Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 279 of 284
Found at i:93925010 original size:58 final size:58
Alignment explanation
Indices: 93924899--93925063 Score: 251
Period size: 58 Copynumber: 2.9 Consensus size: 58
93924889 CCACTGACCG
* *
93924899 ATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATTACCA
1 ATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACCA
* **
93924956 ATCTCGCACACATAATGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACTG
1 ATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACCA
* * *
93925014 ATCTCGCACACATAGTGCTCGATTAACGGAATTTGCACACACAGTGCCTC
1 ATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
93925064 TAATCATTCG
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
57 25 0.26
58 73 0.74
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (58 bp):
ATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACCA
Found at i:93925278 original size:43 final size:43
Alignment explanation
Indices: 93925217--93926298 Score: 1939
Period size: 43 Copynumber: 25.2 Consensus size: 43
93925207 CCTTGCTCGA
** * * *
93925217 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925260 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
* *
93925303 ATCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCGAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
* *
93925346 ATCACCGGCACGAAGCCTGCTAGGCACGAAAGCCCGAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925389 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925432 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925475 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925518 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925561 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925604 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925647 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925690 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925733 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925776 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925819 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925862 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925905 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925948 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93925991 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93926034 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
* * *
93926077 ATCACCGGCACGAAGCCTGCTAGGCACGAAAGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
* * * *
93926120 ATCACCGGCACCAAGCCTGCTAGGCATGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
* * *
93926163 ATCACCGGCACGAAGCCTGCTAGGCACGAAAGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
* * *
93926206 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
* * *
93926249 ATCACCGGCACGAAGCCTGCTAGGCACGAAAGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
93926292 ATCACCG
1 ATCACCG
93926299 AGTTTCATGC
Statistics
Matches: 1015, Mismatches: 24, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 1015 1.00
ACGTcount: A:0.32, C:0.31, G:0.23, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATATAT
Found at i:93931345 original size:42 final size:42
Alignment explanation
Indices: 93931215--93931356 Score: 135
Period size: 40 Copynumber: 3.4 Consensus size: 42
93931205 GCGATATCTT
* *** * * *
93931215 AGATATCGTCTTACATGTAATCTCGTATCGATGCCAATAGCCC
1 AGATATGGTCTTACACAAAATCTCATATAGATGCC-ATATCCC
* * * *
93931258 AGCTATGGCCTTACACAAAATCTTATATTGATGCC--ATCCC
1 AGATATGGTCTTACACAAAATCTCATATAGATGCCATATCCC
* * *
93931298 AGATATGGTCTTATACGAAGTCTCATATAGATGCCATATCCC
1 AGATATGGTCTTACACAAAATCTCATATAGATGCCATATCCC
93931340 AGATATGGTCTTACACA
1 AGATATGGTCTTACACA
93931357 TAGTTTTAGT
Statistics
Matches: 78, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
40 32 0.41
42 20 0.26
43 26 0.33
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
AGATATGGTCTTACACAAAATCTCATATAGATGCCATATCCC
Found at i:93931740 original size:51 final size:51
Alignment explanation
Indices: 93931680--93931780 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
93931670 TCACATTATG
*
93931680 GAAAAATTATATTTTTGCCCTTAAAGTTTCACATTTTTACATTTTAGTCCT
1 GAAAAATTATATTTTTGCCCTTAAAGTTTCACAGTTTTACATTTTAGTCCT
93931731 GAAAAATTATATTTTTGCCCTTAAAGTTTCACAGTTTTACATTTTAGTCC
1 GAAAAATTATATTTTTGCCCTTAAAGTTTCACAGTTTTACATTTTAGTCC
93931781 CTAGGCTTGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.46
Consensus pattern (51 bp):
GAAAAATTATATTTTTGCCCTTAAAGTTTCACAGTTTTACATTTTAGTCCT
Found at i:93934890 original size:30 final size:30
Alignment explanation
Indices: 93934844--93934902 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
93934834 TAGCCCGGAT
*
93934844 ATATCATCTCGCATAATTGCCTTCGGGTCA
1 ATATCAACTCGCATAATTGCCTTCGGGTCA
*
93934874 ATATCAACTCGGATAATTGCCTTCGGGTC
1 ATATCAACTCGCATAATTGCCTTCGGGTC
93934903 TTAGCCCGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (30 bp):
ATATCAACTCGCATAATTGCCTTCGGGTCA
Found at i:93934919 original size:40 final size:40
Alignment explanation
Indices: 93934874--93935077 Score: 399
Period size: 40 Copynumber: 5.1 Consensus size: 40
93934864 CTTCGGGTCA
93934874 ATATCAACTCGGATAATTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGGATAATTGCCTTCGGGTCTTAGCCCGGAT
93934914 ATATCAACTCGGATAATTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGGATAATTGCCTTCGGGTCTTAGCCCGGAT
93934954 ATATCAACTCGGATAATTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGGATAATTGCCTTCGGGTCTTAGCCCGGAT
93934994 ATATCAACTCGGATAATTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGGATAATTGCCTTCGGGTCTTAGCCCGGAT
*
93935034 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGGATAATTGCCTTCGGGTCTTAGCCCGGAT
93935074 ATAT
1 ATAT
93935078 TCCAATGCTC
Statistics
Matches: 163, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 163 1.00
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (40 bp):
ATATCAACTCGGATAATTGCCTTCGGGTCTTAGCCCGGAT
Found at i:93943138 original size:20 final size:19
Alignment explanation
Indices: 93943105--93943144 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
93943095 TATAAATGTT
93943105 AAATATATATAATATATAAA
1 AAATATATATAATAT-TAAA
93943125 AAATACTATA-AATATTAAA
1 AAATA-TATATAATATTAAA
93943144 A
1 A
93943145 TAAATATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATATATATAATATTAAA
Found at i:93951762 original size:96 final size:96
Alignment explanation
Indices: 93951598--93951791 Score: 379
Period size: 96 Copynumber: 2.0 Consensus size: 96
93951588 GAATAAGGGT
93951598 AAAGGTTTAATTATAGATTAAAGAAAAACTAGAAGGACTTAAGAGGAAATTAAACCATTTCCTAT
1 AAAGGTTTAATTATAGATTAAAGAAAAACTAGAAGGACTTAAGAGGAAATTAAACCATTTCCTAT
93951663 AGCTGAGGCGGTTTAACGTGGAAAAATATCA
66 AGCTGAGGCGGTTTAACGTGGAAAAATATCA
93951694 AAAGGTTTAATTATAGATTAAAGAAAAACTAGAAGGACTTAAGAGGAAATTAAACCATTTCCTAT
1 AAAGGTTTAATTATAGATTAAAGAAAAACTAGAAGGACTTAAGAGGAAATTAAACCATTTCCTAT
*
93951759 AGCTGAGGCGGTTTAATGTGGAAAAATATCA
66 AGCTGAGGCGGTTTAACGTGGAAAAATATCA
93951790 AA
1 AA
93951792 GATTTTATTG
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (96 bp):
AAAGGTTTAATTATAGATTAAAGAAAAACTAGAAGGACTTAAGAGGAAATTAAACCATTTCCTAT
AGCTGAGGCGGTTTAACGTGGAAAAATATCA
Found at i:93951844 original size:5 final size:5
Alignment explanation
Indices: 93951834--93951902 Score: 88
Period size: 5 Copynumber: 14.0 Consensus size: 5
93951824 AATAATTAAG
* * *
93951834 TATAT TATAT TATAT TATA- T-TCT TATAT TATAT TATAT TAGAT TAGAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
93951882 TATAT TATAT TATTAT TATAT
1 TATAT TATAT TA-TAT TATAT
93951903 ATAAAAGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 49 0.86
6 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:93951860 original size:23 final size:24
Alignment explanation
Indices: 93951813--93951902 Score: 98
Period size: 23 Copynumber: 3.8 Consensus size: 24
93951803 TTAAAATATA
* *
93951813 TATATT-TATT-TAATA-ATTAAG
1 TATATTATATTATATTATATTAAT
*
93951834 TATATTATATTATATTATATT-CT
1 TATATTATATTATATTATATTAAT
*
93951857 TATATTATATTATATTAGATTAGAT
1 TATATTATATTATATTATATTA-AT
93951882 TATATTATATTATTATTATAT
1 TATATTATATTA-TATTATAT
93951903 ATAAAAGAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 6 0.11
22 4 0.07
23 24 0.42
24 3 0.05
25 13 0.23
26 7 0.12
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (24 bp):
TATATTATATTATATTATATTAAT
Found at i:93951861 original size:13 final size:13
Alignment explanation
Indices: 93951843--93951867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93951833 GTATATTATA
93951843 TTATATTATATTC
1 TTATATTATATTC
93951856 TTATATTATATT
1 TTATATTATATT
93951868 ATATTAGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATATTATATTC
Found at i:93951861 original size:18 final size:18
Alignment explanation
Indices: 93951836--93951897 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
93951826 TAATTAAGTA
93951836 TATTATATTATATTATAT
1 TATTATATTATATTATAT
*
93951854 TCTTATATTATATTATAT
1 TATTATATTATATTATAT
*
93951872 TAGATTAGATTATATTATAT
1 T--ATTATATTATATTATAT
93951892 TATTAT
1 TATTAT
93951898 TATATATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 22 0.58
20 16 0.42
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (18 bp):
TATTATATTATATTATAT
Found at i:93953041 original size:6 final size:6
Alignment explanation
Indices: 93953022--93953053 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
