208222--35208479 Score: 243
Period size: 46 Copynumber: 5.5 Consensus size: 45
35208212 GTGTCAATGC
*
35208222 CATGTCCCAGACATGGTCTTACACTGGCTCACATCTTAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCACATCTTAAGCCGATG
**
35208268 CCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGT-AGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCT--TAAGCCGATG
* * * *
35208316 CATGTCCCAAACATGTCTTACACTGGCTTACGTCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTTAA-GCCGATG
* * * * *
35208362 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTTAA-GCCGATG
* * * *
35208408 CCATGTCCCAGACATAGCCTTACACTGGCTCTCATAATGT-GGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCACAT-CT-TAAGCCGATG
35208456 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
35208480 AGGCAACAAT
Statistics
Matches: 181, Mismatches: 20, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 75 0.41
47 73 0.40
48 30 0.17
49 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTCACATCTTAAGCCGATG
Found at i:35208474 original size:140 final size:140
Alignment explanation
Indices: 35208222--35208479 Score: 358
Period size: 140 Copynumber: 1.8 Consensus size: 140
35208212 GTGTCAATGC
* * * * * *
35208222 CATGTCCCAGACATGGTCTTACACTGGCTCACATCTTAAGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAGACATAGCC
*
35208287 TTACACTAACTATCATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
66 TTACACTAACTATCATATCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
35208352 AAGGCCGATG
131 AAGGCCGATG
* *
35208362 CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACATAGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAA-GCCGATGCCATGTCCCAGACATAGC
** * * *
35208426 CTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
65 CTTACACTAACTATCAT-ATCGTAGCCGATGCATGTCCCAAACATGTCTTACACT
35208480 AGGCAACAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
139 20 0.20
140 81 0.79
141 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAGACATAGCC
TTACACTAACTATCATATCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
AAGGCCGATG
Found at i:35212690 original size:125 final size:127
Alignment explanation
Indices: 35212532--35212808 Score: 450
Period size: 127 Copynumber: 2.2 Consensus size: 127
35212522 GAACATAGAC
*
35212532 ATAATTAATATATGAATTTGATTCATACAAAATATT-ATTATATATA-TTTGACTGAAATTAATT
1 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTGACCGAAATTAATT
* * * *
35212595 AATATAATTAATTTTAGTCAAAATATAAAATACATGAAAATTTATATTTTTTTGGAAAGAAT
66 AATAAAATTAATTTTAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
*
35212657 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTGACCGAAATTAATT
1 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTGACCGAAATTAATT
* * *
35212722 AATAAAATTAATTTTGGTCAAAATATAAAAGAGATGGAAATTAATATTCTTTTGGAAAGAAT
66 AATAAAATTAATTTTAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
*
35212784 ATAATTAATGTATGAATTTGATTCA
1 ATAATTAATATATGAATTTGATTCA
35212809 AATATATTTT
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
125 36 0.26
126 9 0.06
127 95 0.68
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.41
Consensus pattern (127 bp):
ATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTGACCGAAATTAATT
AATAAAATTAATTTTAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
Found at i:35212850 original size:127 final size:126
Alignment explanation
Indices: 35212532--35212911 Score: 390
Period size: 127 Copynumber: 3.0 Consensus size: 126
35212522 GAACATAGAC
* *
35212532 ATAATTAATATATGAATTTGATTCATACAAAATATT-A-T-TATATATATTT-GACTGAAATTAA
1 ATAATTAATATATGAATTTGATTCATACAAAATATTAACTGTATATAT-TTTAAAC-AAAATTAA
* * * *
35212593 TTAATATAATTAATTTTAGTCAAAATATAAAATACATGAAAATTTATATTTTTTTGGAAAGAAT
64 TTAATA-AATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
* * * *
35212657 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTGACCGAAATTAATT
1 ATAATTAATATATGAATTTGATTCATACAAAATATTAACTGTATATATTTTAAACAAAATTAATT
* *
35212722 AATAAAATTAATTTTGGTCAAAATATAAAAGAGATGGAAATTAATATTCTTTTGGAAAGAAT
66 AAT-AAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
* * * *
35212784 ATAATTAATGTATGAATTTGATTC--A-AATATATTTTACTG-A-AT-TTGTTAATATAAACAGT
1 ATAATTAATATATGAATTTGATTCATACAAAATA-TTAACTGTATATATT-TTAA-ACAAA-A-T
* * * * * *
35212843 T-A-T-ATTAATTAATTTCGATCAAAATATAGAAGACATAAAAATTAGTATTCTTTTGGAAAGAA
61 TAATTAATAAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAA
35212905 T
126 T
35212906 ATAATT
1 ATAATT
35212912 CATTTTTCTA
Statistics
Matches: 221, Mismatches: 24, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
122 58 0.26
123 7 0.03
124 9 0.04
125 44 0.20
126 3 0.01
127 91 0.41
128 9 0.04
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (126 bp):
ATAATTAATATATGAATTTGATTCATACAAAATATTAACTGTATATATTTTAAACAAAATTAATT
AATAAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
Found at i:35214155 original size:40 final size:40
Alignment explanation
Indices: 35213983--35214148 Score: 253
Period size: 40 Copynumber: 4.2 Consensus size: 40
35213973 AACCCAAGTA
* * *
35213983 CCTTCGAGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
35214022 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
35214062 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCATGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
35214102 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35214142 CCTTCGG
1 CCTTCGG
35214149 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 12 0.10
40 103 0.90
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35215600 original size:14 final size:14
Alignment explanation
Indices: 35215578--35215620 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
35215568 TTTCATTTTG
35215578 TAACATAAAATTAT
1 TAACATAAAATTAT
*
35215592 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
35215605 TAACACAAAATAAT
1 TAACATAAAATTAT
35215619 TA
1 TA
35215621 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:35215614 original size:13 final size:13
Alignment explanation
Indices: 35215578--35215616 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
35215568 TTTCATTTTG
35215578 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
35215592 TAGCATAAAATAT
1 TAACATAAAATAT
*
35215605 TAACACAAAATA
1 TAACATAAAATA
35215617 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:35219809 original size:33 final size:33
Alignment explanation
Indices: 35219770--35219860 Score: 137
Period size: 33 Copynumber: 2.8 Consensus size: 33
35219760 ATCAGTAATG
* *
35219770 ATCTGGGCCTGAGCCCTATTCAGTATCAGTACA
1 ATCTGGGCCTTAGCCCTATACAGTATCAGTACA
*
35219803 ATCTGGGCCTTAGCCCTATACAGTATCAGTGCA
1 ATCTGGGCCTTAGCCCTATACAGTATCAGTACA
* *
35219836 GTTTGGGCCTTAGCCCTATACAGTA
1 ATCTGGGCCTTAGCCCTATACAGTA
35219861 GTAGTGTGGG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (33 bp):
ATCTGGGCCTTAGCCCTATACAGTATCAGTACA
Found at i:35219871 original size:28 final size:31
Alignment explanation
Indices: 35219773--35219873 Score: 100
Period size: 33 Copynumber: 3.2 Consensus size: 31
35219763 AGTAATGATC
* * * *
35219773 TGGGCCTGAGCCCTATTCAGTATCAGTACAATC
1 TGGGCCTTAGCCCTATACAG-ATCAGT-CAGTG
*
35219806 TGGGCCTTAGCCCTATACAGTATCAGTGCAGTT
1 TGGGCCTTAGCCCTATACAG-ATCAGT-CAGTG
35219839 TGGGCCTTAGCCCTATACAG-T-AGT-AGTG
1 TGGGCCTTAGCCCTATACAGATCAGTCAGTG
35219867 TGGGCCT
1 TGGGCCT
35219874 AAGTCATATG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
28 10 0.16
30 3 0.05
31 1 0.02
33 48 0.77
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.29
Consensus pattern (31 bp):
TGGGCCTTAGCCCTATACAGATCAGTCAGTG
Found at i:35224709 original size:24 final size:24
Alignment explanation
Indices: 35224677--35224725 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
35224667 TAAAGGGACA
35224677 TTATGATTAAAATATGATGTGTATG
1 TTATGATTAAAATATGAT-TGTATG
**
35224702 TTAT-ATTATTATATGATTGTATG
1 TTATGATTAAAATATGATTGTATG
35224725 T
1 T
35224726 ATTTGTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 11 0.50
25 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (24 bp):
TTATGATTAAAATATGATTGTATG
Found at i:35231683 original size:26 final size:26
Alignment explanation
Indices: 35231647--35231698 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
35231637 GAATCGGAAG
35231647 AAACAATGAGATCTCAGTACCCCCAC
1 AAACAATGAGATCTCAGTACCCCCAC
35231673 AAACAATGAGATCTCAGTACCCCCAC
1 AAACAATGAGATCTCAGTACCCCCAC
35231699 CTCTTTTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (26 bp):
AAACAATGAGATCTCAGTACCCCCAC
Found at i:35232110 original size:13 final size:13
Alignment explanation
Indices: 35232092--35232119 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35232082 GTATATATAA
35232092 ATATTATTATATT
1 ATATTATTATATT
35232105 ATATTATTATATT
1 ATATTATTATATT
35232118 AT
1 AT
35232120 TATAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:35236916 original size:42 final size:42
Alignment explanation
Indices: 35236870--35236951 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
35236860 GAGACATGGG
* * *
35236870 CGTGTGTCTTAGCCGA-GTGAGGTACACGGCCTAGCACACGGT
1 CGTGTGTCTCAGCC-ATGTGAGGCACACCGCCTAGCACACGGT
35236912 CGTGTGTCTCAGCCATGTGAGGCACACCGCCTAGCACACG
1 CGTGTGTCTCAGCCATGTGAGGCACACCGCCTAGCACACG
35236952 AGCATGTGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (42 bp):
CGTGTGTCTCAGCCATGTGAGGCACACCGCCTAGCACACGGT
Found at i:35239394 original size:2 final size:2
Alignment explanation
Indices: 35239381--35239418 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
35239371 TTTCGAGCAA
*
35239381 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
35239419 AATCTGTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:35242128 original size:2 final size:2
