Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 71 of 250
Found at i:22281247 original size:21 final size:20
Alignment explanation
Indices: 22281213--22281280 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
22281203 ACATTCTTGT
22281213 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
22281234 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
22281255 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
22281276 AAAGA
1 AAAGA
22281281 GAGGCAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:22281248 original size:6 final size:5
Alignment explanation
Indices: 22281224--22281280 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
22281214 AAGAGAAAAC
*
22281224 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
22281271 AAAGA AAAGA
1 AAAGA AAAGA
22281281 GAGGCAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:22281255 original size:15 final size:14
Alignment explanation
Indices: 22281224--22281280 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
22281214 AAGAGAAAAC
22281224 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
22281240 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
22281255 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
22281271 AAAGAAAAGA
1 AAAGAAAAGA
22281281 GAGGCAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:22281349 original size:12 final size:12
Alignment explanation
Indices: 22281328--22281359 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22281318 TTGAGAGAAC
*
22281328 TTGAAGAAGCCT
1 TTGAAAAAGCCT
22281340 TTGAAAAAGCCT
1 TTGAAAAAGCCT
22281352 TTGAAAAA
1 TTGAAAAA
22281360 CAAAAAGAAA
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:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:22281383 original size:12 final size:12
Alignment explanation
Indices: 22281361--22281385 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22281351 TTTGAAAAAC
22281361 AAAAAGAAAATG
1 AAAAAGAAAATG
22281373 AAAAAGAAAATG
1 AAAAAGAAAATG
22281385 A
1 A
22281386 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:22281392 original size:18 final size:18
Alignment explanation
Indices: 22281352--22281397 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
22281342 GAAAAAGCCT
*
22281352 TTGAAAAACAAAAAGAAA
1 TTGAAAAAGAAAAAGAAA
* * *
22281370 ATGAAAAAGAAAATGAGA
1 TTGAAAAAGAAAAAGAAA
22281388 TTGAAAAAGA
1 TTGAAAAAGA
22281398 GAATAAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.67, C:0.02, G:0.17, T:0.13
Consensus pattern (18 bp):
TTGAAAAAGAAAAAGAAA
Found at i:22281393 original size:24 final size:22
Alignment explanation
Indices: 22281366--22281428 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 22
22281356 AAAACAAAAA
22281366 GAAAATGAAAAAGAAAATGAGATT
1 GAAAA-GAAAAAGAAAA-GAGATT
*
22281390 GAAAAAGAGAATAA-AAAAGAGTTT
1 G-AAAAGA-AA-AAGAAAAGAGATT
22281414 GAAAGAGAAAAAGAA
1 GAAA-AGAAAAAGAA
22281429 TGTGAACAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
22 2 0.06
23 7 0.21
24 12 0.36
25 10 0.30
26 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (22 bp):
GAAAAGAAAAAGAAAAGAGATT
Found at i:22287027 original size:23 final size:23
Alignment explanation
Indices: 22286949--22287062 Score: 124
Period size: 23 Copynumber: 4.8 Consensus size: 23
22286939 GACTCACCAC
22286949 AGCTCGTATGAGCTTACTGATATATT
1 AGCTCGTATGAGCTTACT-AT-T-TT
* *
22286975 AGCTCGTAAGAGCTTACTGTTCTT
1 AGCTCGTATGAGCTTACTATT-TT
*
22286999 AGCTCGTATGAGCTTATTATTTT
1 AGCTCGTATGAGCTTACTATTTT
22287022 AGCTCGTCA-GAGCTTACTATTTT
1 AGCTCGT-ATGAGCTTACTATTTT
*
22287045 AGCTC-AATAGAGCTTACT
1 AGCTCGTAT-GAGCTTACT
22287063 GTCCATCAGC
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
21 1 0.01
23 36 0.47
24 22 0.29
25 1 0.01
26 17 0.22
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACTATTTT
Found at i:22287036 original size:47 final size:48
Alignment explanation
Indices: 22286949--22287062 Score: 144
Period size: 47 Copynumber: 2.4 Consensus size: 48
22286939 GACTCACCAC
*
22286949 AGCTCGTATGAGCTTACTGATATATTAGCTCGTAAGAGCTTACTGTTCTT
1 AGCTCGTATGAGCTTACT-ATATATTAGCTCGTAAGAGCTTACTATT-TT
* *
22286999 AGCTCGTATGAGCTTA-T-TATTTTAGCTCGTCAGAGCTTACTATTTT
1 AGCTCGTATGAGCTTACTATATATTAGCTCGTAAGAGCTTACTATTTT
*
22287045 AGCTC-AATAGAGCTTACT
1 AGCTCGTAT-GAGCTTACT
22287063 GTCCATCAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
45 2 0.03
46 14 0.24
47 25 0.43
49 1 0.02
50 16 0.28
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (48 bp):
AGCTCGTATGAGCTTACTATATATTAGCTCGTAAGAGCTTACTATTTT
Found at i:22294636 original size:24 final size:23
Alignment explanation
Indices: 22294598--22294716 Score: 96
Period size: 23 Copynumber: 5.0 Consensus size: 23
22294588 TACCGATATA
*
22294598 TCAGCTCGTAAGAGCTTACTGTT
1 TCAGCTCATAAGAGCTTACTGTT
*
22294621 CTCAGCTCATATGAGCTTACTGTT
1 -TCAGCTCATAAGAGCTTACTGTT
* * ** * *
22294645 TCAGCTCGTTAGAGCAAAATATT
1 TCAGCTCATAAGAGCTTACTGTT
*
22294668 TTAGCTCA-ATAGAGCTTACTGTCT
1 TCAGCTCATA-AGAGCTTACTGT-T
*
22294692 ATCAGCTCAGGAAGAGCTTACTGTT
1 -TCAGCTCA-TAAGAGCTTACTGTT
22294717 CATAGCTAGA
Statistics
Matches: 73, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
23 30 0.41
24 22 0.30
25 8 0.11
26 12 0.16
27 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (23 bp):
TCAGCTCATAAGAGCTTACTGTT
Found at i:22295719 original size:6 final size:6
Alignment explanation
Indices: 22295699--22295772 Score: 71
Period size: 6 Copynumber: 12.3 Consensus size: 6
22295689 ATTGAGCCCA
* *
22295699 TTTA-T TTTA-T TTTATT TTTATTT TTTATT TTTATAT TCTAGT TTTATT
1 TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTAT-T TTTATT TTTATT
* * *
22295747 TCTATT TTTATG TTTATT GTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
22295773 CTTAGACTTC
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
5 9 0.16
6 37 0.66
7 10 0.18
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:22295763 original size:37 final size:37