93953012 GTGTGTCGAA
*
93953022 TACTGT TACCGT TACTGT TACTGT TACTGT TA
1 TACTGT TACTGT TACTGT TACTGT TACTGT TA
93953054 TGGATTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:93954249 original size:29 final size:29
Alignment explanation
Indices: 93954207--93954264 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
93954197 TCTAGTAAGA
93954207 TTGTTTCCCTTTCCCCTTTTGATGCAAAG
1 TTGTTTCCCTTTCCCCTTTTGATGCAAAG
93954236 TTGTTTCCCTTTCCCCTTTTGATGCAAAG
1 TTGTTTCCCTTTCCCCTTTTGATGCAAAG
93954265 CTATCTTGTT
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:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (29 bp):
TTGTTTCCCTTTCCCCTTTTGATGCAAAG
Found at i:93959468 original size:29 final size:29
Alignment explanation
Indices: 93959424--93959482 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
93959414 AATCTCCGAT
93959424 AATAACCAGCTAGTCCCAAAAAACTTCAA
1 AATAACCAGCTAGTCCCAAAAAACTTCAA
*
93959453 AATAACCAGCTGGTCCCAAAAAACTTCAA
1 AATAACCAGCTAGTCCCAAAAAACTTCAA
93959482 A
1 A
93959483 CTTCTAACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.27, G:0.08, T:0.17
Consensus pattern (29 bp):
AATAACCAGCTAGTCCCAAAAAACTTCAA
Found at i:93964121 original size:31 final size:31
Alignment explanation
Indices: 93964086--93964150 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
93964076 AGGCATTGGC
93964086 ACATACATGCATATATATAAAATATAAGCTT
1 ACATACATGCATATATATAAAATATAAGCTT
* *
93964117 ACATACATGCATATATATAACATATAATCTT
1 ACATACATGCATATATATAAAATATAAGCTT
93964148 ACA
1 ACA
93964151 ACCAAAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (31 bp):
ACATACATGCATATATATAAAATATAAGCTT
Found at i:93972986 original size:28 final size:28
Alignment explanation
Indices: 93972923--93973128 Score: 281
Period size: 28 Copynumber: 7.4 Consensus size: 28
93972913 ATAATAAGTC
* *
93972923 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
93972950 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
93972978 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
93973006 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
93973034 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
93973062 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
93973089 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
93973118 CGCACACTTAG
1 CGCACACTTAG
93973129 CGCCAATCTC
Statistics
Matches: 164, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
27 43 0.26
28 108 0.66
29 13 0.08
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:93973588 original size:2 final size:2
Alignment explanation
Indices: 93973581--93973616 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
93973571 GGCATATTTG
* *
93973581 TA TA TA TA TA CA TA TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93973617 CTTCGGAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:93975231 original size:9 final size:9
Alignment explanation
Indices: 93975214--93975250 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
93975204 TTAATTTAGG
*
93975214 TTTATTTAA
1 TTTAATTAA
93975223 TTTAATTAA
1 TTTAATTAA
*
93975232 TTTAATTAG
1 TTTAATTAA
93975241 TTTAATTAA
1 TTTAATTAA
93975250 T
1 T
93975251 ACTTTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTAATTAA
Found at i:93979286 original size:22 final size:22
Alignment explanation
Indices: 93979258--93979302 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
93979248 TGAAAAAGAC
93979258 TGATTAATAAAACAAATTCATT
1 TGATTAATAAAACAAATTCATT
93979280 TGATTAATAAAACAAATTCATT
1 TGATTAATAAAACAAATTCATT
93979302 T
1 T
93979303 ACTACAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (22 bp):
TGATTAATAAAACAAATTCATT
Found at i:93988741 original size:20 final size:20
Alignment explanation
Indices: 93988700--93988744 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
93988690 TTGGTATCAA
*
93988700 TATTGGTACTTAGAGGTAAG
1 TATTGGTACTTAGAGCTAAG
*
93988720 TATTGGTACTGTA-AGCTTAG
1 TATTGGTACT-TAGAGCTAAG
93988740 TATTG
1 TATTG
93988745 ATACCTTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (20 bp):
TATTGGTACTTAGAGCTAAG
Found at i:93993251 original size:44 final size:44
Alignment explanation
Indices: 93993199--93993286 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
93993189 GAATGTTTCA
93993199 AATTATAAATGAAATTTTATGGCTCGGTTTGCATGATTGCTTGT
1 AATTATAAATGAAATTTTATGGCTCGGTTTGCATGATTGCTTGT
93993243 AATTATAAATGAAATTTTATGGCTCGGTTTGCATGATTGCTTGT
1 AATTATAAATGAAATTTTATGGCTCGGTTTGCATGATTGCTTGT
93993287 GTTTTAGTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.43
Consensus pattern (44 bp):
AATTATAAATGAAATTTTATGGCTCGGTTTGCATGATTGCTTGT
Found at i:93995151 original size:28 final size:28
Alignment explanation
Indices: 93995086--93995209 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
93995076 GAGATTGGCG
* * * *
93995086 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
93995115 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
93995143 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
93995171 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
93995199 CTGAGTGTGCG
1 CTAAGTGTGCG
93995210 GACTTAATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 74 0.83
29 15 0.17
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:94009210 original size:43 final size:43
Alignment explanation
Indices: 94009149--94009236 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
94009139 TATCCTTATA
94009149 CATTCTTCAACAAGCTTATGCTCACCTTGAGAAGTGATAGTAG
1 CATTCTTCAACAAGCTTATGCTCACCTTGAGAAGTGATAGTAG
94009192 CATTCTTCAACAAGCTTATGCTCACCTTGAGAAGTGATAGTAG
1 CATTCTTCAACAAGCTTATGCTCACCTTGAGAAGTGATAGTAG
94009235 CA
1 CA
94009237 GGGAAAGTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (43 bp):
CATTCTTCAACAAGCTTATGCTCACCTTGAGAAGTGATAGTAG
Found at i:94018821 original size:13 final size:13
Alignment explanation
Indices: 94018803--94018827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94018793 ATCATCAAGA
94018803 AATAAATTTATAT
1 AATAAATTTATAT
94018816 AATAAATTTATA
1 AATAAATTTATA
94018828 GATGCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAAATTTATAT
Found at i:94020444 original size:39 final size:40
Alignment explanation
Indices: 94020323--94020503 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
94020313 GCTACTCGTT
*
94020323 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
94020363 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
94020403 CAAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
94020442 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
94020483 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
94020504 TGGACATCAT
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.27
40 72 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:94020444 original size:79 final size:82
Alignment explanation
Indices: 94020323--94020507 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
94020313 GCTACTCGTT
* * * *
94020323 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCTGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
94020386 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
94020403 CAAATGCCTTCGGG-CTTAGCCTGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCTGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
94020466 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
94020483 CAAA-GCCTTCGGGACTTAGCCTGGA
1 CAAATGCCTTCGGGACTTAGCCTGGA
94020508 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCTGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:94024284 original size:22 final size:22
Alignment explanation
Indices: 94024250--94024293 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
94024240 TATATAACAT
* *
94024250 AAAATAGATAATACAAA-CTACC
1 AAAAAAGAAAATA-AAACCTACC
94024272 AAAAAAGAAAATAAAACCTACC
1 AAAAAAGAAAATAAAACCTACC
94024294 CAAGAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.64, C:0.18, G:0.05, T:0.14
Consensus pattern (22 bp):
AAAAAAGAAAATAAAACCTACC
Found at i:94026903 original size:42 final size:42
Alignment explanation
Indices: 94026844--94026929 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
94026834 TTCAATATCG
*
94026844 TTCCAAAATCATTTTCATTGCTAGAACTTACTCATGTCATTC
1 TTCCAAAATCATTTTCATTGCTAGAACTTAATCATGTCATTC
*
94026886 TTCCAAGATCATTTTCATTGCTAGAACTTAATCATGTCATTC
1 TTCCAAAATCATTTTCATTGCTAGAACTTAATCATGTCATTC
94026928 TT
1 TT
94026930 ACCATCAAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (42 bp):
TTCCAAAATCATTTTCATTGCTAGAACTTAATCATGTCATTC
Found at i:94031093 original size:50 final size:50
Alignment explanation
Indices: 94030978--94031255 Score: 217
Period size: 50 Copynumber: 5.5 Consensus size: 50
94030968 TGAGAACACA
* * * * *
94030978 TGTGTAGTACTATGTGCAGGCTACTATGTGCTTA--AGATGGTTTTAGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTG--TACCAGAT--ATTTAGGTCACT
* *
94031030 TGTTTAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTTAGGTCGCT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTTAGGTCACT
* * * * * * * * *
94031080 TGTATAGTACTAAGTGCAGGCAACTATGCGTACCCGACAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TA-TTTAGGTCACT
* * **
94031131 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTTAGGTCACT
* * * *
94031181 TGTGTAGTACTAAGTGCAGGCCACTACATATACCAGAT-TGTT-GGTCGCAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAT-TTAGGTCAC-T
*
94031231 T-TGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
94031256 TGCATACCAG
Statistics
