Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 105 of 320
Found at i:33993192 original size:26 final size:26
Alignment explanation
Indices: 33993163--33993245 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
33993153 AGCTATCTTA
*
33993163 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTACACTTAGTAC
* *
33993189 TACACAT-GT-GACTTA-AC--AGTATGA
1 TACACATAGTAG-CCTACACTTAGTA--C
*
33993213 TACACGTAGTAGCCTACACTTAGTAC
1 TACACATAGTAGCCTACACTTAGTAC
33993239 TACACAT
1 TACACAT
33993246 GTGTATTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 16
0.65 0.11 0.25
Matches are distributed among these distances:
22 4 0.10
24 9 0.21
25 9 0.21
26 16 0.38
28 4 0.10
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (26 bp):
TACACATAGTAGCCTACACTTAGTAC
Found at i:33994117 original size:216 final size:216
Alignment explanation
Indices: 33993736--33994142 Score: 719
Period size: 216 Copynumber: 1.9 Consensus size: 216
33993726 AGTTGTCACA
* *
33993736 GCTTATCTCACAAGGTCTGTAACACAAGTCTCAAATGTTCAGCATGTTGGGTTTCATCATGGAAA
1 GCTTATCTCACAAGATCTGTAACACAAGTCTCAAATGTTCAGCATGTTGGGTTTCATCAAGGAAA
*
33993801 TAGATCAAAATGTCATCTATAAACACAACCACAAACTGGTCCAGATACGGTCTGAAGATTCGATT
66 TAGATCAAAATGTCATCTATAAACACAACCACAAACCGGTCCAGATACGGTCTGAAGATTCGATT
*
33993866 CATCAAATCCATGAAAATAGCAGGTGCATTAGTGAGTCC-AAAAGGCATAACCAAAAACTCACAT
131 CATCAAATCCATGAAAATAGCAGGTGCAATAGTGAGTCCGAAAA-GCATAACCAAAAACTCACAT
33993930 TTACTGAATTTCGAATACAACT
195 TTACTGAATTTCGAATACAACT
* *
33993952 GCTTATCTCGCAAGATCTGTAACACAAGTCTCAAATGTTCAGCATGTTGGGTTTCATCAAGGGAA
1 GCTTATCTCACAAGATCTGTAACACAAGTCTCAAATGTTCAGCATGTTGGGTTTCATCAAGGAAA
33994017 TAGATCAAAATGTCATCTATAAACACAACCACAAACCGGTCCAGATACGGTCTGAAGA-TCTGAT
66 TAGATCAAAATGTCATCTATAAACACAACCACAAACCGGTCCAGATACGGTCTGAAGATTC-GAT
*
33994081 TCATGAAATCCATGAAAATAGCAGGTGCAATAGTGAGTCCGAAAAGCATAACCAAAAACTCA
130 TCATCAAATCCATGAAAATAGCAGGTGCAATAGTGAGTCCGAAAAGCATAACCAAAAACTCA
33994143 TAATGTCCAT
Statistics
Matches: 182, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
215 2 0.01
216 176 0.97
217 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (216 bp):
GCTTATCTCACAAGATCTGTAACACAAGTCTCAAATGTTCAGCATGTTGGGTTTCATCAAGGAAA
TAGATCAAAATGTCATCTATAAACACAACCACAAACCGGTCCAGATACGGTCTGAAGATTCGATT
CATCAAATCCATGAAAATAGCAGGTGCAATAGTGAGTCCGAAAAGCATAACCAAAAACTCACATT
TACTGAATTTCGAATACAACT
Found at i:33998543 original size:71 final size:71
Alignment explanation
Indices: 33998424--33998565 Score: 257
Period size: 71 Copynumber: 2.0 Consensus size: 71
33998414 CATACACAAC
* *
33998424 TTATAACATACATAAATTAGCTTACTTACCTTATTTCTATAGAAAACAGATTATTACATACTTGA
1 TTATAACATACATAAATTAGCTTACTTACCTTATTTCCATAGAAAACAGATTATTACATACCTGA
33998489 TCTTTT
66 TCTTTT
*
33998495 TTATAACATACATAAATTAGCTTACTTACCTTATTTCCATAGATAACAGATTATTACATACCTGA
1 TTATAACATACATAAATTAGCTTACTTACCTTATTTCCATAGAAAACAGATTATTACATACCTGA
33998560 TCTTTT
66 TCTTTT
33998566 AGCTCATATT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (71 bp):
TTATAACATACATAAATTAGCTTACTTACCTTATTTCCATAGAAAACAGATTATTACATACCTGA
TCTTTT
Found at i:33999940 original size:13 final size:13
Alignment explanation
Indices: 33999922--33999946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33999912 GATATAAATT
33999922 CACAAAAAATAAA
1 CACAAAAAATAAA
33999935 CACAAAAAATAA
1 CACAAAAAATAA
33999947 TTTTTAAATA
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:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (13 bp):
CACAAAAAATAAA
Found at i:34003250 original size:50 final size:51
Alignment explanation
Indices: 34003145--34003289 Score: 139
Period size: 50 Copynumber: 2.8 Consensus size: 51
34003135 TGTGTTTAAA
* * * * * ** **
34003145 ATGGCTTTCGGTCACGTGTATAGTACTAAATGTAGGCTACTACGTGTACTTG
1 ATGGC-TTAGGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCG
*
34003197 ATGG-TTAGGTCACATGTGTAGTGCTAAGTGTAGGCTACTATGCATACCCG
1 ATGGCTTAGGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCG
* * * * *
34003247 ATGGCTTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATG
1 ATGGCTTAGGTCACATGTGTAGTACTAAGTGTAGGCTACTATG
34003290 TGTAAAAGAT
Statistics
Matches: 76, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
50 40 0.53
51 32 0.42
52 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (51 bp):
ATGGCTTAGGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCG
Found at i:34006906 original size:46 final size:45
Alignment explanation
Indices: 34006738--34006907 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 45
34006728 AGCATCCAAA
* * *
34006738 CTCGTTGACTTGAGTCCGAGTTCACTTATAGATGCGAATGTCTGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CTGAG
* *** * *
34006784 CTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCAT-CTGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGCTGAG
*
34006831 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CTGAG
*
34006877 CTCGTTGATTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34006908 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 59 0.59
47 29 0.29
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (45 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCTGAG
Found at i:34009873 original size:15 final size:15
Alignment explanation
Indices: 34009853--34009908 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
34009843 GTATCTTGGG
34009853 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
34009868 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
34009883 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
34009898 TTTCTTTATTC
1 TTTCTTTATTC
34009909 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:34012360 original size:46 final size:46
Alignment explanation
Indices: 34012304--34012477 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
34012294 TGGTTGAGCA
*
34012304 TCCGAACTCGTTTAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * * * * *
34012350 TCTGAACTCGTTGAGTTGAATCTGAGTT--C-GAGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA-T--G
* * *
34012395 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * *
34012443 CCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
34012478 GGGCGGGTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 1 0.01
45 1 0.01
46 57 0.56
47 24 0.24
48 1 0.01
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
Found at i:34012470 original size:93 final size:93
Alignment explanation
Indices: 34012301--34012471 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
34012291 GGATGGTTGA
* * * *
34012301 GCATCCGAACTCGTTTAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
*
34012366 TGAATCTGAGTTCGAGAGATGTAACTAG
66 TGAATCCGAGTTCGAGAGATGTAACTAG
* * * *
34012394 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
*
34012459 TGAGTCCGAGTTC
66 TGAATCCGAGTTC
34012472 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
TGAATCCGAGTTCGAGAGATGTAACTAG
Found at i:34015779 original size:18 final size:19
Alignment explanation
Indices: 34015756--34015793 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
34015746 TATTGTTGTT
34015756 TTTTTTCTCATTT-ATTTA
1 TTTTTTCTCATTTAATTTA
* *
34015774 TTTTTTGTTATTTAATTTA
1 TTTTTTCTCATTTAATTTA
34015793 T
1 T
34015794 CTCTTTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTTTCTCATTTAATTTA
Found at i:34019482 original size:176 final size:175
Alignment explanation
Indices: 34019236--34019583 Score: 678
Period size: 176 Copynumber: 2.0 Consensus size: 175
34019226 AAAATATGAA
34019236 ATTAAAGCTTATTGAGCTAGTTTTTCACAGAAGAAACGATGTAAGCAATGGATTTGTAAATTATG
1 ATTAAAGCTTATTGAGCTAGTTTTTCACAGAAGAAACGATGTAAGCAATGGATTTGTAAATTATG
34019301 AGATATAATGAATTTTGTGAGACAATGTTAGAATGAATTCGGGTTCCTCTGTTTTGACTTTGGAA
66 AGATATAATGAATTTTGTGAGACAATGTTAGAATGAATTCGGGTTCCTCTGTTTTGACTTTGGAA
*
34019366 AATCACCAAAAATTGGAGAAAATTAATTAGAGTCTCAAATTTTTT
131 AATCACCAAAAATTGGAGAAAATAAATTAGAGTCTCAAATTTTTT
34019411 ATTAAAGCTTATTGAGTCTAGTTTTTCACAGAAGAAACGATGTAAGCAATGGATTTGTAAATTAT
1 ATTAAAGCTTATTGAG-CTAGTTTTTCACAGAAGAAACGATGTAAGCAATGGATTTGTAAATTAT
34019476 GAGATATAATGAATTTTGTGAGACAATGTTAGAATGAATTCGGGTTCCTCTGTTTTGACTTTGGA
65 GAGATATAATGAATTTTGTGAGACAATGTTAGAATGAATTCGGGTTCCTCTGTTTTGACTTTGGA
34019541 AAATCACCAAAAATTGGAGAAAATAAATTAGAGTCTCAAATTT
130 AAATCACCAAAAATTGGAGAAAATAAATTAGAGTCTCAAATTT
34019584 ATATACTTAG
Statistics
Matches: 171, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
175 16 0.09
176 155 0.91
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (175 bp):
ATTAAAGCTTATTGAGCTAGTTTTTCACAGAAGAAACGATGTAAGCAATGGATTTGTAAATTATG
AGATATAATGAATTTTGTGAGACAATGTTAGAATGAATTCGGGTTCCTCTGTTTTGACTTTGGAA
AATCACCAAAAATTGGAGAAAATAAATTAGAGTCTCAAATTTTTT
Found at i:34038017 original size:37 final size:37
Alignment explanation
Indices: 34037958--34038143 Score: 277
Period size: 37 Copynumber: 5.0 Consensus size: 37
34037948 AGCTCAGATG
* * *
34037958 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA-
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA-AT
34037995 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAT
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAT
* *
34038032 ATATTTCCACACGTAGTCATCGGGTCTTACCCGGAAT
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAT
* *
34038069 ATATTTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA-AT
34038107 -AATCTCCACACGTAGTCATCGGGTCTTACCCGGAAT
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAT
34038143 A
1 A
34038144 TATTTCCAAG
Statistics
Matches: 139, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
36 3 0.02
37 134 0.96
38 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAT
Found at i:34038339 original size:48 final size:48
Alignment explanation
Indices: 34038281--34038859 Score: 941
Period size: 48 Copynumber: 12.0 Consensus size: 48
34038271 ATATACACAC
* * * *
34038281 ATCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
34038329 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
34038377 ATCTCATATATATATTTCACATTAGCCATTTGACTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
34038427 ATC-CATACATATTTCACATTAGCCATTTGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
34038474 ATC-CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
34038521 ATCCCATACATATTTCACATTAGCCATTCGGCTTTAACACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
