Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold56
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: 1793205
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 19648 characters in sequence are not A, C, G, or T
File 2 of 11
Found at i:166049 original size:27 final size:27
Alignment explanation
Indices: 166012--166102 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 27
166002 TTTAAAAGAA
166012 AAAG-GTGCCACGGAGTTGTGGGCTTT
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
* *
166038 AAAGAGTGCCACGGAGTTGTGGACTTA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
166065 AAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT
1 AAA-G----A-GTGCCACGGAGTTGTGGGCTTT
166098 AAAGA
1 AAAGA
166103 AAAAATGCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
26 4 0.07
27 23 0.43
28 2 0.04
32 2 0.04
33 23 0.43
ACGTcount: A:0.29, C:0.14, G:0.35, T:0.22
Consensus pattern (27 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:166139 original size:30 final size:31
Alignment explanation
Indices: 166106--166225 Score: 163
Period size: 31 Copynumber: 3.9 Consensus size: 31
166096 TTAAAGAAAA
166106 AATGCCACTGAGTCGTGGACTTTGAGACAA-
1 AATGCCACTGAGTCGTGGACTTTGAGACAAG
* *
166136 AATGCCACTGAGTCGTGGACTTTAAAGAGAAG
1 AATGCCACTGAGTCGTGGACTTT-GAGACAAG
* *
166168 GATGCCACTGCGTCGTGGACTTTGAG-CAGAG
1 AATGCCACTGAGTCGTGGACTTTGAGACA-AG
*
166199 ATTGCCACTGAGTCGTGGACTTTGAGA
1 AATGCCACTGAGTCGTGGACTTTGAGA
166226 AGAGATTTGA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
30 24 0.31
31 32 0.42
32 21 0.27
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (31 bp):
AATGCCACTGAGTCGTGGACTTTGAGACAAG
Found at i:166184 original size:62 final size:63
Alignment explanation
Indices: 166077--166230 Score: 197
Period size: 62 Copynumber: 2.4 Consensus size: 63
166067 AGGAACAAGG
* * *
166077 TGCCACGGAGTTGTGGGCTTTAAAGA-AAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAG-CAGAGAA
** * *
166138 TGCCACTGAGTCGTGGACTTTAAAGAGAAGGATGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAA
166201 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTT-A-AAGAGA
166231 TTTGAAGAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
61 25 0.31
62 27 0.33
63 22 0.27
64 1 0.01
65 6 0.07
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.23
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAGCAGAGAA
Found at i:170873 original size:52 final size:52
Alignment explanation
Indices: 170792--170912 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
170782 TGAAGAGTTA
*
170792 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
170844 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
170896 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
170913 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:170925 original size:52 final size:51
Alignment explanation
Indices: 170792--170932 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
170782 TGAAGAGTTA
170792 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
170844 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
170896 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
170933 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:170939 original size:13 final size:13
Alignment explanation
Indices: 170921--170945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
170911 CAAAGATCAG
170921 TGTATCGATACAA
1 TGTATCGATACAA
170934 TGTATCGATACA
1 TGTATCGATACA
170946 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:171029 original size:13 final size:13
Alignment explanation
Indices: 171011--171035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171001 CAAAAAAATA
171011 TGTATCGATACAT
1 TGTATCGATACAT
171024 TGTATCGATACA
1 TGTATCGATACA
171036 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:171031 original size:33 final size:33
Alignment explanation
Indices: 170989--171055 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
170979 AGTAGCTTAA
170989 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
171022 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
171055 A
1 A
171056 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:178916 original size:535 final size:535
Alignment explanation
Indices: 177907--178976 Score: 2104
Period size: 535 Copynumber: 2.0 Consensus size: 535
177897 CATCCCAACC
* *
177907 TCGCTTACTTTATCTTCCTAGACATTGTCTGTGACTTGCGAGGTACTATGACCATCCTCCACGGC
1 TCGCTTACTTTATCTTCCTAGACATTGTCTGTGACTTGCGAGGTACTACGACCATCCTCCACGAC
*
177972 ATGCTTTTTAGCTGCTTCTTTGAGGCAAATGGCGCTGATGTGTCATGTGACGCTGAGATTTCCAT
66 ATGCTTTTTAGCCGCTTCTTTGAGGCAAATGGCGCTGATGTGTCATGTGACGCTGAGATTTCCAT
178037 TTCACGATCGCATATTCTAGGATCTAAAACCATGGCCAAGATTGGCTATGAAGTGAAACGCGGAT
131 TTCACGATCGCATATTCTAGGATCTAAAACCATGGCCAAGATTGGCTATGAAGTGAAACGCGGAT
178102 CATTGGTGGCGAGACGACATGTGGATGAGCCTCCATAACGAGACAATGTGCTTGAAGAAGAACAA
196 CATTGGTGGCGAGACGACATGTGGATGAGCCTCCATAACGAGACAATGTGCTTGAAGAAGAACAA
178167 GCAATGGAAGCCGACGCGCCTCCTCCTCTACCTTTGGCACCTTCAGCAACTCCATCAATACGAGA
261 GCAATGGAAGCCGACGCGCCTCCTCCTCTACCTTTGGCACCTTCAGCAACTCCATCAATACGAGA
178232 GTTGATCACGTCACTTTCTCAGCGTGTAGATCAGTACTTCAGCTCCTTAAACCAACACATTGATT
326 GTTGATCACGTCACTTTCTCAGCGTGTAGATCAGTACTTCAGCTCCTTAAACCAACACATTGATT
178297 CGATAGATGCTCGACTCAACAAAATCGAGCATCACCTCTCCTTAACTCCAACTAACTCTAGTGAC
391 CGATAGATGCTCGACTCAACAAAATCGAGCATCACCTCTCCTTAACTCCAACTAACTCTAGTGAC
178362 GATGAGTCATAGGATTAGTCTTTATAATAAGAGTAGTCGTATTTGTTTTTGCTTACTTTTGTGAC
456 GATGAGTCATAGGATTAGTCTTTATAATAAGAGTAGTCGTATTTGTTTTTGCTTACTTTTGTGAC
178427 TATCTTTGTAATTAG
521 TATCTTTGTAATTAG
178442 TCGCTTACTTTATCTTCCTAGACATTGTCTGTGACTTGCGAGGTACTACGACCATCCTCCACGAC
1 TCGCTTACTTTATCTTCCTAGACATTGTCTGTGACTTGCGAGGTACTACGACCATCCTCCACGAC
178507 ATGCTTTTTAGCCGCTTCTTTGAGGCAAATGGCGCTGATGTGTCATGTGACGCTGAGATTTCCAT
66 ATGCTTTTTAGCCGCTTCTTTGAGGCAAATGGCGCTGATGTGTCATGTGACGCTGAGATTTCCAT
178572 TTCACGATCGCATATTCTAGGATCTAAAACCATGGCCAAGATTGGCTATGAAGTGAAACGCGGAT
131 TTCACGATCGCATATTCTAGGATCTAAAACCATGGCCAAGATTGGCTATGAAGTGAAACGCGGAT
178637 CATTGGTGGCGAGACGACATGTGGATGAGCCTCCATAACGAGACAATGTGCTTGAAGAAGAACAA
196 CATTGGTGGCGAGACGACATGTGGATGAGCCTCCATAACGAGACAATGTGCTTGAAGAAGAACAA
178702 GCAATGGAAGCCGACGCGCCTCCTCCTCTACCTTTGGCACCTTCAGCAACTCCATCAATACGAGA
261 GCAATGGAAGCCGACGCGCCTCCTCCTCTACCTTTGGCACCTTCAGCAACTCCATCAATACGAGA
*
178767 GTTGATCACGTCACTTTCTCAGCGTGTGGATCAGTACTTCAGCTCCTTAAACCAACACATTGATT
326 GTTGATCACGTCACTTTCTCAGCGTGTAGATCAGTACTTCAGCTCCTTAAACCAACACATTGATT
178832 CGATAGATGCTCGACTCAACAAAATCGAGCATCACCTCTCCTTAACTCCAACTAACTCTAGTGAC
391 CGATAGATGCTCGACTCAACAAAATCGAGCATCACCTCTCCTTAACTCCAACTAACTCTAGTGAC
178897 GATGAGTCATAGGATTAGTCTTTATAATAAGAGTAGTCGTATTTGTTTTTGCTTACTTTTGTGAC
456 GATGAGTCATAGGATTAGTCTTTATAATAAGAGTAGTCGTATTTGTTTTTGCTTACTTTTGTGAC
178962 TATCTTTGTAATTAG
521 TATCTTTGTAATTAG
178977 ACTTTATGCT
Statistics
Matches: 531, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
535 531 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (535 bp):
TCGCTTACTTTATCTTCCTAGACATTGTCTGTGACTTGCGAGGTACTACGACCATCCTCCACGAC
ATGCTTTTTAGCCGCTTCTTTGAGGCAAATGGCGCTGATGTGTCATGTGACGCTGAGATTTCCAT
TTCACGATCGCATATTCTAGGATCTAAAACCATGGCCAAGATTGGCTATGAAGTGAAACGCGGAT
CATTGGTGGCGAGACGACATGTGGATGAGCCTCCATAACGAGACAATGTGCTTGAAGAAGAACAA
GCAATGGAAGCCGACGCGCCTCCTCCTCTACCTTTGGCACCTTCAGCAACTCCATCAATACGAGA
GTTGATCACGTCACTTTCTCAGCGTGTAGATCAGTACTTCAGCTCCTTAAACCAACACATTGATT
CGATAGATGCTCGACTCAACAAAATCGAGCATCACCTCTCCTTAACTCCAACTAACTCTAGTGAC
GATGAGTCATAGGATTAGTCTTTATAATAAGAGTAGTCGTATTTGTTTTTGCTTACTTTTGTGAC
TATCTTTGTAATTAG
Found at i:180093 original size:20 final size:19
Alignment explanation
Indices: 180064--180113 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
180054 TTATCACTGT
* *
180064 TTGTACCGATAAATGGGACA
1 TTGTATCGATAAAT-GCACA
* *
180084 TTGTATCGATACATGCTCA
1 TTGTATCGATAAATGCACA
180103 TTGTATCGATA
1 TTGTATCGATA
180114 CATAAAGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (19 bp):
TTGTATCGATAAATGCACA
Found at i:180155 original size:102 final size:102
Alignment explanation
Indices: 179979--180199 Score: 442
Period size: 102 Copynumber: 2.2 Consensus size: 102
179969 TTGTATTGAT
179979 ACATTGTATCGATACATGCTCATTGTATCGATACATAAAGAATTGTATCGATACATGAAACTGGC
1 ACATTGTATCGATACATGCTCATTGTATCGATACATAAAGAATTGTATCGATACATGAAACTGGC
180044 AGTAGCTACCTTATCACTGTTTGTACCGATAAATGGG
66 AGTAGCTACCTTATCACTGTTTGTACCGATAAATGGG
180081 ACATTGTATCGATACATGCTCATTGTATCGATACATAAAGAATTGTATCGATACATGAAACTGGC
1 ACATTGTATCGATACATGCTCATTGTATCGATACATAAAGAATTGTATCGATACATGAAACTGGC
180146 AGTAGCTACCTTATCACTGTTTGTACCGATAAATGGG
66 AGTAGCTACCTTATCACTGTTTGTACCGATAAATGGG
180183 ACATTGTATCGATACAT
1 ACATTGTATCGATACAT
180200 AGTAAAAAGT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 119 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (102 bp):
ACATTGTATCGATACATGCTCATTGTATCGATACATAAAGAATTGTATCGATACATGAAACTGGC
AGTAGCTACCTTATCACTGTTTGTACCGATAAATGGG
Found at i:182173 original size:13 final size:13
Alignment explanation
Indices: 182155--182179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
182145 ATATTGCTTA
182155 GTATCGATACATT
1 GTATCGATACATT
182168 GTATCGATACAT
1 GTATCGATACAT
182180 GTTCTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:182189 original size:32 final size:33
Alignment explanation
Indices: 182136--182197 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
182126 CACCCAGATA
*
182136 TATCGATGCATATTGCTTAGTATCGATACATTG
1 TATCGATACATATTGCTTAGTATCGATACATTG
*
182169 TATCGATACATGTT-CTTAGTATCGATACA
1 TATCGATACATATTGCTTAGTATCGATACA
182198 CACTTAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (33 bp):
TATCGATACATATTGCTTAGTATCGATACATTG
Found at i:182718 original size:23 final size:23
Alignment explanation
Indices: 182675--182718 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
182665 GTGTTCAACC
*
182675 TTGGGGTACAATCTTTTAAGAAT
1 TTGGGGTACAATCTTTGAAGAAT
*
182698 TTGGGGTATAAT-TCTTGAAGA
1 TTGGGGTACAATCT-TTGAAGA
182719 GATTGAGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.39
Consensus pattern (23 bp):
TTGGGGTACAATCTTTGAAGAAT
Found at i:188368 original size:13 final size:13
Alignment explanation
Indices: 188350--188385 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
188340 TGTTCTTAAT
188350 ATCGATACATTGC
1 ATCGATACATTGC
* *
188363 ATCGATACACTGT
1 ATCGATACATTGC
188376 ATCGATACAT
1 ATCGATACAT
188386 GGGCACTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (13 bp):
ATCGATACATTGC
Found at i:188532 original size:21 final size:20
Alignment explanation
Indices: 188495--188546 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
188485 TAAATCTTTT
*
188495 TCAAATTTCATCTTTTTCACA
1 TCAAAATTCATCTTTTT-ACA
*
188516 TCAAAATT-ATCTATTTTTCA
1 TCAAAATTCATCT-TTTTACA
188536 TCAAAA-TCATC
1 TCAAAATTCATC
188547 ATTAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 15 0.56
21 11 0.41
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TCAAAATTCATCTTTTTACA
Found at i:189918 original size:12 final size:12
Alignment explanation
Indices: 189901--189935 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
189891 CCTGAGTGAC
189901 GATTAGTCGTAG
1 GATTAGTCGTAG
*
189913 GATTAGTCATAG
1 GATTAGTCGTAG
*
189925 GAGTAGTCGTA
1 GATTAGTCGTA
189936 TGCTAGTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (12 bp):
GATTAGTCGTAG
Found at i:190971 original size:13 final size:13
Alignment explanation
Indices: 190953--190977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190943 ATATTGCTTA
190953 GTATCGATACATT
1 GTATCGATACATT
190966 GTATCGATACAT
1 GTATCGATACAT
190978 GTTTATAGCA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:195310 original size:77 final size:77
Alignment explanation
Indices: 195178--195339 Score: 193
Period size: 76 Copynumber: 2.1 Consensus size: 77
195168 TATTTTGGAG
* * * * * *
195178 ATAAAAATGGGGTTGGAATATCTCCTCAGAAATACTAGGGTTGGAGTACCCCCGATGGTGGAAGA
1 ATAAAATTGGGGTTGGAATATCTCCTCAAAAATAC-AGGGGTGAAGTACCCCCGATGAT-GAAAA
195243 TCGGTGTTTTAGAA
64 TCGGTGTTTTAGAA
* * * *
195257 ATAAAATTGGGGTTGGAGTATC-CCTTAAAAATA-ACGGGGTGAAGTATCCCCGATTATGAAAAT
1 ATAAAATTGGGGTTGGAATATCTCCTCAAAAATACA-GGGGTGAAGTACCCCCGATGATGAAAAT
195320 CGGTGTTTTAGAA
65 CGGTGTTTTAGAA
195333 ATAAAAT
1 ATAAAAT
195340 AAGGGTCAGA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
76 26 0.36
77 17 0.24
78 9 0.12
79 20 0.28
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (77 bp):
ATAAAATTGGGGTTGGAATATCTCCTCAAAAATACAGGGGTGAAGTACCCCCGATGATGAAAATC
GGTGTTTTAGAA