Alignment explanation
Indices: 35242121--35242167 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
35242111 CTACTCAATT
35242121 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
35242163 TC TC T
1 TC TC T
35242168 TCTTGCTGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:35243919 original size:77 final size:77
Alignment explanation
Indices: 35243792--35243946 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
35243782 AGAAACTCTA
35243792 TACTAGGAAATAGACTAATTATAGGGATGCTGTCCCTAAAACATCCTTAAAGTTAGGGATAGTAA
1 TACTAGGAAATAGACTAATTATAGGGATGCTGTCCCTAAAACATCCTTAAAGTTAGGGATAGTAA
35243857 TCAATAAAATAT
66 TCAATAAAATAT
35243869 TACTAGGAAATAGACTAATTATAGGGATGCTGTCCCTAAAACATCCTTAAAGTTAGGGATAGTAA
1 TACTAGGAAATAGACTAATTATAGGGATGCTGTCCCTAAAACATCCTTAAAGTTAGGGATAGTAA
35243934 TCAATAAAATAT
66 TCAATAAAATAT
35243946 T
1 T
35243947 TACAGACTCC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (77 bp):
TACTAGGAAATAGACTAATTATAGGGATGCTGTCCCTAAAACATCCTTAAAGTTAGGGATAGTAA
TCAATAAAATAT
Found at i:35245963 original size:33 final size:33
Alignment explanation
Indices: 35245921--35245985 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
35245911 ACTGAGTGGA
35245921 AGTGTTTGGTTGCTAGACAGGAGCTAGAATGTG
1 AGTGTTTGGTTGCTAGACAGGAGCTAGAATGTG
* *
35245954 AGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 AGTGTTTGGTTGCTAGACAGGAGCTAGAATGT
35245986 CAAGAAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.38, T:0.31
Consensus pattern (33 bp):
AGTGTTTGGTTGCTAGACAGGAGCTAGAATGTG
Found at i:35250262 original size:3 final size:3
Alignment explanation
Indices: 35250254--35250307 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
35250244 GATGTATCCA
* * * *
35250254 ATG ATG ATG ATG AGG ATG AGG ATG GTG ACG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
*
35250302 GTG ATG
1 ATG ATG
35250308 CAGCAAGTGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.02, G:0.41, T:0.28
Consensus pattern (3 bp):
ATG
Found at i:35258202 original size:42 final size:42
Alignment explanation
Indices: 35258155--35258298 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 42
35258145 AATAAAATAT
35258155 TATCTAGATAAATATTAAATTAAATTTAATATATCATATTAA
1 TATCTAGATAAATATTAAATTAAATTTAATATATCATATTAA
*
35258197 TATCTAGATAAATATTAAATT-AA--TAAAATA-C-TA-T--
1 TATCTAGATAAATATTAAATTAAATTTAATATATCATATTAA
* * *
35258231 TA---A-ATAAATATTTAATTTAATTTAATATCTCATATTAA
1 TATCTAGATAAATATTAAATTAAATTTAATATATCATATTAA
35258269 TATCTAGATAAATATTAAATTAAATATTAA
1 TATCTAGATAAATATTAAATTAAAT-TTAA
35258299 ATTCATTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
30 13 0.16
31 3 0.04
33 5 0.06
34 3 0.04
35 2 0.02
36 2 0.02
37 2 0.02
38 3 0.04
39 6 0.07
41 3 0.04
42 37 0.45
43 4 0.05
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (42 bp):
TATCTAGATAAATATTAAATTAAATTTAATATATCATATTAA
Found at i:35258257 original size:72 final size:73
Alignment explanation
Indices: 35258136--35258291 Score: 260
Period size: 72 Copynumber: 2.2 Consensus size: 73
35258126 ATCGCATTAG
* *
35258136 TATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATATCATATTAATATC
1 TATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATATCATATTAATATC
35258201 TAGATAAA
66 TAGATAAA
* * *
35258209 TATTAAATTAATAAAATACTAT-TAAATAAATATTTAATTTAATTTAATATCTCATATTAATATC
1 TATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATATCATATTAATATC
35258273 TAGATAAA
66 TAGATAAA
35258281 TATTAAATTAA
1 TATTAAATTAA
35258292 ATATTAAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 57 0.73
73 21 0.27
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (73 bp):
TATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATATCATATTAATATC
TAGATAAA
Found at i:35258292 original size:12 final size:12
Alignment explanation
Indices: 35258277--35258301 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35258267 AATATCTAGA
35258277 TAAATATTAAAT
1 TAAATATTAAAT
35258289 TAAATATTAAAT
1 TAAATATTAAAT
35258301 T
1 T
35258302 CATTAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:35262947 original size:46 final size:45
Alignment explanation
Indices: 35262893--35263023 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 45
35262883 ATGGTTGAGC
*
35262893 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-TATGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTAGGA
*** * *
35262937 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GACTAGGA
*
35262986 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35263024 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
44 1 0.01
46 33 0.46
47 32 0.45
48 1 0.01
49 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (45 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTAGGA
Found at i:35265736 original size:93 final size:93
Alignment explanation
Indices: 35265624--35265796 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
35265614 CGCCCATAAG
** *
35265624 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
35265689 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
35265717 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
35265782 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
35265797 CAAATATCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:35265792 original size:46 final size:46
Alignment explanation
Indices: 35265617--35265795 Score: 220
Period size: 46 Copynumber: 3.9 Consensus size: 46
35265607 TGTAACCCGC
* *
35265617 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* *
35265663 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATG-CTCG---CAT
* * *
35265713 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* *
35265756 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGC
35265796 CCAAATATCC
Statistics
Matches: 114, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 31 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
Found at i:35267798 original size:47 final size:46
Alignment explanation
Indices: 35267743--35267873 Score: 154
Period size: 47 Copynumber: 2.8 Consensus size: 46
35267733 CACAATCGAT
*
35267743 AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTTATCCC
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCC
* * * * * * *
35267789 GGAGTACCTATACCATGGCCCATAGCCAAATTAGGGTAGCTTTTCTC
1 -AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCC
* *
35267836 AATGTACCTATATCATGGCTCGTAGCCAAATCAAGGTA
1 AA-GTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
35267874 TTTTTCACAC
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
46 1 0.01
47 68 0.99
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (46 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCC
Found at i:35285720 original size:50 final size:50
Alignment explanation
Indices: 35285588--35285720 Score: 180
Period size: 50 Copynumber: 2.7 Consensus size: 50
35285578 CTGGTACGCA
* **
35285588 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGGTACACG
* * * *
35285637 TAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCTGAG-ACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCG-GTACACG
35285687 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
35285721 CACAATAGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
49 29 0.40
50 42 0.58
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGGTACACG
Found at i:35288463 original size:23 final size:23
Alignment explanation
Indices: 35288437--35288511 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
35288427 CTCAAGGGCA
35288437 TTACAGAATACACCACAAAGGCT
1 TTACAGAATACACCACAAAGGCT
* ** **
35288460 TTACAAAATATGCCACAAAGGAAA
1 TTACAGAATACACCACAAAGG-CT
* *
35288484 TCATAGAATACACCACAAAGGCT
1 TTACAGAATACACCACAAAGGCT
35288507 TTACA
1 TTACA
35288512 AAACATTACG
Statistics
Matches: 37, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
23 21 0.57
24 16 0.43
ACGTcount: A:0.47, C:0.23, G:0.12, T:0.19
Consensus pattern (23 bp):
TTACAGAATACACCACAAAGGCT
Found at i:35291919 original size:27 final size:27
Alignment explanation
Indices: 35291888--35292037 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
35291878 TTAGTTTACC
* *
35291888 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
35291915 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
35291942 AAATTACACAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
35291969 AAATTACAAAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
35291996 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
35292023 AAATTACTGAAATAC
1 AAATTACTGAAATAC
35292038 TCCTGTAAGA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.04
27 96 0.91
28 5 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:35292036 original size:81 final size:82
Alignment explanation
Indices: 35291888--35292041 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 82
35291878 TTAGTTTACC
** *
35291888 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACACAA
1 AAATTACAAAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACACAA
35291953 ATA-TCCTCGATTTGTA
66 ATACTCCTCGATTTGTA
** * * * **
35291969 AAATTACAAAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACTGA
1 AAATTACAAAAATACCCTCAACTTGCAAAATTAC-CAAAGTACCCCCGATTTATAAAATTACACA
35292033 AATACTCCT
65 AATACTCCT
35292042 GTAAGATAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 54 0.89
82 7 0.11
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (82 bp):
AAATTACAAAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACACAA
ATACTCCTCGATTTGTA
Found at i:35292055 original size:54 final size:51
Alignment explanation
Indices: 35291888--35292056 Score: 126
Period size: 54 Copynumber: 3.1 Consensus size: 51