Matches: 180, Mismatches: 39, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
49 29 0.16
50 83 0.46
51 34 0.19
52 34 0.19
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTTAGGTCACT
Found at i:94031158 original size:101 final size:101
Alignment explanation
Indices: 94031024--94031206 Score: 294
Period size: 101 Copynumber: 1.8 Consensus size: 101
94031014 ATGGTTTTAG
* * * *
94031024 ATCACGTGTTTAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTTAGGTCGCTTGTATAGTA
1 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACTTGTATAGTA
94031089 CTAAGTGCAGGCAACTATGCGTACCCGACAACTTCA
66 CTAAGTGCAGGCAACTATGCGTACCCGACAACTTCA
* * *
94031125 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACTTGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACTTGTATAGTA
*
94031190 CTAAGTGCAGGCCACTA
66 CTAAGTGCAGGCAACTA
94031207 CATATACCAG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (101 bp):
ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACTTGTATAGTA
CTAAGTGCAGGCAACTATGCGTACCCGACAACTTCA
Found at i:94031298 original size:150 final size:152
Alignment explanation
Indices: 94030981--94031298 Score: 331
Period size: 150 Copynumber: 2.1 Consensus size: 152
94030971 GAACACATGT
* * * *
94030981 GTAGTACTATGTGCAGGCTACTATGTGCTTAAGATGGTTTTAGATCACGTGTTTAGTACTAAGTG
1 GTAGTAATATGTGCAAGCTACTACGTGCTTAAGATGG-TTTAGATCACGTGTGTAGTACTAAGTG
* * * *
94031046 CAGGCTACTACGTGTACCAGATATTTAGGTCGCTTGTATAGTACTAAGTGCAGGCAACTATGCGT
65 CAGGCCACTACATATACCAGATATTTAGGTCGCTTGTATAGTACTAAGTGCAGGCAACTATGCAT
* ** *
94031111 ACCCGACAACTTCAATCACGTGT
130 ACCAGACAACTTCAATCACAAGG
* * * * *
94031134 GTAGTACTAAGTGCAAGCTACTACGTG-TATCAGATGG-TTAGGTCACTTGTGTAGTACTAAGTG
1 GTAGTAATATGTGCAAGCTACTACGTGCT-TAAGATGGTTTAGATCACGTGTGTAGTACTAAGTG
* * *
94031197 CAGGCCACTACATATACCAGAT-TGTT-GGTCGCATT-TGTAGTACTAAGTGTAGGCTACTATGC
65 CAGGCCACTACATATACCAGATAT-TTAGGTCGC-TTGTATAGTACTAAGTGCAGGCAACTATGC
* * ** *
94031259 ATACCAGATAGCTTCGGTTACAAGG
128 ATACCAGACAACTTCAATCACAAGG
*
94031284 GTGGTAATATGTGCA
1 GTAGTAATATGTGCA
94031299 GGCAACCGTG
Statistics
Matches: 136, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
150 58 0.43
151 46 0.34
152 1 0.01
153 31 0.23
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (152 bp):
GTAGTAATATGTGCAAGCTACTACGTGCTTAAGATGGTTTAGATCACGTGTGTAGTACTAAGTGC
AGGCCACTACATATACCAGATATTTAGGTCGCTTGTATAGTACTAAGTGCAGGCAACTATGCATA
CCAGACAACTTCAATCACAAGG
Found at i:94032466 original size:20 final size:20
Alignment explanation
Indices: 94032441--94032497 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
94032431 TTATGAATAC
94032441 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
94032461 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
94032481 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
94032498 TCATTATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:94032472 original size:11 final size:11
Alignment explanation
Indices: 94032441--94032496 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
94032431 TTATGAATAC
94032441 ATCATGTGCAT
1 ATCATGTGCAT
*
94032452 ATCA--TACAT
1 ATCATGTGCAT
94032461 ATCATGTGCAT
1 ATCATGTGCAT
*
94032472 ATC--GTACAT
1 ATCATGTGCAT
94032481 ATCATGTGCAT
1 ATCATGTGCAT
94032492 ATCAT
1 ATCAT
94032497 ATCATTATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:94034999 original size:18 final size:17
Alignment explanation
Indices: 94034971--94035008 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
94034961 AATAATTTAG
94034971 TAACTATGACTCGAGAAAA
1 TAACTATGACT--AGAAAA
94034990 TAAC-ATGACTAGAAAA
1 TAACTATGACTAGAAAA
94035006 TAA
1 TAA
94035009 GTAAAAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.47
18 6 0.32
19 4 0.21
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (17 bp):
TAACTATGACTAGAAAA
Found at i:94036296 original size:17 final size:17
Alignment explanation
Indices: 94036276--94036310 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
94036266 TCCCAAAAGC
94036276 ACAAAAATTATCAAGAA
1 ACAAAAATTATCAAGAA
94036293 ACAAAAATTATCAAGAA
1 ACAAAAATTATCAAGAA
94036310 A
1 A
94036311 AGTCATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (17 bp):
ACAAAAATTATCAAGAA
Found at i:94037264 original size:23 final size:24
Alignment explanation
Indices: 94037217--94037260 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
94037207 CTAATTTGTG
94037217 AGTAAAATTTTTTAGTACTAAAGT
1 AGTAAAATTTTTTAGTACTAAAGT
94037241 AGTAAAA-TTTTTAGTA-TAAA
1 AGTAAAATTTTTTAGTACTAAA
94037261 AGTATTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 9 0.45
24 7 0.35
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (24 bp):
AGTAAAATTTTTTAGTACTAAAGT
Found at i:94037316 original size:21 final size:21
Alignment explanation
Indices: 94037277--94037329 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
94037267 CTTTCTTTTT
*
94037277 TATGATATATATTTAATTTGAGA
1 TATGATAT-TATTTAATTT-AAA
94037300 TATGATATTATTT-ATTTAAA
1 TATGATATTATTTAATTTAAA
94037320 TCATGATATT
1 T-ATGATATT
94037330 GGTAATCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 12 0.43
22 5 0.18
23 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (21 bp):
TATGATATTATTTAATTTAAA
Found at i:94045298 original size:40 final size:40
Alignment explanation
Indices: 94045215--94045400 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
94045205 TTGAATGATG
* * * *
94045215 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
94045255 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
94045295 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
94045335 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
94045376 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
94045401 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
40 121 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:94045407 original size:80 final size:79
Alignment explanation
Indices: 94045268--94045433 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
94045258 GGACTAAGAT
* **
94045268 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAG-TAGCT
*
94045332 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
94045348 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCT
* *
94045412 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
94045427 CCGAAGG
1 CCGAAGG
94045434 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.21
80 58 0.76
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:94051938 original size:40 final size:39
Alignment explanation
Indices: 94051894--94051998 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
94051884 AGTGACCATA
*
94051894 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
94051934 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
94051972 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
94051999 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:94051955 original size:39 final size:40
Alignment explanation
Indices: 94051854--94052017 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
94051844 TTGAATGATG
* *
94051854 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
94051894 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
94051933 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
94051973 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
94052013 TCCGG
1 TCCGG
94052018 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:94052017 original size:79 final size:80
Alignment explanation
Indices: 94051854--94052004 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
94051844 TTGAATGATG
*
94051854 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
94051919 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
94051934 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
94051996 TTGAACGAG
64 TTGAACGAG
94052005 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:94057524 original size:25 final size:25
Alignment explanation
Indices: 94057496--94057544 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
94057486 CCAGAGGACC
* *
94057496 AATCATATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
94057521 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
94057545 AATAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:94060181 original size:25 final size:25
Alignment explanation
Indices: 94060139--94060198 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
94060129 GCCCATTTTC
* * * *
94060139 ACAGCTCATGTGAGCATACTGATTT
1 ACAGCTCGTGTAAACATACCGATTT
94060164 ACAGCTCGTGTAAACATACCGATTT
1 ACAGCTCGTGTAAACATACCGATTT
94060189 ACAGCTCGTG
1 ACAGCTCGTG
94060199 AGCATACATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (25 bp):
ACAGCTCGTGTAAACATACCGATTT
Found at i:94061705 original size:19 final size:19
Alignment explanation
Indices: 94061681--94061720 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
94061671 AAACAGGGTC
*
94061681 ACACGCCTGTGTGCC-CAGG
1 ACACGCCCGTGT-CCTCAGG
94061700 ACACGCCCGTGTCCTCAGG
1 ACACGCCCGTGTCCTCAGG
94061719 AC
1 AC
94061721 GTGTAACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.17, C:0.40, G:0.28, T:0.15
Consensus pattern (19 bp):
ACACGCCCGTGTCCTCAGG
Found at i:94077027 original size:20 final size:18
Alignment explanation
Indices: 94076990--94077040 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
94076980 CTATAGCAAC
94076990 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
94077007 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
94077027 TTACAACTTTACAA