Found at i:195402 original size:50 final size:49
Alignment explanation
Indices: 195299--195406 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 49
195289 AACGGGGTGA
*
195299 AGTATCCCCGATTATGAAAATCGGTGTTTTAGAAATAAAATAAGGGTCAG
1 AGTATCCCCGATTATGAAAATCGATGTTTTAGAAATAAAAT-AGGGTCAG
* * **
195349 AGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAACT-GGGTTGG
1 AGTATCCCCGATTATG-AAAATCGATGTTTTAGAAATAAAA-TAGGGTCAG
195399 AGTATCCC
1 AGTATCCC
195407 TTCGAAAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 28 0.55
51 22 0.43
52 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (49 bp):
AGTATCCCCGATTATGAAAATCGATGTTTTAGAAATAAAATAGGGTCAG
Found at i:195434 original size:78 final size:79
Alignment explanation
Indices: 195348--195701 Score: 384
Period size: 79 Copynumber: 4.5 Consensus size: 79
195338 ATAAGGGTCA
* *
195348 GAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAACT-G-GGTTGGAGTATCCCTTCG
1 GAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAATCGAGGTTGGAGTATCCCTTC-
*
195411 AAAATAACGGGGTTG
65 AAAATAACAGGGTTG
* *
195426 GAGTATCCCTGATTGTGAAAAATTGATGTTTT-GAAA-AAAAATCGAGGTTGGAGTATCCCCTT-
1 GAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAATCGAGGTTGGAGTAT-CCCTTC
*
195488 AAAATAACAGGGTTA
65 AAAATAACAGGGTTG
* ** * * * *
195503 GAATAT-TTCGATTATGAAAAATCGGTATTTTAGAAATAAAAATCGAGGTTGGAGTATCTCTTCA
1 GAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAATCGAGGTTGGAGTATCCCTTCA
*
195567 GAAATAACGGGGTTG
66 -AAATAACAGGGTTG
* * * * *
195582 GAGTATTCCCGATTGTGGAAAATCGATGTTTTGGAAATAAAACTAG-GGTTGGAGTAT-CCTCTC
1 GAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAATCGAGGTTGGAGTATCCCT-TC
195645 GAAAATAACAGGGTTG
65 -AAAATAACAGGGTTG
* * * *
195661 AAGTATCTCCGGTTGTGAAAAATC-AGTATTTTAGAAATAAA
1 GAGTATCCCCGATTGTGAAAAATCGA-TGTTTTAGAAATAAA
195702 GACATCAATA
Statistics
Matches: 230, Mismatches: 35, Indels: 21
0.80 0.12 0.07
Matches are distributed among these distances:
76 23 0.10
77 31 0.13
78 65 0.28
79 80 0.35
80 31 0.13
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (79 bp):
GAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAATCGAGGTTGGAGTATCCCTTCA
AAATAACAGGGTTG
Found at i:197890 original size:20 final size:19
Alignment explanation
Indices: 197865--197920 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
197855 CAAAATCACT
197865 AAATGTATCGATACATAAA
1 AAATGTATCGATACATAAA
* *
197884 GAAATGTATCGATATAATGAA
1 -AAATGTATCGATA-CATAAA
197905 AAATGTATCGATACAT
1 AAATGTATCGATACAT
197921 CTAGGTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.06
20 26 0.81
21 4 0.12
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (19 bp):
AAATGTATCGATACATAAA
Found at i:199263 original size:28 final size:27
Alignment explanation
Indices: 199205--199263 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
199195 CCAATACCTT
* *
199205 TAAATATATTAAAAATAAATACAAAAC
1 TAAAAATATTAAAAATAAATACAAAAA
*
199232 TAAAAATATCTAAAAATAATTA-ATAAAA
1 TAAAAATAT-TAAAAATAAATACA-AAAA
199260 TAAA
1 TAAA
199264 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (27 bp):
TAAAAATATTAAAAATAAATACAAAAA
Found at i:200492 original size:22 final size:21
Alignment explanation
Indices: 200454--200497 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
200444 GTGTATATAT
*
200454 ATAAAATATGTATATAAATAC
1 ATAAAATATGTAAATAAATAC
*
200475 ATAAATTATTGTAAATAAATAC
1 ATAAAATA-TGTAAATAAATAC
200497 A
1 A
200498 CGATATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
ATAAAATATGTAAATAAATAC
Found at i:203348 original size:73 final size:73
Alignment explanation
Indices: 203263--203408 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
203253 TATGTAGCTC
203263 TCTATGAAGCAAGAATGGATTTAAGTTGGTCTTTGAATCTAATCAATTTGTACTCACTAAAAATA
1 TCTATGAAGCAAGAATGGATTTAAGTTGGTCTTTGAATCTAATCAATTTGTACTCACTAAAAATA
203328 GGATGTTT
66 GGATGTTT
* *
203336 TCTATTAAGCAAGAATGGATTTAAGTTGGTCTTTGAATCTAATCAATTTGTACTCACTAAAAATT
1 TCTATGAAGCAAGAATGGATTTAAGTTGGTCTTTGAATCTAATCAATTTGTACTCACTAAAAATA
203401 GGATGTTT
66 GGATGTTT
203409 GTAGGTAGAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (73 bp):
TCTATGAAGCAAGAATGGATTTAAGTTGGTCTTTGAATCTAATCAATTTGTACTCACTAAAAATA
GGATGTTT
Found at i:208406 original size:16 final size:17
Alignment explanation
Indices: 208369--208409 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
208359 AAATTTTTTA
*
208369 AGTCATTTTTAGGTTTG
1 AGTCATTTTGAGGTTTG
*
208386 GGTCATTTTGAGG-TTG
1 AGTCATTTTGAGGTTTG
208402 AGTCATTT
1 AGTCATTT
208410 CATATTCGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.17, C:0.07, G:0.27, T:0.49
Consensus pattern (17 bp):
AGTCATTTTGAGGTTTG
Found at i:208449 original size:16 final size:16
Alignment explanation
Indices: 208430--208470 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
208420 TCATTTCAAG
*
208430 TTCGGATTATTTTGGA
1 TTCGGATTATTTTGAA
*
208446 TTCGGGTTATTTTGAA
1 TTCGGATTATTTTGAA
208462 TTCGGATTA
1 TTCGGATTA
208471 ATCGGGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.20, C:0.07, G:0.24, T:0.49
Consensus pattern (16 bp):
TTCGGATTATTTTGAA
Found at i:209328 original size:16 final size:16
Alignment explanation
Indices: 209309--209362 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
209299 ATTGTTCGGG
*
209309 TCATTTTGGGTTCGAA
1 TCATTTCGGGTTCGAA
* *
209325 TCATTTCAGGTTCGAG
1 TCATTTCGGGTTCGAA
*
209341 TCATTTCGGATTCGAA
1 TCATTTCGGGTTCGAA
209357 TCATTT
1 TCATTT
209363 TAGATACGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (16 bp):
TCATTTCGGGTTCGAA
Found at i:209338 original size:32 final size:32
Alignment explanation
Indices: 209302--209401 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 32
209292 CGGATTAATT
* *
209302 GTTCGGGTCATTTTGGGTTCGAATCATTTCAG
1 GTTCGAGTCATTTTGGATTCGAATCATTTCAG
* *
209334 GTTCGAGTCATTTCGGATTCGAATCATTTTAG
1 GTTCGAGTCATTTTGGATTCGAATCATTTCAG
* * * * *
209366 ATACGAGTCATTTTGAATTCGGATTAGTTTCAG
1 GTTCGAGTCATTTTGGATTCGAATCA-TTTCAG
209399 GTT
1 GTT
209402 TGGATTAGTC
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
32 48 0.89
33 6 0.11
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (32 bp):
GTTCGAGTCATTTTGGATTCGAATCATTTCAG
Found at i:209376 original size:16 final size:16
Alignment explanation
Indices: 209337--209379 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
209327 ATTTCAGGTT
** *
209337 CGAGTCATTTCGGATT
1 CGAGTCATTTTAGATA
*
209353 CGAATCATTTTAGATA
1 CGAGTCATTTTAGATA
209369 CGAGTCATTTT
1 CGAGTCATTTT
209380 GAATTCGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (16 bp):
CGAGTCATTTTAGATA
Found at i:210449 original size:2 final size:2
Alignment explanation
Indices: 210442--210468 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
210432 TCCATCCAAC
210442 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
210469 TTATTGGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:213602 original size:34 final size:34
Alignment explanation
Indices: 213564--213630 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 34
213554 CCTTACAACA
*
213564 CTATC-TTTCAAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTAAAGGCTAAGATAG-AACCTCTCTCT
213598 CTATCTTTTTTAAAGGCTAAGATAGAACCTCTC
1 CTATC--TTTTAAAGGCTAAGATAGAACCTCTC
213631 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 8 0.28
37 16 0.55
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (34 bp):
CTATCTTTTAAAGGCTAAGATAGAACCTCTCTCT
Found at i:214120 original size:13 final size:13
Alignment explanation
Indices: 214102--214126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
214092 CTATTCACAA
214102 TGTATCGATACAC
1 TGTATCGATACAC
214115 TGTATCGATACA
1 TGTATCGATACA
214127 TGAATAGTGA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:214154 original size:33 final size:32
Alignment explanation
Indices: 214115--214215 Score: 121
Period size: 33 Copynumber: 3.0 Consensus size: 32
214105 ATCGATACAC
214115 TGTATCGATACATGAATAGTGATGAACAGTGA
1 TGTATCGATACATGAATAGTGATGAACAGTGA
* *
214147 TTTTATCGATATATGAATAGTGATACGTGAACAGTGA
1 -TGTATCGATACATGAATAGTG--A--TGAACAGTGA
* *
214184 TGTATCGATACATAAACAGTGATGAACAGTGA
1 TGTATCGATACATGAATAGTGATGAACAGTGA
214216 AAAATGAGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
32 10 0.17
33 19 0.33
34 1 0.02
35 1 0.02
36 17 0.29
37 10 0.17
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATGAATAGTGATGAACAGTGA
Found at i:214205 original size:36 final size:37
Alignment explanation
Indices: 214137--214206 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 37
214127 TGAATAGTGA
* * * *
214137 TGAACAGTGATTTTATCGATATATGAATAGTGATACG
1 TGAACAGTGATTGTATCGATACATAAACAGTGATACG
214174 TGAACAGTGA-TGTATCGATACATAAACAGTGAT
1 TGAACAGTGATTGTATCGATACATAAACAGTGAT
214207 GAACAGTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 19 0.66
37 10 0.34
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (37 bp):
TGAACAGTGATTGTATCGATACATAAACAGTGATACG
Found at i:215776 original size:16 final size:16
Alignment explanation
Indices: 215747--215820 Score: 87
Period size: 16 Copynumber: 4.7 Consensus size: 16
215737 AAACTAATAT
215747 TTAAACTC-AAATAAC
1 TTAAACTCGAAATAAC
* *
215762 TCAAACTCGAAATAAT
1 TTAAACTCGAAATAAC
*
215778 TTAAACTCTAAATAAC
1 TTAAACTCGAAATAAC
* * *
215794 TTTAACTCAAAATAAT
1 TTAAACTCGAAATAAC
215810 TTAAACTCGAA
1 TTAAACTCGAA
215821 CTTAACCAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
15 7 0.15
16 41 0.85
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.30
Consensus pattern (16 bp):
TTAAACTCGAAATAAC
Found at i:215801 original size:32 final size:31
Alignment explanation
Indices: 215745--215817 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 31
215735 ATAAACTAAT
*
215745 ATTTAAACTCAAATAACTCAAACTCGAAATA
1 ATTTAAACTCAAATAACTCAAACTCAAAATA
**
215776 ATTTAAACTCTAAATAACTTTAACTCAAAATA
1 ATTTAAACTC-AAATAACTCAAACTCAAAATA
215808 ATTTAAACTC
1 ATTTAAACTC
215818 GAACTTAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
31 10 0.26
32 28 0.74
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (31 bp):
ATTTAAACTCAAATAACTCAAACTCAAAATA
Found at i:221409 original size:12 final size:14
Alignment explanation
Indices: 221381--221413 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
221371 AAACTTAATG
221381 GAGAATGCCAAAGA
1 GAGAATGCCAAAGA
221395 GAGAATGCCAAAGA
1 GAGAATGCCAAAGA
221409 GAGAA
1 GAGAA
221414 AGACTAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.52, C:0.12, G:0.30, T:0.06
Consensus pattern (14 bp):
GAGAATGCCAAAGA
Found at i:228678 original size:33 final size:31
Alignment explanation
Indices: 228633--228772 Score: 163
Period size: 33 Copynumber: 4.4 Consensus size: 31
228623 GAAGACAAAG
*
228633 GCCCATACAAGTCAGTGGCAACCCTTCTCTAAA
1 GCCCACACAAGTCAGTGGCAA-CCTT-TCTAAA
* * *
228666 GCCCACATAAGTCGGTAGCAATCCTTCTCTAAA
1 GCCCACACAAGTCAGTGGCAA-CCTT-TCTAAA
**
228699 GCCCACACAAGTTGGTGGCAACCTTTCTAAA
1 GCCCACACAAGTCAGTGGCAACCTTTCTAAA
*
228730 GCCTACACAAGTCAGTGGCAACCTTTCTAAA
1 GCCCACACAAGTCAGTGGCAACCTTTCTAAA
* *
228761 GTCCACATAAGT
1 GCCCACACAAGT
228773 TGGTAGCACC
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
31 43 0.46
32 4 0.04
33 46 0.49
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (31 bp):
GCCCACACAAGTCAGTGGCAACCTTTCTAAA
Found at i:228731 original size:31 final size:31
Alignment explanation
Indices: 228633--228785 Score: 164
Period size: 31 Copynumber: 4.8 Consensus size: 31
228623 GAAGACAAAG
* *
228633 GCCCATACAAGTCAGTGGCAACCCTTCTCTAAA
1 GCCCACACAAGTCGGTGGCAA-CCTT-TCTAAA
* *
228666 GCCCACATAAGTCGGTAGCAATCCTTCTCTAAA
1 GCCCACACAAGTCGGTGGCAA-CCTT-TCTAAA
*
228699 GCCCACACAAGTTGGTGGCAACCTTTCTAAA
1 GCCCACACAAGTCGGTGGCAACCTTTCTAAA
* *
228730 GCCTACACAAGTCAGTGGCAACCTTTCTAAA
1 GCCCACACAAGTCGGTGGCAACCTTTCTAAA
* * * *
228761 GTCCACATAAGTTGGTAGC-ACCTTT
1 GCCCACACAAGTCGGTGGCAACCTTT
228786 AAGTCCTTAA
Statistics
Matches: 103, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
30 6 0.06
31 47 0.46
32 4 0.04
33 46 0.45
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (31 bp):
GCCCACACAAGTCGGTGGCAACCTTTCTAAA
Found at i:229679 original size:20 final size:20
Alignment explanation
Indices: 229654--229705 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
229644 CAAAAAAAAT
**
229654 TGTATCGATACATAAGTAAA
1 TGTATCGATACATAACCAAA
* **
229674 TGTATCGATGCATTCCCAAA
1 TGTATCGATACATAACCAAA
229694 TGTATCGATACA
1 TGTATCGATACA
229706 ATTTGCTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAACCAAA
Found at i:229750 original size:32 final size:32
Alignment explanation