Alignment explanation
Indices: 22295703--22295774 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
22295693 AGCCCATTTA
* *
22295703 TTTTATTTTATTTTTATTTTTTATTTTTATATTCTAG
1 TTTTATTTTATTTTTATTGTTTATTGTTATATTCTAG
*
22295740 TTTTATTTCTATTTTTA-TGTTTATTGTTATTTTCT
1 TTTTATTT-TATTTTTATTGTTTATTGTTATATTCT
22295775 TAGACTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 23 0.74
38 8 0.26
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (37 bp):
TTTTATTTTATTTTTATTGTTTATTGTTATATTCTAG
Found at i:22300217 original size:46 final size:46
Alignment explanation
Indices: 22300165--22300383 Score: 230
Period size: 46 Copynumber: 4.7 Consensus size: 46
22300155 TTAAGCATCT
* *
22300165 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCC
* *
22300211 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCC
* * * * *
22300257 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATAC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC--CC
* **
22300304 AAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC-CCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCC
* * *
22300349 TGAGCTCCTTGAGTTGAGTCCGAGTTCGCTTATGG
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22300384 GCGGGTTACA
Statistics
Matches: 145, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
43 5 0.03
45 6 0.04
46 98 0.68
47 27 0.19
48 3 0.02
50 6 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCC
Found at i:22306214 original size:42 final size:44
Alignment explanation
Indices: 22306133--22306348 Score: 262
Period size: 46 Copynumber: 4.9 Consensus size: 44
22306123 ATATTTAGGC
*
22306133 ATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
22306177 AT-CGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGAT-CGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
22306218 ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAG-GC
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGA
22306265 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
22306309 ACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22306349 GCGGGTTACA
Statistics
Matches: 149, Mismatches: 11, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
41 5 0.03
42 37 0.25
43 27 0.18
44 8 0.05
45 2 0.01
46 38 0.26
47 31 0.21
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:22306233 original size:37 final size:38
Alignment explanation
Indices: 22306148--22306239 Score: 107
Period size: 42 Copynumber: 2.3 Consensus size: 38
22306138 AACTCGTTGA
22306148 GTTGAGTTCGAGTTCACTTATGGATGCGAATCGAACTCGTTG
1 GTTGAG-TCGAGTTCACTTATGGATGCGAATCGAACTC---G
22306190 AGTTGAGTCGAGTTCACTTATGGAT-CGAATCCGAACTC-
1 -GTTGAGTCGAGTTCACTTATGGATGCGAAT-CGAACTCG
*
22306228 GTTGAGTTGAGT
1 GTTGAGTCGAGT
22306240 CCGAGTTCGT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
37 11 0.23
41 5 0.11
42 25 0.53
43 6 0.13
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (38 bp):
GTTGAGTCGAGTTCACTTATGGATGCGAATCGAACTCG
Found at i:22311323 original size:47 final size:47
Alignment explanation
Indices: 22311159--22311324 Score: 168
Period size: 46 Copynumber: 3.6 Consensus size: 47
22311149 CCGCCCAGAA
* *
22311159 GAACTCGGACTCAACTC-ACGAGCTCGGA-GT-TCGC-TCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATGTCGCATCCATAAGT
* ** * *
22311202 GAACTTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
1 GAAC-TCGGACTCAACTCAACGAGTTCGGA--CAT-GTCGCATCCATAAGT
22311250 GAACTCGGACTC-ACTCAACGAGTTCGGACATGTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATGTCGCATCCATAAGT
*
22311296 GAACTCCGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
22311325 TGCTCAACCA
Statistics
Matches: 99, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
43 9 0.09
44 16 0.16
45 12 0.12
46 27 0.27
47 24 0.24
48 5 0.05
49 2 0.02
50 3 0.03
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATGTCGCATCCATAAGT
Found at i:22311325 original size:93 final size:91
Alignment explanation
Indices: 22311159--22311327 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 91
22311149 CCGCCCAGAA
* *
22311159 GAACTCGGACTCAACTCACGAGCTCGGAGTTCGCTCCATAAGTGAACTTCGGACTCAACTCAACG
1 GAACTCGGACTCAACTCACGAGCTCGGAATTCGCTCCATAAGTGAACTTCCGACTCAACTCAACG
22311224 AGTTCGGATGCCTAGTTACATCTCAC
66 AGTTCGGATGCCTAGTTACATCTCAC
*
22311250 GAACTCGGACTC-ACTCAACGAGTTCGGACATGTCGCATCCATAAGTGAAC-TCCGACTCAACTC
1 GAACTCGGACTCAACTC-ACGAGCTCGGA-AT-TCGC-TCCATAAGTGAACTTCCGACTCAACTC
22311313 AACGAGTTCGGATGC
62 AACGAGTTCGGATGC
22311328 TCAACCATCT
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
90 4 0.06
91 22 0.31
92 1 0.01
93 31 0.44
94 13 0.18
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (91 bp):
GAACTCGGACTCAACTCACGAGCTCGGAATTCGCTCCATAAGTGAACTTCCGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:22318750 original size:46 final size:46
Alignment explanation
Indices: 22318683--22318856 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
22318673 TGTAACCCGC
*
22318683 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
22318729 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
22318779 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
22318822 CCATAAGTGAACTCGGACTCAACT-AACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
22318857 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 13 0.12
46 50 0.46
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:22318803 original size:93 final size:92
Alignment explanation
Indices: 22318690--22318860 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
22318680 CGCCCATAAG
* *
22318690 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACT-A
22318755 ACGAGTTCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTACATCTCA
*
22318783 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTAA
22318848 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22318861 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 15 0.20