34038569 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
34038617 AT-TCCATACATA-TTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCT-CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
34038664 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
34038712 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
34038762 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
34038810 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
34038858 AT
1 AT
34038860 ATTTATCTTG
Statistics
Matches: 505, Mismatches: 18, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
47 135 0.27
48 280 0.55
49 1 0.00
50 89 0.18
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:34038787 original size:241 final size:240
Alignment explanation
Indices: 34038281--34038859 Score: 966
Period size: 241 Copynumber: 2.4 Consensus size: 240
34038271 ATATACACAC
* * * * *
34038281 ATCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCA
* * * *
34038346 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTTGAC
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCACATACATATTTCACATTAGCCATTCGAC
*
34038411 TTTACCACATATACATATCCATACATATTTCACATTAGCCATTTGACTTTACCACATATACATAT
131 TTTACCACATATACATATCCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
34038476 CCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
196 CCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
34038521 ATCCCATACATATTTCACATTAGCCATTCGGCTTTAACACATATACATATCCCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCA
*
34038586 CATTAGCCATTCGGCTTTACCACATATACATAT-TC-CATACATA-TTCACATTAGCCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCACATACATATTTCACATTAGCCATTCGAC
*
34038648 TTTACCACATATACATATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
131 TTTACCACATATACATAT-CCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATA
*
34038713 TCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
195 TC-C--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
34038762 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCA
34038827 CATTAGCCATTCGGCTTTACCACATATACATAT
66 CATTAGCCATTCGGCTTTACCACATATACATAT
34038860 ATTTATCTTG
Statistics
Matches: 318, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
237 35 0.11
238 52 0.16
239 3 0.01
240 90 0.28
241 138 0.43
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (240 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACATATCTCACATACATATTTCACATTAGCCATTCGAC
TTTACCACATATACATATCCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATAT
CCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:34048903 original size:94 final size:94
Alignment explanation
Indices: 34048705--34048927 Score: 238
Period size: 94 Copynumber: 2.4 Consensus size: 94
34048695 GGGTTATTGT
* *
34048705 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAGGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCATG
* * ** *
34048770 TCTGGGACATGGCATTGGCATAGAGACGA
66 TCTAGGACACGGCATCAGCACAGAGACGA
* * * *
34048799 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGG-C-TATGA-GAT-GTTTCAGTGTAAGACCA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGATAG--CCAGTGTAAGACCA
* *
34048860 TGTCTAGGACACGGCATCAGCACAGATATACTA
64 TGTCTAGGACACGGCATCAGCACAG--AGACGA
*
34048893 GAGCTTGTGTAAGACCATGTCTGGGACATGTCATC
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG-CATC
34048928 AGCATCTTAC
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
90 1 0.01
91 3 0.03
92 35 0.33
93 1 0.01
94 49 0.46
95 14 0.13
96 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCATG
TCTAGGACACGGCATCAGCACAGAGACGA
Found at i:34050482 original size:48 final size:47
Alignment explanation
Indices: 34050421--34050741 Score: 204
Period size: 46 Copynumber: 6.8 Consensus size: 47
34050411 CAGCCACATT
*
34050421 ATGAGAGCAAGTGTAAGACCATGTCTGGGACATGGCATCGAGATTGAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GATTGAG
* * *
34050469 ACGAGAGCTAGTGTAAGA--ATGTCTGGGACAT-GCATCGGCCTTAAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-ATTGAG
* * *
34050514 ATGTA-AGTTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTGTGAG
1 ATG-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGAT-TGAG
* * * *
34050560 ATG-TA-TTAGTGTAAGACCATGTCTTGGACATGGCATTGGCACATAT-AG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG---AT-TGAG
* * * ** *
34050608 A-G-GTG-TCAGTGTAGGACCATATCTGGGACATGGCATCGGCACGGAT
1 ATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGG-ATTGAG
* *
34050654 ATGTGAGAGCTAGTGTAAGACTATGTTTGGGACATGGCATC-GACTT--G
1 A--TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGA-TTGAG
* * *
34050701 ATGGATGAGCCAGTGTAAAACCATGCCTGGGACATGGCATC
1 AT-GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
34050742 AGCATTATAC
Statistics
Matches: 219, Mismatches: 33, Indels: 43
0.74 0.11 0.15
Matches are distributed among these distances:
44 12 0.05
45 41 0.19
46 52 0.24
47 33 0.15
48 48 0.22
49 4 0.02
50 28 0.13
51 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (47 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGATTGAG
Found at i:34050537 original size:46 final size:45
Alignment explanation
Indices: 34050381--34050591 Score: 180
Period size: 46 Copynumber: 4.6 Consensus size: 45
34050371 TTATTTGTAT
* * * *
34050381 GCTAGTGTAAGACATGTCTAGGACATGCATCAGC-CACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTA-A-GATGAGA
* * * *
34050427 GCAAGTGTAAGACCATGTCTGGGACATGGCATCGAGATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG-GCTTAAGATGAGA
34050475 GCTAGTGTAAGA-ATGTCTGGGACATGCATCGGCCTTAAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTTAAGATG-AGA
* * * *
34050520 GTTAGTGTAAGACATGTCTGGGACATGCATTGGCTGTGAGATG-TA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-TAAGATGAGA
* *
34050565 -TTAGTGTAAGACCATGTCTTGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
34050592 GCATTGGCAC
Statistics
Matches: 139, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
44 12 0.09
45 41 0.29
46 50 0.36
47 13 0.09
48 21 0.15
49 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTAAGATGAGA
Found at i:34050599 original size:46 final size:44
Alignment explanation
Indices: 34050430--34050591 Score: 175
Period size: 45 Copynumber: 3.5 Consensus size: 44
34050420 TATGAGAGCA
* * * *
34050430 AGTGTAAGACCATGTCTGGGACATGGCATCGAGATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG-GCTTGAGATG-TAGTT
*
34050478 AGTGTAAGA-ATGTCTGGGACATGCATCGGCCTTAAGATGTAAGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTTGAGATGT-AGTT
*
34050523 AGTGTAAGACATGTCTGGGACATGCATTGGCTGTGAGATGTA-TT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-TGAGATGTAGTT
*
34050567 AGTGTAAGACCATGTCTTGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
34050592 GCATTGGCAC
Statistics
Matches: 101, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
44 12 0.12
45 41 0.41
46 39 0.39
48 9 0.09
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTTGAGATGTAGTT
Found at i:34052444 original size:40 final size:40
Alignment explanation
Indices: 34052351--34052649 Score: 360
Period size: 40 Copynumber: 7.5 Consensus size: 40
34052341 AAGCCAAGTA
* * *
34052351 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
34052389 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34052429 CCTTCGGGACTTAGCCCGTATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34052469 CCTTCGGGACTTAGCCCGGATATAGTAACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
34052509 CCTTCAGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34052549 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
* *
34052590 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
34052631 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34052650 TTATCATCCA
Statistics
Matches: 236, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
38 12 0.05
39 19 0.08
40 137 0.58
41 63 0.27
42 5 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34060639 original size:40 final size:40
Alignment explanation
Indices: 34060546--34060802 Score: 346
Period size: 40 Copynumber: 6.5 Consensus size: 40
34060536 AAGCCAAGTA
* * *
34060546 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
34060584 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34060624 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34060664 CCTTCAGGACTTAGCCCGGATATAGTAACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34060704 CCTTCGGGACTTAGCCCGGATGTAATAACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34060743 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
34060784 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34060803 TTATCATCCA
Statistics
Matches: 198, Mismatches: 14, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
38 12 0.06
39 52 0.26
40 107 0.54
41 24 0.12
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34063489 original size:21 final size:20
Alignment explanation
Indices: 34063465--34063504 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
34063455 ATGTTCAAGT
34063465 TCCACACAGGCGTGTTGCCCA
1 TCCACACAGGCGTG-TGCCCA
*
34063486 TCCACACGGGCGTGTGCCC
1 TCCACACAGGCGTGTGCCC
34063505 TATCAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.15, C:0.40, G:0.28, T:0.17
Consensus pattern (20 bp):
TCCACACAGGCGTGTGCCCA
Found at i:34064668 original size:16 final size:16
Alignment explanation
Indices: 34064647--34064678 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34064637 CCGTGTGAGA
34064647 TTACTGAAAGGATAGG
1 TTACTGAAAGGATAGG
34064663 TTACTGAAAGGATAGG
1 TTACTGAAAGGATAGG
34064679 GCCTGCAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
TTACTGAAAGGATAGG
Found at i:34068624 original size:64 final size:64
Alignment explanation
Indices: 34068546--34068729 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
34068536 AGACATTACG
* * *
34068546 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
34068610 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
34068675 AA
63 AA
* * * *
34068677 AT-TGGCTAGGTCACATGGGTGGTATTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
34068730 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 33 0.34
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:34070626 original size:56 final size:56