Indices: 229714--229793 Score: 142
Period size: 32 Copynumber: 2.5 Consensus size: 32
229704 CAATTTGCTT
*
229714 TGTATCGATACGTTCTGGGATTTTGATCCAAA
1 TGTATCGATACATTCTGGGATTTTGATCCAAA
*
229746 TGTATCGATACATTCTGGGTTTTTGATCCAAA
1 TGTATCGATACATTCTGGGATTTTGATCCAAA
229778 TGTATCGATACATTCT
1 TGTATCGATACATTCT
229794 TCAATGTATC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATTCTGGGATTTTGATCCAAA
Found at i:235364 original size:156 final size:155
Alignment explanation
Indices: 235082--235543 Score: 466
Period size: 157 Copynumber: 3.0 Consensus size: 155
235072 AAAATGGCCC
* * * ** * ** * *
235082 TAGGGGATACCTTCAACATAAAAGTACCCGATATCCTTAAAGGACCAAAAAAGGATTTTAAAAAG
1 TAGGGGATACCTTCAACTTAAAAGTACACGATATCCTCAAA-GACTTAAAAATGATGATAAGAGG
* * * ** **
235147 G-ATG-AACATATCCTAAATATCTACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTT
65 GAATGAAAC-TATCCTAAATATCCATCTTTGGCATAAAAGCGAACTAGGTGACAACCTAGGAGTT
* * *
235210 GGTTCTAGAGAATTACGAAAATACGCA
129 GGTTCTAGAAAATTATGAAAATACCCA
* * *
235237 TAGGGGATACCTTCAACTTAAAAGTACTCGATACCCCTGAAAGACTTAAAAATGATGATAAGAGG
1 TAGGGGATACCTTCAACTTAAAAGTACACGATA-TCCTCAAAGACTTAAAAATGATGATAAGAGG
* * * * *
235302 GAATGAAACTATCCTAAATACCCATCTTTGGCATAAAAGCAAAGTGGGTGACAACCTAGGAGTTT
65 GAATGAAACTATCCTAAATATCCATCTTTGGCATAAAAGCGAACTAGGTGACAACCTAGGAGTTG
* * *
235367 GTTCAAGAAAAATTATAAAAATACCCT
130 GTTCTAG-AAAATTATGAAAATACCCA
* * * *
235394 TAGAGAATACCTTCGA-TGTAAAAGTACAAGATATTCCTCAAAGACTTAAAAATGATGATAAGAG
1 TAGGGGATACCTTCAACT-TAAAAGTACACGATA-TCCTCAAAGACTTAAAAATGATGATAAGAG
* * * * *
235458 AGAAT-AAACCTATCCTAAATGTCCATCTTTGGCATAATAGCGGACTAGGTGGCAACCTAGGAGT
64 GGAATGAAA-CTATCCTAAATATCCATCTTTGGCATAAAAGCGAACTAGGTGACAACCTAGGAGT
235522 TGGTTCTA-AAAATTATGAAAAT
128 TGGTTCTAGAAAATTATGAAAAT
235544 GCCTTTAAAG
Statistics
Matches: 253, Mismatches: 48, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
155 61 0.24
156 64 0.25
157 128 0.51
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (155 bp):
TAGGGGATACCTTCAACTTAAAAGTACACGATATCCTCAAAGACTTAAAAATGATGATAAGAGGG
AATGAAACTATCCTAAATATCCATCTTTGGCATAAAAGCGAACTAGGTGACAACCTAGGAGTTGG
TTCTAGAAAATTATGAAAATACCCA
Found at i:244573 original size:9 final size:9
Alignment explanation
Indices: 244559--244619 Score: 70
Period size: 9 Copynumber: 6.8 Consensus size: 9
244549 AAATAAATGC
*
244559 TCATCATCT
1 TCATCATCA
244568 TCATCATCA
1 TCATCATCA
244577 TCATCATCA
1 TCATCATCA
*
244586 TCATCATCT
1 TCATCATCA
*
244595 TCATAATCA
1 TCATCATCA
*
244604 TAATCAT-A
1 TCATCATCA
244612 TTCATCAT
1 -TCATCAT
244620 TTTCGTCACA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
8 1 0.02
9 43 0.98
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (9 bp):
TCATCATCA
Found at i:244577 original size:6 final size:6
Alignment explanation
Indices: 244559--244619 Score: 70
Period size: 6 Copynumber: 10.2 Consensus size: 6
244549 AAATAAATGC
* * * *
244559 TCATCA TCTTCA TCATCA TCATCA TCATCA TCATCT TCATAA TCATAA
1 TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA
244607 TCAT-A TTCATCA T
1 TCATCA -TCATCA T
244620 TTTCGTCACA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 1 0.02
6 46 0.96
7 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (6 bp):
TCATCA
Found at i:252214 original size:78 final size:79
Alignment explanation
Indices: 252011--252237 Score: 237
Period size: 78 Copynumber: 2.9 Consensus size: 79
252001 TGGAGATGAC
* * *
252011 AACGGGGTTGGAGTATCCCCGATTATGA-AAAATCGGTATTTTGAAAATAAAATCAAGGTTGGAG
1 AACGGGGTTGGAGTAT-CCCGATTATGAGAAAATCGGTGTTTTGGAAATAAAACCAAGGTTGGAG
*
252075 TATCCCCTCGGAAAT
65 TATCCCCTCGAAAAT
* ** * * * * ** **
252090 AACAGGGTTGGAGTGCCCCGATTGTG-GAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCGATTATGAGAAAATCGGTGTTTTGGAAATAAAACCAAGGTTGGAGT
252154 ATCCCCAT-GAAAAT
66 ATCCCC-TCGAAAAT
* * * *
252168 AATGGGGTTGGAGTATCCCGATTATGAGAAACT-GGTGTTTTGGAAATAAAATCAAAGTTGGAGT
1 AACGGGGTTGGAGTATCCCGATTATGAGAAAATCGGTGTTTTGGAAATAAAACCAAGGTTGGAGT
252232 ATCCCC
66 ATCCCC
252238 GATTGTGAAA
Statistics
Matches: 115, Mismatches: 30, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
78 96 0.83
79 19 0.17
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCGATTATGAGAAAATCGGTGTTTTGGAAATAAAACCAAGGTTGGAGT
ATCCCCTCGAAAAT
Found at i:252279 original size:51 final size:51
Alignment explanation
Indices: 252170--252286 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
252160 ATGAAAATAA
* * * *
252170 TGGGGTTGGAGTAT-CCCGATTATGAGAAACTGGTGTTTTGGAAATAAAAT
1 TGGGGTTGGAGTATCCCCGATTATGAAAAACTAGTATTTTAGAAATAAAAT
**** * *
252220 CAAAGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAAT
1 TGGGGTTGGAGTATCCCCGATTATGAAAAACTAGTATTTTAGAAATAAAAT
252271 TGGGGTTGGAGTATCC
1 TGGGGTTGGAGTATCC
252287 TCTCGAAAAA
Statistics
Matches: 52, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
50 10 0.19
51 42 0.81
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (51 bp):
TGGGGTTGGAGTATCCCCGATTATGAAAAACTAGTATTTTAGAAATAAAAT
Found at i:252297 original size:28 final size:28
Alignment explanation
Indices: 252276--252342 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
252266 AAAATTGGGG
252276 TTGGAGTATCCTCTCGAAAAAAATGAGA
1 TTGGAGTATCCTCTCGAAAAAAATGAGA
252304 TTGGAGTATCCTCTCGAAAAAAATGAGA
1 TTGGAGTATCCTCTCGAAAAAAATGAGA
252332 TTGGAGTATCC
1 TTGGAGTATCC
252343 CCATAACGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (28 bp):
TTGGAGTATCCTCTCGAAAAAAATGAGA
Found at i:252523 original size:108 final size:106
Alignment explanation
Indices: 252304--252693 Score: 461
Period size: 109 Copynumber: 3.6 Consensus size: 106
252294 AAAAATGAGA
* * * *
252304 TTGGAGTATCCTCTCGAAAAAAATGAGATTGGAGTATCCC-----CATAACGGGGTTGGAGTACC
1 TTGGAGTATCCCCTCGAAAAAAATGGGATAGGAGTATCCCGATGAAATAACGGGGTTGGAGTA-C
*
252364 CCCCGATTATTAAAAAAATCACTATTTTAGATATAAAGCCAGGG
65 CCCCGATTA-TAAAAAAATCAATATTTTAGATATAAAGCC-GGG
*
252408 TTAGAGTATCCCCTCGAAAAAAATGGGATAGGAGTATCCCTGATGAAATAACGGGGTTGGAGTAC
1 TTGGAGTATCCCCTCGAAAAAAATGGGATAGGAGTATCCC-GATGAAATAACGGGGTTGGAGTAC
252473 CCCCGATTATAAAAAAATCAATATTTTAGATATAAAGCCGGTG
65 CCCCGATTATAAAAAAATCAATATTTTAGATATAAAGCCGG-G
* *** *
252516 TTGGAGTACCCCCTCGAAAAAAAACATGATAGGAGTATCTCCGATGACATAACGGGGTTGGAGTA
1 TTGGAGTATCCCCTCG-AAAAAAATGGGATAGGAGTATC-CCGATGAAATAACGGGGTTGGAGTA
* *
252581 CCCCCGATTATGAAAAAATCAATATTTTAGCTATAAAGCCGGGG
64 CCCCCGATTATAAAAAAATCAATATTTTAGATATAAAGCC-GGG
* * * **
252625 TAGAAGTATCCCCTCGAAAATAACA-GGG-TTGGAGTATCCCCGATGAAATAATAGGGTTGGAGT
1 TTGGAGTATCCCCTCGAAAA-AA-ATGGGATAGGAGTAT-CCCGATGAAATAACGGGGTTGGAGT
*
252688 ATCCCC
63 ACCCCC
252694 AATTGTGAAA
Statistics
Matches: 249, Mismatches: 24, Indels: 22
0.84 0.08 0.07
Matches are distributed among these distances:
104 36 0.14
107 2 0.01
108 82 0.33
109 107 0.43
110 22 0.09
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (106 bp):
TTGGAGTATCCCCTCGAAAAAAATGGGATAGGAGTATCCCGATGAAATAACGGGGTTGGAGTACC
CCCGATTATAAAAAAATCAATATTTTAGATATAAAGCCGGG
Found at i:252568 original size:109 final size:106
Alignment explanation
Indices: 252345--252693 Score: 464
Period size: 109 Copynumber: 3.2 Consensus size: 106
252335 GAGTATCCCC
*
252345 ATAACGGGGTTGGAGTACCCCCCGATTATTAAAAAAATCACTATTTTAGATATAAAGCCAGGGTT
1 ATAACGGGGTTGGAGTA-CCCCCGATTA-TAAAAAAATCAATATTTTAGATATAAAGCC-GGGTT
* **
252410 AGAGTATCCCCTCGAAAAAAATGGGATAGGAGTATCCCTGATGAA
63 GGAGTATCCCCTCGAAAAAAACAGGATAGGAGTATCCC-GATGAA
252455 ATAACGGGGTTGGAGTACCCCCGATTATAAAAAAATCAATATTTTAGATATAAAGCCGGTGTTGG
1 ATAACGGGGTTGGAGTACCCCCGATTATAAAAAAATCAATATTTTAGATATAAAGCCGG-GTTGG
* * *
252520 AGTACCCCCTCGAAAAAAAACATGATAGGAGTATCTCCGATGAC
65 AGTATCCCCTCG-AAAAAAACAGGATAGGAGTATC-CCGATGAA
* * * *
252564 ATAACGGGGTTGGAGTACCCCCGATTATGAAAAAATCAATATTTTAGCTATAAAGCCGGGGTAGA
1 ATAACGGGGTTGGAGTACCCCCGATTATAAAAAAATCAATATTTTAGATATAAAGCC-GGGTTGG
* * *
252629 AGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGAA
65 AGTATCCCCTCGAAAAAAACAGGATAGGAGTAT-CCCGATGAA
** *
252672 ATAATAGGGTTGGAGTATCCCC
1 ATAACGGGGTTGGAGTACCCCC
252694 AATTGTGAAA
Statistics
Matches: 214, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
107 2 0.01
108 87 0.41
109 104 0.49
110 21 0.10
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (106 bp):
ATAACGGGGTTGGAGTACCCCCGATTATAAAAAAATCAATATTTTAGATATAAAGCCGGGTTGGA
GTATCCCCTCGAAAAAAACAGGATAGGAGTATCCCGATGAA
Found at i:252662 original size:28 final size:28
Alignment explanation
Indices: 252629--252693 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 28
252619 CCGGGGTAGA
252629 AGTATCCCCTCGA-AAATAACAGGGTTGG
1 AGTATCCCC-CGAGAAATAACAGGGTTGG
*
252657 AGTAT-CCCCGATGAAATAATAGGGTTGG
1 AGTATCCCCCGA-GAAATAACAGGGTTGG
252685 AGTATCCCC
1 AGTATCCCC
252694 AATTGTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 3 0.09
27 3 0.09
28 24 0.73
29 3 0.09
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (28 bp):
AGTATCCCCCGAGAAATAACAGGGTTGG
Found at i:252739 original size:51 final size:49
Alignment explanation
Indices: 252680--252807 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 49
252670 AAATAATAGG
252680 GTTGGAGTATCCCCAATTGTGAAAAATT-AGTGTTTTGGAAATAAAACCAGA
1 GTTGGAGTATCCCCAATT-TGAAAAATTGA-TGTTTTGGAAATAAAACC-GA
* ** *
252731 GTTGGAGTATCCCCGATTAAAAAAAATTGATGTTTTGGAAATGAAACCGA
1 GTTGGAGTATCCCCAATT-TGAAAAATTGATGTTTTGGAAATAAAACCGA
*
252781 GATTGGAGTATCCCCAAGTTGAAAAAT
1 G-TTGGAGTATCCCCAATTTGAAAAAT
252808 CTAGAAATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
50 9 0.14
51 56 0.85
52 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (49 bp):
GTTGGAGTATCCCCAATTTGAAAAATTGATGTTTTGGAAATAAAACCGA
Found at i:252756 original size:217 final size:219
Alignment explanation
Indices: 252344--252744 Score: 535
Period size: 217 Copynumber: 1.8 Consensus size: 219
252334 GGAGTATCCC
* *
252344 CATAACGGGGTTGGAGTACCCCCCGATTATTAAAAAAATCACTATTTTAGATATAAAGCCAGGGT
1 CATAACGGGGTTGGAGTACCCCCCGATTATTAAAAAAATCAATATTTTAGATATAAAGCCAGGGG
* *
252409 TAGAGTATCCCCTCGAAAAAAATGGGATAGGAGTATCCCTGATGAAATAACGGGGTTGGAGTACC
66 TAGAGTATCCCCTCGAAAAAAATGGGATAGGAGTATCCCCGATGAAATAACAGGGTTGGAGTACC
* * * * * *
252474 CCCGATTATAAAAAAATCAATATTTTAGATATAAAGCCGGTGTTGGAGTACCCCCTCGAAAAAAA
131 CCCAATTATAAAAAAATCAATATTTTAGAAATAAAACCAGAGTTGGAGTACCCCATCGAAAAAAA
252539 ACATGATAGGAGTATCTCCGATGA
196 ACATGATAGGAGTATCTCCGATGA
* *
252563 CATAACGGGGTTGGAGTA-CCCCCGATTA-TGAAAAAATCAATATTTTAGCTATAAAGCC-GGGG
1 CATAACGGGGTTGGAGTACCCCCCGATTATTAAAAAAATCAATATTTTAGATATAAAGCCAGGGG
* *
252625 TAGAAGTATCCCCTCGAAAATAACA-GGG-TTGGAGTATCCCCGATGAAATAATAGGGTTGGAGT
66 TAG-AGTATCCCCTCGAAAA-AA-ATGGGATAGGAGTATCCCCGATGAAATAACAGGGTTGGAGT
* * * * * * *
252688 ATCCCCAATTGT-GAAAAATTAGTGTTTTGGAAATAAAACCAGAGTTGGAGTATCCCC
128 ACCCCCAATTATAAAAAAATCAATATTTTAGAAATAAAACCAGAGTTGGAGTA-CCCC
252745 GATTAAAAAA
Statistics
Matches: 158, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
216 37 0.23
217 87 0.55
218 15 0.09
219 19 0.12
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (219 bp):
CATAACGGGGTTGGAGTACCCCCCGATTATTAAAAAAATCAATATTTTAGATATAAAGCCAGGGG
TAGAGTATCCCCTCGAAAAAAATGGGATAGGAGTATCCCCGATGAAATAACAGGGTTGGAGTACC
CCCAATTATAAAAAAATCAATATTTTAGAAATAAAACCAGAGTTGGAGTACCCCATCGAAAAAAA
ACATGATAGGAGTATCTCCGATGA
Found at i:255116 original size:13 final size:13
Alignment explanation
Indices: 255098--255122 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
255088 AATGCCTGAA
255098 TGTATCGATACAT
1 TGTATCGATACAT
255111 TGTATCGATACA
1 TGTATCGATACA
255123 ATGAATAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:255493 original size:41 final size:40
Alignment explanation
Indices: 255397--255494 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 40
255387 CCACTTTTTG
* * *
255397 AGGACAAAGGAAAGAG-AATGAAATAGGTCTTGCTCCTTA
1 AGGACAAAGGAAAAAGAAAAGAAATAGGTCCTGCTCCTTA
*
255436 AGGACAAAGGAAAAAAGAAAAGAAA-AGTGTCCTGCTTCTTA
1 AGGACAAAGG-AAAAAGAAAAGAAATAG-GTCCTGCTCCTTA
255477 AGGACAAAGTGAAAAAGA
1 AGGACAAAG-GAAAAAGA
255495 GTGCGTCCGG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
39 10 0.20
40 7 0.14
41 33 0.65
42 1 0.02
ACGTcount: A:0.48, C:0.11, G:0.24, T:0.16
Consensus pattern (40 bp):
AGGACAAAGGAAAAAGAAAAGAAATAGGTCCTGCTCCTTA
Found at i:255618 original size:88 final size:87
Alignment explanation
Indices: 255520--255866 Score: 384
Period size: 88 Copynumber: 3.9 Consensus size: 87
255510 CGAGGATAAA
*
255520 GAAAAGAAGGAAAACGAAATGCATCCTGCTCTTTGAGGACAAA-GA-AAAAGGAAAATAAAGTGT
1 GAAAAGAAGG-AAATGAAATGCATCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGT
* *
255583 GTCTTGCTCTTTAAGAACTAGAAAG
65 GTCCTGCTCTTTAAGGAC-A-AAAG