93 60 0.80
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:22320783 original size:49 final size:51
Alignment explanation
Indices: 22320669--22320795 Score: 179
Period size: 49 Copynumber: 2.5 Consensus size: 51
22320659 CGGATACCTG
* *
22320669 GTGGCCTGCACATAGTACCACACTTGTAGTCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATC-TTCTTCACAAA
* *
22320721 GTGGCCTTCACATAGTATCACACTTGT-GACCAAAG-TATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTAG-CCAAAGCTATCTTCTTCACAAA
22320770 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
22320796 AGTCACTAGT
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
49 34 0.49
51 5 0.07
52 30 0.43
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATCTTCTTCACAAA
Found at i:22327392 original size:27 final size:27
Alignment explanation
Indices: 22327338--22327523 Score: 171
Period size: 27 Copynumber: 6.9 Consensus size: 27
22327328 CCAAATTGAT
* * *
22327338 AAATGACTGTTTT-TCCTTATGTGATA
1 AAATGATTGTTTTGCCCTTATGTGGTA
22327364 AAATGATTGTTTTGCCCTTATGTGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
* *
22327391 AAGTGATTATTTTGCCCTTATGTGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
* ** **
22327418 AAATGATTGTTTTGCACC-AAAATAATA
1 AAATGATTGTTTTGC-CCTTATGTGGTA
* *
22327445 AAATGATTGTTTTGCCTTTATATGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
** *
22327472 AAACAACTAT-TTTTTCCCTTATGTGGTA
1 AAATGA-T-TGTTTTGCCCTTATGTGGTA
* *
22327500 AAATGATTGTTTTTCCCTTTTGTG
1 AAATGATTGTTTTGCCCTTATGTG
22327524 ATATATGTTT
Statistics
Matches: 129, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
26 14 0.11
27 92 0.71
28 22 0.17
29 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.45
Consensus pattern (27 bp):
AAATGATTGTTTTGCCCTTATGTGGTA
Found at i:22327472 original size:81 final size:82
Alignment explanation
Indices: 22327361--22327512 Score: 234
Period size: 81 Copynumber: 1.9 Consensus size: 82
22327351 TCCTTATGTG
* *** *
22327361 ATAAAATGATTGTTTTGCCCTTATGTGGTAAAGTGATTA-TTTTGCCCTTATGTGGTAAAATGAT
1 ATAAAATGATTGTTTTGCCCTTATATGGTAAAACAACTATTTTTGCCCTTATGTGGTAAAATGAT
22327425 TGTTTTGCACCAAAATA
66 TGTTTTGCACCAAAATA
* *
22327442 ATAAAATGATTGTTTTGCCTTTATATGGTAAAACAACTATTTTTTCCCTTATGTGGTAAAATGAT
1 ATAAAATGATTGTTTTGCCCTTATATGGTAAAACAACTATTTTTGCCCTTATGTGGTAAAATGAT
22327507 TGTTTT
66 TGTTTT
22327513 TCCCTTTTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 33 0.52
82 30 0.48
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (82 bp):
ATAAAATGATTGTTTTGCCCTTATATGGTAAAACAACTATTTTTGCCCTTATGTGGTAAAATGAT
TGTTTTGCACCAAAATA
Found at i:22340608 original size:21 final size:21
Alignment explanation
Indices: 22340568--22340615 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
22340558 TTTGGGTGGA
* * *
22340568 TCAGCTCTCACGAGCTTCTAT
1 TCAGCTCTCACAAACATCTAT
22340589 TCAGCTCTCACAAACATCTAT
1 TCAGCTCTCACAAACATCTAT
*
22340610 TTAGCT
1 TCAGCT
22340616 TTCAAGCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.33
Consensus pattern (21 bp):
TCAGCTCTCACAAACATCTAT
Found at i:22344916 original size:39 final size:39
Alignment explanation
Indices: 22344864--22345034 Score: 202
Period size: 39 Copynumber: 4.3 Consensus size: 39
22344854 GGACTAAGAT
*
22344864 CCGAAGGCATTTGTGCGAGATACAAGTTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAA-ATCCGGGTTAAGTC
*
22344903 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * *
22344943 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
22344983 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
22345022 CCGAAGGCATTTG
1 CCGAAGGCATTTG
22345035 AACGAGGAGC
Statistics
Matches: 115, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
39 65 0.57
40 50 0.43
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:22344947 original size:79 final size:79
Alignment explanation
Indices: 22344811--22345034 Score: 222
Period size: 79 Copynumber: 2.8 Consensus size: 79
22344801 TTGAATGCTG
* * * * * * *
22344811 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
*
22344874 TTGTGCGAGATA-CAAGT
63 TTGTGCGAGATATCAA-A
* * * *
22344891 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* *
22344955 GTGCGAGTTATTAAA
65 GTGCGAGATATCAAA
* * *
22344970 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
22345035 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 90 0.74
80 30 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:22345052 original size:79 final size:80
Alignment explanation
Indices: 22344891--22345067 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
22344881 AGATACAAGT
* * *
22344891 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
22344955 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
22344970 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
22345034 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
22345049 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22345068 TATGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 16 0.19
79 59 0.71
80 8 0.10
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:22350448 original size:38 final size:40
Alignment explanation
Indices: 22350236--22350457 Score: 202
Period size: 40 Copynumber: 5.6 Consensus size: 40
22350226 TTGAATGCTG
* * * * * *
22350236 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
22350276 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA-A
* * * *
22350316 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
22350356 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
22350396 TCCGGGTTAAGTCCCGAAGGCATT-GTGTG-GTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
22350434 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
22350458 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 29 0.19
39 5 0.03
40 111 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:22350477 original size:78 final size:80
Alignment explanation
Indices: 22350316--22350492 Score: 191