35291878 TTAGTTTACC
* * * * *
35291888 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCG-ATTTAT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTA-CAAAATA-CCCTGTA-TGAT
** * *
35291941 AAAATTACACAAATATCCTCGATTTGTAAAATTACAAAAATACCCTCAGTTTGCA-
1 -AAATTACTGAAATACCCTCGATTTGTAAAATTAC-AAAATACCCT--GTATG-AT
* *
35291996 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACTCCTGTAAGAT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTAC-AAAATAC-CCTGTATGAT
35292049 AGAATTAC
1 A-AATTAC
35292057 CATTTTACCC
Statistics
Matches: 91, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
52 1 0.01
53 8 0.09
54 76 0.84
55 5 0.05
56 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (51 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACAAAATACCCTGTATGAT
Found at i:35292077 original size:27 final size:27
Alignment explanation
Indices: 35292047--35292230 Score: 278
Period size: 27 Copynumber: 6.8 Consensus size: 27
35292037 CTCCTGTAAG
35292047 ATAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
*
35292074 ATAGAATTATCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
*
35292101 ATAGAATTACTATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
* *
35292128 ACAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
* *
35292155 ATAGAATTACTATTTTACCCTTGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
* * *
35292182 ACAGAATTACCGTCTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
*
35292209 ACAGAATTACCATTTTACCCTC
1 ATAGAATTACCATTTTACCCTC
35292231 AATGTAAAAA
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
ATAGAATTACCATTTTACCCTCGATTT
Found at i:35292082 original size:81 final size:82
Alignment explanation
Indices: 35291997--35292287 Score: 209
Period size: 81 Copynumber: 3.6 Consensus size: 82
35291987 CAGTTTGCAA
* * *
35291997 AATTACTGA-AATACCCTCGATTTGTAAAATTACTGA-AATACTCCT-G-TAAGATAGAATTACC
1 AATTACTCATAATACCCTCGATTTATAAAATTACT-ATAATAC-CCTCGAT-AGACAGAATTACC
35292058 ATTTTACCCTCGATTTATAG
63 ATTTTACCCTCGATTTATAG
** * ** ** *
35292078 AATTA-TCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTT
1 AATTACTCATAATACCCTCGATTTATAAAATTACTATAATACCCTCGATAGACAGAATTACCATT
35292142 TTACCCTCGATTTATAG
66 TTACCCTCGATTTATAG
** * * * ** ** **
35292159 AATTACT-ATTTTACCCTTGATTTACAGAATTACCGTCTTACCCTCGATTTACAGAATTACCATT
1 AATTACTCATAATACCCTCGATTTATAAAATTACTATAATACCCTCGATAGACAGAATTACCATT
* * * *
35292223 TTACCCTCAATGTAAAA
66 TTACCCTCGATTTATAG
* * * * * * *
35292240 AATTACTGA-AATACCATTGGTTTACAAAATTACCAAAATACCCTCGAT
1 AATTACTCATAATACCCTCGATTTATAAAATTACTATAATACCCTCGAT
35292288 CAATAAAATT
Statistics
Matches: 174, Mismatches: 30, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
80 6 0.03
81 165 0.95
82 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (82 bp):
AATTACTCATAATACCCTCGATTTATAAAATTACTATAATACCCTCGATAGACAGAATTACCATT
TTACCCTCGATTTATAG
Found at i:35292264 original size:54 final size:54
Alignment explanation
Indices: 35292206--35292336 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 54
35292196 TTACCCTCGA
* *** * **
35292206 TTTACAGAATTACCATTTTACCCTCAATGTAA-AAAATTACTGAAATACCATTGG
1 TTTACAAAATTACCAAAATACCCTCAAT-CAATAAAATTACCAAAATACCATTGG
*
35292260 TTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATACCATTGG
1 TTTACAAAATTACCAAAATACCCTCAATCAATAAAATTACCAAAATACCATTGG
**
35292314 TTTGTAAAATTACCAAAATACCC
1 TTTACAAAATTACCAAAATACCC
35292337 CTACTTTGTG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
53 2 0.03
54 64 0.97
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.30
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTCAATCAATAAAATTACCAAAATACCATTGG
Found at i:35292268 original size:27 final size:27
Alignment explanation
Indices: 35292238--35292335 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
35292228 CTCAATGTAA
** *
35292238 AAAATTACTGAAATACCATTGGTTTAC
1 AAAATTACCAAAATACCATTGGTTTAT
* * * **
35292265 AAAATTACCAAAATACCCTCGATCAAT
1 AAAATTACCAAAATACCATTGGTTTAT
*
35292292 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCATTGGTTTAT
35292319 AAAATTACCAAAATACC
1 AAAATTACCAAAATACC
35292336 CCTACTTTGT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCATTGGTTTAT
Found at i:35292344 original size:27 final size:26
Alignment explanation
Indices: 35292265--35292363 Score: 81
Period size: 27 Copynumber: 3.7 Consensus size: 26
35292255 ATTGGTTTAC
* ***
35292265 AAAATTACCAAAATACCCTCGATCAAT
1 AAAATTACCAAAATACCC-CTATTTGT
** *
35292292 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCCT-ATTTGT
35292319 AAAATTACCAAAATACCCCTACTTTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
* **
35292346 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
35292364 TTGTAGGGTA
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.27
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCTATTTGT
Found at i:35292378 original size:27 final size:27
Alignment explanation
Indices: 35292348--35292597 Score: 374
Period size: 27 Copynumber: 9.3 Consensus size: 27
35292338 TACTTTGTGA
* *
35292348 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
35292375 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
35292402 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
35292429 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
35292456 AATAACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
35292483 AATTAGCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
35292510 AATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
35292537 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
35292564 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
35292591 AATTACC
1 AATTACC
35292598 ATTTTGCCCT
Statistics
Matches: 203, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 203 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:35292598 original size:54 final size:54
Alignment explanation
Indices: 35292317--35292598 Score: 345
Period size: 54 Copynumber: 5.2 Consensus size: 54
35292307 CCATTGGTTT
* ** *
35292317 GTAAAATTACCAAAATACCCCTACT-TTGT-GAAATTACTGAAATACCCTTGTAGG
1 GTAAAATTACCAAAATACCCCT-GTAGGGTAG-AATTACCGAAATACCCTTGTAGG
* * * * *
35292371 GTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGG
1 GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * *
35292425 GTAGAATTACCGAAATACCCCTGTAGGGTAGAATAACCGAAATACCCCTGTAGG
1 GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * *
35292479 GTAGAATTAGCGAAATACCCCTGTAGGGTAGAATGACCGAAATACCCTTGTAGG
1 GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* *
35292533 GTAGAAA-TACCAAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGG
1 GTA-AAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
35292587 GTAAAATTACCA
1 GTAAAATTACCA
35292599 TTTTGCCCTT
Statistics
Matches: 205, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
53 4 0.02
54 198 0.97
55 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (54 bp):
GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:35292607 original size:27 final size:27
Alignment explanation
Indices: 35292577--35292639 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
35292567 TACCGAGATA
*
35292577 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
** * * *
35292604 CCCTTAAGGTGTTAAATGACTATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
35292631 CCCTTGTGG
1 CCCTTGTGG
35292640 CCAAGTGACT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:35293030 original size:25 final size:25
Alignment explanation
Indices: 35293002--35293066 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
35292992 CATTCACATT
* * *
35293002 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
*
35293027 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
*
35293052 TTGATTCTGATTCTG
1 CTGATTCTGATTCTG
35293067 ATTCTAGTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:35293038 original size:6 final size:6
Alignment explanation
Indices: 35292999--35293080 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
35292989 TTGCATTCAC
* * * *
35292999 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
35293049 ATTTTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
35293081 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
5 4 0.07
6 46 0.79
7 6 0.10
8 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:35297043 original size:49 final size:49
Alignment explanation
Indices: 35296978--35297112 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 49
35296968 ATCTGGTATG
* *
35296978 CATAGTAGCCTACACTTAGTACTACACATGCGACCAACA-ATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACATATCGGGTACA
* * * * * * *
35297027 CGTAGTAGCCCGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCACA--TATCGGGTACA
35297078 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
35297113 TCACAATAGA
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
48 3 0.04
49 29 0.42
51 37 0.54
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCACATATCGGGTACA
Found at i:35304658 original size:43 final size:43
Alignment explanation
Indices: 35304603--35304774 Score: 206
Period size: 43 Copynumber: 4.0 Consensus size: 43
35304593 ATATCGTACA
*
35304603 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
35304646 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCACATATCA
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
** * *
35304689 ATGCCAACGTCTTAAATGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
35304732 ATG-AAATTGTCCCAGACATGGTCTTACACGTAATCATATATCG
1 ATGCCAA-CGTCCCAGACGTGGTCTTACACGTAATCACATATCG
35304775 GAATCACATA
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
42 5 0.05
43 101 0.93