* * *
255608 GAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAA-GAAGGGAATGGAA
1 GAAAAGAAGGAAATGAAATGCATCCTGCTCTTTGAGGAC-AAAGGAGAAAAGGAA---AAT-AAA
*
255672 -TGTGTCCTGCTCTTTGAGGAC-AAAG
61 GTGTGTCCTGCTCTTTAAGGACAAAAG
* *
255697 GAGAA-AAGGAAAAT-AAAGTGCATCCTGCTCTTTGAGGACAGAGGAGAAAAGGAAAATAAAGTG
1 GAAAAGAAGG-AAATGAAA-TGCATCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTG
** *
255760 CATCCTACTCTTTAAGGACAAAAGG
64 TGTCCTGCTCTTTAAGGACAAAA-G
* * * *
255785 GAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGGGAAGAGGAAAATAAAGTGCG
1 GAAAAGAAGGAAATGAAATGCATCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGTG
* *
255850 TCCTGGTCTTTGAGGAC
66 TCCTGCTCTTTAAGGAC
255867 TAGGAGGTGC
Statistics
Matches: 219, Mismatches: 25, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
85 2 0.01
86 20 0.09
87 29 0.13
88 95 0.43
89 46 0.21
90 4 0.02
92 21 0.10
93 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (87 bp):
GAAAAGAAGGAAATGAAATGCATCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGTG
TCCTGCTCTTTAAGGACAAAAG
Found at i:255637 original size:46 final size:45
Alignment explanation
Indices: 255520--255866 Score: 330
Period size: 43 Copynumber: 7.9 Consensus size: 45
255510 CGAGGATAAA
*
255520 GAAAAGAAGGAAAACGAAA-TGCATCCTGCTCTTTGAGGAC-AAA-
1 GAAAAGAAGGAAAA-TAAAGTGCATCCTGCTCTTTGAGGACAAAAG
** * * *
255563 G-AAA-AAGGAAAATAAAGTGTGTCTTGCTCTTTAAGAACTAGAAAG
1 GAAAAGAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGAC-A-AAAG
* *
255608 GAAAAGAAGG-AAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGG
1 GAAAAGAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAA-G
* *
255653 AGAAAAGAAGG-GAATGGAATGTG--TCCTGCTCTTTGAGGAC-AAAG
1 -GAAAAGAAGGAAAAT--AAAGTGCATCCTGCTCTTTGAGGACAAAAG
* *
255697 GAGAA-AAGGAAAATAAAGTGCATCCTGCTCTTTGAGGAC-AGAG
1 GAAAAGAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAG
* * *
255740 GAGAA-AAGGAAAATAAAGTGCATCCTACTCTTTAAGGACAAAAGG
1 GAAAAGAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAA-G
*
255785 GAAAAGAAGG-AAATGAAGTGCATCCTGCTCTTTGAGGAC-AAAG
1 GAAAAGAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAG
** * *
255828 GGGAAG-AGGAAAATAAAGTGCGTCCTGGTCTTTGAGGAC
1 GAAAAGAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGAC
255867 TAGGAGGTGC
Statistics
Matches: 256, Mismatches: 30, Indels: 36
0.80 0.09 0.11
Matches are distributed among these distances:
40 3 0.01
41 29 0.11
42 10 0.04
43 96 0.38
44 12 0.05
45 37 0.14
46 61 0.24
47 4 0.02
48 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (45 bp):
GAAAAGAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAG
Found at i:255814 original size:131 final size:134
Alignment explanation
Indices: 255519--255869 Score: 457
Period size: 131 Copynumber: 2.6 Consensus size: 134
255509 TCGAGGATAA
* *
255519 AGAAAAGAAGGAAAACGAAATGCATCCTGCTCTTTGAGGACAAA-GA-AAAAGGAAAATAAAGTG
1 AGAAAAGAAGG-AAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTG
* * * * * * * *
255582 TGTCTTGCTCTTTAAGAACTAGAAAGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC
65 CGTCCTGCTCTTTGAGGACTAG-AAGGAAAAGAAGGAAATAAAGTGCATCCTACTCTTTAAGGAC
255647 AAAAGG
129 AAAAGG
*
255653 AGAAAAGAAGGGAATGGAATGTG--TCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGT
1 AGAAAAGAAGGAAAT-GAA-GTGCATCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGT
* *
255716 GCATCCTGCTCTTTGAGGAC-AG-AGGAGAA-AAGGAAAATAAAGTGCATCCTACTCTTTAAGGA
64 GCGTCCTGCTCTTTGAGGACTAGAAGGAAAAGAAGG-AAATAAAGTGCATCCTACTCTTTAAGGA
255778 CAAAAGG
128 CAAAAGG
* *
255785 -GAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGGGAAGAGGAAAATAAAGTGC
1 AGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGC
*
255849 GTCCTGGTCTTTGAGGACTAG
66 GTCCTGCTCTTTGAGGACTAG
255870 GAGGTGCCAC
Statistics
Matches: 191, Mismatches: 18, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
129 3 0.02
130 3 0.02
131 73 0.38
132 39 0.20
133 22 0.12
134 18 0.09
135 33 0.17
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (134 bp):
AGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGC
GTCCTGCTCTTTGAGGACTAGAAGGAAAAGAAGGAAATAAAGTGCATCCTACTCTTTAAGGACAA
AAGG
Found at i:256003 original size:61 final size:61
Alignment explanation
Indices: 255849--256954 Score: 902
Period size: 61 Copynumber: 17.8 Consensus size: 61
255839 AATAAAGTGC
* * * **
255849 GTCCTGGTCTTTGAGGACT-AGGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-AAA
1 GTCCTGCTCTTTGAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCTTTG-AAGGAAAAGGCA
* * *
255910 TGTATCCTACTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCA
1 -G--TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAGGAAAAGGCA
* * *
255974 GTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-GAAGGAAAAGGCA
* * *
256036 -TCTTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCA
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT--GAAGGAAAAGGCA
* ** * *
256097 -TCTTGCTCTTTGAGGACTTGAGGGTGCCTAAC-AC--GTGTGGGCTTTGAAGGAGAAGGC-
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCC-ACCAACTTGTGTGGGCTTTGAAGGAAAAGGCA
* * *
256154 GCCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAGG-T
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-GAAGG--AAAAGGCA
* * * * *
256217 GTCTTGCTTTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG-AAAGGCA
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT--GAAGGAAAAGGCA
* *
256279 -TCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAATTTGTGTGGGCTTTGCAAAGAGAAA-GCA
1 GTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTG-AAGGA-AAAGGCA
* * * *** * **
256340 -TCCTACTCCTTGAGGACAAAAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGAAAAAAC-
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTG-AAGGAAAAGGCA
** *
256400 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAGAAGG
1 GTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTT------G-AAGGAA--
256465 GAATGAAGCA
56 -AA-G--GCA
* * *
256475 CATCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC-
1 -GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-GAAGGAAAAGGCA
* * *
256537 GTCCTGCTCTTTGAGGACTAAA-GGTGGCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCA
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT--GAAGGAAAAGGCA
* * * *
256599 -TCCTACTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGC-
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAGGAAAAGGCA
* * * * * * *
256658 GCCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTCGACTTTAAAAGGAAAAAAAGG-T
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-GAAGG---AAAAGGCA
* * * * *
256722 GTCCTGCTCTTTAAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAAGG-AAAGGTA
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT--GAAGGAAAAGGCA
* * *
256784 -TCCTGCTCTTTGAGGACTGGAA-GGTGCCACCAACTTGTGTGGGCCTTGCAAAGAGAAA-GCA
1 GTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTG-AAGGA-AAAGGCA
* * * *
256845 -TCCTGCTCCTTGAGGACTGGAAA--ATGCCACCAACTTGTGTAGGCTTTGAAAGGAAAATGC-
1 GTCCTGCTCTTTGAGGACT--AAAGGGTGCCACCAACTTGTGTGGGCTTTG-AAGGAAAAGGCA
***
256905 GTCCTGCTCTTTGAGGACTAGAAAACTGCCACCAAACTTGTGTGGGCTTT
1 GTCCTGCTCTTTGAGGACTA-AAGGGTGCCACC-AACTTGTGTGGGCTTT
256955 AAAAGGGAAA
Statistics
Matches: 873, Mismatches: 109, Indels: 123
0.79 0.10 0.11
Matches are distributed among these distances:
57 2 0.00
58 35 0.04
59 1 0.00
60 140 0.16
61 369 0.42
62 89 0.10
63 74 0.08
64 94 0.11
65 8 0.01
66 2 0.00
68 7 0.01
69 5 0.01
71 2 0.00
74 1 0.00
75 26 0.03
76 18 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAGGAAAAGGCA
Found at i:256123 original size:122 final size:122
Alignment explanation
Indices: 255856--256958 Score: 1091
Period size: 122 Copynumber: 8.9 Consensus size: 122
255846 TGCGTCCTGG
* * * ** *
255856 TCTTTGAGGACT-AGGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAATGTATCCTAC
1 TCTTTGAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCTTT-AAAAG--GAAAAGGCGTCCTGC
* * * *
255920 TCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTT--GAAGGAGAAGGCAGTCCTAC
62 TCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCA-TCCTAC
* * *
255981 TCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCTTGCTCTT
1 TCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
* *
256046 TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCTTGC
66 TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTAC
** * * * *
256103 TCTTTGAGGACTTGAGGGTGCCTAAC-AC--GTGTGGGCTTT-GAAGGAGAAGGCGCCCTGCTCT
1 TCTTTGAGGACTAAAGGGTGCC-ACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
* ** * *
256164 TTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAGGTGTCTTGC
65 TTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAAAAGGCATCCTAC
* * * *
256224 TTTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG-AAAGGCATCCTGCTCT
1 TCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTGCTCT
* ** *
256288 TTGAGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTGCAAAGAGAAA-GCATCCTAC
65 TTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTAC
* * *** * * **
256346 TCCTTGAGGACAAAAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGAAAAAACGTCCTGCTCTT
1 TCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
* *
256411 TGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAGAAGGGAATGAAGCAC
66 TGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTT---A---AAAAG-A---AA--AAG-GC
256476 ATCCTAC
116 ATCCTAC
256483 TCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
1 TCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
*
256548 TGAGGACTAAAGGTGGCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTAC
66 TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTAC
* * * * * *
256605 TCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTT-GAAGGAGAAGGCGCCCTACTCTT
1 TCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
* * * * ** *
256669 TGAGGACTAAAGGGTGCCACCAACTCGTGTCGACTTTAAAAGGAAAAAAAGGTGTCCTGC
66 TGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAA--AGAAAAAGGCATCCTAC
* * * **
256729 TCTTTAAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAAGG-AAAGGTATCCTGCTCT
1 TCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTGCTCT
* * ** * *
256793 TTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCCTTGCAAAGAGAAA-GCATCCTGC
65 TTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTAC
* * * * *
256851 TCCTTGAGGACTGGAAA--ATGCCACCAACTTGTGTAGGCTTTGAAAGGAAAATGCGTCCTGCTC
1 TCTTTGAGGACT--AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTC
**
256914 TTTGAGGACTAGAAAACTGCCACCAAACTTGTGTGGGCTTTAAAA
64 TTTGAGGACT--AAAGGTGCCACC-AACTTGTGTGGGCTTTAAAA
256959 GGGAAAAGAA
Statistics
Matches: 815, Mismatches: 124, Indels: 79
0.80 0.12 0.08
Matches are distributed among these distances:
119 28 0.03
120 43 0.05
121 98 0.12
122 242 0.30
123 72 0.09
124 122 0.15
125 89 0.11
126 8 0.01
128 1 0.00
129 9 0.01
130 1 0.00
132 1 0.00
133 1 0.00
135 28 0.03
137 72 0.09
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (122 bp):
TCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTAC
Found at i:256922 original size:505 final size:503
Alignment explanation
Indices: 255975--257005 Score: 1722
Period size: 505 Copynumber: 2.0 Consensus size: 503
255965 GAGAAGGCAG
*
255975 TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCTT
1 TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCT
* *
256040 GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCTTGCTC
66 GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTACTC
* * *
256105 TTTGAGGACTTGAGGGTGCCTAACACGTGTGGGCTTTGAAGGAGAAGGCGCCCTGCTCTTTGAGG
131 TTTGAGGACTAGAGGGTGCCCAACACGTGTGGGCTTTGAAGGAGAAGGCGCCCTACTCTTTGAGG
* * * * *
256170 ACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAGGTGTCTTGCTTTTTAAGGAC
196 ACTAAAGGGTGCCACCAACTCGTGTCGACTTTAAAAGGAAAAAAGGTGTCCTGCTCTTTAAGGAC
*
256235 TAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAGGCATCCTGCTCTTTGAGGACTGAA
261 TAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAGGCATCCTGCTCTTTGAGGACTGAA
* *
256300 AGGTGCCACCAATTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTACTCCTTGAGGACAAAAAAAT
326 AGGTGCCACCAACTTGTGTGGGCCTTGCAAAGAGAAAGCATCCTACTCCTTGAGGACAAAAAAAT
* *
256365 GCCACAAACTTGTGTGGGCTTTGAAAGGAAAAAACGTCCTGCTCTTTGAGGACTAGAAAAGTGCC
391 GCCACAAACTTGTGTAGGCTTTGAAAGGAAAAAACGTCCTGCTCTTTGAGGACTAGAAAACTGCC
*
256430 ACC-AACTTGTGTGGGCTTTAAAAGGGAAAAGAAGGGAATGAAGCACA
456 ACCAAACTTGTGTGGGCTTTAAAAGGGAAAAGAAGGAAATGAAGCACA
* *