Period size: 78 Copynumber: 2.2 Consensus size: 80
22350306 AGATACAAGT
* * * *
22350316 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
22350381 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
22350396 TCCGGGTTAAGTCCCGAAGG-CATTGTGTG-GTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
22350459 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
22350474 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22350493 TATGTGATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
77 16 0.20
78 40 0.49
79 7 0.09
80 19 0.23
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:22354227 original size:48 final size:46
Alignment explanation
Indices: 22354160--22354380 Score: 164
Period size: 46 Copynumber: 4.7 Consensus size: 46
22354150 CACATCATAA
* *
22354160 GCTGACGCATGTCCTAGACAAGTCTTACACTAGTTTGTATATCACGAG
1 GCTGATGCATGTCCCAGACAAGTCTTACACTAGTTTG-ATATCAC-AG
* * * * *
22354208 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCG-TCTCA-AT
1 GCTGATGCATGTCCCAGACAAGTCTTACACTAG-T-TTGATATCACAG
* * *
22354254 GCTAATGCATGTCCCAGACATGTCTTACACTAG-TTGAAATATCTCAAG
1 GCTGATGCATGTCCCAGACAAGTCTTACACTAGTTTG--ATATCAC-AG
* * * * ***
22354302 GCTGATGCATGTCCTAGACATA-TCTTACACTAGCTCTCAT-GCTGTG
1 GCTGATGCATGTCCCAGACA-AGTCTTACACTAG-TTTGATATCACAG
*
22354348 GCTGATGCATGTCCCAGACATGTCTTACACTAG
1 GCTGATGCATGTCCCAGACAAGTCTTACACTAG
22354381 CACACATATC
Statistics
Matches: 139, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
43 2 0.01
46 66 0.47
47 2 0.01
48 65 0.47
49 1 0.01
50 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACAAGTCTTACACTAGTTTGATATCACAG
Found at i:22354274 original size:46 final size:46
Alignment explanation
Indices: 22354071--22354381 Score: 210
Period size: 48 Copynumber: 6.7 Consensus size: 46
22354061 TAGCGAGGCC
* * *
22354071 GATGCCATGTTCCAGACAAGTCTT-CACTAGCTCTCATCTACCAGTG-T
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTCTCATCT--CAATGCT
* * * * *
22354118 CGATGCCATGTCACAGATAGGTCTTACACT-G-ACACATCAT-AA-GCT
1 -GATG-CATGTCCCAGACATGTCTTACACTAGCTCTCATC-TCAATGCT
* * * * * * * *
22354163 GACGCATGTCCTAGACAAGTCTTACACTAG-TTTGTATATCACGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCA--ATGCT
*
22354211 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCT
* * * *
22354257 AATGCATGTCCCAGACATGTCTTACACTAGTTGAAAT-ATCTCAAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCT---CTCATCTCAATGCT
* * *
22354305 GATGCATGTCCTAGACATATCTTACACTAGCTCTCATGCT--GTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAAT-GCT
22354351 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
22354382 ACACATATCA
Statistics
Matches: 206, Mismatches: 41, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
43 20 0.10
44 6 0.03
45 6 0.03
46 67 0.33
47 8 0.04
48 92 0.45
49 7 0.03
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCT
Found at i:22354279 original size:94 final size:94
Alignment explanation
Indices: 22354166--22354380 Score: 283
Period size: 94 Copynumber: 2.3 Consensus size: 94
22354156 ATAAGCTGAC
* * * * *
22354166 GCATGTCCTAGACAAGTCTTACACTAGTTTG-TATATCACGAGGCCGATGCATGTCCCAGACATG
1 GCATGTCCCAGACATGTCTTACACTAG-TTGAAATATCACAAGGCCGATGCATGTCCCAGACATA
*
22354230 TCTTACACTAGCTCTCGT-CTCAAT-GCTAAT
65 TCTTACACTAGCTCTCATGCT--ATGGCTAAT
* * *
22354260 GCATGTCCCAGACATGTCTTACACTAGTTGAAATATCTCAAGGCTGATGCATGTCCTAGACATAT
1 GCATGTCCCAGACATGTCTTACACTAGTTGAAATATCACAAGGCCGATGCATGTCCCAGACATAT
* *
22354325 CTTACACTAGCTCTCATGCTGTGGCTGAT
66 CTTACACTAGCTCTCATGCTATGGCTAAT
22354354 GCATGTCCCAGACATGTCTTACACTAG
1 GCATGTCCCAGACATGTCTTACACTAG
22354381 CACACATATC
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
93 4 0.04
94 101 0.94
95 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (94 bp):
GCATGTCCCAGACATGTCTTACACTAGTTGAAATATCACAAGGCCGATGCATGTCCCAGACATAT
CTTACACTAGCTCTCATGCTATGGCTAAT
Found at i:22358955 original size:16 final size:18
Alignment explanation
Indices: 22358928--22358961 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22358918 AAATAACATC
22358928 TTAAATTAA-TTTCTCAA
1 TTAAATTAATTTTCTCAA
22358945 TTAAA-TAATTTTCTCAA
1 TTAAATTAATTTTCTCAA
22358962 CCCAATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATTAATTTTCTCAA
Found at i:22366264 original size:44 final size:44
Alignment explanation
Indices: 22366214--22366301 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
22366204 TCACATACGC
*
22366214 TATGTTAGTTTGAGAATTGACTAAATTATAGCTCTGATACCACT
1 TATGTTAGTTTGAGAATTGACTAAATCATAGCTCTGATACCACT
22366258 TATGTTAGTTTGAGAATTGACTAAATCATAGCTCTGATACCACT
1 TATGTTAGTTTGAGAATTGACTAAATCATAGCTCTGATACCACT
22366302 AAATGTAACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.38
Consensus pattern (44 bp):
TATGTTAGTTTGAGAATTGACTAAATCATAGCTCTGATACCACT
Found at i:22373930 original size:43 final size:42
Alignment explanation
Indices: 22373783--22373939 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
22373773 TGTGTTATCG
* * *
22373783 TGTAAGACCATGCCTGGGACATTGGCATCGACT-TGTGATTTACA
1 TGTAAGACCACGTCTGGGACAGTGGCATCGA-TAT-TGA-TTACA
* * * *
22373827 CGTAAGACCACGTCTGGGAC-GTTGGCATCG-TATTTGGTTTCG
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGATA-TTGATTACA
22373869 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATAATTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGAT-ATTGATTACA
*
22373912 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACAGTGGCAT
22373940 TGTACAAGAT
Statistics
Matches: 93, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.01
42 29 0.31
43 35 0.38
44 28 0.30
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATATTGATTACA
Found at i:22374767 original size:9 final size:8
Alignment explanation
Indices: 22374745--22374776 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
22374735 TTGTAACGCC
22374745 CCAAAAAT
1 CCAAAAAT
*
22374753 CTAAAAAT
1 CCAAAAAT
22374761 CCAAAAAT
1 CCAAAAAT
22374769 CCAAAAAT
1 CCAAAAAT