Alignment explanation
Indices: 34070539--34070644 Score: 176
Period size: 56 Copynumber: 1.9 Consensus size: 56
34070529 GTAACCACAT
*
34070539 ATATCGATGCCAACGTACTAGACGTGGTCTTACTCGCACACATATATCGAAATCAC
1 ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGAAATCAC
* * *
34070595 ATATCGATGCCAACGTATTAAATGTGTTCTTACTCGCACACATATATCGA
1 ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGA
34070645 TGCCATGGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGAAATCAC
Found at i:34075307 original size:39 final size:40
Alignment explanation
Indices: 34075138--34075306 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
34075128 GGACTAAGAT
* * *
34075138 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
34075178 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
34075218 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
34075258 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
34075297 CCGAAGGCAT
1 CCGAAGGCAT
34075307 GTGAACGAGG
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 79 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:34075327 original size:79 final size:80
Alignment explanation
Indices: 34075138--34075342 Score: 204
Period size: 79 Copynumber: 2.6 Consensus size: 80
34075128 GGACTAAGAT
* * * * *
34075138 CCGAAGGCCTTTGTGCGA-GATACTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATT
1 CCGAAGGCATTCGTGCGAGGA-GCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACT
* *
34075202 AAAGCCGGGTTAAGTC
65 AAAACCGGGCTAAGTC
** * * * *
34075218 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTA
1 CCGAAGGCATTCGTGCGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
*
34075282 AAACCGGGCTATGTC
66 AAACCGGGCTAAGTC
* *
34075297 CCGAAGGCA-T-GTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGAAGGCATTCGTG--CGAGGAGCTAAATCCGGGTTAAGTCCCGAAGG
34075343 TACGTGAATT
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
77 3 0.03
78 15 0.15
79 44 0.43
80 40 0.39
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
AAACCGGGCTAAGTC
Found at i:34085657 original size:30 final size:29
Alignment explanation
Indices: 34085595--34085658 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
34085585 TTGTTCTGGG
* *
34085595 AAAAATAATTTTGACAAGATAGGTTATGA
1 AAAAATAAATTTGACAAGATAGATTATGA
** *
34085624 AAAAATAAATTTGACGTGATATATTATGA
1 AAAAATAAATTTGACAAGATAGATTATGA
34085653 AAAAAT
1 AAAAAT
34085659 TATTTGATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.52, C:0.03, G:0.14, T:0.31
Consensus pattern (29 bp):
AAAAATAAATTTGACAAGATAGATTATGA
Found at i:34085893 original size:59 final size:58
Alignment explanation
Indices: 34085712--34085911 Score: 307
Period size: 59 Copynumber: 3.4 Consensus size: 58
34085702 CACAGTCAGT
34085712 AATATATTTGTACAAAAATATTCAAAAGAGCTTCTATTTTATTAAATGAAACAATATAAA
1 AATA-ATTTGTACAAAAATATTCAAAAGA-CTTCTATTTTATTAAATGAAACAATATAAA
* *
34085772 AATAATTTGTACAAAAATATT-AAAA-A-ATCTATTTTATTAAATGAAACAATATTAA
1 AATAATTTGTACAAAAATATTCAAAAGACTTCTATTTTATTAAATGAAACAATATAAA
* *
34085827 AATAATTTGTACAAAAATATTGAAAAGTACTTCTTTTTTATTAAATGAAACAATATAAA
1 AATAATTTGTACAAAAATATTCAAAAG-ACTTCTATTTTATTAAATGAAACAATATAAA
*
34085886 AACAATTTGTACAAAAATATTCAAAA
1 AATAATTTGTACAAAAATATTCAAAA
34085912 ATAAATCAAT
Statistics
Matches: 129, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
55 48 0.37
56 4 0.03
57 1 0.01
58 5 0.04
59 67 0.52
60 4 0.03
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (58 bp):
AATAATTTGTACAAAAATATTCAAAAGACTTCTATTTTATTAAATGAAACAATATAAA
Found at i:34086895 original size:24 final size:24
Alignment explanation
Indices: 34086852--34086897 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
34086842 AAGATTTAGT
*
34086852 ATTTATTAGTATAATATATTTGGC
1 ATTTATTAGCATAATATATTTGGC
* *
34086876 ATTTATTAGCATAGTTTATTTG
1 ATTTATTAGCATAATATATTTG
34086898 ACTTACTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.52
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTGGC
Found at i:34089931 original size:18 final size:18
Alignment explanation
Indices: 34089891--34089941 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
34089881 TAAAAAGAAT
* *
34089891 TATTAAAAAATTTAATTA
1 TATTAAAAAATTAAATGA
* *
34089909 AATTATAAAATTAAATGA
1 TATTAAAAAATTAAATGA
*
34089927 TATTAAAAAAATAAA
1 TATTAAAAAATTAAA
34089942 ATTAACCCTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TATTAAAAAATTAAATGA
Found at i:34090720 original size:12 final size:12
Alignment explanation
Indices: 34090703--34090736 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
34090693 CGGCCCGCCC
34090703 ATATTAATTTTT
1 ATATTAATTTTT
*
34090715 ATATTATTTTTT
1 ATATTAATTTTT
34090727 ATA-TAATTTT
1 ATATTAATTTT
34090737 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:34090903 original size:30 final size:31
Alignment explanation
Indices: 34090860--34090922 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
34090850 CTTAACAAGA
* *
34090860 AAATGGTTCTAAAATAGT-AACAAAATTAAC
1 AAATGGTTCTAAAATAATAAAAAAAATTAAC
34090890 AAATGTGTT-TAAAATAATAAAAAAAATTAAC
1 AAATG-GTTCTAAAATAATAAAAAAAATTAAC
34090921 AA
1 AA
34090923 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (31 bp):
AAATGGTTCTAAAATAATAAAAAAAATTAAC
Found at i:34092194 original size:23 final size:23
Alignment explanation
Indices: 34092168--34092211 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
34092158 TTCAACATTT
*
34092168 TTATATTATTTATTT-TAAAATAA
1 TTAT-TTATTAATTTGTAAAATAA
*
34092191 TTATTTCTTAATTTGTAAAAT
1 TTATTTATTAATTTGTAAAAT
34092212 TATGATAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTATTTATTAATTTGTAAAATAA
Found at i:34093360 original size:42 final size:41
Alignment explanation
Indices: 34093267--34093360 Score: 95
Period size: 41 Copynumber: 2.3 Consensus size: 41
34093257 AAGCAACATA
* *
34093267 GGAAAGCAACATCAATGTCTAGACAAAAAATAAAGCAACTT
1 GGAAAGCAACATCAATGTCTAAACAAAAAATAAAACAACTT
* *
34093308 GAAAACCAACATCCAA-GT-TCAAACAAAAAA-AGAAACAACTT
1 GGAAAGCAACAT-CAATGTCT-AAACAAAAAATA-AAACAACTT
34093349 GGGAAAGCAACA
1 -GGAAAGCAACA
34093361 GTTTAGGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.05
41 29 0.67
42 12 0.28
ACGTcount: A:0.54, C:0.19, G:0.14, T:0.13
Consensus pattern (41 bp):
GGAAAGCAACATCAATGTCTAAACAAAAAATAAAACAACTT
Found at i:34095291 original size:34 final size:34
Alignment explanation
Indices: 34095253--34095321 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
34095243 TTAACAACAA
34095253 TGAAATGCTTCTCTTCTATTGTTCGAAAACAAGT
1 TGAAATGCTTCTCTTCTATTGTTCGAAAACAAGT
34095287 TGAAATGCTTCTCTTCTATTGTTCGAAAACAAGT
1 TGAAATGCTTCTCTTCTATTGTTCGAAAACAAGT
34095321 T
1 T
34095322 TATAAGGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (34 bp):
TGAAATGCTTCTCTTCTATTGTTCGAAAACAAGT
Found at i:34096275 original size:158 final size:158
Alignment explanation
Indices: 34095979--34096297 Score: 611
Period size: 158 Copynumber: 2.0 Consensus size: 158
34095969 CCTGGTGCAT
34095979 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
1 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
*
34096044 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACGT
66 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACAT
34096109 AAACATTTGAACATGAAGTTTCAAAAGA
131 AAACATTTGAACATGAAGTTTCAAAAGA
34096137 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
1 AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
*
34096202 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTGACAT
66 AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACAT
*
34096267 AAAGATTTGAACATGAAGTTTCAAAAGA
131 AAACATTTGAACATGAAGTTTCAAAAGA
34096295 AGG
1 AGG
34096298 AATTAACAAA
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (158 bp):
AGGCAGGCATCTTGTATTAGGCTCAGAATTGAGCTTCTCCATTTCTAAACAAGTAAACTTTGCAG
AGAAGATGAACTTCTCTGCATCCAAATTGTTGTTGCATTCCATGACAATAATTTGGACGTAACAT
AAACATTTGAACATGAAGTTTCAAAAGA
Found at i:34098728 original size:28 final size:28
Alignment explanation
Indices: 34098697--34098750 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
34098687 AACAAAGAAT
* *
34098697 TTTCCCCTTTTTTCTTTCTCTTTTTTTA
1 TTTCCCCTTTTTTATTTCTCCTTTTTTA
* *
34098725 TTTCTCTTTTTTTATTTCTCCTTTTT
1 TTTCCCCTTTTTTATTTCTCCTTTTT
34098751 CACTCAGCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTCCCCTTTTTTATTTCTCCTTTTTTA
Found at i:34098735 original size:15 final size:14
Alignment explanation
Indices: 34098704--34098750 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
34098694 AATTTTCCCC
*
34098704 TTTTTTCTTTCTCT
1 TTTTTTATTTCTCT
34098718 TTTTTTATTTCTCT
1 TTTTTTATTTCTCT
34098732 TTTTTTATTTCTCCT
1 TTTTTTATTTCT-CT
34098747 TTTT
1 TTTT
34098751 CACTCAGCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 25 0.81
15 6 0.19
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTATTTCTCT
Found at i:34103597 original size:15 final size:15
Alignment explanation
Indices: 34103579--34103611 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
34103569 TGGATTCTCG
34103579 TATCATGGATTTCTT
1 TATCATGGATTTCTT
*
34103594 TATCTTGGATTTCTT
1 TATCATGGATTTCTT
34103609 TAT
1 TAT
34103612 TATTGGCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (15 bp):
TATCATGGATTTCTT
Found at i:34106551 original size:50 final size:49
Alignment explanation
Indices: 34106374--34106618 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
34106364 GCTATTGTGA
* * *
34106374 GGTCATGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * ** * *
34106423 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGAAAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * **
34106473 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
34106523 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
34106573 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
34106619 GCTTCGGCTA
Statistics
Matches: 164, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 80 0.49
50 48 0.29
51 36 0.22
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:34115641 original size:16 final size:15
Alignment explanation
Indices: 34115607--34115641 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34115597 TTTTATATAA
*
34115607 ATATAAATATTTTTT
1 ATATAAATATTTCTT
34115622 ATATAAATATTTGCTT
1 ATATAAATATTT-CTT