256477 TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
1 TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCT
*
256542 GCTCTTTGAGGACTAAAGGTGGCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTACTC
66 GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTACTC
*
256607 TTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCGCCCTACTCTTTGA
131 TTTGAGGACTAGAGGGTG-C-CCAACACGTGTGGGCTTTGAAGGAGAAGGCGCCCTACTCTTTGA
256672 GGACTAAAGGGTGCCACCAACTCGTGTCGACTTTAAAAGGAAAAAAAGGTGTCCTGCTCTTTAAG
194 GGACTAAAGGGTGCCACCAACTCGTGTCGACTTTAAAAGG-AAAAAAGGTGTCCTGCTCTTTAAG
*
256737 GACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAGGTATCCTGCTCTTTGAGGACT
258 GACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAGGCATCCTGCTCTTTGAGGACT
* * ***
256802 GGAAGGTGCCACCAACTTGTGTGGGCCTTGCAAAGAGAAAGCATCCTGCTCCTTGAGGACTGGAA
323 GAAAGGTGCCACCAACTTGTGTGGGCCTTGCAAAGAGAAAGCATCCTACTCCTTGAGGACAAAAA
* **
256867 AATGCCACCAACTTGTGTAGGCTTTGAAAGGAAAATGCGTCCTGCTCTTTGAGGACTAGAAAACT
388 AATGCCACAAACTTGTGTAGGCTTTGAAAGGAAAAAACGTCCTGCTCTTTGAGGACTAGAAAACT
** *
256932 GCCACCAAACTTGTGTGGGCTTTAAAAGGGAAAAGAAGGAAATGAAGTGCG
453 GCCACCAAACTTGTGTGGGCTTTAAAAGGGAAAAGAAGGAAATGAAGCACA
*
256983 TCCTACTCTTTGAGGACAAAAGG
1 TCCTACTCTTTGAGGACTAAAGG
257006 AGAAAAGAAG
Statistics
Matches: 491, Mismatches: 34, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
502 141 0.29
503 1 0.00
504 78 0.16
505 209 0.43
506 62 0.13
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (503 bp):
TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCT
GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTACTC
TTTGAGGACTAGAGGGTGCCCAACACGTGTGGGCTTTGAAGGAGAAGGCGCCCTACTCTTTGAGG
ACTAAAGGGTGCCACCAACTCGTGTCGACTTTAAAAGGAAAAAAGGTGTCCTGCTCTTTAAGGAC
TAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAGGCATCCTGCTCTTTGAGGACTGAA
AGGTGCCACCAACTTGTGTGGGCCTTGCAAAGAGAAAGCATCCTACTCCTTGAGGACAAAAAAAT
GCCACAAACTTGTGTAGGCTTTGAAAGGAAAAAACGTCCTGCTCTTTGAGGACTAGAAAACTGCC
ACCAAACTTGTGTGGGCTTTAAAAGGGAAAAGAAGGAAATGAAGCACA
Found at i:257392 original size:61 final size:60
Alignment explanation
Indices: 257064--257390 Score: 382
Period size: 61 Copynumber: 5.5 Consensus size: 60
257054 AAAGAAAAAT
** **
257064 AAAGTGCGTCCTGCTCTTTGACAACTAGGAGGTGCCACCAACTTGTGTGGGCTTT----GA
1 AAAG-GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
257121 AAA-GCGTCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GA
** * * *
257181 GAAA-GTATCCTGCTATTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGA
1 -AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * * *
257241 GAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGTCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GA
* *
257302 AAAGGTGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-A
* *
257363 AAAGGCGTCTTACTCTTTGAGGACTAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA
257391 GGGCTAAAAG
Statistics
Matches: 232, Mismatches: 25, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
55 43 0.19
56 2 0.01
57 3 0.01
59 2 0.01
60 83 0.36
61 97 0.42
62 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (60 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
Found at i:257392 original size:121 final size:120
Alignment explanation
Indices: 257071--257390 Score: 438
Period size: 121 Copynumber: 2.7 Consensus size: 120
257061 AATAAAGTGC
** * *
257071 GTCCTGCTCTTTGACAACTAGGAGGTGCCACCAACTTGTGTGGGCTTT----GAAAA-GCGTCCT
1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAGGCGTCCT
*
257131 GCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGT
65 ACTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGT
* * * *
257187 ATCCTGCTATTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAGAAGGCATCCT
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAGGCGTCCT
*
257252 ACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGTCTTTAAAAGGA-AAAGGT
65 ACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA-GT
*
257308 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTG-AAAG-AAAAGGCGTCC
257373 TACTCTTTGAGGACTAAA
64 TACTCTTTGAGGACTAAA
257391 GGGCTAAAAG
Statistics
Matches: 179, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
116 40 0.22
117 1 0.01
120 40 0.22
121 72 0.40
122 26 0.15
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (120 bp):
GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAGGCGTCCTA
CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGT
Found at i:260718 original size:19 final size:19
Alignment explanation
Indices: 260671--260721 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
260661 TAGTAGCTAA
* *
260671 TTATGTATCAATACAATAC
1 TTATGTATCGATACAACAC
260690 TTATGTATCGATACAACAC
1 TTATGTATCGATACAACAC
260709 TTATGTATCGATA
1 TTATGTATCGATA
260722 GAAATCATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAACAC
Found at i:261695 original size:49 final size:48
Alignment explanation
Indices: 261573--261773 Score: 215
Period size: 49 Copynumber: 4.1 Consensus size: 48
261563 TATTGGACTT
* * * * *
261573 GTGCTAATGTGCTGATTCAAGGCCAGCTACATAGGACTCAAGACGGA-AAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGC-GCATTGGACTTAA-A--GATGAAG
* *
261624 GTGCCGATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGC-ATTGGACTTAAAGATGAAG
* * *
261673 GTGCCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGATGAGG
1 GTGCCAATGTGCTGATTCAAGGCCAGC-GCATTGGACTTAAAGATGAAG
* * *
261722 GTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATGAGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCG-CATTGGACTTAAAGATGAAG
261771 GTG
1 GTG
261774 TCACGGACTC
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
48 2 0.02
49 92 0.71
50 3 0.02
51 33 0.25
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (48 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGCATTGGACTTAAAGATGAAG
Found at i:261762 original size:98 final size:99
Alignment explanation
Indices: 261573--261773 Score: 255
Period size: 98 Copynumber: 2.0 Consensus size: 99
261563 TATTGGACTT
* *
261573 GTGCTAATGTGCTGATTCAAGGCCAGCTACATAGGACTCAAGACGGAAAAGGTGCCGATATGCTG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATAGGACTCAAGAC-GAAAAGGTGCCAATATGCTG
261638 ATTCAAGGCCAGCGCTATTGGACTTAAAGATGAAG
65 ATTCAAGGCCAGCGCTATTGGACTTAAAGATGAAG
* * * * * *
261673 GTGCCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAA-A-GATGAGGGTGCCAATGTGCTG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATAGGACTCAAGACGA-AAAGGTGCCAATATGCTG
* * *
261736 ATTCAAGGTCAGCGAC-ATTGGTCTTAAAGATGAGG
65 ATTCAAGGCCAGCG-CTATTGGACTTAAAGATGAAG
261771 GTG
1 GTG
261774 TCACGGACTC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
97 2 0.02
98 47 0.53
99 2 0.02
100 37 0.42
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (99 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATAGGACTCAAGACGAAAAGGTGCCAATATGCTGA
TTCAAGGCCAGCGCTATTGGACTTAAAGATGAAG
Found at i:261904 original size:35 final size:34
Alignment explanation
Indices: 261784--261928 Score: 184
Period size: 34 Copynumber: 4.2 Consensus size: 34
261774 TCACGGACTC
* *
261784 GTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTT
1 GTGGGCTTAAAAGGAAAAAGAGTGCCACAGAGTT
* * *
261818 GTGGGCTTAGAAGGAAAAAGAGTACCATAGAGTT
1 GTGGGCTTAAAAGGAAAAAGAGTGCCACAGAGTT
261852 GTGGGCTTAAAAGGAAAAAGAGTGCCACAGAGTT
1 GTGGGCTTAAAAGGAAAAAGAGTGCCACAGAGTT
* * * *
261886 GTGGGCTTTAAAAAGAAAAACAGTGTCAC-GAAATT
1 GTGGGC-TTAAAAGGAAAAAGAGTGCCACAG-AGTT
261921 GTGGGCTT
1 GTGGGCTT
261929 CGGAAAAGGG
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
34 69 0.71
35 28 0.29
ACGTcount: A:0.37, C:0.11, G:0.31, T:0.21
Consensus pattern (34 bp):
GTGGGCTTAAAAGGAAAAAGAGTGCCACAGAGTT
Found at i:261953 original size:30 final size:30
Alignment explanation
Indices: 261919--262287 Score: 358
Period size: 30 Copynumber: 12.4 Consensus size: 30
261909 TGTCACGAAA
*
261919 TTGTGGGCTTCGGAAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
* * *
261949 TTGTGGGCTTTTG--AAGGATGCCACTGAG
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
** * * * *
261977 TCATGGACTTTGAAGAAAAAAGATGCCACTGAG
1 TTGTGGGCTTTG--G-AAAAGGGTGCCACTGAC
* *
262010 TCGTGGGCTTTGAAAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
*
262040 TTGTGGGCTTTAGAAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
* * *
262070 TTGTGGGCTTTTG--AAGGTTGCCACTAAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
* * *
262098 TTGTGGGCTTTGGAAAAAAAAGATGCCACTGAG
1 TTGTGGGCTTTGG---AAAAGGGTGCCACTGAC
* * *
262131 TCGTGGGCCTTGAAAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
* * *
262161 TTATGGGCTTTTG--AAGGTTGCCACTGAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
* * *
262189 TTGTGAGCTTTGGAAAAGGGTGCCATTGAT
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
* *
262219 TTGTGGGCTTTTG--AAGGTTGCCACTGAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
262247 TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
262277 TTGTGGGCTTT
1 TTGTGGGCTTT
262288 TGAAGGGTGA
Statistics
Matches: 274, Mismatches: 51, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
28 94 0.34
30 135 0.49
33 45 0.16
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (30 bp):
TTGTGGGCTTTGGAAAAGGGTGCCACTGAC
Found at i:262084 original size:121 final size:121
Alignment explanation
Indices: 261919--262287 Score: 450
Period size: 121 Copynumber: 3.1 Consensus size: 121
261909 TGTCACGAAA
** * ** *
261919 TTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGATGCCACTGAGTCATGGA
1 TTGTGGGCTTTAGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGATGCCACTGACTTGTGGG
261984 CTTTGAAGAAAAAAGATGCCACTGAGTCGTGGGCTTTGAAAAAGGGTGCCACTGAC
66 CTTTGAAGAAAAAAGATGCCACTGAGTCGTGGGCTTTGAAAAAGGGTGCCACTGAC
* *
262040 TTGTGGGCTTTAGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGG
1 TTGTGGGCTTTAGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGATGCCACTGACTTGTGGG
*
262105 CTTTGGAA-AAAAAAGATGCCACTGAGTCGTGGGCCTTGAAAAAGGGTGCCACTGAC
66 CTTT-GAAGAAAAAAGATGCCACTGAGTCGTGGGCTTTGAAAAAGGGTGCCACTGAC
* * * * * * * *
262161 TTATGGGCTTTTG--AAGGTTGCCACTGACTTGTGAGCTTTGGAAAAGGGTGCCATTGATTTGTG
1 TTGTGGGCTTTAGAAAAGGGTGCCACTGACTTGTGGGCTTTTG--AAGGATGCCACTGACTTGTG
* * * *
262224 GGCTTTTGAAG------GTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGAC
64 GGC-TTTGAAGAAAAAAGATGCCACTGAGTCGTGGGCTTTGAAAAAGGGTGCCACTGAC
262277 TTGTGGGCTTT
1 TTGTGGGCTTT
262288 TGAAGGGTGA
Statistics
Matches: 219, Mismatches: 24, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
116 47 0.21
119 25 0.11
121 141 0.64
122 6 0.03
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (121 bp):
TTGTGGGCTTTAGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGATGCCACTGACTTGTGGG
CTTTGAAGAAAAAAGATGCCACTGAGTCGTGGGCTTTGAAAAAGGGTGCCACTGAC
Found at i:262106 original size:58 final size:59
Alignment explanation
Indices: 261919--262287 Score: 313
Period size: 58 Copynumber: 6.2 Consensus size: 59
261909 TGTCACGAAA
** * * *
261919 TTGTGGGCTTCGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGATGCCACTGAG
1 TTGTGGGCTTTAGAAAAGGATGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTGAC
** * * * *
261977 TCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGGC-TTTGAAAAAGGGTGCCACTGAC
1 TTGTGGGCTTT--AG-AAAAGGATGCCACTGACTTGTGGGCTTTTG--AAAGGGTGCCACTGAC
* * *
262040 TTGTGGGCTTTAGAAAAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTAAC
1 TTGTGGGCTTTAGAAAAGGATGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTGAC
* * * * *
262098 TTGTGGGCTTTGGAAAAAAAAGATGCCACTGAGTCGTGGGC-CTTGAAAAAGGGTGCCACTGAC
1 TTGTGGGCTTT---AGAAAAGGATGCCACTGACTTGTGGGCTTTTG--AAAGGGTGCCACTGAC
* * * * * * *
262161 TTATGGGCTTTTG--AAGGTTGCCACTGACTTGTGAGCTTTGGAAAAGGGTGCCATTGAT
1 TTGTGGGCTTTAGAAAAGGATGCCACTGACTTGTGGGCTTTTG-AAAGGGTGCCACTGAC
* * *
262219 TTGTGGGCTTTTG--AAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGAC
1 TTGTGGGCTTTAGAAAAGGATGCCACTGACTTGTGGGCTTTTG-AAAGGGTGCCACTGAC
262277 TTGTGGGCTTT
1 TTGTGGGCTTT
262288 TGAAGGGTGA
Statistics
Matches: 253, Mismatches: 44, Indels: 28
0.78 0.14 0.09
Matches are distributed among these distances:
58 129 0.51
59 2 0.01
60 29 0.11
61 49 0.19
63 44 0.17
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (59 bp):
TTGTGGGCTTTAGAAAAGGATGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTGAC
Found at i:262288 original size:58 final size:58
Alignment explanation
Indices: 262000--262293 Score: 340
Period size: 58 Copynumber: 5.0 Consensus size: 58
261990 AGAAAAAAGA
* * * * *