1 TCACAA-TTTACAA
94077041 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:94079418 original size:35 final size:35
Alignment explanation
Indices: 94079312--94079474 Score: 166
Period size: 35 Copynumber: 4.6 Consensus size: 35
94079302 CACATCGTAG
* * *
94079312 GTCCAACC-ATAACACATCAGATGCTCATACGAGCAA
1 GTCCAACCGA-AACACACCA-ATGCTCATAAGAGCTA
* ** * * * *
94079348 ATCCTTCCAAAACACATCAAATGCTCACAAAAGCTA
1 GTCCAACCGAAACACA-CCAATGCTCATAAGAGCTA
*
94079384 GTCCAACCGTAACACACCAATGCTCATAAGAGCTA
1 GTCCAACCGAAACACACCAATGCTCATAAGAGCTA
** *
94079419 GTCCAATTGAAACACGCCAATGCTCATAAGAGCTA
1 GTCCAACCGAAACACACCAATGCTCATAAGAGCTA
94079454 GTCCAACCGAAACACACCAAT
1 GTCCAACCGAAACACACCAAT
94079475 AGAGAGTATA
Statistics
Matches: 101, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
35 65 0.64
36 34 0.34
37 2 0.02
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.17
Consensus pattern (35 bp):
GTCCAACCGAAACACACCAATGCTCATAAGAGCTA
Found at i:94086230 original size:11 final size:11
Alignment explanation
Indices: 94086214--94086240 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
94086204 CCAATTTGTG
94086214 AAAAATAAAAT
1 AAAAATAAAAT
94086225 AAAAATAAAAT
1 AAAAATAAAAT
94086236 AAAAA
1 AAAAA
94086241 ACACAAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:94091357 original size:63 final size:62
Alignment explanation
Indices: 94091258--94091375 Score: 218
Period size: 63 Copynumber: 1.9 Consensus size: 62
94091248 TCAGGAGTCT
94091258 CAACTCCAGTGGGGGTACTGAAGTCAAAAAGGAAAAAATTAGTCATCAATAAAATAATTGATA
1 CAACTCCAGTGGGGGTACTGAAGTCAAAAAGG-AAAAATTAGTCATCAATAAAATAATTGATA
*
94091321 CAACTCCAGTGGGGGTACTGAAGTCAAAAGGGAAAAATTAGTCATCAATAAAATA
1 CAACTCCAGTGGGGGTACTGAAGTCAAAAAGGAAAAATTAGTCATCAATAAAATA
94091376 GTTAATACTC
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
62 23 0.43
63 31 0.57
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (62 bp):
CAACTCCAGTGGGGGTACTGAAGTCAAAAAGGAAAAATTAGTCATCAATAAAATAATTGATA
Found at i:94091583 original size:6 final size:6
Alignment explanation
Indices: 94091572--94091625 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
94091562 CTTCAATCTG
* *
94091572 CTCTTC CTCTTC CTCTTC CTCTTC TTCTTCTTC CTCCTC CTCCTC CTCTTC
1 CTCTTC CTCTTC CTCTTC CTCTTC --C-TCTTC CTCTTC CTCTTC CTCTTC
94091623 CTC
1 CTC
94091626 CAAATCACCC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 36 0.84
7 1 0.02
8 1 0.02
9 5 0.12
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
CTCTTC
Found at i:94091603 original size:15 final size:15
Alignment explanation
Indices: 94091573--94091625 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
94091563 TTCAATCTGC
94091573 TCTTCCTCTTCCTCT
1 TCTTCCTCTTCCTCT
* * *
94091588 TCCTCTTCTTCTTCT
1 TCTTCCTCTTCCTCT
* * *
94091603 TCCTCCTCCTCCTCC
1 TCTTCCTCTTCCTCT
94091618 TCTTCCTC
1 TCTTCCTC
94091626 CAAATCACCC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (15 bp):
TCTTCCTCTTCCTCT
Found at i:94097912 original size:17 final size:17
Alignment explanation
Indices: 94097892--94097926 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
94097882 CATAAAATTA
94097892 AATTAAAA-ATAATTAAT
1 AATTAAAATATAA-TAAT
94097909 AATTAAAATATAATAAT
1 AATTAAAATATAATAAT
94097926 A
1 A
94097927 TCTAACAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTAAAATATAATAAT
Found at i:94099656 original size:16 final size:16
Alignment explanation
Indices: 94099619--94099671 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
94099609 AGATGAATAT
*
94099619 AATAAATTAAATAACTAA
1 AATAAA-TAAACAAC-AA
94099637 AATAAATAAACAACAA
1 AATAAATAAACAACAA
* *
94099653 AATAAACAAACAACTA
1 AATAAATAAACAACAA
94099669 AAT
1 AAT
94099672 CGATTAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 19 0.59
17 7 0.22
18 6 0.19
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAAATAAACAACAA
Found at i:94104145 original size:12 final size:12
Alignment explanation
Indices: 94104130--94104161 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
94104120 GAGATCAGAA
94104130 GCTAGAGCACCT
1 GCTAGAGCACCT
*
94104142 GCTAGAGCGCCT
1 GCTAGAGCACCT
94104154 GCTAGAGC
1 GCTAGAGC
94104162 TTATGCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (12 bp):
GCTAGAGCACCT
Found at i:94114423 original size:25 final size:25
Alignment explanation
Indices: 94114386--94114434 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
94114376 ATAACACTTC
94114386 ACATACTTATGTTGTTACAAGAATT
1 ACATACTTATGTTGTTACAAGAATT
*
94114411 ACATACTTGTGTTGTTACAAGAAT
1 ACATACTTATGTTGTTACAAGAAT
94114435 AATGGTGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (25 bp):
ACATACTTATGTTGTTACAAGAATT
Found at i:94118129 original size:97 final size:94
Alignment explanation
Indices: 94117958--94118135 Score: 234
Period size: 97 Copynumber: 1.9 Consensus size: 94
94117948 CATTTGTGCG
* *
94117958 CTAGTGTAAGACATGTCTCGGACATGCATCGGCTATATTATGAGAGCCAATGTAAGACCATGTCT
1 CTAGTGCAAGACATGTCTCGGACATGCATCGGCGATATTATGAGAGCCAATGTAAGACCATGTCT
94118023 AGGACATGGCGTCGACATTGAAAAGAGAA
66 AGGACATGGCGTCGACATTGAAAAGAGAA
* * * *
94118052 CTAGTGCAAGACATGTCTGGGACATGGCATCGGCACGGATA-TGTGAGAGCTAGTGTAAGACCAT
1 CTAGTGCAAGACATGTCTCGGACAT-GCATCGG--C-GATATTATGAGAGCCAATGTAAGACCAT
*
94118116 GTCT-GAGATATGGCGTCGAC
62 GTCTAG-GACATGGCGTCGAC
94118136 CTCGATTTCG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
94 23 0.32
95 7 0.10
96 1 0.01
97 38 0.53
98 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (94 bp):
CTAGTGCAAGACATGTCTCGGACATGCATCGGCGATATTATGAGAGCCAATGTAAGACCATGTCT
AGGACATGGCGTCGACATTGAAAAGAGAA
Found at i:94123737 original size:46 final size:45
Alignment explanation
Indices: 94123685--94123989 Score: 373
Period size: 46 Copynumber: 6.6 Consensus size: 45
94123675 GCTCTCTGAA
* * *
94123685 ATGAAATATGTAAGACCATGGTTGAATGATACCATTGCAACATGAT
1 ATGAAATA-GTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
94123731 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
94123777 ATGAAA-AGAATAAGGCCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * ***
94123823 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGTGTGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
94123869 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGTAACATGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
94123915 ATGAAA-AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
94123961 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAAT-AGTAAGACCATGGTTGAAAGA
94123990 CACTATGACA
Statistics
Matches: 227, Mismatches: 22, Indels: 20
0.84 0.08 0.07
Matches are distributed among these distances:
44 2 0.01
45 1 0.00
46 221 0.97
48 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (45 bp):
ATGAAATAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:94123842 original size:92 final size:92
Alignment explanation
Indices: 94123695--94123989 Score: 430
Period size: 92 Copynumber: 3.2 Consensus size: 92
94123685 ATGAAATATG
* * * **
94123695 TAAGACCATGGTTGAATGATACCATTGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
94123760 TACCATGGCAACATGACATGAAAAGAA
66 TACCATGGCAACATGACATGAAAAGAA
* **
94123787 TAAGGCCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
*** *
94123852 TACCATGGCAGTGTGACATGAAATGAA
66 TACCATGGCAACATGACATGAAAAGAA
* *
94123879 TAAGACCATGGTTGAAAGATACCATGGTAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
*
94123944 TACCATGGCAACATGACA-GAAAATGAG
66 TACCATGGCAACATGACATGAAAA-GAA
*
94123971 TAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
94123990 CACTATGACA
Statistics
Matches: 179, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
91 4 0.02
92 175 0.98
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAAAGAA
Found at i:94123935 original size:138 final size:138
Alignment explanation
Indices: 94123695--94123989 Score: 464
Period size: 138 Copynumber: 2.1 Consensus size: 138
94123685 ATGAAATATG
* * * **
94123695 TAAGACCATGGTTGAATGATACCATTGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
* *
94123760 TACCATGGCAACATGACATGAAAAGAATAAGGCCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
*
94123825 GAAATGAA
131 AAAATGAA
***
94123833 TAAGACCATGGTTGAAAGATACCATGGCAGTGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
*
94123898 TACCATGGTAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
66 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
*
94123963 AAAATGAG
131 AAAATGAA
*
94123971 TAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
94123990 CACTATGACA
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 143 1.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
AAAATGAA
Found at i:94128223 original size:20 final size:20
Alignment explanation
Indices: 94128179--94128223 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
94128169 AGGCATTCAA
94128179 CAAAAATTAGACAAAATAAG
1 CAAAAATTAGACAAAATAAG
* *
94128199 TAAAAATTAGAC-TAATAATG
1 CAAAAATTAGACAAAATAA-G
94128219 CAAAA
1 CAAAA
94128224 TCAACTGCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.20
Consensus pattern (20 bp):
CAAAAATTAGACAAAATAAG
Found at i:94128727 original size:19 final size:20
Alignment explanation
Indices: 94128681--94128727 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
94128671 ATTGAGTAAT
*
94128681 TAATTAGGCTTTAATTAAGTG
1 TAATTA-GCTTTAATTAAGAG
94128702 -AATTTAGC-TTAATTAAGAG
1 TAA-TTAGCTTTAATTAAGAG
94128721 TAATTAG
1 TAATTAG
94128728 TAAAAAGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.61
20 6 0.26