34115638 ATAT
1 ATAT
34115642 TAATTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (15 bp):
ATATAAATATTTCTT
Found at i:34115889 original size:43 final size:43
Alignment explanation
Indices: 34115828--34115915 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
34115818 ATTGTAAACA
*
34115828 AAATCTACACTATAACTTGGCATTGTACGCTTGTGGTTGATAT
1 AAATCTACACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
*
34115871 AAATCTATACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
1 AAATCTACACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
34115914 AA
1 AA
34115916 TTTAAAGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (43 bp):
AAATCTACACTATAACTTGGCATCGTACGCTTGTGGTTGATAT
Found at i:34117777 original size:20 final size:20
Alignment explanation
Indices: 34117752--34117791 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
34117742 TGTCAAGGAT
34117752 GAAACCAAAGCATAAATTTA
1 GAAACCAAAGCATAAATTTA
34117772 GAAACCAAAGCATAAATTTA
1 GAAACCAAAGCATAAATTTA
34117792 TACTTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.20
Consensus pattern (20 bp):
GAAACCAAAGCATAAATTTA
Found at i:34119660 original size:51 final size:51
Alignment explanation
Indices: 34119584--34119687 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
34119574 TAAACAAGTT
34119584 TCAATTGTCAAGACATAAAGCAACACAGATAGAAGGATCACAAATATACCC
1 TCAATTGTCAAGACATAAAGCAACACAGATAGAAGGATCACAAATATACCC
34119635 TCAATTGTCAAGACATAAAGCAACACAGATAGAAGGATCACAAATATACCC
1 TCAATTGTCAAGACATAAAGCAACACAGATAGAAGGATCACAAATATACCC
34119686 TC
1 TC
34119688 TTCAATTGAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.46, C:0.22, G:0.13, T:0.18
Consensus pattern (51 bp):
TCAATTGTCAAGACATAAAGCAACACAGATAGAAGGATCACAAATATACCC
Found at i:34121966 original size:9 final size:9
Alignment explanation
Indices: 34121948--34121996 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
34121938 TTGATAAGAA
34121948 AATA-TTTT
1 AATATTTTT
34121956 AATATTTTT
1 AATATTTTT
34121965 AATATTTTT
1 AATATTTTT
* *
34121974 AAT-GTATT
1 AATATTTTT
34121982 AA-ATTTTT
1 AATATTTTT
34121990 AATATTT
1 AATATTT
34121997 ATTTTTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
8 14 0.41
9 20 0.59
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
AATATTTTT
Found at i:34122024 original size:17 final size:17
Alignment explanation
Indices: 34122002--34122035 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34121992 TATTTATTTT
34122002 TATATAAAAAATTAATA
1 TATATAAAAAATTAATA
*
34122019 TATATATAAAATTAATA
1 TATATAAAAAATTAATA
34122036 CAAGCATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATATAAAAAATTAATA
Found at i:34122886 original size:21 final size:21
Alignment explanation
Indices: 34122860--34122907 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
34122850 AATATTATAT
34122860 AATAATATAAATGTGTGAATC
1 AATAATATAAATGTGTGAATC
34122881 AATAATATAAATGTGTGAATC
1 AATAATATAAATGTGTGAATC
*
34122902 ATTAAT
1 AATAAT
34122908 CATTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.35
Consensus pattern (21 bp):
AATAATATAAATGTGTGAATC
Found at i:34124737 original size:29 final size:29
Alignment explanation
Indices: 34124695--34124752 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
34124685 CAATATAATG
34124695 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
1 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
34124724 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
1 AATTGAGTAGTTTTTTGTAGTTTAAAGGT
34124753 TGAGAATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (29 bp):
AATTGAGTAGTTTTTTGTAGTTTAAAGGT
Found at i:34130457 original size:27 final size:26
Alignment explanation
Indices: 34130426--34130525 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 26
34130416 TTTAGTTTAC
*
34130426 TAAAATTACCGAAATACCCTTAGTTG
1 TAAAATTACCGAAATACCCTTACTTG
* * * * *
34130452 TAAAAATACTGAAAAACCCTCGATTTG
1 TAAAATTACCGAAATACCCT-TACTTG
*
34130479 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTT--ACTTG
34130506 TAAAATTACC-AAAGTACCCT
1 TAAAATTACCGAAA-TACCCT
34130526 AAATTTACAG
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 23 0.39
27 33 0.56
28 3 0.05
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (26 bp):
TAAAATTACCGAAATACCCTTACTTG
Found at i:34130465 original size:26 final size:27
Alignment explanation
Indices: 34130426--34130514 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
34130416 TTTAGTTTAC
* *
34130426 TAAAATTACCGAAATACCCT-TAGTTG
1 TAAAATTACTGAAATACCCTCGAGTTG
* * *
34130452 TAAAAATACTGAAAAACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGAGTTG
* *
34130479 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGAGTTG
34130506 TAAAATTAC
1 TAAAATTAC
34130515 CAAAGTACCC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 17 0.32
27 36 0.68
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGAGTTG
Found at i:34130550 original size:27 final size:27
Alignment explanation
Indices: 34130520--34130731 Score: 228
Period size: 27 Copynumber: 7.9 Consensus size: 27
34130510 ATTACCAAAG
*
34130520 TACCCTAAATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
* * * **
34130547 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCAATTTACAGAATTACTGTTT
* *
34130574 TACCCCCAATTTACATAATTA-TCGTTT
1 TACCCTCAATTTACAGAATTACT-GTTT
* *
34130601 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
* * **
34130628 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACTGTTT
*
34130655 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
* ** *
34130682 TACTCTTGATTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACTGTTT
*
34130709 TACCCTCAATTTACAAAATTACT
1 TACCCTCAATTTACAGAATTACT
34130732 AAAATACCCT
Statistics
Matches: 154, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
27 153 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACTGTTT
Found at i:34130739 original size:27 final size:27
Alignment explanation
Indices: 34130690--34130741 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
34130680 TTTACTCTTG
* ***
34130690 ATTTACAGAATTACTATTTTACCCTCA
1 ATTTACAAAATTACTAAAATACCCTCA
34130717 ATTTACAAAATTACTAAAATACCCT
1 ATTTACAAAATTACTAAAATACCCT
34130742 TGGTTTGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (27 bp):
ATTTACAAAATTACTAAAATACCCTCA
Found at i:34130741 original size:81 final size:81
Alignment explanation
Indices: 34130528--34130730 Score: 282
Period size: 81 Copynumber: 2.5 Consensus size: 81
34130518 AGTACCCTAA
* * * *
34130528 ATTTACAGAATTACTGTTTTACCCCCGATTTACATAATTACCATTTTACCCCCAATTTACATAAT
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAAT
34130593 TATCGTTTTACCCTCG
66 TATCGTTTTACCCTCG
* * * *
34130609 ACTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAAT
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAAT
* *
34130674 TA-CTGTTTTACTCTTG
66 TATC-GTTTTACCCTCG
* *
34130690 ATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTAC
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
34130731 TAAAATACCC
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 106 0.99
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (81 bp):
ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAAT
TATCGTTTTACCCTCG
Found at i:34130753 original size:27 final size:27
Alignment explanation
Indices: 34130723--34130913 Score: 136
Period size: 27 Copynumber: 7.0 Consensus size: 27
34130713 CTCAATTTAC
34130723 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
* *
34130750 AAAATTACCAAAATAACCTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
* * ***
34130777 GAAATTA-TCGAAATACCCTCAATTTGT
1 AAAATTACT-AAAATACCCTTGGTTTGT
* * * **
34130804 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTAAAATACCCTTGGTTTGT
* * *
34130831 AAAGTTAC-AGAAATACCCTTGACTTTCT
1 AAAATTACTA-AAATACCCTTG-GTTTGT
* **
34130859 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACTA-AAATACCCTTGGTTTGT
* *
34130887 AAAATTACTGAAATACCTTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
34130914 TGATTTACCA
Statistics
Matches: 126, Mismatches: 31, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 7 0.06
29 18 0.14
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTGGTTTGT
Found at i:34130756 original size:54 final size:54
Alignment explanation
Indices: 34130582--34130759 Score: 131
Period size: 54 Copynumber: 3.3 Consensus size: 54
34130572 TTTACCCCCA
* * * * * * **** *
34130582 ATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACTGTTTTACCCTCG
1 ATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
* * * * **** *
34130636 ATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTTTTACTCTTG
1 ATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
* *
34130690 ATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
1 ATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
* **
34130744 GTTTGTAAAATTACCA
1 ATTTACAAAATTACCA
34130760 AAATAACCTT
Statistics
Matches: 101, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (54 bp):
ATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
Found at i:34130998 original size:27 final size:24
Alignment explanation
Indices: 34130954--34131027 Score: 85
Period size: 24 Copynumber: 2.9 Consensus size: 24
34130944 ATGACTAAAA
*
34130954 TACCCCTATTAGGGTAAAGTGACCG
1 TACCCCT-GTAGGGTAAAGTGACCG
34130979 TAAAGCCCCTGTAGGGTAAAGTGACCG
1 T--A-CCCCTGTAGGGTAAAGTGACCG
* *
34131006 TACCCCTGTATGGTAAAATGAC
1 TACCCCTGTAGGGTAAAGTGAC
34131028 GAATATGCCC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 18 0.42
25 2 0.05
27 18 0.42
28 5 0.12
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (24 bp):
TACCCCTGTAGGGTAAAGTGACCG
Found at i:34131020 original size:24 final size:26
Alignment explanation
Indices: 34130963--34131027 Score: 89
Period size: 24 Copynumber: 2.5 Consensus size: 26
34130953 ATACCCCTAT
34130963 TAGGGTAAAGTGACCGTAAAGCCCCTG
1 TAGGGTAAAGTGACCGT-AAGCCCCTG
34130990 TAGGGTAAAGTGACCGT-A-CCCCTG
1 TAGGGTAAAGTGACCGTAAGCCCCTG
* *
34131014 TATGGTAAAATGAC
1 TAGGGTAAAGTGAC
34131028 GAATATGCCC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 18 0.50
25 1 0.03
27 17 0.47
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (26 bp):
TAGGGTAAAGTGACCGTAAGCCCCTG
Found at i:34131859 original size:26 final size:26