262000 TGCCACTGAGTCGTGGGCTTTGAAAAAGGGTGCCACTGACTTGTGGGCTTTAGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG--AAGGT
* * * * * *
262060 TGCCACTGACTTGTGGGCTTTTG--AAGGTTGCCACTAACTTGTGGGCTTTGGAAAAAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG-----AAGGT
* * * * *
262121 TGCCACTGAGTCGTGGGCCTTGAAAAAGGGTGCCACTGACTTATGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGT
* * *
262179 TGCCACTGACTTGTGAGCTTTGGAAAAGGGTGCCATTGATTTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGT
262237 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGG
1 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGG
262294 GTGAGGGATG
Statistics
Matches: 198, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
58 132 0.67
60 19 0.10
61 23 0.12
63 24 0.12
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (58 bp):
TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGT
Found at i:263747 original size:10 final size:9
Alignment explanation
Indices: 263723--263834 Score: 80
Period size: 8 Copynumber: 12.9 Consensus size: 9
263713 CATCCGGACC
*
263723 CTTTTGTTG
1 CTTTTTTTG
263732 -TTTTTTTG
1 CTTTTTTTG
*
263740 C-TTCTTT-
1 CTTTTTTTG
263747 -TTTTTTTG
1 CTTTTTTTG
*
263755 CTTTTTTTT
1 CTTTTTTTG
263764 CTTCTTTTT-
1 CTT-TTTTTG
263773 -TTGTTTTT-
1 CTT-TTTTTG
263781 -TTTTTTTG
1 CTTTTTTTG
263789 CTTTTTTTTG
1 C-TTTTTTTG
*
263799 CTTTTTTTT
1 CTTTTTTTG
263808 CTTTTTTTTG
1 C-TTTTTTTG
263818 -TTTTTTTGG
1 CTTTTTTT-G
263827 CTTTTTTT
1 CTTTTTTT
263835 TTTGCGGAGG
Statistics
Matches: 85, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
7 10 0.12
8 28 0.33
9 19 0.22
10 28 0.33
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (9 bp):
CTTTTTTTG
Found at i:263772 original size:34 final size:34
Alignment explanation
Indices: 263732--263821 Score: 123
Period size: 34 Copynumber: 2.6 Consensus size: 34
263722 CCTTTTGTTG
263732 TTTTTTTGCTTCTTTTTTTTTTGCTTTTTTTT-CTT
1 TTTTTTTGCTT-TTTTTTTTTTGCTTTTTTTTGC-T
263767 CTTTTTTTG-TTTTTTTTTTTTGCTTTTTTTTGCT
1 -TTTTTTTGCTTTTTTTTTTTTGCTTTTTTTTGCT
263801 TTTTTTT-CTTTTTTTTGTTTT
1 TTTTTTTGCTTTTTTTT-TTTT
263822 TTTGGCTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
33 15 0.29
34 25 0.49
35 3 0.06
36 8 0.16
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (34 bp):
TTTTTTTGCTTTTTTTTTTTTGCTTTTTTTTGCT
Found at i:263816 original size:9 final size:9
Alignment explanation
Indices: 263746--263835 Score: 94
Period size: 9 Copynumber: 9.9 Consensus size: 9
263736 TTTGCTTCTT
263746 TTTTTTTTGC
1 TTTTTTTT-C
263756 TTTTTTTTC
1 TTTTTTTTC
*
263765 TTCTTTTT-
1 TTTTTTTTC
*
263773 TTGTTTTT-
1 TTTTTTTTC
*
263781 TTTTTTTGC
1 TTTTTTTTC
263790 TTTTTTTTGC
1 TTTTTTTT-C
263800 TTTTTTTTC
1 TTTTTTTTC
*
263809 TTTTTTTTG
1 TTTTTTTTC
*
263818 TTTTTTTGGC
1 TTTTTTT-TC
263828 TTTTTTTT
1 TTTTTTTT
263836 TTGCGGAGGA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
8 13 0.19
9 31 0.46
10 24 0.35
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:263837 original size:1 final size:1
Alignment explanation
Indices: 263744--263824 Score: 63
Period size: 1 Copynumber: 81.0 Consensus size: 1
263734 TTTTTGCTTC
** * * * ** ** *
263744 TTTTTTTTTTGCTTTTTTTTCTTCTTTTTTTGTTTTTTTTTTTTGCTTTTTTTTGCTTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
263809 TTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTT
263825 GGCTTTTTTT
Statistics
Matches: 61, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.00, C:0.07, G:0.06, T:0.86
Consensus pattern (1 bp):
T
Found at i:277812 original size:19 final size:19
Alignment explanation
Indices: 277788--277855 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 19
277778 CAGTAGCTAA
277788 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
* *
277807 TTATGTATC-A-A-TATA-
1 TTATGTATCGATACAAAAC
*
277822 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAAAAC
277839 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
277856 TCGTTGAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
13 6 0.16
14 2 0.05
15 1 0.03
16 4 0.11
17 1 0.03
18 2 0.05
19 22 0.58
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:284387 original size:79 final size:79
Alignment explanation
Indices: 284182--284410 Score: 266
Period size: 79 Copynumber: 2.9 Consensus size: 79
284172 TGGAGATGAC
* * * * *
284182 AACGGGGTTGGAGTATCCCCAATTATGGAAAATCGGTATTTTGAAAATAAAATCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCAATTGTGGAAAATCGGTGTTTTGGAAATAAAACCGAGGTTGGAGT
*
284247 ATCCCCTCGGAAAT
66 ATCCCCTCGAAAAT
* * * * * *
284261 AACGGGGTTGGAGTGTCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGACCGAGGTT-GAGG
1 AACGGGGTTGGAGTATCCCCAATTGTGGAAAATCGGTGTTTTGGAAATAAAACCGAGGTTGGA-G
284325 TATCCCCAT-GAAAAT
65 TATCCCC-TCGAAAAT
* * * *
284340 AACGGGGTTGGAGTATCCCCAATTGTGAGAAACT-GGTGTTTTGGAAATAAAATCGAAGTTGGAA
1 AACGGGGTTGGAGTATCCCCAATTGTG-GAAAATCGGTGTTTTGGAAATAAAACCGAGGTTGGAG
284404 TATCCCC
65 TATCCCC
284411 GACTGTGAAA
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
78 2 0.02
79 114 0.92
80 8 0.06
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCAATTGTGGAAAATCGGTGTTTTGGAAATAAAACCGAGGTTGGAGT
ATCCCCTCGAAAAT
Found at i:284409 original size:51 final size:51
Alignment explanation
Indices: 284346--284443 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
284336 AAATAACGGG
* * * * *
284346 GTTGGAGTATCCCCAATTGTGAGAAACTGGTGTTTTGGAAATAAAATCGAA
1 GTTGGAATATCCCCAACTGTGAAAAACTGGTATTTTAGAAATAAAATCGAA
* *
284397 GTTGGAATATCCCCGACTGTGAAAAATTGGTATTTTAGAAATAAAAT
1 GTTGGAATATCCCCAACTGTGAAAAACTGGTATTTTAGAAATAAAAT
284444 TAGGGTTAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (51 bp):
GTTGGAATATCCCCAACTGTGAAAAACTGGTATTTTAGAAATAAAATCGAA
Found at i:284459 original size:51 final size:50
Alignment explanation
Indices: 284344--284461 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 50
284334 GAAAATAACG
* * * * *
284344 GGGTTGGAGTATCCCCAATTGTGAGAAACTGGTGTTTTGGAAATAAAATC
1 GGGTTGGAGTATCCCCAACTGTGAAAAACTGGTATTTTAGAAATAAAATA
* * * *
284394 GAAGTTGGAATATCCCCGACTGTGAAAAATTGGTATTTTAGAAATAAAATTA
1 G-GGTTGGAGTATCCCCAACTGTGAAAAACTGGTATTTTAGAAATAAAA-TA
*
284446 GGGTTAGAGTATCCCC
1 GGGTTGGAGTATCCCC
284462 TCAAAAAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
50 1 0.02
51 51 0.94
52 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCAACTGTGAAAAACTGGTATTTTAGAAATAAAATA
Found at i:284672 original size:108 final size:109
Alignment explanation
Indices: 284427--284843 Score: 561
Period size: 109 Copynumber: 3.8 Consensus size: 109
284417 GAAAAATTGG
* ** * * *
284427 TATTTTAGAAATAAAATTAGGGTTAGAGTATCCCCTCAAAAAAAACGGGATTGGAGTATCCTCGA
1 TATTTTAGATATAAAGCTAGGGTTGGAGTATCCCCTCAAAAAAAACGGGATAGGAGTATCCCCGA
*
284492 TGACATAACGGGGTTGGAGTACCCCCGATTATTAAAAAAATCAA
66 TGAAATAACGGGGTTGGAGTACCCCCGATTATTAAAAAAATCAA
* * *
284536 TATTTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCGAAAAAAATGGGATAGGAGTATCCCCGA
1 TATTTTAGATATAAAGCTAGGGTTGGAGTATCCCCTCAAAAAAAACGGGATAGGAGTATCCCCGA
* * *
284601 TGAAATAACGGGGTTGGAGAACCCTCGATT-TTTAAAAAATCAA
66 TGAAATAACGGGGTTGGAGTACCCCCGATTATTAAAAAAATCAA
*
284644 TATTTTAGATATAAAGCTGGGGTTGGAGTA-CCCGCTCAAAAAAAACGGGATAGGAGTATCCCCG
1 TATTTTAGATATAAAGCTAGGGTTGGAGTATCCC-CTCAAAAAAAACGGGATAGGAGTATCCCCG
* *
284708 ATGACATAACGGGGTTGGAGTACCCCCGATTATGAAAAAAAAT-AA
65 ATGAAATAACGGGGTTGGAGTACCCCCGATTAT-TAAAAAAATCAA
* * * * * * * * *
284753 TATTTTAGATATAAAGTTGGGGTTGGAGTATCTCCTCAGAAATAACGGGGTTGGAGTTTCCCTGA
1 TATTTTAGATATAAAGCTAGGGTTGGAGTATCCCCTCAAAAAAAACGGGATAGGAGTATCCCCGA
*
284818 TGAAATAACGGGGTTGGAGTATCCCC
66 TGAAATAACGGGGTTGGAGTACCCCC
284844 AATTGTGAAA
Statistics
Matches: 272, Mismatches: 32, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
107 3 0.01
108 96 0.35
109 164 0.60
110 9 0.03
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (109 bp):
TATTTTAGATATAAAGCTAGGGTTGGAGTATCCCCTCAAAAAAAACGGGATAGGAGTATCCCCGA
TGAAATAACGGGGTTGGAGTACCCCCGATTATTAAAAAAATCAA
Found at i:284689 original size:217 final size:217
Alignment explanation
Indices: 284427--284836 Score: 610
Period size: 217 Copynumber: 1.9 Consensus size: 217
284417 GAAAAATTGG
* * *
284427 TATTTTAGAAATAAAATTAGGGTTAGAGTATCCCCTCAAAAAAAACGGGATTGGAGTATCCTCGA
1 TATTTTAGAAATAAAACTAGGGTTAGAGTATCCCCTCAAAAAAAACGGGATAGGAGTATCCCCGA
*
284492 TGACATAACGGGGTTGGAGTACCCCCGATTAT-TAAAAAAATCAATATTTTAGATATAAAGCCAG
66 TGACATAACGGGGTTGGAGTACCCCCGATTATGAAAAAAAAT-AATATTTTAGATATAAAGCCAG
*
284556 GGTTGGAGTATCCCCTC-GAAAAAAATGGGATAGGAGTATCCCCGATGAAATAACGGGGTTGGAG
130 GGTTGGAGTATCCCCTCAG-AAAAAACGGGATAGGAGTATCCCCGATGAAATAACGGGGTTGGAG
284620 AACCCTCGATTTTTAAAAAATCAA
194 AACCCTCGATTTTTAAAAAATCAA
* * * *
284644 TATTTTAGATATAAAGCTGGGGTTGGAGTA-CCCGCTCAAAAAAAACGGGATAGGAGTATCCCCG
1 TATTTTAGAAATAAAACTAGGGTTAGAGTATCCC-CTCAAAAAAAACGGGATAGGAGTATCCCCG
***
284708 ATGACATAACGGGGTTGGAGTACCCCCGATTATGAAAAAAAATAATATTTTAGATATAAAGTTGG
65 ATGACATAACGGGGTTGGAGTACCCCCGATTATGAAAAAAAATAATATTTTAGATATAAAGCCAG
* * * * * *
284773 GGTTGGAGTATCTCCTCAGAAATAACGGGGTTGGAGTTTCCCTGATGAAATAACGGGGTTGGAG
130 GGTTGGAGTATCCCCTCAGAAAAAACGGGATAGGAGTATCCCCGATGAAATAACGGGGTTGGAG
284837 TATCCCCAAT
Statistics
Matches: 172, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
216 3 0.02
217 160 0.93
218 9 0.05
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (217 bp):
TATTTTAGAAATAAAACTAGGGTTAGAGTATCCCCTCAAAAAAAACGGGATAGGAGTATCCCCGA
TGACATAACGGGGTTGGAGTACCCCCGATTATGAAAAAAAATAATATTTTAGATATAAAGCCAGG
GTTGGAGTATCCCCTCAGAAAAAACGGGATAGGAGTATCCCCGATGAAATAACGGGGTTGGAGAA
CCCTCGATTTTTAAAAAATCAA
Found at i:284822 original size:28 final size:27
Alignment explanation
Indices: 284771--284842 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 27
284761 ATATAAAGTT
284771 GGGGTTGGAGTATCTCCTCAGAAATAAC
1 GGGGTTGGAGTATC-CCTCAGAAATAAC
* *
284799 GGGGTTGGAGTTTCCCTGATGAAATAAC
1 GGGGTTGGAGTATCCCTCA-GAAATAAC
284827 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
284843 CAATTGTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 4 0.10
28 36 0.90
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCTCAGAAATAAC
Found at i:284905 original size:217 final size:214
Alignment explanation
Indices: 284397--284905 Score: 569
Period size: 217 Copynumber: 2.3 Consensus size: 214
284387 TAAAATCGAA
* * * * *
284397 GTTGGAATATCCCCGACTGTGAAAAATTGGTATTTTAGAAATAAAATTAGGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAA-TCGGGTTGGAGTAT--CC
* * * *
284462 TCA-AAAAAAACGGGATTGGAGTATCCTCGATGACATAACGGGGTTGGAGTACCCCCGATTATTA
63 TGATAAAAAAACGGGATAGGAGTATCCCCGATGACATAACGGGGTTGGAGTACCCCCGATTATAA
*
284526 AAAAAATCAATATTTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCGAAAAAAATGGGATAGGA
128 AAAAAATCAATATTTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCGAAAAAAACGGGATAGGA
284591 GTATCCCCGATGAAATAACGGG
193 GTATCCCCGATGAAATAACGGG
* * * * *** * * *
284613 GTTGGAG-AACCCTCGATTTTTAAAAAATCAATATTTTAGATATAAAGCTGGGGTTGGAGTA-CC
1 GTTGGAGTATCCC-C-AATTGTGAAAAATTGGTATTTTAGAAATAAA-ATCGGGTTGGAGTATCC
* *
284676 CGCTCAAAAAAAACGGGATAGGAGTATCCCCGATGACATAACGGGGTTGGAGTACCCCCGATTAT
63 TGAT--AAAAAAACGGGATAGGAGTATCCCCGATGACATAACGGGGTTGGAGTACCCCCGATTAT
*** * * *
284741 GAAAAAAAAT-AATATTTTAGATATAAAGTTGGGGTTGGAGTATCTCCTC-AGAAATAACGGGGT
126 -AAAAAAAATCAATATTTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCGA-AAAAAACGGGAT
* * *
284804 TGGAGTTTCCCTGATGAAATAACGGG
189 AGGAGTATCCCCGATGAAATAACGGG
* *
284830 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATTCCT
1 GTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGG-GTTGGAGTA-TCCT
284895 GATTAAAAAAA
64 GA-TAAAAAAA
284906 ATTGATGTTT
Statistics
Matches: 236, Mismatches: 44, Indels: 25
0.77 0.14 0.08
Matches are distributed among these distances:
214 2 0.01
215 7 0.03
216 39 0.17
217 172 0.73
218 15 0.06
219 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (214 bp):
GTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGTTGGAGTATCCTGA
TAAAAAAACGGGATAGGAGTATCCCCGATGACATAACGGGGTTGGAGTACCCCCGATTATAAAAA
AAATCAATATTTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCGAAAAAAACGGGATAGGAGTA
TCCCCGATGAAATAACGGG
Found at i:284906 original size:51 final size:51
Alignment explanation
Indices: 284851--284947 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
284841 CCCAATTGTG
* *
284851 AAAAATTGGTGTTTTGGAAAT-AAAATCGGAGTTGGAGTATTCCTGATTAAA
1 AAAAATTGATGTTTTGGAAATGAAAATCGGA-TTGGAGTATCCCTGATTAAA
* *
284902 AAAAATTGATGTTTTGGAAATGAAACTGGGATTGGAGTATCCCTGA
1 AAAAATTGATGTTTTGGAAATGAAAATCGGATTGGAGTATCCCTGA
284948 GATGAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 34 0.83