21 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (20 bp):
TAATTAGCTTTAATTAAGAG
Found at i:94129069 original size:19 final size:19
Alignment explanation
Indices: 94129045--94129081 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
94129035 TTAAATAATA
*
94129045 AATTATTGTTATAATTATT
1 AATTATTATTATAATTATT
*
94129064 AATTATTATTATTATTAT
1 AATTATTATTATAATTAT
94129082 ATTATAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
AATTATTATTATAATTATT
Found at i:94129072 original size:16 final size:17
Alignment explanation
Indices: 94129048--94129086 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
94129038 AATAATAAAT
*
94129048 TATTGTTATAATTATTA
1 TATTATTATAATTATTA
*
94129065 -ATTATTATTATTATTA
1 TATTATTATAATTATTA
94129081 TATTAT
1 TATTAT
94129087 AAAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTATTATAATTATTA
Found at i:94130181 original size:6 final size:6
Alignment explanation
Indices: 94130161--94130194 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
94130151 ATGTGCCGAA
94130161 TACTGT TACTGGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACT-GT TACTGT TACTGT TACTGT TAC
94130195 CGATTTGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:94130461 original size:17 final size:19
Alignment explanation
Indices: 94130418--94130468 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
94130408 AAAGATCGAC
94130418 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* *
94130437 TGTTACTGTAT-ATTTGAT
1 TGTTACTGAATAATTTAAT
94130455 T-TTACTGAATAATT
1 TGTTACTGAATAATT
94130469 GACTGCTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 8 0.29
18 10 0.36
19 10 0.36
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:94130470 original size:17 final size:18
Alignment explanation
Indices: 94130418--94130470 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
94130408 AAAGATCGAC
*
94130418 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
94130437 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
94130455 T-TTACTGAATAATTGA
1 TGTTACTGAATAATTGA
94130471 CTGCTACTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 13 0.45
18 5 0.17
19 11 0.38
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:94135198 original size:17 final size:17
Alignment explanation
Indices: 94135144--94135202 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
94135134 TTATGCTAAA
*
94135144 AGAAAGTTAAAGACAAT
1 AGAAAGCTAAAGACAAT
* * * * *
94135161 AGAAAACCATAGAAAAA
1 AGAAAGCTAAAGACAAT
94135178 AGAAAGCTAAAGACAAT
1 AGAAAGCTAAAGACAAT
94135195 AG-AAGCTA
1 AGAAAGCTA
94135203 CAGAAAACTA
Statistics
Matches: 31, Mismatches: 11, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
16 6 0.19
17 25 0.81
ACGTcount: A:0.61, C:0.10, G:0.17, T:0.12
Consensus pattern (17 bp):
AGAAAGCTAAAGACAAT
Found at i:94135434 original size:13 final size:13
Alignment explanation
Indices: 94135416--94135440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94135406 ATTTATAAGA
94135416 TTACATAATCAAT
1 TTACATAATCAAT
94135429 TTACATAATCAA
1 TTACATAATCAA
94135441 ATCCAATCTA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:94135895 original size:16 final size:17
Alignment explanation
Indices: 94135857--94135897 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
94135847 AGAGTAAACC
*
94135857 CTCTCTTTATTTATTTT
1 CTCTTTTTATTTATTTT
*
94135874 AT-TTTTTATTT-TTTT
1 CTCTTTTTATTTATTTT
94135889 CTCTTTTTA
1 CTCTTTTTA
94135898 AAATAAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 5 0.25
16 14 0.70
17 1 0.05
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (17 bp):
CTCTTTTTATTTATTTT
Found at i:94135930 original size:14 final size:14
Alignment explanation
Indices: 94135911--94135938 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
94135901 TAAGCAAAGA
94135911 GTCTATTCTAATGT
1 GTCTATTCTAATGT
94135925 GTCTATTCTAATGT
1 GTCTATTCTAATGT
94135939 AGTAAAAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
GTCTATTCTAATGT
Found at i:94143545 original size:10 final size:11
Alignment explanation
Indices: 94143516--94143542 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
94143506 TTTAATAAAA
94143516 TTTTTTCAATT
1 TTTTTTCAATT
94143527 TTTTTTCAATT
1 TTTTTTCAATT
94143538 TTTTT
1 TTTTT
94143543 CAAACACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCAATT
Found at i:94146607 original size:53 final size:53
Alignment explanation
Indices: 94146527--94146632 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
94146517 ATGTTTATAT
* *
94146527 GAAAACTCATTTTCATACATGACCGAGTTTTGCATTTGCTGATTAAATGCTAC
1 GAAAACTCATTGTCATACATGACCGAGTTTTGCATTTGCTGATTAAACGCTAC
94146580 GAAAACTCATTGTCATACATGACCGAGTTTTGCATTTGCTGATTAAACGCTAC
1 GAAAACTCATTGTCATACATGACCGAGTTTTGCATTTGCTGATTAAACGCTAC
94146633 TTCAACTTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (53 bp):
GAAAACTCATTGTCATACATGACCGAGTTTTGCATTTGCTGATTAAACGCTAC
Found at i:94149740 original size:45 final size:45
Alignment explanation
Indices: 94149633--94149740 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 45
94149623 TTTGATCTCA
* *
94149633 TTGAGTTGGTCCGAGTTCGTGATATATGTGAGAAAACAAAACTTG
1 TTGAGTTGATCCGAGTTCGTGATATATGTGAGAAAACAAAACTCG
* * * * *
94149678 TTGAGTTGGA-CCAAGTTCGTGATATATGTGA-AGCATCCAAGCTCG
1 TTGAGTT-GATCCGAGTTCGTGATATATGTGAGA-AAACAAAACTCG
94149723 TTGAGTTGATCCGAGTTC
1 TTGAGTTGATCCGAGTTC
94149741 ATCATGGATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
44 3 0.06
45 48 0.92
46 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (45 bp):
TTGAGTTGATCCGAGTTCGTGATATATGTGAGAAAACAAAACTCG
Found at i:94152899 original size:22 final size:22
Alignment explanation
Indices: 94152874--94152919 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
94152864 GCCGAATATG
94152874 GTATGGGGTTAATATGTAGTTC
1 GTATGGGGTTAATATGTAGTTC
94152896 GTATGGGGTTAATATGTAGTTC
1 GTATGGGGTTAATATGTAGTTC
94152918 GT
1 GT
94152920 GTTTGAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.04, G:0.33, T:0.41
Consensus pattern (22 bp):
GTATGGGGTTAATATGTAGTTC
Found at i:94153520 original size:27 final size:26
Alignment explanation
Indices: 94153444--94153555 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
94153434 AGGAAGCGTC
* * *
94153444 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
94153471 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
94153498 CTGGTGGCTCTGCCACGATTATCTATGT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
94153526 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
94153552 CTGG
1 CTGG
94153556 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:94157780 original size:5 final size:5
Alignment explanation
Indices: 94157770--94157797 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
94157760 CTGTGTGTTC
94157770 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
94157798 TCACAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:94162190 original size:5 final size:5
Alignment explanation
Indices: 94162180--94162207 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
94162170 CTGTGTGTTC
94162180 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
94162208 TCACAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:94171785 original size:13 final size:13
Alignment explanation
Indices: 94171769--94171793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94171759 ATTGAAAAAG
94171769 TTAATTTTTTAAT
1 TTAATTTTTTAAT
94171782 TTAATTTTTTAA
1 TTAATTTTTTAA
94171794 AAAATTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTAATTTTTTAAT
Found at i:94175853 original size:16 final size:16
Alignment explanation
Indices: 94175832--94175865 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
94175822 TCTATAGGTA
94175832 TAAATTCTTCCACTCT
1 TAAATTCTTCCACTCT
94175848 TAAATTCTTCCACTCT
1 TAAATTCTTCCACTCT
94175864 TA
1 TA
94175866 TTAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATTCTTCCACTCT
Found at i:94182124 original size:27 final size:27
Alignment explanation
Indices: 94182094--94182268 Score: 190
Period size: 27 Copynumber: 6.4 Consensus size: 27
94182084 ATTGTACATT
* *
94182094 ACTAAGTGTGCGATTTGACTATGTTGC
1 ACTAAGTGTGCGAATTGACTATGTAGC
* *
94182121 ACTAAGTGTGCGAAATGAATATG-ATGC
1 ACTAAGTGTGCGAATTGACTATGTA-GC
** **
94182148 ACTAAGTGTGCGAATTGACCCTGCGGC
1 ACTAAGTGTGCGAATTGACTATGTAGC
94182175 ACTAAGTGTGCGAGATTGACTATGTAGC
1 ACTAAGTGTGCGA-ATTGACTATGTAGC
* * *
94182203 ACTAAGTGTGCGATTTGATTACGTAGC
1 ACTAAGTGTGCGAATTGACTATGTAGC
* * *
94182230 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGAATTGACTATGTAGC
*
94182257 ACTGAGTGTGCG
1 ACTAAGTGTGCG
94182269 GACTCAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
ACTAAGTGTGCGAATTGACTATGTAGC
Found at i:94182205 original size:82 final size:81
Alignment explanation
Indices: 94182094--94182247 Score: 220
Period size: 82 Copynumber: 1.9 Consensus size: 81
94182084 ATTGTACATT
* * *
94182094 ACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTG
1 ACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTG
94182158 CGAATTGACCCTGCGGC
65 CGAATTGACCCTGCGGC
** *
94182175 ACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTG
1 ACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
*
94182240 CGAGTTGA
65 CGAATTGA
94182248 TTATATAGCA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
81 13 0.20
82 50 0.78
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
GAATTGACCCTGCGGC
Found at i:94182259 original size:82 final size:81
Alignment explanation