Alignment explanation
Indices: 34131830--34131927 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
34131820 GAGGAAGTGC
34131830 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
34131856 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
34131882 AAAAGGGATTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
34131908 AAAAGGGCTT-TTCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
34131928 ATTAAAGAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 9 0.14
26 56 0.86
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:34131908 original size:52 final size:51
Alignment explanation
Indices: 34131830--34131927 Score: 169
Period size: 52 Copynumber: 1.9 Consensus size: 51
34131820 GAGGAAGTGC
*
34131830 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTTATTG
*
34131882 AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTTTTCCCCAGTT
1 AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
34131928 ATTAAAGAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 9 0.20
52 35 0.80
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATTG
Found at i:34132131 original size:42 final size:42
Alignment explanation
Indices: 34132072--34132163 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
34132062 TAGTCTCCCC
* ** *
34132072 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
34132114 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
34132156 AAATGGGC
1 AAATGGGC
34132164 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:34132264 original size:31 final size:31
Alignment explanation
Indices: 34132187--34132267 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
34132177 CGTTTACAGT
*
34132187 AAAGGCTTCGGCCCAATAAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTAAAATGATTTATGA
* * *
34132218 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTAAAATGATTTATGA
34132249 AAAGGCTTCGGCCCAGTAA
1 AAAGGCTTCGGCCCAGTAA
34132268 TCGTTAAACG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAAAATGATTTATGA
Found at i:34134597 original size:68 final size:66
Alignment explanation
Indices: 34134381--34134602 Score: 186
Period size: 68 Copynumber: 3.4 Consensus size: 66
34134371 CATAATTTTG
* * **
34134381 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGC--CATTTTA-TCTCGT
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATATTCTCGT
34134443 A
66 A
** * * * * * * * * *
34134444 GCTCTCTTGTTTACAAGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATC-TA-TCT
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACCTCATATTCT
34134507 CGTA
63 CGTA
*
34134511 GCTCTCTTGT-CTATATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCAT-AT-TCT
34134575 CGTA
63 CGTA
* *
34134579 GCTCCCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
34134603 TCCCGTATTA
Statistics
Matches: 122, Mismatches: 26, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
63 17 0.14
64 27 0.22
65 1 0.01
66 22 0.18
67 25 0.20
68 29 0.24
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (66 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATATTCTCGT
A
Found at i:34137738 original size:41 final size:41
Alignment explanation
Indices: 34137678--34137774 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 41
34137668 CTATCTCGGT
* *
34137678 AGTGCCTTACATAGCCGAAGCTATCT-TGGTCTCGCACACTA
1 AGTGCCTTACATAGTCGAAGCTATCTCT-GTCTAGCACACTA
34137719 AGTGCCTTACATAGTCGAAGCTATCTCTGTCTAGCACACTA
1 AGTGCCTTACATAGTCGAAGCTATCTCTGTCTAGCACACTA
34137760 AGTGCCTTACATAGT
1 AGTGCCTTACATAGT
34137775 TGAATTGTCG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 52 0.98
42 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (41 bp):
AGTGCCTTACATAGTCGAAGCTATCTCTGTCTAGCACACTA
Found at i:34143941 original size:12 final size:12
Alignment explanation
Indices: 34143924--34143948 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34143914 CACACGCCTC
34143924 TGTGCTAGGCCG
1 TGTGCTAGGCCG
34143936 TGTGCTAGGCCG
1 TGTGCTAGGCCG
34143948 T
1 T
34143949 ACCAAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.40, T:0.28
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:34157017 original size:40 final size:40
Alignment explanation
Indices: 34156969--34157235 Score: 462
Period size: 40 Copynumber: 6.7 Consensus size: 40
34156959 GCAAACACAT
* *
34156969 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
34157009 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
34157049 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
34157089 TTGCCTTCGGGTCATAGCCCAGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
34157129 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
34157169 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
34157209 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
34157236 ATCCAATGCT
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:34163966 original size:15 final size:16
Alignment explanation
Indices: 34163935--34163972 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
34163925 TAAATTATGA
34163935 ATATGTGTGTAATGTG
1 ATATGTGTGTAATGTG
*
34163951 ATATGTGT-TTATGTG
1 ATATGTGTGTAATGTG
*
34163966 ACATGTG
1 ATATGTG
34163973 ACCATTATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.45
Consensus pattern (16 bp):
ATATGTGTGTAATGTG
Found at i:34167351 original size:20 final size:20
Alignment explanation
Indices: 34167326--34167363 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34167316 ATTGATAATG
*
34167326 AAAAGATATATTAGCTTTCT
1 AAAAGATATATTAACTTTCT
34167346 AAAAGATATATTAACTTT
1 AAAAGATATATTAACTTT
34167364 AGAAACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (20 bp):
AAAAGATATATTAACTTTCT
Found at i:34168031 original size:74 final size:74
Alignment explanation
Indices: 34167946--34168094 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
34167936 AAAGAGCTTG
34167946 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
1 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
34168011 TGTTTCTTT
66 TGTTTCTTT
*
34168020 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAGTTTTCTTG
1 TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
34168085 TGTTTCTTT
66 TGTTTCTTT
34168094 T
1 T
34168095 ACTTTTGATA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.19, C:0.07, G:0.14, T:0.60
Consensus pattern (74 bp):
TTCTTAAGTGTTTTATGAAGTTTTTTGTTACTTATTAGATTTTATGTTCAAAGTTAATTTTCTTG
TGTTTCTTT
Found at i:34179067 original size:50 final size:50
Alignment explanation
Indices: 34179010--34179116 Score: 214
Period size: 50 Copynumber: 2.1 Consensus size: 50
34179000 TTTAGTGAAG
34179010 AAAAATATTAGGTGATTAAAAAAATAGGATTTTAACTAAGTAAAATAAAT
1 AAAAATATTAGGTGATTAAAAAAATAGGATTTTAACTAAGTAAAATAAAT
34179060 AAAAATATTAGGTGATTAAAAAAATAGGATTTTAACTAAGTAAAATAAAT
1 AAAAATATTAGGTGATTAAAAAAATAGGATTTTAACTAAGTAAAATAAAT
34179110 AAAAATA
1 AAAAATA
34179117 AAATAAAAGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.29
Consensus pattern (50 bp):
AAAAATATTAGGTGATTAAAAAAATAGGATTTTAACTAAGTAAAATAAAT
Found at i:34181514 original size:20 final size:20
Alignment explanation
Indices: 34181489--34181526 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34181479 CTAAATCGAG
34181489 AACTTAGGAA-ATTTTTACAA
1 AACTTA-GAAGATTTTTACAA
34181509 AACTTAGAAGATTTTTAC
1 AACTTAGAAGATTTTTAC
34181527 CATGTACAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
AACTTAGAAGATTTTTACAA
Found at i:34183635 original size:47 final size:46
Alignment explanation
Indices: 34183525--34183690 Score: 134
Period size: 47 Copynumber: 3.6 Consensus size: 46
34183515 ACTTGTGTAA
34183525 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATT-ATGAGA--
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGG---CATTGA-GAGAGT
* *
34183571 GCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGA-GAGT
* * * *
34183619 GCTAGTGCAAGA-CATGTTTGGGGCATGCATCAGC--T-ACGAGATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGA-GAGA-GT
34183663 G-TCAGTGTAAGACCATGTCTGGGACATG
1 GCT-AGTGTAAGACCATGTCTGGGACATG
34183691 GCGTCGATGT
Statistics
Matches: 99, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
43 4 0.04
44 14 0.14
45 19 0.19
46 20 0.20
47 26 0.26
48 16 0.16
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGAGAGT
Found at i:34186073 original size:46 final size:46
Alignment explanation
Indices: 34186023--34186198 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
34186013 TGGTTGAGCA
34186023 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34186069 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
34186114 TATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
34186162 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34186199 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.55
47 29 0.26
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34186181 original size:93 final size:93
Alignment explanation
Indices: 34186022--34186191 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
34186012 ATGGTTGAGC
* * *
34186022 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTTG
34186087 AGTCCGAGTTCGTGAGATGTAACTAGGT
66 AGTCCGAGTTCGTGAGATGTAACTAGGT
* *
34186115 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAGCTCATTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTTG
34186180 AGTCCGAGTTCG
66 AGTCCGAGTTCG
34186192 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGT
Found at i:34192934 original size:17 final size:17
Alignment explanation
Indices: 34192908--34192950 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
34192898 ATTAGGGAGG
*
34192908 CTACTAACTTGGCCACA
1 CTACTGACTTGGCCACA
34192925 CTACTGACTTGGCCACA
1 CTACTGACTTGGCCACA
*
34192942 CTGCTGACT
1 CTACTGACT
34192951 ACACGCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.23, C:0.35, G:0.16, T:0.26
Consensus pattern (17 bp):
CTACTGACTTGGCCACA
Found at i:34194154 original size:43 final size:43
Alignment explanation
Indices: 34194029--34194187 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
34194019 CGGAAAGCTC
* * * *
34194029 ATACAATGCCAACGTCCCAAACGTGGTCTTACATGT-AATCAA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAA
* * * *
34194071 ATATCAATGCC-ACTGTCCCAGATAGGGTCTTATACG-AAATCAA
1 ATA-CGATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAA
* *
34194114 ATACGATACCAACATCCCAGACATGGTCTTACACGTAAATCATA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-A
*
34194158 AGT-CGATGCCAACGTCCCAGACGTGGTCTT
1 A-TACGATGCCAACGTCCCAGACATGGTCTT
34194188 GCACAAAAAC
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 28 0.29
43 40 0.42
44 26 0.27
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
ATACGATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAA
Found at i:34198817 original size:30 final size:30
Alignment explanation
Indices: 34198760--34198818 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
34198750 CCTTTTGAAG
* *
34198760 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
34198790 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
34198819 GAAAATAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:34224935 original size:50 final size:50
Alignment explanation
Indices: 34224860--34224961 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 50
34224850 CATATTTGTC
* *
34224860 ACCAAAATAGGGTTACGAAGTATTACCAAAAAACCATAACATAAAAACAT
1 ACCAAAATAGGGTTAAGAAGCATTACCAAAAAACCATAACATAAAAACAT
* *
34224910 ACCAAAATAGGGTTATAG-AGCATTACCATAAAACCGTAACATAAAAACAT
1 ACCAAAATAGGGTTA-AGAAGCATTACCAAAAAACCATAACATAAAAACAT
34224960 AC
1 AC
34224962 ATTTCCAACA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.52, C:0.19, G:0.11, T:0.19
Consensus pattern (50 bp):
ACCAAAATAGGGTTAAGAAGCATTACCAAAAAACCATAACATAAAAACAT
Found at i:34233009 original size:17 final size:17
Alignment explanation
Indices: 34232987--34233029 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
34232977 ATTTCATTTA
**
34232987 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
34233004 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
34233021 AAAT-TCAAT
1 AAATGTCAAT
34233030 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:34242878 original size:11 final size:11
Alignment explanation
Indices: 34242864--34242916 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
34242854 ATATATCATA
34242864 GCATATCATGT
1 GCATATCATGT
*
34242875 GCATATCAT-A
1 GCATATCATGT
*
34242885 ACATATCATGT
1 GCATATCATGT
34242896 GCATATCATGT
1 GCATATCATGT
34242907 -CATATCATGT
1 GCATATCATGT
34242917 ATATCAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 18 0.49
11 19 0.51
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (11 bp):
GCATATCATGT
Found at i:34242880 original size:21 final size:21
Alignment explanation
Indices: 34242856--34242916 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
34242846 TATAGAGAAT
34242856 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
34242877 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
34242898 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
34242917 ATATCAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:34242884 original size:5 final size:5
Alignment explanation
Indices: 34242856--34242914 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
34242846 TATAGAGAAT
* * * * *
34242856 ATATC ATAGC ATATC ATGTGC ATATC ATAAC ATATC ATGTGC ATATC ATGTC
1 ATATC ATATC ATATC ATAT-C ATATC ATATC ATATC ATAT-C ATATC ATATC
34242908 ATATC AT
1 ATATC AT
34242915 GTATATCAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
5 34 0.81
6 8 0.19
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (5 bp):
ATATC
Found at i:34242926 original size:10 final size:10
Alignment explanation
Indices: 34242856--34242922 Score: 75
Period size: 10 Copynumber: 6.6 Consensus size: 10
34242846 TATAGAGAAT
34242856 ATATCATAG-C
1 ATATCAT-GTC
34242866 ATATCATGTGC
1 ATATCATGT-C
**
34242877 ATATCATAAC
1 ATATCATGTC
34242887 ATATCATGTGC
1 ATATCATGT-C
34242898 ATATCATGTC
1 ATATCATGTC
34242908 ATATCATGT-
1 ATATCATGTC
34242917 ATATCA
1 ATATCA
34242923 ATGTTTCATG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
9 7 0.14
10 25 0.50
11 18 0.36
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:34250755 original size:11 final size:11
Alignment explanation
Indices: 34250741--34250772 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
34250731 ATATATCATA
34250741 GCATATCATGT
1 GCATATCATGT
34250752 GCATATCATGT
1 GCATATCATGT
34250763 -CATATCATGT
1 GCATATCATGT
34250773 ATATCAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (11 bp):
GCATATCATGT
Found at i:34250757 original size:21 final size:21
Alignment explanation
Indices: 34250733--34250772 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
34250723 TATAGAGAAT
34250733 ATATCATAG-CATATCATGTGC
1 ATATCAT-GTCATATCATGTGC
34250754 ATATCATGTCATATCATGT
1 ATATCATGTCATATCATGT
34250773 ATATCAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
ATATCATGTCATATCATGTGC
Found at i:34250782 original size:10 final size:10
Alignment explanation
Indices: 34250733--34250778 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
34250723 TATAGAGAAT
34250733 ATATCATAG-C
1 ATATCAT-GTC
34250743 ATATCATGTGC
1 ATATCATGT-C
34250754 ATATCATGTC
1 ATATCATGTC
34250764 ATATCATGT-
1 ATATCATGTC
34250773 ATATCA
1 ATATCA
34250779 ATGTTTCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 7 0.21
10 17 0.50
11 10 0.29
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (10 bp):
ATATCATGTC
Found at i:34257610 original size:25 final size:23
Alignment explanation
Indices: 34257584--34257628 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
34257574 TATACTAAAT
* *
34257584 ATATATATTTTTTATTTTTAATC
1 ATATTTATATTTTATTTTTAATC
34257607 ATATTTATATTTTATTTTTAAT
1 ATATTTATATTTTATTTTTAAT
34257629 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATTTATATTTTATTTTTAATC
Found at i:34257625 original size:29 final size:27
Alignment explanation
Indices: 34257592--34257646 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
34257582 ATATATATAT
* *
34257592 TTTTTATTTTTAATCATATTTATATTTTA
1 TTTTTAATTTTAAT-ATAATTA-ATTTTA
34257621 TTTTTAATTTTAATATAATTAATTTT
1 TTTTTAATTTTAATATAATTAATTTT
34257647 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTAATATAATTAATTTTA
Found at i:34257714 original size:39 final size:40
Alignment explanation
Indices: 34257644--34257728 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
34257634 TATAATTAAT
*
34257644 TTTTATTATATTTTCAATTTGTGTATTGTTTTAAAAATTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
* * * * *
34257684 TTTTAATATATTTT-TATTTGTTTTTTGTTTTAATATTTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
34257723 TTTTAA
1 TTTTAA
34257729 ATGTATTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 26 0.67
40 13 0.33
ACGTcount: A:0.25, C:0.01, G:0.08, T:0.66
Consensus pattern (40 bp):
TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
Found at i:34260830 original size:50 final size:50
Alignment explanation
Indices: 34260775--34260880 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
34260765 ATTGGAACAC
* * * *
34260775 CACATAAATACTTACCTATATGACCGGATATACCAA-GTTCATTATATCAT
1 CACATAAATACATACCTATAAGACCGAATATA-CAAGGTTCAATATATCAT
* *
34260825 TACATAAGTACATACCTATAAGACCGAATATACAAGGTTCAATATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACAAGGTTCAATATATCAT
34260875 CACATA
1 CACATA
34260881 TGGCTGATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.06
50 45 0.94
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (50 bp):
CACATAAATACATACCTATAAGACCGAATATACAAGGTTCAATATATCAT
Found at i:34260902 original size:36 final size:36
Alignment explanation
Indices: 34260853--34260966 Score: 151
Period size: 36 Copynumber: 3.2 Consensus size: 36
34260843 TAAGACCGAA
**
34260853 TATACAAGGTTCAATATATCATCACATATGGCTGAT
1 TATACAAAATTCAATATATCATCACATATGGCTGAT
** * *
34260889 TATACAAAATTCAATATATCATCACATATAACCGAA
1 TATACAAAATTCAATATATCATCACATATGGCTGAT
34260925 TATAC-AAATTCAATATATCATCACATATGG-TCGAT
1 TATACAAAATTCAATATATCATCACATATGGCT-GAT
34260960 TATACAA
1 TATACAA
34260967 TGTTCATATA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
35 30 0.45
36 36 0.55
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.32
Consensus pattern (36 bp):
TATACAAAATTCAATATATCATCACATATGGCTGAT
Found at i:34260976 original size:35 final size:34
Alignment explanation
Indices: 34260853--34260966 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 34
34260843 TAAGACCGAA
*
34260853 TATACAAGGTTCAATATATCATCACATATGGCTGAT
1 TATACAA-ATTCAATATATCATCACATATGGC-GAT
** *
34260889 TATACAAAATTCAATATATCATCACATATAACCGAA
1 TATAC-AAATTCAATATATCATCACATAT-GGCGAT
34260925 TATACAAATTCAATATATCATCACATATGGTCGAT
1 TATACAAATTCAATATATCATCACATATGG-CGAT
34260960 TATACAA
1 TATACAA
34260967 TGTTCATATA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
35 33 0.49
36 32 0.47
37 3 0.04
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.32
Consensus pattern (34 bp):
TATACAAATTCAATATATCATCACATATGGCGAT
Found at i:34261777 original size:29 final size:28
Alignment explanation
Indices: 34261724--34261780 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
34261714 TATATTTCAT
* *
34261724 TTATTTTTCATTTTATCCCTTTAATTTA
1 TTATTTTTCAATTTATCCCTATAATTTA
34261752 TTATTTTTCAATTTAGT-CCTAATAATTTA
1 TTATTTTTCAATTTA-TCCCT-ATAATTTA
34261781 AAATCATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (28 bp):
TTATTTTTCAATTTATCCCTATAATTTA
Found at i:34266086 original size:49 final size:49
Alignment explanation
Indices: 34266009--34266253 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
34265999 TAGCCAAAGC
* * * *
34266009 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
** *
34266058 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * *
34266108 CATCTGATACACATAGTAGTCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
34266159 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
34266208 TATACGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
34266254 TCACAATAGA
Statistics
Matches: 165, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 81 0.49
50 46 0.28
51 38 0.23
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:34266188 original size:101 final size:98
Alignment explanation
Indices: 34266010--34266253 Score: 310
Period size: 100 Copynumber: 2.5 Consensus size: 98
34266000 AGCCAAAGCT
* * * *
34266010 ATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGT
*
34266075 AGCCTGCACTTAGTACTACACACATGACCTAACC