52 7 0.17
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (51 bp):
AAAAATTGATGTTTTGGAAATGAAAATCGGATTGGAGTATCCCTGATTAAA
Found at i:287280 original size:20 final size:20
Alignment explanation
Indices: 287252--287326 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
287242 AAAATGCCTG
* *
287252 AATGAATCGATACATTATAA
1 AATGTATCGATACATTACAA
*
287272 AATGTATCGATACAATGAGC-A
1 AATGTATCGATAC-ATTA-CAA
* *
287293 AA-GTATCGATACAATGCAA
1 AATGTATCGATACATTACAA
287312 AATGTATCGATACAT
1 AATGTATCGATACAT
287327 CTAGGTAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
18 1 0.02
19 4 0.09
20 33 0.75
21 6 0.14
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACATTACAA
Found at i:287388 original size:13 final size:13
Alignment explanation
Indices: 287341--287370 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
287331 GTAAACCCAG
*
287341 AATGTATCGATAC
1 AATGTATCAATAC
287354 AATGTATCAATAC
1 AATGTATCAATAC
287367 AATG
1 AATG
287371 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:290798 original size:40 final size:41
Alignment explanation
Indices: 290739--290853 Score: 126
Period size: 40 Copynumber: 2.8 Consensus size: 41
290729 AAAGGAATGG
* * ** *
290739 GTGTCCTACTCTTTCAGGACAAAGGAAAAGAGAATGAA-ATA
1 GTGTCCTACTCCTTGAGGACAAAGGAAAA-AGAAAAAAGAAA
*
290780 G-GTCTTACTCCTTGAGGACAAAGGAAGAAAGAAAAAAGAAA
1 GTGTCCTACTCCTTGAGGACAAAGGAA-AAAGAAAAAAGAAA
*
290821 GTGTCCTGCTCCTTGAGGACAAAGTGAAAAAGA
1 GTGTCCTACTCCTTGAGGACAAAG-GAAAAAGA
290854 GTATGTCCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
40 28 0.45
41 6 0.10
42 25 0.40
43 3 0.05
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (41 bp):
GTGTCCTACTCCTTGAGGACAAAGGAAAAAGAAAAAAGAAA
Found at i:290916 original size:42 final size:42
Alignment explanation
Indices: 290858--291506 Score: 545
Period size: 42 Copynumber: 15.4 Consensus size: 42
290848 AAAAGAGTAT
* * * *
290858 GTCCTACTATTCGAGGACAAAAGAAAAAAGGAAATAAAGTGT
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGC
* *
290900 GTCCTACTCTTTGAGGACAAAGGAGAAGAAGGAAATGAAGTGC
1 GTCCTACTCTTTGAGGACAAAGGA-AAAAAGGAAATAAAGTGC
* * * * * *
290943 TTTCTGCTCTTTGAGGACAAAGGAGAGAAGGAAATAAAGTGT
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGC
* * *
290985 GT-CTAGCTCTTTGAGGATAAAGGGAAAAAGGAAATGAAA-TGT
1 GTCCTA-CTCTTTGAGGACAAAGGAAAAAAGGAAAT-AAAGTGC
*
291027 GTCC-AGCTCTTTGAGGACAAAGG-AAAAAGG-GA-AAA-TGC
1 GTCCTA-CTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGC
* * *
291065 ATCCTACTCTTTGAGGACAAAGGAAAAAAAGGAAATGAAGTGT
1 GTCCTACTCTTTGAGGACAAAGG-AAAAAAGGAAATAAAGTGC
* * * * *
291108 GTTCTACTATTTGAGGACAAAGGAGAAAATGAAATAAAATGC
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGC
* * * * * *
291150 ATCTTGCTCTTTGAGAATAAAGGGAAAAGAAGGAAATGAAA-TGT
1 GTCCTACTCTTTGAGGACAAA-GGAAAA-AAGGAAAT-AAAGTGC
* * *
291194 GTCGTACTCTTTGAGGAAAAAAGAAAAAAGG--A-AAAG-GC
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGC
* * * * * *
291232 ATCCTACCCTTTGAAGACTAAGGAAAAAAAAGGAAAT-GAGATGT
1 GTCCTACTCTTTGAGGACAAAGG--AAAAAAGGAAATAAAG-TGC
* *
291276 GTCCTACTCTTTAAAGACAAAGGAAAAAA-GAAATAAAGTGC
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGC
* *
291317 GTCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGAAATAAAGAGC
1 GTCCTACTCTTTGAGGAC-AAA-GG-AAAAAAGGAAATAAAGTGC
* * *
291362 GTCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAATAAGGTGC
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGC
* **
291404 GCCCTGTTCTTTGAGGACAAAGG-AAAAAGGAAATAAAGTGC
1 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGC
* * * *
291445 ATCCTGCTTTTTGAGGACAAAAGAGAAAAAAAGGAAATGAAGTGC
1 GTCCTACTCTTTGAGGAC-AAAG-G-AAAAAAGGAAATAAAGTGC
* *
291490 GTCCTGCTCTTTTAGGA
1 GTCCTACTCTTTGAGGA
291507 TTAAAAGATA
Statistics
Matches: 493, Mismatches: 84, Indels: 57
0.78 0.13 0.09
Matches are distributed among these distances:
38 45 0.09
39 1 0.00
40 17 0.03
41 62 0.13
42 174 0.35
43 77 0.16
44 54 0.11
45 63 0.13
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (42 bp):
GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGC
Found at i:291099 original size:165 final size:165
Alignment explanation
Indices: 290901--291507 Score: 627
Period size: 167 Copynumber: 3.6 Consensus size: 165
290891 ATAAAGTGTG
* * * *
290901 TCCTACTCTTTGAGGACAAAGGAGAAGAAGGAAATGAAGTGCT-TTCTGCTCTTTGAGGACAAAG
1 TCCTACTCTTTGAGGACAAAGGAAAAAAAGGAAATGAAGTG-TGTCCTACTCTTTGAGGACAAAG
* * *
290965 GAGAGAAGGAAATAAAGTGTGTCTAGCTCTTTGAGGATAAAGGG-AAAAAGGAAATGAAATGTGT
65 GAGAAAAAGAAATAAAGTGCGTCT-GCTCTTTGAGGATAAAGGGAAAAAAGGAAATGAAATGTGT
*
291029 CCAGCTCTTTGAGGACAAAGGAAAAAGGGAAAATGCA
129 CCAGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGCA
* *
291066 TCCTACTCTTTGAGGACAAAGGAAAAAAAGGAAATGAAGTGTGTTCTACTATTTGAGGACAAAGG
1 TCCTACTCTTTGAGGACAAAGGAAAAAAAGGAAATGAAGTGTGTCCTACTCTTTGAGGACAAAGG
* * * *
291131 AGAAAATGAAATAAAATGCATCTTGCTCTTTGAGAATAAAGGGAAAAGAAGGAAATGAAATGTGT
66 AGAAAAAGAAATAAAGTGCGTC-TGCTCTTTGAGGATAAAGGGAAAA-AAGGAAATGAAATGTGT
* * * *
291196 CGTA-CTCTTTGAGGAAAAAAGAAAAAAGGAAAAGGCA
129 C-CAGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGCA
* * * * *
291233 TCCTACCCTTTGAAGACTAAGGAAAAAAAAGGAAATG-AGATGTGTCCTACTCTTTAAAGACAAA
1 TCCTACTCTTTGAGGACAAAGG-AAAAAAAGGAAATGAAG-TGTGTCCTACTCTTTGAGGACAAA
* *
291297 GGA-AAAAAGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGAAAT-AAAGA
64 GGAGAAAAAGAAATAAAGTGCGT-CTGCTCTTTGAGGA-TAAAGGG-AAAAAAGGAAATGAAA-T
* * * *
291360 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAATAAGGTGCG
125 GTGTCCAGCTCTTTGAGGACAAAGG-AAAAAAGGAA-AA--TGCA
* ** * ** * *
291405 CCCTGTTCTTTGAGGACAAAGG--AAAAAGGAAATAAAGTGCATCCTGCTTTTTGAGGACAAAAG
1 TCCTACTCTTTGAGGACAAAGGAAAAAAAGGAAATGAAGTGTGTCCTACTCTTTGAGGAC-AAAG
* * *
291468 AGAAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTTAGGAT
65 -GAGAAAAA-GAAATAAAGTGCGT-CTGCTCTTTGAGGAT
291508 TAAAAGATAC
Statistics
Matches: 369, Mismatches: 52, Indels: 35
0.81 0.11 0.08
Matches are distributed among these distances:
164 1 0.00
165 94 0.25
166 4 0.01
167 99 0.27
168 72 0.20
169 39 0.11
170 8 0.02
171 2 0.01
172 23 0.06
173 27 0.07
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (165 bp):
TCCTACTCTTTGAGGACAAAGGAAAAAAAGGAAATGAAGTGTGTCCTACTCTTTGAGGACAAAGG
AGAAAAAGAAATAAAGTGCGTCTGCTCTTTGAGGATAAAGGGAAAAAAGGAAATGAAATGTGTCC
AGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGCA
Found at i:291423 original size:128 final size:127
Alignment explanation
Indices: 290870--291506 Score: 566
Period size: 128 Copynumber: 5.0 Consensus size: 127
290860 CCTACTATTC
* * * * *
290870 GAGGACAAAAGAAAAAAGGAAATAAAGTGTGTCCTACTCTTTGAGGACAAAGGAGAAGAAGGAAA
1 GAGGACAAAGGAAAAAAAGAAATAAAATGTGTCCTGCTCTTTGAGGACAAAGGA-AA-AAAGAAA
* * * * * *
290935 TGAAGTGCTTTCTGCTCTTTGAGGAC-AAAGG-AGAGAAGGAAATAAAGTGTGT-CTAGCTCTTT
64 TAAAGTGCATCCTGCTCTTTGAGGACAAAAGGAAAAAAAGGAAATAAAGTGCGTCCT-GCTCTTT
* * * * * **
290997 GAGGATAAAGGGAAAAAGGAAATGAAATGTGTCCAGCTCTTTGAGGACAAAGG-AAAAAGGGA-A
1 GAGGACAAAGGAAAAAAAGAAATAAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATA
* * * * * *
291060 AA-TGCATCCTACTCTTTGAGGAC-AAAGGAAAAAAAGGAAATGAAGTGTGTTCTACTATTT
66 AAGTGCATCCTGCTCTTTGAGGACAAAAGGAAAAAAAGGAAATAAAGTGCGTCCTGCTCTTT
* * ** * * *
291120 GAGGACAAAGGAGAAAATGAAATAAAATGCATCTTGCTCTTTGAGAATAAAGGGAAAAGAAGGAA
1 GAGGACAAAGGAAAAAAAGAAATAAAATGTGTCCTGCTCTTTGAGGACAAA-GGAAAA-AA-GAA
* * * * * *
291185 ATGAAATGTG--TCGTACTCTTTGAGGA-AAAAAG-AAAAAAGG--A-AAAG-GCATCCTACCCT
63 AT-AAA-GTGCATCCTGCTCTTTGAGGACAAAAGGAAAAAAAGGAAATAAAGTGCGTCCTGCTCT
291242 TT
126 TT
* * * * * * *
291244 GAAGACTAAGGAAAAAAAAGGAAATGAGATGTGTCCTACTCTTTAAAGACAAAGGAAAAAAGAAA
1 GAGGACAAAGG-AAAAAAA-GAAATAAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAAA
* *
291309 TAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGAAATAAAGAGCGTCCTGCTCTTT
64 TAAAGTGCATCCTGCTCTTTGAGGACAAAA-GGAAAAAAAGGAAATAAAGTGCGTCCTGCTCTTT
** * * * *
291374 GAGGACAAAGGAAAAAAAGAAATAAGGTGCGCCCTGTTCTTTGAGGACAAAGGAAAAAGGAAATA
1 GAGGACAAAGGAAAAAAAGAAATAAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATA
* *
291439 AAGTGCATCCTGCTTTTTGAGGACAAAAGAGAAAAAAAGGAAATGAAGTGCGTCCTGCTCTTT
66 AAGTGCATCCTGCTCTTTGAGGACAAAAG-GAAAAAAAGGAAATAAAGTGCGTCCTGCTCTTT
*
291502 TAGGA
1 GAGGA
291507 TTAAAAGATA
Statistics
Matches: 411, Mismatches: 76, Indels: 45
0.77 0.14 0.08
Matches are distributed among these distances:
121 3 0.01
122 26 0.06
123 84 0.20
124 32 0.08
125 20 0.05
126 34 0.08
127 49 0.12
128 108 0.26
129 33 0.08
130 20 0.05
131 2 0.00
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (127 bp):
GAGGACAAAGGAAAAAAAGAAATAAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATA
AAGTGCATCCTGCTCTTTGAGGACAAAAGGAAAAAAAGGAAATAAAGTGCGTCCTGCTCTTT
Found at i:291426 original size:86 final size:86
Alignment explanation
Indices: 290870--291506 Score: 551
Period size: 86 Copynumber: 7.5 Consensus size: 86
290860 CCTACTATTC
* * * * * *
290870 GAGGACAAAAGAAAAAAGGAAATAAAGTGTGTCCTACTCTTTGAGGACAAA-GGAGAAGAAGGAA
1 GAGGACAAAGGAAAAAAAGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAAAAAAGGAA
* *
290934 ATGAAGTGCT-TTCTGCTCTTT
66 ATAAAGTG-TGTCCTGCTCTTT
* * * * *
290955 GAGGACAAAGGAGAGAAGGAAATAAAGTGTGT-CTAGCTCTTTGAGGATAAAGGG--AAAAAGGA
1 GAGGACAAAGGAAAAAAAGAAATAAAGTGCGTCCT-GCTCTTTGAGGACAAAGGGAAAAAAAGGA
*
291017 AATGAAA-TGTGTCCAGCTCTTT
65 AAT-AAAGTGTGTCCTGCTCTTT
** * *
291039 GAGGACAAAGG--AAAAAGGGA-AAA-TGCATCCTACTCTTTGAGGACAAA-GGAAAAAAAGGAA
1 GAGGACAAAGGAAAAAAAGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAAAAAAGGAA
* * * *
291099 ATGAAGTGTGTTCTACTATTT
66 ATAAAGTGTGTCCTGCTCTTT
* * * * * * * *
291120 GAGGACAAAGGAGAAAATGAAATAAAATGCATCTTGCTCTTTGAGAATAAAGGGAAAAGAAGGAA
1 GAGGACAAAGGAAAAAAAGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAAAAAAGGAA
* *
291185 ATGAAA-TGTGTCGTACTCTTT
66 AT-AAAGTGTGTCCTGCTCTTT
* * * * * * * * *
291206 GAGGAAAAAAG-AAAAAAG-GA-AAAG-GCATCCTACCCTTTGAAGACTAAGGAAAAAAAAGGAA
1 GAGGACAAAGGAAAAAAAGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAAAAAAGGAA
* *
291267 AT-GAGATGTGTCCTACTCTTT
66 ATAAAG-TGTGTCCTGCTCTTT
* *
291288 AAAGACAAAGG-AAAAAAGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGA
1 GAGGACAAAGGAAAAAAAGAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGGAAAAAAAGGA
* *
291352 AATAAAGAGCGTCCTGCTCTTT
65 AATAAAGTGTGTCCTGCTCTTT
* * *
291374 GAGGACAAAGGAAAAAAAGAAATAAGGTGCGCCCTGTTCTTTGAGGACAAA-GG--AAAAAGGAA
1 GAGGACAAAGGAAAAAAAGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAAAAAAGGAA
** *
291436 ATAAAGTGCATCCTGCTTTTT
66 ATAAAGTGTGTCCTGCTCTTT
* *
291457 GAGGACAAAAGAGAAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTTAGGA
1 GAGGAC-AAAG-GAAAAAAA-GAAATAAAGTGCGTCCTGCTCTTTGAGGA
291507 TTAAAAGATA
Statistics
Matches: 448, Mismatches: 79, Indels: 49
0.78 0.14 0.09
Matches are distributed among these distances:
79 2 0.00
80 20 0.04
81 38 0.08
82 63 0.14
83 44 0.10
84 46 0.10
85 96 0.21
86 102 0.23
87 37 0.08
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (86 bp):
GAGGACAAAGGAAAAAAAGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAAAAAAGGAA
ATAAAGTGTGTCCTGCTCTTT
Found at i:291763 original size:23 final size:23
Alignment explanation
Indices: 291729--291777 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
291719 GCAAACACAC
*
291729 TAAAAGTCATGCCATTGAGACAT
1 TAAAAGTCATGCCATTAAGACAT
*
291752 TAAAAGAT-ATGCTATTAAGACAT
1 TAAAAG-TCATGCCATTAAGACAT
291775 TAA
1 TAA
291778 CTTCTGAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (23 bp):
TAAAAGTCATGCCATTAAGACAT
Found at i:299144 original size:22 final size:21
Alignment explanation
Indices: 299093--299144 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
299083 ACATATAGAC
299093 AATAATTAAAAATTATTTATTT
1 AATAATT-AAAATTATTTATTT
*
299115 ATTAATTAAAATT-TTATATTT
1 AATAATTAAAATTATT-TATTT
299136 AATATATTA
1 AATA-ATTA
299145 TTTTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 2 0.08
21 14 0.54
22 10 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATAATTAAAATTATTTATTT
Found at i:299499 original size:25 final size:26
Alignment explanation
Indices: 299457--299516 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
299447 ATATACGTTT
* *
299457 AAATTAAAAAAATATAAATTATATAA
1 AAATTATAAAAATATAAATTAAATAA
299483 AAATTATAAAAAT-TAAATTAAATAA
1 AAATTATAAAAATATAAATTAAATAA
**
299508 TTATTATAA
1 AAATTATAA
299517 TAATGTAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 18 0.60
26 12 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AAATTATAAAAATATAAATTAAATAA