44 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:35304746 original size:86 final size:86
Alignment explanation
Indices: 35304601--35304773 Score: 256
Period size: 86 Copynumber: 2.0 Consensus size: 86
35304591 ACATATCGTA
* * **
35304601 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAGG
1 CAATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGAAACTGTCCCAGACAGG
35304666 GTCTTACACGTAATCACATAT
66 GTCTTACACGTAATCACATAT
** * * *
35304687 CAATGCCAACGTCTTAAATGTGGTCTTACACGTAATCACATATCGATGAAATTGTCCCAGACATG
1 CAATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGAAACTGTCCCAGACAGG
*
35304752 GTCTTACACGTAATCATATAT
66 GTCTTACACGTAATCACATAT
35304773 C
1 C
35304774 GGAATCACAT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (86 bp):
CAATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGAAACTGTCCCAGACAGG
GTCTTACACGTAATCACATAT
Found at i:35309784 original size:27 final size:27
Alignment explanation
Indices: 35309753--35309930 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35309743 TAAATTGTAC
35309753 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35309780 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35309806 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35309834 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35309862 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35309889 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35309916 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35309931 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35309867 original size:82 final size:81
Alignment explanation
Indices: 35309754--35309909 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35309744 AAATTGTACA
* *
35309754 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35309818 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35309835 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35309900 TGCGAGTTGA
65 TGCGAATTGA
35309910 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35309921 original size:82 final size:81
Alignment explanation
Indices: 35309750--35309930 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35309740 GATTAAATTG
* *
35309750 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35309815 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35309831 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35309895 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35309913 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35309931 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35318001 original size:27 final size:27
Alignment explanation
Indices: 35317970--35318147 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35317960 TAAATTGTAC
35317970 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35317997 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35318023 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35318051 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35318079 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35318106 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35318133 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35318148 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35318084 original size:82 final size:81
Alignment explanation
Indices: 35317971--35318126 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35317961 AAATTGTACA
* *
35317971 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35318035 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35318052 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35318117 TGCGAGTTGA
65 TGCGAATTGA
35318127 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35318138 original size:82 final size:81
Alignment explanation
Indices: 35317967--35318147 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35317957 GATTAAATTG
* *
35317967 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35318032 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35318048 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35318112 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35318130 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35318148 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35322294 original size:28 final size:28
Alignment explanation
Indices: 35322261--35322324 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
35322251 TCAGTGAATA
* *
35322261 AAATATTGAGAATGGCACTTAGTGTGCG
1 AAATATTGAGAATGACACTTAGTGTGAG
*
35322289 AGATATTGAGAATGACACTTAGTGTGAG
1 AAATATTGAGAATGACACTTAGTGTGAG
35322317 AAATATTG
1 AAATATTG
35322325 TAACACCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.30
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGTGTGAG
Found at i:35327771 original size:46 final size:46
Alignment explanation
Indices: 35327704--35327829 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
35327694 AACCCGCCCC
* * *
35327704 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
35327750 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
35327796 TAGGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
35327830 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:35328286 original size:30 final size:30
Alignment explanation
Indices: 35328252--35328311 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
35328242 ATTTAATATG
35328252 AACTTTGGAAAAATTAAACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
* * * *
35328282 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
35328312 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTAAACTTTTGCCCCTA
Found at i:35338624 original size:16 final size:16
Alignment explanation
Indices: 35338605--35338636 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35338595 AATTATTTTA
35338605 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
35338621 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
35338637 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:35338917 original size:50 final size:50
Alignment explanation
Indices: 35338846--35339229 Score: 389
Period size: 50 Copynumber: 7.6 Consensus size: 50
35338836 CCGGTACGCA
* * *
35338846 TAGTAGCCTGCACTTATTACTACACATGCGACCTATCAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * * *
35338896 TAGTAGCCTACACTTAGTACTACACATGTGACTTAACCATCTGATACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* ** * *
35338946 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT-TAT-TGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCT-GGTACACG
* *
35338997 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * *
35339047 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * * * *
35339097 TGGTAGCCTGCACTTAGTACTACATATGTGA-TTGAAGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--A-TCAATCTGGTACACG
* * *
35339148 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTGCACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* *
35339198 TAGTAGCCTGCACTTAGCACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC
35339230 TCACAATGAA
Statistics
Matches: 271, Mismatches: 53, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
49 6 0.02
50 187 0.69
51 76 0.28
52 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
Found at i:35339018 original size:101 final size:100
Alignment explanation
Indices: 35338838--35339230 Score: 341
Period size: 101 Copynumber: 3.9 Consensus size: 100
35338828 GAAGCTCTCC
* * * * * * * **
35338838 GGTACGCATAGTAGCCTGCACTTATTACTACACATGCGACCT-ATCAATCTGGTACATGTAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CTGAACCATCTGATACACATAGTAG
* *
35338902 CCTACACTTAGTACTACACATGTGACTTAACCATCT
65 CCTGCACTTAGTACTACACATGTGACTTAACAATCT
* ** *
35338938 GATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-TCGAAGTTAT-TGGGTACACATAGT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACT-GAA-CCATCT-GATACACATAGT
* * *
35339001 AGCCTGCACTTAGTACTACACATGCGACCTATCAATCT
63 AGCCTGCACTTAGTACTACACATGTGACTTAACAATCT
** * * *
35339039 GGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTGGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTGAACCATCTGATACACATAGTAGC
* * *
35339104 CTGCACTTAGTACTACATATGTGA-TTGAAGTTAA-CG
66 CTGCACTTAGTACTACACATGTGACTT-AA--CAATCT
* * * * * * *
35339140 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT-ATCAATCT-AGTGCACGTAGTA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CTGAACCATCTGA-TACACATAGTA
* *
35339203 GCCTGCACTTAGCACTACACACGTGACT
64 GCCTGCACTTAGTACTACACATGTGACT
35339231 CACAATGAAT
Statistics
Matches: 239, Mismatches: 42, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
98 1 0.00
99 1 0.00
100 74 0.31
101 157 0.66
102 6 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTGAACCATCTGATACACATAGTAGC
CTGCACTTAGTACTACACATGTGACTTAACAATCT
Found at i:35339023 original size:26 final size:26
Alignment explanation
Indices: 35338940--35339023 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
35338930 AACCATCTGA
35338940 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
* * * * * **
35338966 TACACA-CGT-G-ATCGAAGTTATTGGG
1 TACACATAGTAGCCT-GCACTTAGT-AC
35338991 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
35339017 TACACAT
1 TACACAT
35339024 GCGACCTATC
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
23 1 0.03
24 7 0.18
25 8 0.21
26 15 0.38
27 7 0.18
28 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:35339103 original size:151 final size:151
Alignment explanation
Indices: 35338838--35339230 Score: 651
Period size: 151 Copynumber: 2.6 Consensus size: 151
35338828 GAAGCTCTCC
*
35338838 GGTACGCATAGTAGCCTGCACTTATTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGC
* *
35338903 CTACACTTAGTACTACACATGTGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
**
35338968 CACACGTGATCGAAGTTATTG
131 CACACGTGATCGAAGTTAACG
*
35338989 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGC
* *
35339054 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTGGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
* * *
35339119 CATATGTGATTGAAGTTAACG
131 CACACGTGATCGAAGTTAACG
* * *
35339140 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTGCACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGC
*
35339205 CTGCACTTAGCACTACACACGTGACT
66 CTGCACTTAGTACTACACACGTGACT
35339231 CACAATGAAT
Statistics
Matches: 226, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 226 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGC
CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAGTTAACG
Found at i:35339606 original size:19 final size:20
Alignment explanation
Indices: 35339578--35339624 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
35339568 AAGAACAGGT
35339578 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
35339599 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
35339618 TATATAT
1 TATATAT
35339625 ATTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:35342135 original size:15 final size:14
Alignment explanation
Indices: 35342115--35342160 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
35342105 ATACCAGGAT
*
35342115 TAAGAAGTCCAAGA
1 TAAGAAATCCAAGA
*
35342129 TAGAGAAATCCAAGT
1 TA-AGAAATCCAAGA
35342144 TAAGGAAATCCAAGA
1 TAA-GAAATCCAAGA
35342159 TA
1 TA
35342161 CAATATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 24 0.89
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (14 bp):
TAAGAAATCCAAGA
Found at i:35344075 original size:21 final size:21
Alignment explanation
Indices: 35344049--35344091 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
35344039 CCTTCATCAT
35344049 TTCTTTTATGAAAAAATAGAC
1 TTCTTTTATGAAAAAATAGAC
35344070 TTCTTTTATGAAAAAATAGAC
1 TTCTTTTATGAAAAAATAGAC
35344091 T
1 T
35344092 CATTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
TTCTTTTATGAAAAAATAGAC
Found at i:35344214 original size:16 final size:16
Alignment explanation
Indices: 35344195--35344226 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35344185 AATTGTTTTA
35344195 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
35344211 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
35344227 ACTCTATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:35344512 original size:50 final size:50
Alignment explanation
Indices: 35344437--35344769 Score: 257
Period size: 50 Copynumber: 6.6 Consensus size: 50
35344427 CTAGTACGCA
* * *
35344437 TAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACATG
** * * * * * *
35344487 TAGTAGAATGCACTTAGTTCTACACACATGACTTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACATG
* * * * ** *
35344537 TAGTATCCTGCACTTAGTACTACACACGTGACTTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACATG
** * *
35344587 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA-CGGGT--ATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACATG
* ** * **
35344636 CATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTAAACA
1 --TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACATG
** * *
35344688 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGT--ATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACATG
35344737 CATAGTAGCCTGCACTTAGTACTAC-CACGTGAC
1 --TAGTAGCCTGCACTTAGTACTACACACGTGAC
35344770 TCACAACGAA
Statistics
Matches: 227, Mismatches: 45, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
49 7 0.03
50 154 0.68
51 61 0.27
52 5 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACATG
Found at i:35344662 original size:51 final size:51
Alignment explanation
Indices: 35344587--35344768 Score: 248
Period size: 51 Copynumber: 3.6 Consensus size: 51
35344577 CTAATACACG
35344587 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTATGCA
** * **
35344638 TAGTAGCCTGCACTTAGTACTACACA--TG--CAACCTATCAATCTGGTAAACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT-T-AA-CGGGTATGCA
*
35344688 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAACGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTATGCA
35344739 TAGTAGCCTGCACTTAGTACTAC-CACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
35344769 CTCACAACGA
Statistics
Matches: 113, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
47 4 0.04
48 1 0.01
49 4 0.04
50 40 0.35
51 56 0.50
52 4 0.04
53 1 0.01
54 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTATGCA
Found at i:35344663 original size:101 final size:101
Alignment explanation
Indices: 35344537--35344770 Score: 353
Period size: 101 Copynumber: 2.3 Consensus size: 101
35344527 CTGATACATG
* * * *
35344537 TAGTATCCTGCACTTAGTACTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTAATAAACATAGTAGCCTGCACTT
35344602 AGTACTACACACGTGATCAAAGTTAACGGGTATGCA
66 AGTACTACACACGTGATCAAAGTTAACGGGTATGCA
* ** * * **
35344638 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTAAACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTAATAAACATAGTAGCCTGCACTT
*
35344703 AGTACTACACACGTGATCGAAGTTAACGGGTATGCA
66 AGTACTACACACGTGATCAAAGTTAACGGGTATGCA
35344739 TAGTAGCCTGCACTTAGTACTAC-CACGTGACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT
35344771 CACAACGAAT
Statistics
Matches: 117, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 5 0.04
101 112 0.96
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTAATAAACATAGTAGCCTGCACTT
AGTACTACACACGTGATCAAAGTTAACGGGTATGCA
Found at i:35345439 original size:30 final size:30
Alignment explanation
Indices: 35345381--35345436 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
35345371 CAAAAATCAT
* *
35345381 ACTTTTACAAATTTGCATTTTGAGCCCTAA
1 ACTTTCACAAATTTGCACTTTGAGCCCTAA
*
35345411 ACTTTCACATATTTGCACTTTG-GCCC
1 ACTTTCACAAATTTGCACTTTGAGCCC
35345437 CTAGGCTCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 19 0.83
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (30 bp):
ACTTTCACAAATTTGCACTTTGAGCCCTAA
Found at i:35351643 original size:122 final size:122
Alignment explanation
Indices: 35351423--35351679 Score: 379
Period size: 122 Copynumber: 2.1 Consensus size: 122
35351413 CGGCATTTTT
* * *
35351423 TGGCCTTTAGCGGCGCTTTTAAGCGCCCCTATAACTATTTACGGCACAACGCCACTATAGAAAAT
1 TGGCCTTTAGCGACGCTTTTAAGCGCCCCTAGAACTATTTACGGCACAACGCCACTATAGAAAAC
*
35351488 GCCGCAAAAGATCATGACTTTTAGCGGCATTTGTGGGAGAAGCGCCGCTAAAAGACA
66 GCCGCAAAAGATCATGACTTTTAGCGGCATTTGTGGGAGAAGCACCGCTAAAAGACA
* * * * * *
35351545 TGGCCTTTAGCGATGCTTTTAAGCGCCCCTAGAACTATTTGCGGCGCAACGCCGCTGTAGCAAAC
1 TGGCCTTTAGCGACGCTTTTAAGCGCCCCTAGAACTATTTACGGCACAACGCCACTATAGAAAAC
* * * *
35351610 GCTGCAAAAGATCATGACTTTTAGCGGCGTTTGTGGGAGAAGCACCGTTAAAAGTCA
66 GCCGCAAAAGATCATGACTTTTAGCGGCATTTGTGGGAGAAGCACCGCTAAAAGACA
35351667 TGGCCTTTTAGCG
1 TGGCC-TTTAGCG
35351680 GCGTTTGTGG
Statistics
Matches: 120, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
122 113 0.94
123 7 0.06
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (122 bp):
TGGCCTTTAGCGACGCTTTTAAGCGCCCCTAGAACTATTTACGGCACAACGCCACTATAGAAAAC
GCCGCAAAAGATCATGACTTTTAGCGGCATTTGTGGGAGAAGCACCGCTAAAAGACA
Found at i:35351707 original size:43 final size:42
Alignment explanation
Indices: 35351615--35351740 Score: 164
Period size: 44 Copynumber: 2.9 Consensus size: 42
35351605 CAAACGCTGC
* *
35351615 AAAAGATCATGACTTTTAGCGGCGTTTGTGGGAGAAGCACCGTT
1 AAAAG-TCATGGCTTTTAGCGGCGTTTGTGGGGGAAGCACCG-T
*
35351659 AAAAGTCATGGCCTTTTAGCGGCGTTTGTGGGGGAAGCGCGCG-
1 AAAAGTCATGG-CTTTTAGCGGCGTTTGTGGGGGAAGCAC-CGT
* *
35351702 AAAAGTCATGGCTTTTAGCGGTGTTTTTGGGGGAAGCAC
1 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGGGAAGCAC
35351741 TGTGAAAGGT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
42 25 0.34
43 16 0.22
44 31 0.42
45 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (42 bp):
AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGGGAAGCACCGT
Found at i:35351874 original size:31 final size:31
Alignment explanation
Indices: 35351830--35351888 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
35351820 CCTACATTAT
*
35351830 ATCCAACCGAAAACAACAAATATAGCATGAA
1 ATCCAACCAAAAACAACAAATATAGCATGAA
* * *
35351861 ATCCAACTAAAAACAGCAAATGTAGCAT
1 ATCCAACCAAAAACAACAAATATAGCAT
35351889 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.53, C:0.22, G:0.10, T:0.15
Consensus pattern (31 bp):
ATCCAACCAAAAACAACAAATATAGCATGAA
Found at i:35353598 original size:41 final size:41
Alignment explanation
Indices: 35353541--35353776 Score: 366
Period size: 41 Copynumber: 5.8 Consensus size: 41
35353531 TTAGCGCTGA
*
35353541 CTCAACAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGG
1 CTCAA-AAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG
* * * * * * *
35353583 CTCGAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTCG
1 CTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG
*
35353623 CTCAAAAACCCTTCGAGACCAAGCTCGGATTATGACACTGG
1 CTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG
35353664 CTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG
1 CTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG
*
35353705 CTCAAAAGCCCTTCGAGAACAAGCTCGGATTATGACACTGG
1 CTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG
35353746 CTCAAAAGCCCTTCGAGACCAAGCTCGGATT
1 CTCAAAAGCCCTTCGAGACCAAGCTCGGATT
35353777 TAAACCCAAA
Statistics
Matches: 174, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
40 31 0.18
41 139 0.80
42 4 0.02
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (41 bp):
CTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG
Found at i:35353692 original size:122 final size:124
Alignment explanation
Indices: 35353541--35353776 Score: 379
Period size: 122 Copynumber: 1.9 Consensus size: 124
35353531 TTAGCGCTGA
* * * *
35353541 CTCAACAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCTCGAAGGCCCTTCGA-AACTAG
1 CTCAACAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAGAAC-AA
*
35353605 GTTCGG-TTATGACACTCGCTCAAAAACCCTTCGAGACCAAGCTCGGATTATGACACTGG
65 GCTCGGATTATGACACTCGCTCAAAAACCCTTCGAGACCAAGCTCGGATTATGACACTGG
35353664 CTCAA-AAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAGAACAAG
1 CTCAACAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAGAACAAG
* *
35353728 CTCGGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATT
66 CTCGGATTATGACACTCGCTCAAAAACCCTTCGAGACCAAGCTCGGATT
35353777 TAAACCCAAA
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
122 55 0.53
123 49 0.47
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (124 bp):
CTCAACAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAGAACAAG
CTCGGATTATGACACTCGCTCAAAAACCCTTCGAGACCAAGCTCGGATTATGACACTGG
Found at i:35362017 original size:41 final size:41
Alignment explanation
Indices: 35361956--35362043 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
35361946 GAGGTTCGAG
35361956 TCGG-TTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGC
1 TCGGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGC
35361996 TCGGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGC
1 TCGGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGC
35362037 TCGGATT
1 TCGGATT
35362044 TAAACCCCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.09
41 43 0.91
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (41 bp):
TCGGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGC
Found at i:35367639 original size:55 final size:56
Alignment explanation
Indices: 35367575--35367693 Score: 222
Period size: 55 Copynumber: 2.1 Consensus size: 56
35367565 ACAAGGGATG
35367575 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAAT-AAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
35367630 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
35367686 ATGGGCAA
1 ATGGGCAA
35367694 TAAACTAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 43 0.69
56 19 0.31
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:35424752 original size:40 final size:40
Alignment explanation
Indices: 35424668--35424890 Score: 287
Period size: 39 Copynumber: 5.7 Consensus size: 40
35424658 TTGAATGATG
* * * *
35424668 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35424708 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
35424748 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35424787 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35424827 TCC-GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35424867 -CC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35424891 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 91 0.55
40 66 0.40
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35424804 original size:79 final size:80
Alignment explanation
Indices: 35424668--35424890 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 80
35424658 TTGAATGATG
* * * * *
35424668 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
35424731 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
35424748 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
35424812 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* *
35424827 TCC-GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC-GGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
35424889 TG
65 TG
35424891 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
78 27 0.21
79 81 0.63
80 20 0.16
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:35424913 original size:78 final size:79
Alignment explanation
Indices: 35424675--35424923 Score: 242
Period size: 79 Copynumber: 3.2 Consensus size: 79
35424665 ATGTCCGGGC
* * * * * **
35424675 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCATTTGAACG
* *
35424738 AGAT-ACTAATTCCGGGC
64 AG-TGACTAAATCC-GGT
* **
35424755 TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG
*
35424819 TTACTAAATCCGGT
66 TGACTAAATCCGGT
*
35424833 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC-GGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGA
*
35424896 G-GAGCTATATCCGGT
65 GTGA-CTAAATCCGGT
* *
35424911 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
35424924 TACGTGATTT
Statistics
Matches: 147, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 53 0.36
79 80 0.54
80 13 0.09
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG
TGACTAAATCCGGT
Found at i:35427098 original size:24 final size:24
Alignment explanation
Indices: 35427071--35427117 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
35427061 ATATGTTGAC
*
35427071 ATTCAAATCAGCACGCATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
35427095 ATTCAACTCTGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
35427118 CATACTACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:35440836 original size:46 final size:46
Alignment explanation
Indices: 35440786--35440955 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
35440776 TTGAGCATCC
* *
35440786 GAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
* * * *
35440832 GAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCT
* * * * *
35440879 GAACTGGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
*
35440925 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35440956 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 1 0.01
46 54 0.55
47 27 0.27
48 1 0.01
49 2 0.02
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
Found at i:35440939 original size:93 final size:93
Alignment explanation
Indices: 35440780--35440950 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
35440770 GGATGGTTGA
* * *
35440780 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
35440845 TGAGTCCGAGTTCGTAAGATGTAACTAG
66 TGAGTCCGAGTTCGTAAGATGTAACTAG
* * * * * *
35440873 GCATCTGAACTGGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
35440938 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35440951 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTAAGATGTAACTAG
Found at i:35454403 original size:27 final size:27
Alignment explanation
Indices: 35454365--35454419 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
35454355 CTACTTTCAG
35454365 AATGAGGTATGGCCATTATGAATTCTT
1 AATGAGGTATGGCCATTATGAATTCTT
35454392 AATGAGGTATGGCCATTATGAATTCTT
1 AATGAGGTATGGCCATTATGAATTCTT
35454419 A
1 A
35454420 GTTATGCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (27 bp):
AATGAGGTATGGCCATTATGAATTCTT
Found at i:35459011 original size:31 final size:31
Alignment explanation
Indices: 35458976--35459052 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
35458966 ACGGCCAAAG
*
35458976 CACACTGGCGTGTCTTGTGTCACGGCCTAGA
1 CACACAGGCGTGTCTTGTGTCACGGCCTAGA
* * *
35459007 CACACGGGCCTGTCTTGTGTCACGGCCTCGA
1 CACACAGGCGTGTCTTGTGTCACGGCCTAGA
35459038 CACACAGGCGTGTCT
1 CACACAGGCGTGTCT
35459053 AATGTCGTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.16, C:0.32, G:0.29, T:0.23
Consensus pattern (31 bp):
CACACAGGCGTGTCTTGTGTCACGGCCTAGA
Found at i:35466973 original size:27 final size:28
Alignment explanation
Indices: 35466937--35467076 Score: 200
Period size: 27 Copynumber: 5.2 Consensus size: 28
35466927 AGAATAGCTG
* *
35466937 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
35466963 CCAGATACAGATA-TTGTGGCACAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
35466990 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
35467018 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
35467045 CCAGAT-CAGATATTTTTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
35467072 CCAGA
1 CCAGA
35467077 ACGCTTCCTC
Statistics
Matches: 105, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.78
28 18 0.17
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.20
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:35468321 original size:25 final size:22
Alignment explanation
Indices: 35468267--35468321 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
35468257 TTTCGGCCAG
35468267 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
35468289 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
35468314 AGGAAGAA
1 A-GAAGAA
35468322 TTCGGCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:35474872 original size:27 final size:28
Alignment explanation
Indices: 35474781--35474890 Score: 118
Period size: 27 Copynumber: 4.0 Consensus size: 28
35474771 TGGCTGCTAG
* * *
35474781 AACAGATA-TTGTGACAGAGTCACTAGA
1 AACAGATATTTGTGGCAGAGCCACCAGA
* *
35474808 TACAGA-AATTGTGGCAGAGCCACCAGA
1 AACAGATATTTGTGGCAGAGCCACCAGA
* * *
35474835 AACAGATATTTTTGGTAGAGCCACC-GG
1 AACAGATATTTGTGGCAGAGCCACCAGA
*
35474862 ATCAGATATTTGTGGCAGAGCCACCAGA
1 AACAGATATTTGTGGCAGAGCCACCAGA
35474890 A
1 A
35474891 CGCTTCCTCC
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.01
27 49 0.73
28 17 0.25
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (28 bp):
AACAGATATTTGTGGCAGAGCCACCAGA
Found at i:35479244 original size:7 final size:7
Alignment explanation
Indices: 35479232--35479261 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
35479222 TGCAAAAACG
35479232 ATCCAAA
1 ATCCAAA
35479239 ATCCAAA
1 ATCCAAA
35479246 ATCCAAA
1 ATCCAAA
*
35479253 GTCCAAA
1 ATCCAAA
35479260 AT
1 AT
35479262 AAAGTCCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.53, C:0.27, G:0.03, T:0.17