66 AGCCTGCACTTAGTACTACACACACGACC-AACC
* * * * *
34266109 ATCTGATACACATAGTAGTCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATA
** **
34266174 GTAGCCTGCACTTAGTACTACACATGCGACCAATT
64 GTAGCCTGCACTTAGTACTACACACACGACCAACC
*
34266209 ATAC-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 AT-CTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
34266254 TCACAATAGA
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
99 38 0.31
100 43 0.35
101 43 0.35
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGT
AGCCTGCACTTAGTACTACACACACGACCAACC
Found at i:34272104 original size:41 final size:41
Alignment explanation
Indices: 34272047--34272143 Score: 176
Period size: 41 Copynumber: 2.4 Consensus size: 41
34272037 GATACCTAAT
*
34272047 AGCTTGTGTGAGCAGCACTGTGTAGCTACGTCCTGACTGAC
1 AGCTTGTGTGAGCAGCACTGTGTAGCTACATCCTGACTGAC
*
34272088 AGCTTGTGTGAGCAGCACTGTGTAGCTACATCTTGACTGAC
1 AGCTTGTGTGAGCAGCACTGTGTAGCTACATCCTGACTGAC
34272129 AGCTTGTGTGAGCAG
1 AGCTTGTGTGAGCAG
34272144 GCCCGTGAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (41 bp):
AGCTTGTGTGAGCAGCACTGTGTAGCTACATCCTGACTGAC
Found at i:34275535 original size:47 final size:47
Alignment explanation
Indices: 34275484--34275819 Score: 492
Period size: 47 Copynumber: 7.1 Consensus size: 47
34275474 TTAGGATTTT
*
34275484 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
34275531 ATGTGATGAATGTGAACTTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAC----ATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
34275582 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGACCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
34275629 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
34275676 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
34275723 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * * *
34275770 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCTGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
34275817 ATG
1 ATG
34275820 CGAAATGTGT
Statistics
Matches: 264, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 222 0.84
51 42 0.16
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:34275927 original size:46 final size:46
Alignment explanation
Indices: 34275793--34275929 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
34275783 GAACATGTAT
* * *
34275793 ATATGTGGTAAGGCTGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
34275839 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
34275885 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTGTGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
34275930 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:34280482 original size:20 final size:20
Alignment explanation
Indices: 34280459--34280534 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
34280449 AAATTTCAAA
* *
34280459 TTTTTATGATTTTTTATAGG
1 TTTTTATGAATTTTAATAGG
* *
34280479 TTTTTAAGAATTTTAATATG
1 TTTTTATGAATTTTAATAGG
* *
34280499 TTTTTATAAAATTTTAAATATG
1 TTTTTAT-GAATTTT-AATAGG
*
34280521 -TTTTATTAATTTTA
1 TTTTTATGAATTTTA
34280535 TAAAAAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.02
20 28 0.60
21 12 0.26
22 6 0.13
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (20 bp):
TTTTTATGAATTTTAATAGG
Found at i:34280538 original size:22 final size:22
Alignment explanation
Indices: 34280478--34280524 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
34280468 TTTTTTATAG
*
34280478 GTTTTTA-AGAATTTT-AATAT
1 GTTTTTATAAAATTTTAAATAT
34280498 GTTTTTATAAAATTTTAAATAT
1 GTTTTTATAAAATTTTAAATAT
34280520 GTTTT
1 GTTTT
34280525 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (22 bp):
GTTTTTATAAAATTTTAAATAT
Found at i:34280957 original size:15 final size:15
Alignment explanation
Indices: 34280907--34280960 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
34280897 CCCTCTCTTT
**
34280907 TTTCCTTTTAATTTC
1 TTTCCTTTTTTTTTC
* *
34280922 CTTCCTTTTTTTCTATT
1 TTTCCTTTTTTT-T-TC
34280939 TTTCCTTTTTTTTTC
1 TTTCCTTTTTTTTTC
34280954 TTTCCTT
1 TTTCCTT
34280961 CCACCATTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 17 0.55
16 2 0.06
17 12 0.39
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCCTTTTTTTTTC
Found at i:34280962 original size:19 final size:19
Alignment explanation
Indices: 34280917--34280962 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
34280907 TTTCCTTTTA
34280917 ATTTCCTTCCTTTTTTTCT
1 ATTTCCTTCCTTTTTTTCT
*
34280936 ATTT--TTCCTTTTTTTTT
1 ATTTCCTTCCTTTTTTTCT
*
34280953 CTTTCCTTCC
1 ATTTCCTTCC
34280963 ACCATTCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 15 0.65
19 8 0.35
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTCCTTCCTTTTTTTCT
Found at i:34289680 original size:279 final size:279
Alignment explanation
Indices: 34289124--34289750 Score: 809
Period size: 279 Copynumber: 2.2 Consensus size: 279
34289114 ATGGCTCATG
* * * **
34289124 CTAACTACTTTGGAGGTTGCGGTATTGAACCTGTGAGCCTTAAGATTACAACTAAAAGCTTGAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
* * *
34289189 T-TGCACTAACTATTTTTGAGGTTGTGGTATTGAACTTGCGAGTCTTAAGATTACAATTGAGAGC
66 TCT-CACTAACTATTTTTGACGCTGTGGTATTGAACTTGCGAGCCTTAAGATTACAATTGAGAGC
** * *
34289253 TTGAGCTCTTGTTAACTATTTTGTAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTATAGCTG
130 TTGAGCTCTTACTAACTATTTTGGAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTACAGCTG
* * *
34289318 GGAGCTTGAGCTCTCACTAACTATTTTGTAGGATGCAGTATTGAATCTGCGAGCCTTAAGATTAT
195 GGAGCTTGAGCTCACACTAACTATTTTGGAGGATGCAGTATTGAACCTGCGAGCCTTAAGATTAT
*
34289383 AGCTAGAGCTTAAGCTCTCG
260 AGCTAGAGCTTAAGCTCTCA
* * * * **
34289403 TTAACTATTTTGGAAGTTGTGATATTGAATCTACGAGCCTTGAA-ATTACAGCTAGGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAATCTGTGAGCCTT-AAGATTACAGCTAGGAGCTTGAG
* * *
34289467 CTCTCACTAACTATTTTTGACGCTGTGGTATTGAACCTTG-GAGCCTTAAGATTATAGTTGGGAG
65 CTCTCACTAACTATTTTTGACGCTGTGGTATTGAA-CTTGCGAGCCTTAAGATTACAATTGAGAG
* * * * *
34289531 CTTGAGCTCTTACTAACTGTTTTGGAGGTTGTAGTATTGAACCTTGGAA-CCTTAAGATTACAGT
129 CTTGAGCTCTTACTAACTATTTTGGAGGATGCAGTATTGAACC-TGCAAGCCTTAAGATTACAGC
* * * * *
34289595 TGGGAGCTTGAGTTCACGCTAACT-TTTTGGAGGCTGC-GATTTTGAGCCTGC-ATGCCTTAAGA
193 TGGGAGCTTGAGCTCACACTAACTATTTTGGAGGATGCAG-TATTGAACCTGCGA-GCCTTAAGA
*
34289657 TTATAGCTAGGAGCTTGAGCTCTCA
256 TTATAGCTA-GAGCTTAAGCTCTCA
*
34289682 CTAACTATTTTGGAGGTCGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
34289747 TCTC
66 TCTC
34289751 GTTAATTGTT
Statistics
Matches: 297, Mismatches: 43, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
277 2 0.01
278 40 0.13
279 244 0.82
280 11 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (279 bp):
CTAACTATTTTGGAGGTTGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
TCTCACTAACTATTTTTGACGCTGTGGTATTGAACTTGCGAGCCTTAAGATTACAATTGAGAGCT
TGAGCTCTTACTAACTATTTTGGAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTACAGCTGG
GAGCTTGAGCTCACACTAACTATTTTGGAGGATGCAGTATTGAACCTGCGAGCCTTAAGATTATA
GCTAGAGCTTAAGCTCTCA
Found at i:34289763 original size:70 final size:70
Alignment explanation
Indices: 34289124--34289750 Score: 622
Period size: 70 Copynumber: 9.0 Consensus size: 70
34289114 ATGGCTCATG
* * * **
34289124 CTAACTACTTTGGAGGTTGCGGTATTGAACCTGTGAGCCTTAAGATTACAACTAAAAGCTTGAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
34289189 T-TGCA
66 TCT-CA
* * * * * *
34289194 CTAACTATTTTTGAGGTTGTGGTATTGAACTTGCGAGTCTTAAGATTACA-ATTGAGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAG-GAGCTTGAG
**
34289258 CTCTTG
65 CTCTCA
* * * * * * *
34289264 TTAACTATTTTGTAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTATAGCTGGGAGCTTGAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
34289329 TCTCA
66 TCTCA
* * * * * *
34289334 CTAACTATTTTGTAGGATGCAGTATTGAATCTGCGAGCCTTAAGATTATAGCTA-GAGCTTAAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
*
34289398 TCTCG
66 TCTCA
* * * * * *
34289403 TTAACTATTTTGGAAGTTGTGATATTGAATCTACGAGCCTTGAA-ATTACAGCTAGGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTT-AAGATTACAGCTAGGAGCTTGAG
34289467 CTCTCA
65 CTCTCA
* * * * * * *
34289473 CTAACTATTTTTGACGCTGTGGTATTGAACCTTG-GAGCCTTAAGATTATAGTTGGGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAACC-TGCGAGCCTTAAGATTACAGCTAGGAGCTTGAG
*
34289537 CTCTTA
65 CTCTCA
* ** * * *
34289543 CTAACTGTTTTGGAGGTTGTAGTATTGAACCTTG-GAACCTTAAGATTACAGTTGGGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAACC-TGCGAGCCTTAAGATTACAGCTAGGAGCTTGAG
* * *
34289607 TTCACG
65 CTCTCA
* * * * *
34289613 CTAACT-TTTTGGAGGCTGCGATTTTGAGCCTGC-ATGCCTTAAGATTATAGCTAGGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGA-GCCTTAAGATTACAGCTAGGAGCTTGAG
34289676 CTCTCA
65 CTCTCA
* * *
34289682 CTAACTATTTTGGAGGTCGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
34289747 TCTC
66 TCTC
34289751 GTTAATTGTT
Statistics
Matches: 460, Mismatches: 86, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
68 3 0.01
69 109 0.24
70 343 0.75
71 5 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (70 bp):
CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
TCTCA
Found at i:34289763 original size:209 final size:209
Alignment explanation
Indices: 34289132--34289768 Score: 581
Period size: 209 Copynumber: 3.0 Consensus size: 209
34289122 TGCTAACTAC
* * * * * * * ** *
34289132 TTTGGAGGTTGCGGTATTGAACCTGTGAGCCTTAAGATTACAACTAAAAGCTTGAGCTTGCACTA
1 TTTGGAGGATGCAGTATTGAACCTGCGAACCTTAAGATTACAGCT-AGAGCTTAAGCTCACGCTA
* * * * * * * * * *
34289197 ACTATTTTTGAGGTTGTGGTATTGAACTTGCGAGTCTT-AAGATTACA-ATTGAGAGCTTGAGCT
65 ACTATTTTGGAAGCTGCGATATTGAACCTACGAGCCTTGAA-ATTACAGCTAG-GAGCTTGAGCT
*** * * **
34289260 CTTGTTAACTATTTTGTAGGAT-GCAGTATTGAACCTGCAAGCCTTAAGATTATAGCTGGGAGCT
128 CTCACTAACTATTTTGGAGG-TCGCGGTATTGAACCTGTGAGCCTTAAGATTATAGCTGGGAGCT
*
34289324 TGAGCTCTCACTAACTAT
192 TGAGCTCTCACTAACTGT
* * * * * *
34289342 TTTGTAGGATGCAGTATTGAATCTGCGAGCCTTAAGATTATAGCTAGAGCTTAAGCTCTCGTTAA
1 TTTGGAGGATGCAGTATTGAACCTGCGAACCTTAAGATTACAGCTAGAGCTTAAGCTCACGCTAA
* * *
34289407 CTATTTTGGAAGTTGTGATATTGAATCTACGAGCCTTGAAATTACAGCTAGGAGCTTGAGCTCTC
66 CTATTTTGGAAGCTGCGATATTGAACCTACGAGCCTTGAAATTACAGCTAGGAGCTTGAGCTCTC
* * * *
34289472 ACTAACTATTTTTGACG-CTGTGGTATTGAACCT-TGGAGCCTTAAGATTATAGTTGGGAGCTTG
131 ACTAACTATTTTGGAGGTC-GCGGTATTGAACCTGT-GAGCCTTAAGATTATAGCTGGGAGCTTG