Indices: 94182094--94182268 Score: 199
Period size: 82 Copynumber: 2.1 Consensus size: 81
94182084 ATTGTACATT
* * *
94182094 ACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGC
1 ACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGC
* * *
94182159 GAATTGACCCTGCGGC
66 GAATTGACCATACAGC
** *
94182175 ACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTGT
1 ACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTGT
* ** *
94182239 GCGAGTTGATTATATAGC
64 GCGAATTGACCATACAGC
*
94182257 ACTGAGTGTGCG
1 ACTAAGTGTGCG
94182269 GACTCAATAT
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 14 0.18
82 64 0.82
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
ACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGC
GAATTGACCATACAGC
Found at i:94184694 original size:27 final size:27
Alignment explanation
Indices: 94184663--94184840 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
94184653 TAAATTGTAC
94184663 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
94184690 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
94184716 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
94184744 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
94184772 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
94184799 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
94184826 AGCATTGAGTGTGCG
1 AGCACTAAGTGTGCG
94184841 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:94184777 original size:82 final size:81
Alignment explanation
Indices: 94184664--94184819 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
94184654 AAATTGTACA
* *
94184664 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
94184728 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
94184745 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
94184810 TGCGAGTTGA
65 TGCGAATTGA
94184820 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:94192795 original size:27 final size:27
Alignment explanation
Indices: 94192764--94192995 Score: 304
Period size: 27 Copynumber: 8.6 Consensus size: 27
94192754 TAAATTGTAC
*
94192764 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* ** *
94192791 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGACTATGT
* * *
94192817 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGTTGACTATGT
*
94192845 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
94192873 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
94192900 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* * *
94192927 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
94192954 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
94192981 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
94192996 GACTCAATAT
Statistics
Matches: 182, Mismatches: 20, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
27 158 0.87
28 24 0.13
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:94192959 original size:109 final size:108
Alignment explanation
Indices: 94192764--94192995 Score: 313
Period size: 109 Copynumber: 2.1 Consensus size: 108
94192754 TAAATTGTAC
* *
94192764 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
* * *
94192829 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCACGCAGCACTAAGTGTGCGAG-TTGACTATAT
** *
94192873 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATG-TAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGT
* ** * *
94192937 GTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATAT
65 GTGCGAATTGACCACGCAGCACTAAGTGTGCGAGTTGACTATAT
*
94192981 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
94192996 GACTCAATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
108 23 0.21
109 85 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
TGCGAATTGACCACGCAGCACTAAGTGTGCGAGTTGACTATAT
Found at i:94194323 original size:48 final size:48
Alignment explanation
Indices: 94194261--94194584 Score: 267
Period size: 48 Copynumber: 6.8 Consensus size: 48
94194251 TGATATATGT
* * *
94194261 GCCAGTGTTAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGACATGAGA
* * * * * * ***
94194309 ACCAATGTAAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGACATGAGA
* * * * * * **
94194357 GTCAATGTAAGACCATGCCTGGGACATGGCATC-GACATTGAGACAAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGACATGAGA
* * * *
94194405 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGACATGAGA
* * * * * *
94194453 ACCAGTGTAAAACCATGTTTGGGACATGGTATCGGCATTAAGACA--AGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC--CACGACATGAGA
* * * *
94194501 GCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGACATGTGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGACATGAGA
* * *
94194549 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
94194585 AATTCACTCT
Statistics
Matches: 217, Mismatches: 53, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
46 4 0.02
47 2 0.01
48 205 0.94
49 2 0.01
50 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGACATGAGA
Found at i:94194528 original size:144 final size:144
Alignment explanation
Indices: 94194264--94194584 Score: 378
Period size: 144 Copynumber: 2.2 Consensus size: 144
94194254 TATATGTGCC
* * * * *
94194264 AGTGTTAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAACCAATGTAAGACCATGTTT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGACATGAGAACCAATGTAAAACCATGTTT
* ** *
94194329 GGAACATGGCATCGGCGATGTTGTGAGAGTCAATGTAAGACCATGCCTGGGACATGGCATCGACA
66 GGAACATGGCATCGGCGATGTAGCAAGAGTCAATGTAAGACCATGCCTGGAACATGGCATCGACA
* *
94194394 TTGAGACAAGAGCT
131 TCGACACAAGAGCT
* * *
94194408 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAACCAGTGTAAAACCATGTTT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGACATGAGAACCAATGTAAAACCATGTTT
* * * *
94194473 GGGACATGGTATCGGC-AT-TAAGACAAGAG-CTAGTGTAAGACCATGTCTGGAACATGGCATCG
66 GGAACATGGCATCGGCGATGT-AG-CAAGAGTC-AATGTAAGACCATGCCTGGAACATGGCATCG
* * ***
94194535 GCCTCGACATGTGAGCT
128 ACATCGACACAAGAGCT
*
94194552 AGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC
94194585 AATTCACTCT
Statistics
Matches: 150, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
142 1 0.01
143 4 0.03
144 145 0.97
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (144 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGACATGAGAACCAATGTAAAACCATGTTT
GGAACATGGCATCGGCGATGTAGCAAGAGTCAATGTAAGACCATGCCTGGAACATGGCATCGACA
TCGACACAAGAGCT
Found at i:94194583 original size:96 final size:96
Alignment explanation
Indices: 94194314--94194585 Score: 361
Period size: 96 Copynumber: 2.8 Consensus size: 96
94194304 TGAGAACCAA
** * * **
94194314 TGTAAGACCATGTTTGGAACATGGCATCGG---CGATGTTGTGAGAGTCAATGTAAGACCATGCC
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCTCGA-CATGTGAG-CT-AGTGTAAGACCATGTT
* *
94194376 TGGGACATGGCATCGACATTGAGACAAGAGCTAG
63 TGGGACATGGCATCGGCATTAAGACAAGAGCTAG
* * * *
94194410 TGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAACCAGTGTAAAACCATGTTTGG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCTCGACATGTGAGCTAGTGTAAGACCATGTTTGG
*
94194475 GACATGGTATCGGCATTAAGACAAGAGCTAG
66 GACATGGCATCGGCATTAAGACAAGAGCTAG
*
94194506 TGTAAGACCATGTCTGGAACATGGCATCGGCCTCGACATGTGAGCTAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCTCGACATGTGAGCTAGTGTAAGACCATGTTTGG
*
94194571 AACATGGCATCGGCA
66 GACATGGCATCGGCA
94194586 ATTCACTCTC
Statistics
Matches: 153, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
96 145 0.95
98 5 0.03
99 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCCTCGACATGTGAGCTAGTGTAAGACCATGTTTGG
GACATGGCATCGGCATTAAGACAAGAGCTAG
Found at i:94210391 original size:20 final size:20
Alignment explanation
Indices: 94210349--94210391 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
94210339 GGGAGCAGTT
* * *
94210349 TTTCAATTGATTTAGAAATG
1 TTTCAATTGAGTTAAAAAAG
94210369 TTTCAATTGAGTTAAAAAAG
1 TTTCAATTGAGTTAAAAAAG
94210389 TTT
1 TTT
94210392 AAACTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (20 bp):
TTTCAATTGAGTTAAAAAAG
Found at i:94210442 original size:20 final size:21
Alignment explanation
Indices: 94210413--94210453 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
94210403 AAACTTTATC
94210413 CAAAAAATTTTCTAAG-TGTT
1 CAAAAAATTTTCTAAGATGTT
* *
94210433 CAAAACATTTTTTAAGATGTT
1 CAAAAAATTTTCTAAGATGTT
94210454 TGGAAGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (21 bp):
CAAAAAATTTTCTAAGATGTT
Found at i:94210525 original size:23 final size:24
Alignment explanation
Indices: 94210493--94210537 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
94210483 GAACTTTATA
94210493 ATTTCTTTAT-TCAAAAATATTTGT
1 ATTTCTTTATATC-AAAATATTTGT
94210517 ATTT-TTTATATCAAAATATTT
1 ATTTCTTTATATCAAAATATTT
94210538 CATCAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTCTTTATATCAAAATATTTGT
Found at i:94212810 original size:40 final size:40
Alignment explanation
Indices: 94212752--94212967 Score: 278
Period size: 40 Copynumber: 5.4 Consensus size: 40
94212742 AAACCAAGTA
* * *
94212752 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * **
94212791 CCTTCAGGACTTAGCCCGGATTTAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
94212831 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
94212871 CCTTTGGGACTTAGCCC-GAAATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
94212911 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
94212951 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
94212968 CGTTATCATC
Statistics