22374777 TTTGAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.62, C:0.22, G:0.00, T:0.16
Consensus pattern (8 bp):
CCAAAAAT
Found at i:22376296 original size:29 final size:28
Alignment explanation
Indices: 22376254--22376355 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
22376244 ATACGATTTA
* *
22376254 GGCCTAATGGGCCATACGAATGAGAATTG
1 GGCCTAGTGGGCCATAAGAAT-AGAATTG
* *
22376283 GGCCTAGCGGGCCATAAGAATATGAACTG
1 GGCCTAGTGGGCCATAAGAATA-GAATTG
** *
22376312 GGCC-AGATGGGCCATTTGAATAAAATTG
1 GGCCTAG-TGGGCCATAAGAATAGAATTG
22376340 GGCCTAGTGGGCCATA
1 GGCCTAGTGGGCCATA
22376356 TGCATGTATG
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
28 19 0.32
29 41 0.68
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (28 bp):
GGCCTAGTGGGCCATAAGAATAGAATTG
Found at i:22383995 original size:46 final size:46
Alignment explanation
Indices: 22383832--22384007 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
22383822 TGTAACCGGC
* * *
22383832 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCAT
* * * * * * *
22383878 CCATGAGTGAACTTGGACTAAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
22383928 CTC-T---CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
22383971 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
22384008 TGCCCAAACA
Statistics
Matches: 101, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
45 1 0.01
46 57 0.56
47 25 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:22383998 original size:93 final size:93
Alignment explanation
Indices: 22383839--22384011 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
22383829 GGCCCATAAG
* * * * *
22383839 CGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATGAGTGAACTTGGACTAAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTAAACTCA
22383904 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
22383932 CGAACTCAGACTCAACTCAACGAG-TTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTT-GGACATTCGCATCCATAAGTGAACTCGGACTAAACTC
*
22383996 AACGAGTTCGGATGCC
65 AACGAGCTCGGATGCC
22384012 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTAAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:22384026 original size:46 final size:46
Alignment explanation
Indices: 22383840--22384026 Score: 129
Period size: 46 Copynumber: 4.0 Consensus size: 46
22383830 GCCCATAAGC
* *
22383840 GAACTCGGACTCAACTCAACGAGCTT-GG--GCGT-TCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAG-TTCGGATGCCTAT-ACATCC-T-AGT
* * * *
22383886 GAACTTGGACTAAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CTAGT
* * * *
22383933 GAACTCAGACTCAACTCAACGAGTTCGGA--CATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T-AGT
* *
22383979 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGT
22384025 GA
1 GA
22384027 CATGTCACTT
Statistics
Matches: 108, Mismatches: 20, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
42 1 0.01
43 6 0.06
45 3 0.03
46 56 0.52
47 26 0.24
48 9 0.08
50 5 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGT
Found at i:22386327 original size:24 final size:23
Alignment explanation
Indices: 22386293--22386344 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
22386283 ATGAATCAGC
*
22386293 AAAAGCGAAAATGTCGAAAAGCCG
1 AAAAGCGAAAATGCCGAAAA-CCG
* *
22386317 AAAAGCTAAAATGCCGAAAACCT
1 AAAAGCGAAAATGCCGAAAACCG
22386340 AAAAG
1 AAAAG
22386345 TTGGGCTACG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.54, C:0.17, G:0.19, T:0.10
Consensus pattern (23 bp):
AAAAGCGAAAATGCCGAAAACCG
Found at i:22386332 original size:16 final size:15
Alignment explanation
Indices: 22386309--22386344 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
22386299 GAAAATGTCG
*
22386309 AAAAGCCGAAAAGCT
1 AAAAGCCGAAAACCT
22386324 AAAATGCCGAAAACCT
1 AAAA-GCCGAAAACCT
22386340 AAAAG
1 AAAAG
22386345 TTGGGCTACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.56, C:0.19, G:0.17, T:0.08
Consensus pattern (15 bp):
AAAAGCCGAAAACCT
Found at i:22386599 original size:29 final size:28
Alignment explanation
Indices: 22386567--22386671 Score: 97
Period size: 29 Copynumber: 3.7 Consensus size: 28
22386557 ATAATATGAT
22386567 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
** *
22386596 TTGGGCCTACCGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* *
22386625 CTGGGCC-AGATGGGCCATTTGAATA-AGA
1 TTGGGCCTA-ATGGGCCATATGAATAGA-A
* *
22386653 TTCGGCCTAGTGGGCCATA
1 TTGGGCCTAATGGGCCATA
22386672 AGCATGTATG
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
27 1 0.02
28 16 0.27
29 43 0.72
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:22386648 original size:58 final size:57
Alignment explanation
Indices: 22386559--22386673 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 57
22386549 GCATGAATAT
** * *
22386559 AATATGATTTGGGCCTAATGGGCCATATGAATGAGAATTGGGCCTACCGGGCCATAAG
1 AATATGAACTGGGCCTAATGGGCCATATGAATAAG-ATTCGGCCTACCGGGCCATAAG
* **
22386617 AATATGAACTGGGCC-AGATGGGCCATTTGAATAAGATTCGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCCTA-ATGGGCCATATGAATAAGATTCGGCCTACCGGGCCATAAG
22386674 CATGTATGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
57 20 0.41
58 29 0.59
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (57 bp):
AATATGAACTGGGCCTAATGGGCCATATGAATAAGATTCGGCCTACCGGGCCATAAG
Found at i:22394541 original size:44 final size:41
Alignment explanation
Indices: 22394473--22394629 Score: 140
Period size: 44 Copynumber: 3.7 Consensus size: 41
22394463 TGTGTTATCG
* *
22394473 TGTAAGACCACATCTGGGATGTTGGCATCGACTTGTAATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-T-ATTTACA
**
22394517 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTT-TG
1 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATTT-ATTTACA
* * *
22394559 TGTAAGACC-CTGTCTAGGACAG-TGGCATCAATATTTTGTTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TTAT-TTACA
*
22394602 CGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