*
34289535 AGCTCTTACTAACTGT
194 AGCTCTCACTAACTGT
* * * * * *
34289551 TTTGGAGGTTGTAGTATTGAACCTTG-GAACCTTAAGATTACAGTTGGGAGCTTGAGTTCACGCT
1 TTTGGAGGATGCAGTATTGAACC-TGCGAACCTTAAGATTACAGCT-AGAGCTTAAGCTCACGCT
* * * * *
34289615 AACT-TTTTGGAGGCTGCGATTTTGAGCCTGC-ATGCCTT-AAGATTATAGCTAGGAGCTTGAGC
64 AACTATTTTGGAAGCTGCGATATTGAACCTACGA-GCCTTGAA-ATTACAGCTAGGAGCTTGAGC
* * *
34289677 TCTCACTAACTATTTTGGAGGTCGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAGCT
127 TCTCACTAACTATTTTGGAGGTCGCGGTATTGAACCTGTGAGCCTTAAGATTATAGCTGGGAGCT
** *
34289742 TGAGCTCTCGTTAATTGT
192 TGAGCTCTCACTAACTGT
34289760 TTTGAGAGG
1 TTTG-GAGG
34289769 CATCATATAA
Statistics
Matches: 349, Mismatches: 66, Indels: 24
0.79 0.15 0.05
Matches are distributed among these distances:
208 3 0.01
209 279 0.80
210 67 0.19
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (209 bp):
TTTGGAGGATGCAGTATTGAACCTGCGAACCTTAAGATTACAGCTAGAGCTTAAGCTCACGCTAA
CTATTTTGGAAGCTGCGATATTGAACCTACGAGCCTTGAAATTACAGCTAGGAGCTTGAGCTCTC
ACTAACTATTTTGGAGGTCGCGGTATTGAACCTGTGAGCCTTAAGATTATAGCTGGGAGCTTGAG
CTCTCACTAACTGT
Found at i:34291424 original size:20 final size:20
Alignment explanation
Indices: 34291351--34291424 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
34291341 GGATGCAAAT
*
34291351 GTCCGAGCTCGTTGAGTTGA
1 GTCCGAGCTCGTTGAGTTGC
*
34291371 GTCCGAGCTCGTGAGATGTAACTAGGC
1 GTCCGAGCTCGT-TGA-GT---T--GC
*
34291398 ATCCGAGCTCGTTGAGTTGC
1 GTCCGAGCTCGTTGAGTTGC
34291418 GTCCGAG
1 GTCCGAG
34291425 TTCACTTATG
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
20 20 0.48
21 2 0.05
22 3 0.07
25 3 0.07
26 2 0.05
27 12 0.29
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.26
Consensus pattern (20 bp):
GTCCGAGCTCGTTGAGTTGC
Found at i:34296333 original size:18 final size:18
Alignment explanation
Indices: 34296310--34296384 Score: 89
Period size: 18 Copynumber: 4.2 Consensus size: 18
34296300 CAATCCCAAC
*
34296310 TACTGTATACGTAAACAG
1 TACTGTATACGTAAATAG
34296328 TACTGTATACGTAAATAG
1 TACTGTATACGTAAATAG
* * *
34296346 TGCCGTATACGTGAATAG
1 TACTGTATACGTAAATAG
*
34296364 -AGCTGTATACGTGAATAG
1 TA-CTGTATACGTAAATAG
34296382 TAC
1 TAC
34296385 CGTAAACGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
18 48 0.98
19 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (18 bp):
TACTGTATACGTAAATAG
Found at i:34296946 original size:11 final size:11
Alignment explanation
Indices: 34296919--34296960 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
34296909 TGACCTTTCC
34296919 AAGGTATGGG-
1 AAGGTATGGGA
*
34296929 TAGGTATGGGA
1 AAGGTATGGGA
34296940 AAGGTATGGGCA
1 AAGGTATGGG-A
34296952 AA-GTATGGG
1 AAGGTATGGG
34296961 GTATATTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 9 0.32
11 16 0.57
12 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.45, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:34300028 original size:14 final size:14
Alignment explanation
Indices: 34300009--34300038 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34299999 TCAGAGAAGT
34300009 AGAATTTGGTATTG
1 AGAATTTGGTATTG
34300023 AGAATTTGGTATTG
1 AGAATTTGGTATTG
34300037 AG
1 AG
34300039 CTGATACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (14 bp):
AGAATTTGGTATTG
Found at i:34303376 original size:46 final size:46
Alignment explanation
Indices: 34303324--34303499 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
34303314 TATTTGGGCA
* *
34303324 TCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
34303370 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
34303417 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
34303463 CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34303500 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:34303479 original size:93 final size:93
Alignment explanation
Indices: 34303320--34303492 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
34303310 AGGATATTTG
* * * *
34303320 GGCATCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTCGAGTCCAAGTTCACTTATGGATGCAAACGCCCAAGCTCGTTGAG
34303385 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
34303413 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTCGAGTCCAAGTTCACTTATGGATGCAAACGCCCAAGCTCGTTGAG
34303478 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
34303493 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTCGAGTCCAAGTTCACTTATGGATGCAAACGCCCAAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:34311158 original size:3 final size:3
Alignment explanation
Indices: 34311152--34311192 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
34311142 CATCATCCAA
34311152 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
34311193 AAACTTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:34314290 original size:27 final size:27
Alignment explanation
Indices: 34314260--34314435 Score: 174
Period size: 27 Copynumber: 6.5 Consensus size: 27
34314250 ATTGAGCCCA
* *
34314260 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAATCAACTCG
* *
34314287 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAATCAACTCG
*
34314314 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAATC-AACTCG
* ** ** *
34314342 CACACTTAGCGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAATCAACTCG
* **
34314369 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAATCAACTCG
* * *
34314396 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCTACATAATCAACTCG
34314423 CACACTTAGTGCT
1 CACACTTAGTGCT
34314436 GTACAATTTA
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAATCAACTCG
Found at i:34314397 original size:82 final size:81
Alignment explanation
Indices: 34314279--34314431 Score: 227
Period size: 82 Copynumber: 1.9 Consensus size: 81
34314269 TGCTATATAA
* *
34314279 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34314344 CACTTAGCGCCGCATGG
65 CACTTAGCGCCGCATGG
* * **
34314361 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34314425 CACTTAG
65 CACTTAG
34314432 TGCTGTACAA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 13 0.20
82 51 0.80
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGCGCCGCATGG
Found at i:34316702 original size:29 final size:30
Alignment explanation
Indices: 34316649--34316706 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
34316639 CGGAAGTTTT
34316649 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
34316679 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
34316707 TGGCTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:34320195 original size:33 final size:33
Alignment explanation
Indices: 34320150--34320243 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
34320140 AACACAGTGT
* *
34320150 CAGTACAATCTGGGCCAAAGCCCTATTCAGTAA
1 CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
*
34320183 CAGTACAGTCTGGGCCTTAGCCC--TT-A--AA
1 CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
*
34320211 CAGTAGCAGTATGGGCCTAAGCCCTAATTCAGT
1 CAGTA-CAGTCTGGGCCTAAGCCCT-ATTCAGT
34320244 CTCGACATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
28 7 0.14
29 16 0.33
30 1 0.02
31 2 0.04
32 2 0.04
33 21 0.43
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
Found at i:34320243 original size:29 final size:28
Alignment explanation
Indices: 34320181--34320235 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
34320171 CCTATTCAGT
* *
34320181 AACAGTACAGTCTGGGCCTTAGCCCTTA
1 AACAGTACAGTATGGGCCTAAGCCCTTA
34320209 AACAGTAGCAGTATGGGCCTAAGCCCT
1 AACAGTA-CAGTATGGGCCTAAGCCCT
34320236 AATTCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (28 bp):
AACAGTACAGTATGGGCCTAAGCCCTTA
Found at i:34320291 original size:31 final size:31
Alignment explanation
Indices: 34320249--34320331 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
34320239 TCAGTCTCGA
34320249 CATA-TACTGGGCCGAAGCCTTTTCATAAAT
1 CATATTACTGGGCCGAAGCCTTTTCATAAAT
34320279 CATATTACTGGGCCGAAGCCTTTTCATAAAT
1 CATATTACTGGGCCGAAGCCTTTTCATAAAT
*
34320310 CATATCACT-GGCCGAAGCCTTT
1 CATATTACTGGGCCGAAGCCTTT
34320332 ACTGTAAGTG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 17 0.33
31 34 0.67
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATTACTGGGCCGAAGCCTTTTCATAAAT
Found at i:34320579 original size:25 final size:24
Alignment explanation
Indices: 34320538--34320620 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
34320528 CTGGAGGCCT
*
34320538 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
34320562 AGCCCATTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
* *
34320587 AGCCCTTTTTGGTAAACTGGGGCAT
1 AGCCC-TTTTGATAAACTGGGGCAA
34320612 AGCCCTTTT
1 AGCCCTTTT
34320621 AGCACTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.02
24 14 0.26
25 38 0.72
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:34321488 original size:27 final size:27
Alignment explanation
Indices: 34321426--34321503 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
34321416 GGGCATATTC
34321426 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
34321453 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
34321480 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
34321504 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:34321574 original size:27 final size:27
Alignment explanation
Indices: 34321521--34321773 Score: 186
Period size: 27 Copynumber: 9.3 Consensus size: 27
34321511 TTTCATCCTA
* * * * *
34321521 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * *
34321548 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
34321575 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-T
* *
34321604 CAAGGGTATTTTTGTAATTTTTTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
34321631 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * * *
34321658 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
34321684 CTAGTGGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* * * *
34321712 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
34321739 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
34321766 CGAGGGTA
1 CAAGGGTA
34321774 AAACGATAAT
Statistics
Matches: 179, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
26 2 0.01
27 148 0.83
28 16 0.09
29 13 0.07
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Done.