Consensus pattern (7 bp):
ATCCAAA
Found at i:35479711 original size:50 final size:51
Alignment explanation
Indices: 35479615--35479741 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 51
35479605 ACACCAAAAA
* * *
35479615 TATGGACAAGCCACCAGAT-ATTGCAG-TCAAGCTACCAAAAATAGAATAT
1 TATGGTCAAGCCACCAAATAATTGCAGATCAAGCTACCAAAAACAGAATAT
* * * *
35479664 TGTGGTCAAGCCACCAAATAATTGCAGATCAA-CTGCCATATACAGAATAT
1 TATGGTCAAGCCACCAAATAATTGCAGATCAAGCTACCAAAAACAGAATAT
* *
35479714 TATGGTCAAGCCACCTAA-AATCGCAGAT
1 TATGGTCAAGCCACCAAATAATTGCAGAT
35479742 ATACTATCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
49 25 0.38
50 37 0.56
51 4 0.06
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (51 bp):
TATGGTCAAGCCACCAAATAATTGCAGATCAAGCTACCAAAAACAGAATAT
Found at i:35482631 original size:30 final size:30
Alignment explanation
Indices: 35482597--35482656 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
35482587 CTTTAATACG
*
35482597 AACTTTGGAAAAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
35482627 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
35482657 GGATTGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:35486107 original size:18 final size:18
Alignment explanation
Indices: 35486084--35486129 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
35486074 CCCATTACAG
35486084 TAACAGTAAATAGTGCAA
1 TAACAGTAAATAGTGCAA
*
35486102 TAACAGTAAATAGTGCAG
1 TAACAGTAAATAGTGCAA
35486120 TAACAGTAAA
1 TAACAGTAAA
35486130 CAGTATGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (18 bp):
TAACAGTAAATAGTGCAA
Found at i:35486608 original size:80 final size:80
Alignment explanation
Indices: 35486451--35486673 Score: 286
Period size: 80 Copynumber: 2.8 Consensus size: 80
35486441 AAATGTATAT
* * *
35486451 CACATAGGGACAAAACAGTTAATTTACCATGTAGGGGCATTTCAATCATTTTACCAACTAGGGCA
1 CACATAAGGACAAAACAGTCAATTTACCATGTAGGGGTATTTCAATCATTTTACCAACTAGGGCA
*
35486516 AAACAGTTATTTTGC
66 AAACAGTCATTTTGC
* * * * * *
35486531 CACATAAGGTCAAAATAGTCAATTTACCATGTAAGGGTATTTCAGTCATTTTATCAAATA-GGCG
1 CACATAAGGACAAAACAGTCAATTTACCATGTAGGGGTATTTCAATCATTTTACCAACTAGGGC-
*
35486595 AAAATAGTCATTTTGC
65 AAAACAGTCATTTTGC
* * * * *
35486611 CATATAAGGGCAAAACAGTCAATTTTCCATGTAGGGGTATTTTACTCATTTTACCAACTAGGG
1 CACATAAGGACAAAACAGTCAATTTACCATGTAGGGGTATTTCAATCATTTTACCAACTAGGG
35486674 GGTCTAGGTA
Statistics
Matches: 121, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 3 0.02
80 116 0.96
81 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (80 bp):
CACATAAGGACAAAACAGTCAATTTACCATGTAGGGGTATTTCAATCATTTTACCAACTAGGGCA
AAACAGTCATTTTGC
Found at i:35486630 original size:53 final size:54
Alignment explanation
Indices: 35486510--35486636 Score: 123
Period size: 53 Copynumber: 2.4 Consensus size: 54
35486500 TTTACCAACT
* * * *
35486510 AGGGCAAAACAGTTATTTTGCCACATAAGGTCAAAATAGTCAATTTACCATGTA
1 AGGGCAAAACAGTCATTTTACCAAATAAGGTCAAAATAGTCAATTTACCATATA
* *** * * *
35486564 AGGGTATTTCAGTCATTTTATCAAAT-AGG-CGAAAATAGTCATTTTGCCATATA
1 AGGGCAAAACAGTCATTTTACCAAATAAGGTC-AAAATAGTCAATTTACCATATA
35486617 AGGGCAAAACAGTCAATTTT
1 AGGGCAAAACAGTC-ATTTT
35486637 CCATGTAGGG
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
52 1 0.02
53 32 0.57
54 23 0.41
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (54 bp):
AGGGCAAAACAGTCATTTTACCAAATAAGGTCAAAATAGTCAATTTACCATATA
Found at i:35486631 original size:27 final size:27
Alignment explanation
Indices: 35486496--35486640 Score: 93
Period size: 27 Copynumber: 5.4 Consensus size: 27
35486486 GGCATTTCAA
35486496 TCATTTTACCA-ACT-AGGGCAAAACAG
1 TCATTTTACCATA-TAAGGGCAAAACAG
* * * * *
35486522 TTATTTTGCCACATAAGGTCAAAATAG
1 TCATTTTACCATATAAGGGCAAAACAG
* * * ***
35486549 TCAATTTACCATGTAAGGGTATTTCAG
1 TCATTTTACCATATAAGGGCAAAACAG
* * *
35486576 TCATTTTATCAAAT-A-GGCGAAAATAG
1 TCATTTTACCATATAAGGGC-AAAACAG
*
35486602 TCATTTTGCCATATAAGGGCAAAACAG
1 TCATTTTACCATATAAGGGCAAAACAG
35486629 TCAATTTT-CCAT
1 TC-ATTTTACCAT
35486641 GTAGGGGTAT
Statistics
Matches: 85, Mismatches: 28, Indels: 11
0.69 0.23 0.09
Matches are distributed among these distances:
25 2 0.02
26 25 0.29
27 50 0.59
28 8 0.09
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (27 bp):
TCATTTTACCATATAAGGGCAAAACAG
Found at i:35488967 original size:41 final size:40
Alignment explanation
Indices: 35488840--35488984 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
35488830 CTCGCACAAG
* * * *
35488840 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
35488880 GCCTTCGGGACTTATCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
35488920 GCCTTC-GGATCTTAGTCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
35488961 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
35488985 CATTCGAATA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.63
41 28 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:35493089 original size:20 final size:20
Alignment explanation
Indices: 35493060--35493097 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35493050 GATCCAAAAA
*
35493060 TTATATATATACAAAACAAT
1 TTATACATATACAAAACAAT
*
35493080 TTATACATATACAGAACA
1 TTATACATATACAAAACA
35493098 TATAACACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.32
Consensus pattern (20 bp):
TTATACATATACAAAACAAT
Found at i:35495745 original size:52 final size:52
Alignment explanation
Indices: 35495667--35495772 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
35495657 GGTCAAACCC
* *
35495667 TAGATTTCTTTTATTTCTTTATTTTTATTAAGTTTGGGTCAAGAAGAAAGAT
1 TAGATTTCTTTTATTTCTTTAGTTTTATTAAGTTTCGGTCAAGAAGAAAGAT
35495719 TAGATTTCTTTTATTTCTTTAGTTTTATTAAGTTTCGGTCAAGAAGAAAGAT
1 TAGATTTCTTTTATTTCTTTAGTTTTATTAAGTTTCGGTCAAGAAGAAAGAT
35495771 TA
1 TA
35495773 TGAACATGGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (52 bp):
TAGATTTCTTTTATTTCTTTAGTTTTATTAAGTTTCGGTCAAGAAGAAAGAT
Found at i:35496346 original size:18 final size:18
Alignment explanation
Indices: 35496325--35496359 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35496315 CAGCAAACAG
*
35496325 TGCAATAACAGTAAATAA
1 TGCAATAACACTAAATAA
*
35496343 TGCAGTAACACTAAATA
1 TGCAATAACACTAAATA
35496360 GTATGCAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.23
Consensus pattern (18 bp):
TGCAATAACACTAAATAA
Found at i:35496717 original size:27 final size:27
Alignment explanation
Indices: 35496687--35496801 Score: 70
Period size: 27 Copynumber: 4.3 Consensus size: 27
35496677 ATCTATCACA
*
35496687 TAGGGGCAAAACAGTTAATTTACCATG
1 TAGGGGCAAAACAGTCAATTTACCATG
*** * **
35496714 TAGGGGCATTTCAGTCATTTTACCAAC
1 TAGGGGCAAAACAGTCAATTTACCATG
* * * **
35496741 TA-GGGCAAAACAGTTATTTTGCCACA
1 TAGGGGCAAAACAGTCAATTTACCATG
** * * *
35496767 TACAGGAAAAACAATCAATTTACAATG
1 TAGGGGCAAAACAGTCAATTTACCATG
35496794 TAGGGGCA
1 TAGGGGCA
35496802 TTTCAGTCAT
Statistics
Matches: 61, Mismatches: 26, Indels: 2
0.69 0.29 0.02
Matches are distributed among these distances:
26 19 0.31
27 42 0.69
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
TAGGGGCAAAACAGTCAATTTACCATG
Found at i:35496884 original size:79 final size:80
Alignment explanation
Indices: 35496684--35496901 Score: 305
Period size: 79 Copynumber: 2.7 Consensus size: 80
35496674 AACATCTATC
* * *
35496684 ACATAGGGGCAAAACAGTTAATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCAA
1 ACATAAGGGCAAAACAATCAATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCAA
* * *
35496749 AACAGTTATTTTGCC
66 AACAATCATTTTGCA
* *
35496764 ACATACA-GGAAAAACAATCAATTTACAATGTAGGGGCATTTCAGTCATTTTACCAACTAGGG-A
1 ACATA-AGGGCAAAACAATCAATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCA
*
35496827 AAATAATCATTTTGCA
65 AAACAATCATTTTGCA
* * *
35496843 ACATAAGGGCAAAATAATCAATTTACCATGTAGGGGTATTTCAGTCATTTAACCAACTA
1 ACATAAGGGCAAAACAATCAATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTA
35496902 AGGGGTCTAG
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 65 0.53
80 56 0.46
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (80 bp):
ACATAAGGGCAAAACAATCAATTTACCATGTAGGGGCATTTCAGTCATTTTACCAACTAGGGCAA
AACAATCATTTTGCA
Found at i:35510273 original size:50 final size:50
Alignment explanation
Indices: 35510205--35510442 Score: 296
Period size: 50 Copynumber: 4.7 Consensus size: 50
35510195 ACTGAAGCTC
* *
35510205 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAACAA
* * * *
35510255 TCTGGTACACATAATAGCCTGCACTTAGTACTACACATGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAACAA
* * ** * * * * *
35510305 TCAGATACATGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGCTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAA-CAA
* * *
35510356 TCGGGTACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCGAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAACAA
*
35510406 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
35510443 CGTGGCCTAA
Statistics
Matches: 158, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
50 119 0.75
51 39 0.25
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAACAA
Found at i:35510390 original size:101 final size:100
Alignment explanation
Indices: 35510216--35510446 Score: 309
Period size: 101 Copynumber: 2.3 Consensus size: 100
35510206 CTGGTACGCA
* * * * *
35510216 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACATAATAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAATCGGGTACACATAATAGCCAGCACTT
* * * *
35510281 AGTACTACACATGTGACCTAACCATCAGATACATG
66 AGTACTACACATGCGACCGAACAATCAGATACACG
* * * * *
35510316 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGCTATCGGGTACGCATAGTAGCCAGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CAATCGGGTACACATAATAGCCAGCACT
* *