22394630 TGTACAAGAT
Statistics
Matches: 93, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
41 4 0.04
42 29 0.31
43 28 0.30
44 31 0.33
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTTATTTACA
Found at i:22396507 original size:23 final size:24
Alignment explanation
Indices: 22396481--22396527 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
22396471 TTTCATTTTT
*
22396481 TGAATA-AATCAAGAAATC-ATCTA
1 TGAATACAA-CAACAAATCGATCTA
22396504 TGAATACAACAACAAATCGATCTA
1 TGAATACAACAACAAATCGATCTA
22396528 GATACGGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (24 bp):
TGAATACAACAACAAATCGATCTA
Found at i:22405751 original size:43 final size:43
Alignment explanation
Indices: 22405636--22405741 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
22405626 TTTAATACAT
*
22405636 TGGCATC-AGTATGTGATTACGAGTAAGACCCTATCTAGGACAG
1 TGGCATCGA-TATGTGATTACGAGTAAGACCCTGTCTAGGACAG
* * *
22405679 AGGCATTGATATGTGATTACGAGTAAGACCCTGTCTGGGACAG
1 TGGCATCGATATGTGATTACGAGTAAGACCCTGTCTAGGACAG
22405722 TGGCATCGATATGTGATTAC
1 TGGCATCGATATGTGATTAC
22405742 ATGCTAGACC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 55 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (43 bp):
TGGCATCGATATGTGATTACGAGTAAGACCCTGTCTAGGACAG
Found at i:22405769 original size:43 final size:43
Alignment explanation
Indices: 22405636--22405770 Score: 127
Period size: 43 Copynumber: 3.1 Consensus size: 43
22405626 TTTAATACAT
* *
22405636 TGGCATC-AGTATGTGATTACGAGTAAGACCCTATCTAG-GACAG
1 TGGCATCGA-TATGTGATTACGAGTAAGACCATGTC-AGAGACAG
* * * * *
22405679 AGGCATTGATATGTGATTACGAGTAAGACCCTGTCTGGGACAG
1 TGGCATCGATATGTGATTACGAGTAAGACCATGTCAGAGACAG
22405722 TGGCATCGATATGTGATTAC-ATGCT-AGACCATGTCAGAGAC-G
1 TGGCATCGATATGTGATTACGA-G-TAAGACCATGTCAGAGACAG
22405764 TTGGCAT
1 -TGGCAT
22405771 TGTATGATAT
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
42 3 0.04
43 73 0.94
44 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (43 bp):
TGGCATCGATATGTGATTACGAGTAAGACCATGTCAGAGACAG
Found at i:22418355 original size:29 final size:29
Alignment explanation
Indices: 22418322--22418404 Score: 114
Period size: 29 Copynumber: 2.9 Consensus size: 29
22418312 ATGACTATGT
22418322 ATGTGATTTGGGCCTAATGGGCCATACAA
1 ATGTGATTTGGGCCTAATGGGCCATACAA
* **
22418351 ATGTGATTTGGGCCCAATGGGCCATATGA
1 ATGTGATTTGGGCCTAATGGGCCATACAA
* *
22418380 ATGAGA-TTGGGCCTAGTGGGCCATA
1 ATGTGATTTGGGCCTAATGGGCCATA
22418405 TACATGTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 17 0.35
29 31 0.65
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (29 bp):
ATGTGATTTGGGCCTAATGGGCCATACAA
Found at i:22419559 original size:17 final size:18
Alignment explanation
Indices: 22419526--22419559 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22419516 TTTAAGGAAG
22419526 GGTTTTCAATGAAAATAA
1 GGTTTTCAATGAAAATAA
*
22419544 GGTTTTCGAT-AAAATA
1 GGTTTTCAATGAAAATA
22419560 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (18 bp):
GGTTTTCAATGAAAATAA
Found at i:22423526 original size:22 final size:23
Alignment explanation
Indices: 22423501--22423546 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
22423491 CAACTAAACC
22423501 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
22423523 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
22423546 A
1 A
22423547 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:22423552 original size:23 final size:23
Alignment explanation
Indices: 22423508--22423552 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22423498 ACCAATTCAA
*
22423508 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
22423531 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
22423553 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:22430385 original size:33 final size:33
Alignment explanation
Indices: 22430343--22430408 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
22430333 GGACTTACAA
22430343 TCAAGCTTGGAAGCTTGGAAAACCCTAGCCATG
1 TCAAGCTTGGAAGCTTGGAAAACCCTAGCCATG
22430376 TCAAGCTTGGAAGCTTGGAAAACCCTAGCCATG
1 TCAAGCTTGGAAGCTTGGAAAACCCTAGCCATG
22430409 GTTTCTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (33 bp):
TCAAGCTTGGAAGCTTGGAAAACCCTAGCCATG
Found at i:22432539 original size:24 final size:25
Alignment explanation
Indices: 22432494--22432540 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
22432484 ATTTTCCAAG
*
22432494 TTCCATTACTTATTCCACTAAAAGC
1 TTCCATTACATATTCCACTAAAAGC
* *
22432519 TTCCATT-CATATTTCAGTAAAA
1 TTCCATTACATATTCCACTAAAA
22432541 TTGGGTCGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.38
Consensus pattern (25 bp):
TTCCATTACATATTCCACTAAAAGC
Found at i:22437911 original size:13 final size:14
Alignment explanation
Indices: 22437886--22437914 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22437876 CTAGTCGAGG
22437886 TAAATTCGTGTAAT
1 TAAATTCGTGTAAT
22437900 TAAATT-GTGTAAT
1 TAAATTCGTGTAAT
22437913 TA
1 TA
22437915 TATGCTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.45
Consensus pattern (14 bp):
TAAATTCGTGTAAT
Found at i:22440653 original size:6 final size:6
Alignment explanation
Indices: 22440635--22440772 Score: 97
Period size: 6 Copynumber: 22.3 Consensus size: 6
22440625 AAGAAACATT
* *
22440635 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAAA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
22440682 GTGACAGA ATTC-GA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 AT--CAGA A-TCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
22440733 ATCAGA ATCAGT ATCAAGTA A-CAGA ATCTAAA ATCAGA AT
1 ATCAGA ATCAGA ATC-AG-A ATCAGA ATC-AGA ATCAGA AT
22440773 GTGAATGCAA
Statistics
Matches: 104, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
5 8 0.08
6 78 0.75
7 15 0.14
8 2 0.02
9 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:22440690 original size:31 final size:30
Alignment explanation
Indices: 22440644--22440772 Score: 131