Matches: 157, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 15 0.10
40 140 0.89
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:94221116 original size:49 final size:48
Alignment explanation
Indices: 94220853--94221166 Score: 161
Period size: 48 Copynumber: 6.7 Consensus size: 48
94220843 TGGGTTATGT
* * * * * *
94220853 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTCGATGAA
* * * * *
94220901 GAGGGCTAGTGTAAGA-CATGTCTAGGACGTGCATC-GCCAC-ATTATA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGATGA-A
* * * * * * * * *
94220947 -ATAGCCAGCGTAAGACCATGCCTGGGACATAGTATCGGCATAGA-GAT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTCGATGAA
* * * * **
94220994 GAGCGCCAGTATAAGA-CATGTCTGGGACATGCATC-G-GTTAAGTG--
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGA-TGAA
* * *
94221038 TAGTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCACGTAC-AT-AT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGC-C-T-CGATGAA
* *
94221086 GAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGAA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTCGATGAA
* *
94221135 GATAGCCAGTGTAAGACCATGTCTGGGACATG
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATG
94221167 GCATTGGCAA
Statistics
Matches: 200, Mismatches: 46, Indels: 40
0.70 0.16 0.14
Matches are distributed among these distances:
44 34 0.17
45 16 0.08
46 21 0.10
47 31 0.16
48 47 0.23
49 44 0.22
50 7 0.04
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (48 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGATGAA
Found at i:94221124 original size:140 final size:140
Alignment explanation
Indices: 94220853--94221166 Score: 341
Period size: 140 Copynumber: 2.2 Consensus size: 140
94220843 TGGGTTATGT
* * *
94220853 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGAC
1 GAGAGCCAGTATAAGACCATGTCTGGGACAT-GCATCGG-ATTAAGACGAGGGCTAGTGTAAGAC
* * * *
94220918 ATGTCTAGGACGTGCATCGCCACATTATAATAGCCAGCGTAAGACCATGCCTGGGACATAGTATC
64 ATGTCTAGGACATGCATCGCCACATTATAAGAGCCAGCGTAAGACCATGCCTAGGACATAGCATC
*
94220983 GGCATAGA-GAT
129 GGCATAGATGAA
* * *
94220994 GAGCGCCAGTATAAGA-CATGTCTGGGACATGCATCGG-TTAAG-TGTAGTGCTAGTGTAAGACA
1 GAGAGCCAGTATAAGACCATGTCTGGGACATGCATCGGATTAAGACG-AGGGCTAGTGTAAGACA
* * * * * *
94221056 TGTCTGGGACATGCATCAGCACGTACA-TATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGC
65 TGTCTAGGACATGCATC-GC-C--ACATTATAAGAGCCAGCGTAAGACCATGCCTAGGACATAGC
* *
94221120 ATCGGCCTCGATGAA
126 ATCGGCATAGATGAA
* *
94221135 GATAGCCAGTGTAAGACCATGTCTGGGACATG
1 GAGAGCCAGTATAAGACCATGTCTGGGACATG
94221167 GCATTGGCAA
Statistics
Matches: 144, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
136 1 0.01
137 35 0.24
138 2 0.01
139 8 0.06
140 52 0.36
141 31 0.22
142 15 0.10
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (140 bp):
GAGAGCCAGTATAAGACCATGTCTGGGACATGCATCGGATTAAGACGAGGGCTAGTGTAAGACAT
GTCTAGGACATGCATCGCCACATTATAAGAGCCAGCGTAAGACCATGCCTAGGACATAGCATCGG
CATAGATGAA
Found at i:94223122 original size:29 final size:29
Alignment explanation
Indices: 94223088--94223155 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
94223078 TCGGTTAATC
94223088 AGTCGATTAACCGAATTAATTCGATCCGG
1 AGTCGATTAACCGAATTAATTCGATCCGG
94223117 AGTCGATTAACCGAATTAATTCGATCCGG
1 AGTCGATTAACCGAATTAATTCGATCCGG
94223146 AGTCGATTAA
1 AGTCGATTAA
94223156 TAATTTTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (29 bp):
AGTCGATTAACCGAATTAATTCGATCCGG
Found at i:94224798 original size:18 final size:18
Alignment explanation
Indices: 94224775--94224811 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
94224765 GCCTTCTTCC
94224775 AAATGATGAATGAACGGT
1 AAATGATGAATGAACGGT
*
94224793 AAATGATGAATGAAGGGT
1 AAATGATGAATGAACGGT
94224811 A
1 A
94224812 TTCTAAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.30, T:0.22
Consensus pattern (18 bp):
AAATGATGAATGAACGGT
Found at i:94225719 original size:31 final size:29
Alignment explanation
Indices: 94225684--94225750 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
94225674 ATCTCAAAAC
*
94225684 TATACATAAACTATGGTTTAATGTGCAATTG
1 TATACATAAACTATGATTT--TGTGCAATTG
* * *
94225715 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATAAACTATGATTTTGTGCAATTG
94225744 TATACAT
1 TATACAT
94225751 GAAATTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.50
31 16 0.50
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (29 bp):
TATACATAAACTATGATTTTGTGCAATTG
Found at i:94225740 original size:29 final size:30
Alignment explanation
Indices: 94225705--94225763 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
94225695 TATGGTTTAA
94225705 TGTGCAATTGTATACATG-AACTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
* *
94225734 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
94225764 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.47
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAACTTTGATTT
Found at i:94225772 original size:30 final size:29
Alignment explanation
Indices: 94225709--94225772 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
94225699 GTTTAATGTG
*
94225709 CAATTGTATACATGAACTTTGATTTTGTG
1 CAATTGTATACATGAACTTTGATTTTGTC
* *
94225738 CAATTTTATACATGAAATTTTGA-TTTGATC
1 CAATTGTATACATG-AACTTTGATTTTG-TC
94225768 CAATT
1 CAATT
94225773 CTTGTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.45
Consensus pattern (29 bp):
CAATTGTATACATGAACTTTGATTTTGTC
Found at i:94225979 original size:29 final size:30
Alignment explanation
Indices: 94225907--94225992 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 30
94225897 TAAGTAAAAT
* * * *
94225907 TTAAAGTTTCAAGTATACATTTGAACCTCAA
1 TTAAAGTTTCATGTATACAATTGCACC-GAA
* * *
94225938 TTAGAGTTTCATGTTTATAATTGCACCGAA
1 TTAAAGTTTCATGTATACAATTGCACCGAA
94225968 TTAAAG-TTCATGTATACAATTGCAC
1 TTAAAGTTTCATGTATACAATTGCAC
94225993 AATAAATCAA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
29 17 0.38
30 7 0.16
31 21 0.47
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (30 bp):
TTAAAGTTTCATGTATACAATTGCACCGAA
Found at i:94227807 original size:40 final size:37
Alignment explanation
Indices: 94227703--94227801 Score: 135
Period size: 37 Copynumber: 2.6 Consensus size: 37
94227693 CAATTTCCTC
* *
94227703 AAATCAAACCCTCAAATTCATTCTTCTTCAAAAATCCCT
1 AAATTAAACCCTC-CATTC-TTCTTCTTCAAAAATCCCT
* *
94227742 AAATTAAATCCTCCATTCTTCTTCTTCAAAAATCTCT
1 AAATTAAACCCTCCATTCTTCTTCTTCAAAAATCCCT
*
94227779 AAATTAAACCCTCCATTTTTCTT
1 AAATTAAACCCTCCATTCTTCTT
94227802 TTTCTTCGTC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
37 39 0.72
38 4 0.07
39 11 0.20
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.37
Consensus pattern (37 bp):
AAATTAAACCCTCCATTCTTCTTCTTCAAAAATCCCT
Found at i:94238355 original size:43 final size:42
Alignment explanation
Indices: 94238275--94238356 Score: 121
Period size: 45 Copynumber: 1.9 Consensus size: 42
94238265 AATTCTATCT
94238275 AAAAATATCATAGATGTTTGAAAATATATTGTATGAGATTTAA
1 AAAAATATCATAGATGTTTGAAAATATATTG-ATGAGATTTAA
*
94238318 AAAAATTATCAATAGATGTTTGAAAATATCTTG-TGAGAT
1 AAAAA-TATC-ATAGATGTTTGAAAATATATTGATGAGAT
94238357 CTTCAGAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
43 11 0.31
44 4 0.11
45 21 0.58
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.37
Consensus pattern (42 bp):
AAAAATATCATAGATGTTTGAAAATATATTGATGAGATTTAA
Found at i:94248308 original size:28 final size:26
Alignment explanation
Indices: 94248262--94248313 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
94248252 ATTATAATGA
* *
94248262 AAAATTGACATGTAGTAAAGTATATT
1 AAAAGTGACATGTAGTAAAATATATT
94248288 AAAAGTGACATGTCATGTAAAATATA
1 AAAAGTGACATGT-A-GTAAAATATA
94248314 AAATATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 1 0.05
28 9 0.41
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (26 bp):
AAAAGTGACATGTAGTAAAATATATT
Found at i:94255603 original size:16 final size:15
Alignment explanation
Indices: 94255568--94255603 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
94255558 ACCCTTTTAA
94255568 AAAAAACCTTAAATT
1 AAAAAACCTTAAATT
*
94255583 CAAAAACCTTAAACTT
1 AAAAAACCTTAAA-TT
94255599 AAAAA
1 AAAAA
94255604 TATTAAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAAAACCTTAAATT
Found at i:94255619 original size:24 final size:24
Alignment explanation
Indices: 94255584--94255646 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
94255574 CCTTAAATTC
*
94255584 AAAAACCTTAAACTTAAAAATATT
1 AAAAACCCTAAACTTAAAAATATT
* *
94255608 AAAACCCCTAAACCTAAAAATATT
1 AAAAACCCTAAACTTAAAAATATT
94255632 AAAAACCCTAAACTT
1 AAAAACCCTAAACTT
94255647 GGGAGAAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAAACCCTAAACTTAAAAATATT
Found at i:94269521 original size:37 final size:37
Alignment explanation
Indices: 94269480--94269553 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
94269470 TCCTTTACAC
*
94269480 ATAGG-CTCAGAATATGGGCATTTGTTCTTGTGTTTGT
1 ATAGGCCT-AGAATATAGGCATTTGTTCTTGTGTTTGT
94269517 ATAGGCCTAGAATATAGGCATTTGTTCTTGTGTTTGT
1 ATAGGCCTAGAATATAGGCATTTGTTCTTGTGTTTGT
94269554 GCCAAGTCTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 33 0.94
38 2 0.06
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.43
Consensus pattern (37 bp):
ATAGGCCTAGAATATAGGCATTTGTTCTTGTGTTTGT
Found at i:94276607 original size:39 final size:39
Alignment explanation
Indices: 94276553--94276627 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
94276543 CATAGGGATA
94276553 AGATAGGAATAACTTGGTTAAGTTGCTATTATGAAGATC