35510381 TAGTACTACACATGCGACCGAACAATCTGGTACACG
65 TAGTACTACACATGCGACCGAACAATCAGATACACG
35510417 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
35510447 GCCTAAAACC
Statistics
Matches: 113, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 31 0.27
101 82 0.73
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAATCGGGTACACATAATAGCCAGCACTT
AGTACTACACATGCGACCGAACAATCAGATACACG
Found at i:35512985 original size:24 final size:23
Alignment explanation
Indices: 35512895--35513019 Score: 173
Period size: 22 Copynumber: 5.4 Consensus size: 23
35512885 TAGCTCGTAT
*
35512895 GAGCTTACTGTTTCAGCTCATTA
1 GAGCTTACTGTTTCAGCTCAATA
35512918 GAGCTTACTGTTT-AGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
*
35512940 GAGCTTACTATTT-AGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
*
35512962 GAGCTTACTGTTTTCAGCTTAATA
1 GAGCTTACTG-TTTCAGCTCAATA
*
35512986 GAGCTTACTGTTATCAGCTCAAAAA
1 GAGCTTACTGTT-TCAGCTC-AATA
35513011 GAGCTTACT
1 GAGCTTACT
35513020 TGCCATATCT
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
22 38 0.41
23 18 0.20
24 24 0.26
25 12 0.13
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:35514367 original size:14 final size:16
Alignment explanation
Indices: 35514348--35514385 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
35514338 AGAAAATGAA
*
35514348 GATATATGACA-A-GT
1 GATATATGAAATATGT
35514362 GATATATGAAATATGT
1 GATATATGAAATATGT
35514378 GATATATG
1 GATATATG
35514386 TTATGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (16 bp):
GATATATGAAATATGT
Found at i:35514820 original size:50 final size:49
Alignment explanation
Indices: 35514692--35514869 Score: 180
Period size: 50 Copynumber: 3.6 Consensus size: 49
35514682 TGTGAGGTTG
*** * *
35514692 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTA-CC--AGACTGTAGGTCA
* **
35514743 CGTGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGA-TGGTGAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACT-GT-AGGTCA
* * * **
35514793 CATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACTGTTGGTTG
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCA
35514842 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
35514870 TGCGTACCAG
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 30 0.28
50 40 0.38
51 31 0.29
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCA
Found at i:35517909 original size:15 final size:15
Alignment explanation
Indices: 35517889--35517944 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
35517879 GTATCTTGGG
35517889 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
35517904 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
35517919 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
35517934 TTTCTTTATTC
1 TTTCTTTATTC
35517945 GTTTTCTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 4 0.11
15 27 0.77
16 4 0.11
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:35520211 original size:50 final size:49
Alignment explanation
Indices: 35520087--35520273 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 49
35520077 TGAGGTCGCA
* * * * *
35520087 TGTGTAGTACTAAGTGCAGGCTACTATGCGCACCCGAATACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
35520138 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * *
35520188 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
*
35520237 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
35520274 TAGCTTCGGC
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 42 0.36
51 30 0.26
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:35522679 original size:40 final size:40
Alignment explanation
Indices: 35522581--35522882 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
35522571 TCCTCGTTCA
* * * * *
35522581 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
35522620 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35522660 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35522700 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35522740 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
35522780 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
35522820 AAGGCCTTC-GGATCTT-ATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
35522859 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35522883 CAGCATTCAA
Statistics
Matches: 238, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 59 0.25
40 179 0.75
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35530263 original size:40 final size:40
Alignment explanation
Indices: 35530165--35530375 Score: 331
Period size: 40 Copynumber: 5.4 Consensus size: 40
35530155 TCCTCGTTCA
* * * * *
35530165 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
35530204 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35530244 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35530284 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35530324 AATGCCTTCGGGACTTAACCCGGATTTAAT--CTCGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35530361 AATGCCTTCGGGACT
1 AATGCCTTCGGGACT
35530376 CTTAGTATCT
Statistics
Matches: 164, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
37 15 0.09
38 7 0.04
39 34 0.21
40 108 0.66
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35534970 original size:34 final size:32
Alignment explanation
Indices: 35534932--35535004 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 32
35534922 TTATACCATG
* *
35534932 ATTAAACATTAATTAATA-TTATTTAATTAACTTA
1 ATTAAACATTAATT-ATACTAATTTAACT-A-TTA
**
35534966 ATTAAAGTTTAATTATACTAATTTAACTATTA
1 ATTAAACATTAATTATACTAATTTAACTATTA
35534998 ATTAAAC
1 ATTAAAC
35535005 TAAGTTGGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
32 9 0.27
33 4 0.12
34 20 0.61
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.45
Consensus pattern (32 bp):
ATTAAACATTAATTATACTAATTTAACTATTA
Found at i:35534978 original size:20 final size:19
Alignment explanation
Indices: 35534953--35535007 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
35534943 ATTAATATTA
*
35534953 TTTAATTAACTTAATTAAAG
1 TTTAATTAAC-TAATTAAAC
*
35534973 TTTAATTATACTAATTTAAC
1 TTTAATTA-ACTAATTAAAC
35534993 TATTAATTAAACTAA
1 T-TTAATT-AACTAA
35535008 GTTGGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 16 0.53
21 13 0.43
22 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTAATTAACTAATTAAAC
Found at i:35535664 original size:13 final size:13
Alignment explanation
Indices: 35535646--35535670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35535636 AAACAGTAGG
35535646 CAATCAATCTAAA
1 CAATCAATCTAAA
35535659 CAATCAATCTAA
1 CAATCAATCTAA
35535671 CTCTTTCAAT
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:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (13 bp):
CAATCAATCTAAA
Found at i:35541961 original size:47 final size:47
Alignment explanation
Indices: 35541883--35542236 Score: 549
Period size: 47 Copynumber: 7.6 Consensus size: 47
35541873 CCCTTCGGGA
* * * * * *
35541883 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35541930 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35541977 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35542024 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35542073 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35542120 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35542167 CTTATCACATATATACACTTTCACA-T--T---ATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35542208 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
35542237 TATTCAAATA
Statistics
Matches: 290, Mismatches: 12, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
41 22 0.08
43 17 0.06
44 2 0.01
46 1 0.00
47 202 0.70
49 46 0.16
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35542152 original size:143 final size:143
Alignment explanation
Indices: 35541883--35542236 Score: 548
Period size: 143 Copynumber: 2.5 Consensus size: 143
35541873 CCCTTCGGGA
* * * * * * *
35541883 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
35541946 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
35542011 TCGGTCATTAGGC
131 TCGGCCATTAGGC
35542024 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
35542089 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
35542154 TCGGCCATTAGGC
131 TCGGCCATTAGGC
35542167 CTTATCAC--ATATATACACTTTCACA-T--T---ATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
35542224 ACACTTTCACATT
64 ACACTTTCACATT
35542237 TATTCAAATA
Statistics
Matches: 201, Mismatches: 8, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
135 22 0.11
137 19 0.09
138 1 0.00
140 1 0.00
141 27 0.13
142 1 0.00
143 130 0.65
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:35546566 original size:40 final size:40
Alignment explanation
Indices: 35546509--35546782 Score: 263
Period size: 40 Copynumber: 6.9 Consensus size: 40
35546499 CGAATACACG
* * * * *
35546509 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * *
35546549 ACACCAGCACGAATGCTCTTCGGG-GTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
35546588 TCACTAGCACGAATGCTCTTC-GAACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
35546627 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * **
35546667 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * **
35546707 GTAACTCGCACCAATGC-CTTC-GGATCTTAGTCCGGATATGG
1 -TCACTAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATA-CA
*
35546748 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCACGAATGCTCTTCGGGACTTAGCCCGGA
35546783 CATCATTCGA
Statistics
Matches: 195, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 65 0.33
40 110 0.56
41 19 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Done.