Period size: 31 Copynumber: 4.2 Consensus size: 30
22440634 TATCAGAACT
*
22440644 AGAATCAGAATCAGAATCAGAATCAAAATC
1 AGAATCAGTATCAGAATCAGAATCAAAATC
* *
22440674 AGAATTAGGTGA-CAGAATTC-GAATCAGAATC
1 AGAATCA-GT-ATCAGAA-TCAGAATCAAAATC
22440705 AGAATCAGTATCAGGTAA-CAGAATCAAAATC
1 AGAATCAGTATCA-G-AATCAGAATCAAAATC
22440736 AGAATCAGTATCAAGTAA-CAGAATCTAAAATC
1 AGAATCAGTATC-AG-AATCAGAATC-AAAATC
22440768 AGAAT
1 AGAAT
22440773 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 5, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
29 1 0.01
30 11 0.13
31 56 0.66
32 17 0.20
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (30 bp):
AGAATCAGTATCAGAATCAGAATCAAAATC
Found at i:22440743 original size:37 final size:37
Alignment explanation
Indices: 22440649--22440748 Score: 130
Period size: 37 Copynumber: 2.7 Consensus size: 37
22440639 GAACTAGAAT
* * *
22440649 CAGAATCAGAATCAGAATCAAAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
*
22440686 CAGAATTC-GAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAA-TCAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
22440723 CAGAATCAAAATCAGAATCAGTATCA
1 CAGAATCAGAATCAGAATCAGAATCA
22440749 AGTAACAGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
36 2 0.04
37 51 0.93
38 2 0.04
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.20
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:22440759 original size:19 final size:19
Alignment explanation
Indices: 22440704--22440760 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
22440694 GAATCAGAAT
*
22440704 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAAGTAA
22440723 CAGAATCA--A--AA-T--
1 CAGAATCAGTATCAAGTAA
22440735 CAGAATCAGTATCAAGTAA
1 CAGAATCAGTATCAAGTAA
22440754 CAGAATC
1 CAGAATC
22440761 TAAAATCAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 14
0.67 0.02 0.31
Matches are distributed among these distances:
12 8 0.27
14 2 0.07
15 1 0.03
16 2 0.07
17 2 0.07
19 15 0.50
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAAGTAA
Found at i:22441008 original size:27 final size:27
Alignment explanation
Indices: 22440928--22441010 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
22440918 TGATAGAGTT
* * *
22440928 ACCAGATATAGATATTGTGGCAGAGCC
1 ACCAGAAACAGATATTGTGGCAAAGCC
* *
22440955 AACAG-AACAGATATTTGTGGCATAGCC
1 ACCAGAAACAGATA-TTGTGGCAAAGCC
* *
22440982 ACCAGAAACAGATAATGTAGCAAAGCC
1 ACCAGAAACAGATATTGTGGCAAAGCC
22441009 AC
1 AC
22441011 TTAACAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
26 6 0.13
27 32 0.70
28 8 0.17
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (27 bp):
ACCAGAAACAGATATTGTGGCAAAGCC
Found at i:22441197 original size:22 final size:21
Alignment explanation
Indices: 22441169--22441233 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
22441159 GCAAATACGT
22441169 TTGGCACACAGCCATAATCAGG
1 TTGGCACA-AGCCATAATCAGG
*
22441191 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AGCCATAAT-CAGG
*
22441213 TTGACACGAAGCCATAATCAG
1 TTGGCAC-AAGCCATAATCAG
22441234 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 2 0.06
22 31 0.86
23 3 0.08
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TTGGCACAAGCCATAATCAGG
Found at i:22441717 original size:27 final size:27
Alignment explanation
Indices: 22441660--22441908 Score: 320
Period size: 27 Copynumber: 9.3 Consensus size: 27
22441650 GGGGCAAAAT
* * * *
22441660 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
22441686 TGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22441713 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22441740 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
22441767 GATAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22441794 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
22441821 AGTAATTCTAACCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22441848 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
22441875 GATAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
22441902 GGTAATT
1 GGTAATT
22441909 TTTTAAATCA
Statistics
Matches: 191, Mismatches: 31, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
26 13 0.07
27 178 0.93
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:22441920 original size:27 final size:27
Alignment explanation
Indices: 22441890--22442287 Score: 332
Period size: 27 Copynumber: 14.7 Consensus size: 27
22441880 TTCTACCCTA
** *
22441890 CAAGGGTATTTTGGTAATTTTTTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
*** * * ** *
22441917 CAAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
22441944 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** **
22441971 CGAGGGTATTTCAATAATTTTACAGGTC
1 CAAGGGTATTTTGGTAATTTTACA-AAC
* *** * *
22441999 GAA-GGTATTTCAATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
22442025 C-AGGGATGTTTTGGTAATTTTACAAAC
1 CAAGGG-TATTTTGGTAATTTTACAAAC
* *
22442052 CAGGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
22442079 GAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
22442106 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
22442133 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
22442160 CAGGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
22442187 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
22442214 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
22442241 CAAGGATATTCTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
22442268 CAGGGGTATTTTGTTAATTT
1 CAAGGGTATTTTGGTAATTT
22442288 GGTAAACCAA
Statistics
Matches: 297, Mismatches: 70, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
25 1 0.00
26 2 0.01
27 290 0.98
28 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:22441934 original size:81 final size:81
Alignment explanation
Indices: 22441687--22441937 Score: 215
Period size: 81 Copynumber: 3.1 Consensus size: 81
22441677 AGGTATCTCT
* * ** * * *