1 AGATAGGAATAACTTGGTTAAGTTGCTATTATGAAGATC
94276592 AGATAGGAATAACTTGGTTAAGTTGCTATTATGAAG
1 AGATAGGAATAACTTGGTTAAGTTGCTATTATGAAG
94276628 TATGTGAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (39 bp):
AGATAGGAATAACTTGGTTAAGTTGCTATTATGAAGATC
Found at i:94287445 original size:2 final size:2
Alignment explanation
Indices: 94287440--94287471 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
94287430 TTCTTGAGGA
*
94287440 GT GT GT GT GT GC GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
94287472 CCATTAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
GT
Found at i:94290226 original size:43 final size:42
Alignment explanation
Indices: 94290133--94290289 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 42
94290123 GGTTATCGAG
* *
94290133 ATGTGATTACATGA-AAGATCATGTCTGGGACATTGGCATTGT
1 ATGTGATTACAT-ATAAGACCATGTCTGGGACATTGGCATCGT
* *
94290175 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATATAAGACCATGTCTGGGACATTGGCATCG-T
* * * * * * *
94290219 ATATGATTTCGTATAAGACCTTGTCTAGGAAAGTGGCATCGAT
1 ATGTGATTACATATAAGACCATGTCTGGGACATTGGCATCG-T
* *
94290262 ATGTGATAACATATAAGACCATATCTGG
1 ATGTGATTACATATAAGACCATGTCTGG
94290290 CATTGTATTG
Statistics
Matches: 93, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 90 0.97
44 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATATAAGACCATGTCTGGGACATTGGCATCGT
Found at i:94299972 original size:25 final size:25
Alignment explanation
Indices: 94299944--94300012 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
94299934 AACCAAATCG
* * *
94299944 AGCCTTTGTGGCGAGTTA-CTTGTAA
1 AGCCTTTGTGGAGAATTATC-TATAA
*
94299969 AGCCTTTATGGAGAATTATCTATAA
1 AGCCTTTGTGGAGAATTATCTATAA
94299994 AGCCTTTGT-GACGAATTAT
1 AGCCTTTGTGGA-GAATTAT
94300013 TTGAAAAGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.05
25 34 0.92
26 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (25 bp):
AGCCTTTGTGGAGAATTATCTATAA
Found at i:94300020 original size:25 final size:25
Alignment explanation
Indices: 94299944--94300020 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
94299934 AACCAAATCG
* * * *
94299944 AGCCTTTGTGGCGAGTTACTTGTAA
1 AGCCTTTGTGACGAATTATTTGAAA
* *
94299969 AGCCTTTATGGA-GAATTATCT-ATAA
1 AGCCTTTGT-GACGAATTATTTGA-AA
94299994 AGCCTTTGTGACGAATTATTTGAAA
1 AGCCTTTGTGACGAATTATTTGAAA
94300019 AG
1 AG
94300021 ACAGTGTGGC
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
24 2 0.05
25 36 0.90
26 2 0.05
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (25 bp):
AGCCTTTGTGACGAATTATTTGAAA
Found at i:94303702 original size:46 final size:48
Alignment explanation
Indices: 94303646--94303770 Score: 184
Period size: 48 Copynumber: 2.6 Consensus size: 48
94303636 TATATGTGCT
94303646 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-ATA-TAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATATTAA-AGCC
* * *
94303692 AGTGTAAGACATGTCAGGGACATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATATTAAAGCC
*
94303740 AGTGTAAGACATGTCTCGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
94303771 ATTGAGACGA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
46 32 0.45
47 1 0.01
48 36 0.51
49 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATATTAAAGCC
Found at i:94303838 original size:94 final size:94
Alignment explanation
Indices: 94303643--94303857 Score: 231
Period size: 94 Copynumber: 2.3 Consensus size: 94
94303633 TGATATATGT
* *
94303643 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATAAGAGCCAGTGTAAGACATGTCA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGACAAGAGCCAGTGTAAGACATGTCA
* ***
94303708 GGGACATGCATCGGCCTCGAGATATTTAA
66 GGGACATGCATCCGCCTCGAGATAGACAA
* * ** * * *
94303737 GCCAGTGTAAGACATGTCTCGGACATGCATCGG-CATTGAGACGAGAGCTAG-GATAAGACATTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CAAGACAAGAGCCAGTG-TAAGACATGT
*
94303800 CTA-GGACATGCATCCGCCTCGCA-ATGGACAA
64 C-AGGGACATGCATCCGCCTCG-AGATAGACAA
*
94303831 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
94303858 GCGTCAGCTT
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
93 3 0.03
94 95 0.95
95 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGACAAGAGCCAGTGTAAGACATGTCA
GGGACATGCATCCGCCTCGAGATAGACAA
Found at i:94303843 original size:48 final size:47
Alignment explanation
Indices: 94303643--94303857 Score: 151
Period size: 48 Copynumber: 4.6 Consensus size: 47
94303633 TGATATATGT
* * * *
94303643 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATA-AGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGCCCGCAATAGACAGA
* ***
94303689 GCCAGTGTAAGACATGTC-AGGGACATGCATCGGCCTCG-AGATATTTA-A
1 GCTAGTGTAAGACATGTCTA-GGACATGCATC-GCC-CGCA-ATAGACAGA
* * *
94303737 GCCAGTGTAAGACATGTCTCGGACATGCATCG---GCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGCCCGCAAT-AGAC-AGA
* *
94303783 GCTAG-GATAAGACATTTCTAGGACATGCATCCGCCTCGCAATGGACA-A
1 GCTAGTG-TAAGACATGTCTAGGACATGCAT-CGCC-CGCAATAGACAGA
* *
94303831 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTAGGACATG
94303858 GCGTCAGCTT
Statistics
Matches: 134, Mismatches: 18, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 2 0.01
46 54 0.40
47 6 0.04
48 58 0.43
49 3 0.02
50 3 0.02
51 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGCCCGCAATAGACAGA
Found at i:94305135 original size:20 final size:21
Alignment explanation
Indices: 94305074--94305135 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
94305064 TGTATTAGTG
* * *
94305074 TCCACACAGGCATTTTTCCCT
1 TCCACACGGGCATGTTGCCCT
*
94305095 TCCACACGGGCGTGTTGCCCT
1 TCCACACGGGCATGTTGCCCT
94305116 TCCACACGGGCATG-TGCCCT
1 TCCACACGGGCATGTTGCCCT
94305136 GTTTCAAGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 6 0.17
21 30 0.83
ACGTcount: A:0.15, C:0.39, G:0.21, T:0.26
Consensus pattern (21 bp):
TCCACACGGGCATGTTGCCCT
Found at i:94310765 original size:128 final size:126
Alignment explanation
Indices: 94310508--94310831 Score: 393
Period size: 128 Copynumber: 2.6 Consensus size: 126
94310498 GAAACTCCTC
* * *
94310508 AAAACAAGGCAATATTATGTGTTTGGAAATTCGAGAAATTGTGCCCTAACGTGCTGGGTTTCGAT
1 AAAACAAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCGTGCCCTAACATGCTGGGTTTCGAT
* * * * * *
94310573 TTTCCATTTGACCAAATAACTAAGTATCCTTTTAAAATTTCGTCTATGTTTTCTTAAATTAA
66 TTTTCATTTGACCAAACAACCAAATACCCTTTTAAAATTTCGTATATGTTTTCTTAAA-TAA
*
94310635 AAAACAAGGCAATATTTTGTGTTTTGGAAATTCGAGAAATCGTGCCCTAACATGCTGGGTTTTGA
1 AAAACAAGGCAATATTTTGTG-TTTGGAAATTCGAGAAATCGTGCCCTAACATGCTGGGTTTCGA
* * * *
94310700 TTTTTCGTTTGACCAAACGACCAAATACCCTTTTTAAAATCTT-GTATCTGTTTTCTT-CATAA
65 TTTTTCATTTGACCAAACAACCAAATACCC-TTTTAAAAT-TTCGTATATGTTTTCTTAAATAA
** ** * * *
94310762 AAAA-GGGCGCAATATTTCATGTTTGGAAATTCGAGAAATCGTGCCCTAACTTACTGGGTTTCAA
1 AAAACAAG-GCAATATTTTGTGTTTGGAAATTCGAGAAATCGTGCCCTAACATGCTGGGTTTCGA
94310826 TTTTTC
65 TTTTTC
94310832 TCGTTTAACC
Statistics
Matches: 171, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
126 46 0.27
127 38 0.22
128 64 0.37
129 21 0.12
130 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (126 bp):
AAAACAAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCGTGCCCTAACATGCTGGGTTTCGAT
TTTTCATTTGACCAAACAACCAAATACCCTTTTAAAATTTCGTATATGTTTTCTTAAATAA
Found at i:94313552 original size:110 final size:110
Alignment explanation
Indices: 94313434--94313878 Score: 849
Period size: 110 Copynumber: 4.1 Consensus size: 110
94313424 AGGCTATCAT
*
94313434 TTTTTTTAAAAAAAAGATTAAGCTAATTTTTTGTTAAGGTTTTATTTTTCTTATTTTCTTTTTCA
1 TTTTTTTAAAAAAAAGATTAAGTTAATTTTTTGTTAAGGTTTTATTTTTCTTATTTTCTTTTTCA
94313499 CTCTTCCTCCTTTCTTTGTCGTCCCTTATTTGTTTTCTCTCACCA
66 CTCTTCCTCCTTTCTTTGTCGTCCCTTATTTGTTTTCTCTCACCA
94313544 TTTTTTTAAAAAAAAGATTAAGTTAATTTTTTGTTAAGGTTTTATTTTTCTTATTTTCTTTTTCA
1 TTTTTTTAAAAAAAAGATTAAGTTAATTTTTTGTTAAGGTTTTATTTTTCTTATTTTCTTTTTCA
94313609 CTCTTCCTCCTTTCTTTGTCGTCCCTTATTTGTTTTCTCTCACCA
66 CTCTTCCTCCTTTCTTTGTCGTCCCTTATTTGTTTTCTCTCACCA
94313654 TTTTTTTAAAAAAAAGATTAAGTTAATTTTTTGTTAAGGTTTTATTTTTCTTATTTTCTTTTTCA
1 TTTTTTTAAAAAAAAGATTAAGTTAATTTTTTGTTAAGGTTTTATTTTTCTTATTTTCTTTTTCA
94313719 CTCTTCCTCCTTTCTTTGTCGTCCCTTATTTGTTTTCTCTCACCA
66 CTCTTCCTCCTTTCTTTGTCGTCCCTTATTTGTTTTCTCTCACCA
94313764 TTTTTTTAAAAAAAAGATTAAGTTAATTTTTTGTTAAGGTTTTATTTTTCTTATTTTCTTTTTCA
1 TTTTTTTAAAAAAAAGATTAAGTTAATTTTTTGTTAAGGTTTTATTTTTCTTATTTTCTTTTTCA
* *
94313829 CTCTTCCTCCTTTCTTTGTCGTCCCTTA-TT-TTTTCCCTCACCT
66 CTCTTCCTCCTTTCTTTGTCGTCCCTTATTTGTTTTCTCTCACCA
94313872 TTTTTTT
1 TTTTTTT
94313879 CTCTCCATTA
Statistics
Matches: 332, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
108 18 0.05
109 2 0.01
110 312 0.94
ACGTcount: A:0.19, C:0.18, G:0.07, T:0.57
Consensus pattern (110 bp):
TTTTTTTAAAAAAAAGATTAAGTTAATTTTTTGTTAAGGTTTTATTTTTCTTATTTTCTTTTTCA
CTCTTCCTCCTTTCTTTGTCGTCCCTTATTTGTTTTCTCTCACCA
Found at i:94319559 original size:37 final size:35
Alignment explanation
Indices: 94319516--94319621 Score: 122
Period size: 37 Copynumber: 2.9 Consensus size: 35
94319506 GGATCTATAA
94319516 CTCTTCGGAGCATTTGGCGTGTTATCAGTTGGATTAG
1 CTCTTCGGAGCATTTGGCGTGTT-TC-GTTGGATTAG
* * *
94319553 CTCTTCGGAGAATTTGGTGTGTTGTCGATTCGATTAG
1 CTCTTCGGAGCATTTGGCGTGTT-TCG-TTGGATTAG
**
94319590 CTCTTATGAGCATTTGGCGTGTTTCGGTTGGA
1 CTCTTCGGAGCATTTGGCGTGTTTC-GTTGGA
94319622 CTACTTGTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
36 7 0.12
37 51 0.88
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.40
Consensus pattern (35 bp):
CTCTTCGGAGCATTTGGCGTGTTTCGTTGGATTAG
Done.