Found at i:301380 original size:7 final size:7
Alignment explanation
Indices: 301363--301417 Score: 96
Period size: 7 Copynumber: 8.1 Consensus size: 7
301353 ATAGTATCAG
301363 AATTT-A
1 AATTTAA
301369 AATTTAA
1 AATTTAA
301376 AATTTAA
1 AATTTAA
301383 AATTT-A
1 AATTTAA
301389 AATTTAA
1 AATTTAA
301396 AATTTAA
1 AATTTAA
301403 AATTTAA
1 AATTTAA
301410 AATTTAA
1 AATTTAA
301417 A
1 A
301418 TTTCTGATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
6 11 0.23
7 36 0.77
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:301420 original size:20 final size:20
Alignment explanation
Indices: 301363--301417 Score: 101
Period size: 20 Copynumber: 2.7 Consensus size: 20
301353 ATAGTATCAG
301363 AATTTAAATTTAAAATTTAA
1 AATTTAAATTTAAAATTTAA
301383 AATTTAAATTTAAAATTTAA
1 AATTTAAATTTAAAATTTAA
301403 AATTTAAAATTTAAA
1 AATTT-AAATTTAAA
301418 TTTCTGATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 25 0.74
21 9 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAAATTTAAAATTTAA
Found at i:307050 original size:7 final size:7
Alignment explanation
Indices: 307038--307063 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
307028 TATATCAAAC
307038 TTTAAAA
1 TTTAAAA
307045 TTTAAAA
1 TTTAAAA
307052 TTTAAAA
1 TTTAAAA
307059 TTTAA
1 TTTAA
307064 TTTTTTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:308243 original size:8 final size:9
Alignment explanation
Indices: 308225--308311 Score: 50
Period size: 9 Copynumber: 8.7 Consensus size: 9
308215 ATTGATTCAA
308225 TTAATTTTT
1 TTAATTTTT
308234 TTAATTTTT
1 TTAATTTTT
308243 TTAAATTATTT
1 TT-AATT-TTT
*
308254 TTATTTTGTT
1 TTAATTT-TT
308264 CAGTTCATATTTTT
1 ---TT-A-ATTTTT
*
308278 TTAATTTTAA
1 TTAATTTT-T
*
308288 TTAAGTTTTA
1 TTAA-TTTTT
308298 TT-ATTTTT
1 TTAATTTTT
308306 TTAATT
1 TTAATT
308312 AAATTTTTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 22
0.71 0.04 0.25
Matches are distributed among these distances:
8 6 0.10
9 21 0.33
10 17 0.27
11 11 0.17
13 2 0.03
14 3 0.05
15 3 0.05
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.69
Consensus pattern (9 bp):
TTAATTTTT
Found at i:308355 original size:6 final size:6
Alignment explanation
Indices: 308344--308380 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
308334 AAGCTTTTAG
*
308344 TTTAAA TTTAAA --TAAA TTTAAA TTTAAA TTTATA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
308381 TATTAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
4 4 0.14
6 24 0.86
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:308387 original size:32 final size:32
Alignment explanation
Indices: 308351--308418 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
308341 TAGTTTAAAT
308351 TTAAATA-AATTTAAAT-TTAAATTTATATTTTA
1 TTAAATATAATTTAAATATT-AATTTA-ATTTTA
* *
308383 TTAAATATATTTTAAATATTAATTTAATTTTT
1 TTAAATATAATTTAAATATTAATTTAATTTTA
308415 TTAA
1 TTAA
308419 TTTTATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 16 0.50
33 14 0.44
34 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TTAAATATAATTTAAATATTAATTTAATTTTA
Found at i:308477 original size:13 final size:13
Alignment explanation
Indices: 308444--308468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
308434 ATAAAAAATT
308444 AATTAAATTAATC
1 AATTAAATTAATC
308457 AATTAAATTAAT
1 AATTAAATTAAT
308469 ATTTTAAATC
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTAAATTAATC
Found at i:308500 original size:17 final size:17
Alignment explanation
Indices: 308461--308502 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
308451 TTAATCAATT
*
308461 AAATTAATATTTTAAATC
1 AAATTAA-AATTTAAATC
*
308479 -GATTAAAATTTAAATC
1 AAATTAAAATTTAAATC
308495 AAATTAAA
1 AAATTAAA
308503 TAACCAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATTAAAATTTAAATC
Found at i:314329 original size:18 final size:18
Alignment explanation
Indices: 314308--314361 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
314298 AATTTTATTT
* *
314308 TAAAATTATTAATTTTTA
1 TAAAATTATTAATTATAA
* *
314326 TAAAAATAATAATTATAA
1 TAAAATTATTAATTATAA
*
314344 AATAAATTATTAATTATA
1 TA-AAATTATTAATTATA
314362 TTAATTTTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATTATTAATTATAA
Found at i:314781 original size:22 final size:22
Alignment explanation
Indices: 314756--314797 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
314746 TAATAGAATG
314756 TAAAATATAATT-AATTTAAATT
1 TAAAATA-AATTAAATTTAAATT
*
314778 TAAAATAATTTAAATTTAAA
1 TAAAATAAATTAAATTTAAA
314798 ATTATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAAATAAATTAAATTTAAATT
Found at i:314786 original size:16 final size:16
Alignment explanation
Indices: 314767--314840 Score: 85
Period size: 16 Copynumber: 4.6 Consensus size: 16
314757 AAAATATAAT
314767 TAATTTAAATTTAAAA
1 TAATTTAAATTTAAAA
314783 TAATTTAAATTTAAAA
1 TAATTTAAATTTAAAA
* * * *
314799 TTATTAAAACTCAAAA
1 TAATTTAAATTTAAAA
* *
314815 TATTTTAAATTAAAAAA
1 TAATTTAAATT-TAAAA
314832 TAATTTAAA
1 TAATTTAAA
314841 AATTTTAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
16 35 0.74
17 12 0.26
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATTTAAATTTAAAA
Found at i:320896 original size:13 final size:13
Alignment explanation
Indices: 320878--320903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
320868 CAATTTTTTG
320878 TGTATCGATACAT
1 TGTATCGATACAT
320891 TGTATCGATACAT
1 TGTATCGATACAT
320904 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:323306 original size:21 final size:21
Alignment explanation
Indices: 323282--323328 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
323272 TTTGATGCTG
323282 ATTTTG-A-TGAAAAACAAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
323302 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
323323 ATTTTG
1 ATTTTG
323329 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:325560 original size:15 final size:15
Alignment explanation
Indices: 325540--325570 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
325530 ATTTCGTTTG
*
325540 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
325555 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
325570 G
1 G
325571 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:327402 original size:21 final size:21
Alignment explanation
Indices: 327373--327417 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
327363 AAGTTTTCAT
*
327373 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
327393 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
327415 TTT
1 TTT
327418 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:329927 original size:21 final size:21
Alignment explanation
Indices: 329894--329934 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
329884 CTAAGTATAA
329894 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
329915 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
329935 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:329999 original size:20 final size:21
Alignment explanation
Indices: 329968--330026 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
329958 GTCAAAACCC
* *
329968 TGAAAAGTATCGATACACATT
1 TGAATAGTATCGATACACAAT
329989 TGAAT-GTATCGATACA-AAT
1 TGAATAGTATCGATACACAAT
*
330008 TGCATAGTATCGATACACA
1 TGAATAGTATCGATACACA
330027 CAAATATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.18
20 22 0.67
21 5 0.15
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (21 bp):
TGAATAGTATCGATACACAAT
Found at i:330096 original size:52 final size:53
Alignment explanation
Indices: 330014--330148 Score: 238
Period size: 52 Copynumber: 2.6 Consensus size: 53
330004 AAATTGCATA
330014 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCC-AATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
330067 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
330120 GTATCGATACACA-AATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
330149 TTGGAAGTAG
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
52 48 0.60
53 32 0.40
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:330140 original size:18 final size:18
Alignment explanation
Indices: 330113--330148 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
330103 TGGCAGTAGC
*
330113 CAAATTTGTATCGATACA
1 CAAATATGTATCGATACA
330131 CAAATATGTATCGATACA
1 CAAATATGTATCGATACA
330149 TTGGAAGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.31
Consensus pattern (18 bp):
CAAATATGTATCGATACA
Found at i:330191 original size:10 final size:10
Alignment explanation
Indices: 330172--330232 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
330162 AATCTCATTT
330172 TCACTGTTCA
1 TCACTGTTCA
*
330182 TCACTATTCA
1 TCACTGTTCA
330192 TCACTGTTCA
1 TCACTGTTCA
* *
330202 TGTA-TCGATACA
1 T-CACT-G-TTCA
330214 TCACTGTTCA
1 TCACTGTTCA
330224 -CACTGTTCA
1 TCACTGTTCA
330233 CGTATCACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
9 9 0.22
10 23 0.56
11 4 0.10
12 5 0.12
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.38
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:330318 original size:13 final size:13
Alignment explanation
Indices: 330300--330325 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
330290 ACATATTTCT
330300 GTGTATCGATACA
1 GTGTATCGATACA
330313 GTGTATCGATACA
1 GTGTATCGATACA
330326 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:335428 original size:17 final size:17
Alignment explanation
Indices: 335398--335435 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
335388 TTGTCAGGAT
*
335398 ATAA-TTATTAAAAATA
1 ATAATTTATTAAAAAAA
*
335414 ATAATTTATTGAAAAAA
1 ATAATTTATTAAAAAAA
335431 ATAAT
1 ATAAT
335436 AAACTTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
ATAATTTATTAAAAAAA
Found at i:336550 original size:2 final size:2
Alignment explanation
Indices: 336543--336581 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
336533 AATTGCAAAA
*
336543 AG AG AG AG AG AG AG AG AG AG AC AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
336582 AAACCAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:338670 original size:75 final size:75
Alignment explanation
Indices: 338313--338670 Score: 450
Period size: 76 Copynumber: 4.7 Consensus size: 75
338303 AATTGTCTTC
* *
338313 AGAAGTAAAAATGAGGTT-GAAGTATCTCCTCGAAAATAATGGGGTTGGAGTACCCCCAATAAAA
1 AGAAGTAAAAATGAGGTTAG-AGTATCCCCTCGAAAATAATGGGGTTGGAGTA-TCCCAATAAAA
338377 ATCAACATTTTT
64 ATCAACATTTTT
* *
338389 AGAAGTAAAAATGAGGTTAGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATTCCTAATAAAAA
1 AGAAGTAAAAATGAGGTTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTA-TCCCAATAAAAA
**
338454 TTGACATTTTT
65 TCAACATTTTT
* * *
338465 AGAAGTAAAAATG-GAGTTGGAGTATCCCCTCGGAAATAATGGGGTGGGAGTATCCTCAATAAAA
1 AGAAGTAAAAATGAG-GTTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCC-CAATAAAA
338529 ATCAACATTTTT
64 ATCAACATTTTT
* * * * *
338541 AGAAGTAAAAATGGGGTTAGAGTATCCCCTTGAAAATAATTGGGATGGAGTATCCCGATAAAAAT
1 AGAAGTAAAAATGAGGTTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCAATAAAAAT
* * *
338606 CGATATTCTT
66 CAACATTTTT
* * * * * *
338616 AGAAGTAAAAACGCGGTTGGAATATCCCCTCGAAAATAATGGTGTTGGAATATCC
1 AGAAGTAAAAATGAGGTTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCC
338671 ATGATAAATA
Statistics
Matches: 245, Mismatches: 33, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
75 66 0.27
76 177 0.72
77 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (75 bp):
AGAAGTAAAAATGAGGTTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCAATAAAAAT
CAACATTTTT
Found at i:341105 original size:20 final size:22
Alignment explanation
Indices: 341080--341131 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
341070 ACCTAGAATG
341080 TATCGATACAA-TGCAAA-ATA
1 TATCGATACAATTGCAAACATA
* *
341100 TATCGATACAATTGTAAACATG
1 TATCGATACAATTGCAAACATA
341122 TATCGATACA
1 TATCGATACA
341132 TTTTCTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.39
21 5 0.18
22 12 0.43
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (22 bp):
TATCGATACAATTGCAAACATA
Found at i:341128 original size:22 final size:20
Alignment explanation
Indices: 341076--341131 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
341066 AAAAACCTAG
341076 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGCAA
* *
341096 AATATATCGATACAATTGTAA
1 AATGTATCGATACAA-TGCAA
341117 ACATGTATCGATACA
1 A-ATGTATCGATACA
341132 TTTTCTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 14 0.45
21 5 0.16
22 12 0.39
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Done.