22441687 GTAATTCCACCCTACAGGGGTATT-TTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GTAATTCTACCCTACAGAGGTATTGCGA-TAATTCTACCCTACAAGGGTATTTCAGTAATTCTAA
* * * *
22441751 CCTACAGGGGT--ATTGC
65 CATACAAGGGTAAAAT-A
* *
22441767 GATAATTCTACCCTACAGAGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAA
1 G-TAATTCTACCCTACAGAGGTATTGCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTAA
* * *** *
22441832 CCTACAGGGGTATTTTG
65 CATACAAGGGTAAAATA
* ** *
22441849 GTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAAGGGTATTTTGGTAATTTTTTA
1 GTAATTCTACCCTACAGAGGTATTGCGATAATTCTACCCTACAAGGGTATTTCAGTAA--TTCTA
22441914 A-AT-CAAGGGTAAAATA
64 ACATACAAGGGTAAAATA
22441930 GTAATTCT
1 GTAATTCT
22441938 GTAAATCAAG
Statistics
Matches: 143, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
80 1 0.01
81 133 0.93
82 2 0.01
83 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (81 bp):
GTAATTCTACCCTACAGAGGTATTGCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTAAC
ATACAAGGGTAAAATA
Found at i:22442211 original size:108 final size:108
Alignment explanation
Indices: 22442028--22442297 Score: 425
Period size: 108 Copynumber: 2.5 Consensus size: 108
22442018 CACAAATCAG
* * ** * *
22442028 GGATGTTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACGAGGGGTATTTTGG
1 GGATATTTTAGTAATTTTACAAACCAGGGGTATTTTGATAATTTTGTAAACCAAGGGTATTTTGG
22442093 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACAAA
66 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACAAA
*
22442136 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT-AGTAATTTTGTAAACCAAGGGTATTTTG
1 GGATATTTTAGTAATTTTACAAACCAGGGGTATTTTGA-TAATTTTGTAAACCAAGGGTATTTTG
*
22442200 GTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
65 GTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACAAA
* * *
22442244 GGATATTCTAGTAATTTTACAAACCAGGGGTATTTTGTTAATTTGGTAAACCAA
1 GGATATTTTAGTAATTTTACAAACCAGGGGTATTTTGATAATTTTGTAAACCAA
22442298 AGTATTATAA
Statistics
Matches: 148, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
107 1 0.01
108 147 0.99
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (108 bp):
GGATATTTTAGTAATTTTACAAACCAGGGGTATTTTGATAATTTTGTAAACCAAGGGTATTTTGG
TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACAAA
Found at i:22442296 original size:27 final size:27
Alignment explanation
Indices: 22442012--22442287 Score: 354
Period size: 27 Copynumber: 10.2 Consensus size: 27
22442002 GGTATTTCAA
* * * *
22442012 TAATTTCACAAATCAGGGATGTTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
22442039 TAATTTTACAAACCAGGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
*
22442066 TAATTTTACAAACGAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
22442093 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * * *
22442120 TGATTTTATAAACAAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
22442147 TAATTTTACAAACCAGGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
** *
22442174 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
22442201 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * * * *
22442228 TGATTTTATAAACCAAGGATATTCTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
22442255 TAATTTTACAAACCAGGGGTATTTTGT
1 TAATTTTACAAACCAGGGGTATTTTGG
22442282 TAATTT
1 TAATTT
22442288 GGTAAACCAA
Statistics
Matches: 212, Mismatches: 37, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 212 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:22446013 original size:40 final size:40
Alignment explanation
Indices: 22445966--22446268 Score: 491
Period size: 40 Copynumber: 7.6 Consensus size: 40
22445956 CTACTTGCTC
* *
22445966 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
22446006 AATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
22446046 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
22446086 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
22446126 AATGCCTTCGGGACTTAGCCCGAATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
22446166 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
22446206 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
22446246 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
22446269 TTATCATCCG
Statistics
Matches: 245, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 244 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:22454268 original size:79 final size:81
Alignment explanation
Indices: 22454132--22454314 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
22454122 TCGAATGATG
* *
22454132 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
22454196 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
22454211 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
22454273 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
22454291 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
22454315 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:22454330 original size:40 final size:40
Alignment explanation
Indices: 22454133--22454316 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
22454123 CGAATGATGT
* * * *
22454133 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
22454173 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
22454213 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
22454251 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
22454292 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
22454317 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:22454338 original size:79 final size:79
Alignment explanation
Indices: 22454185--22454349 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
22454175 GGACTAAGAT
* **
22454185 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
22454250 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
22454264 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
22454327 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
22454343 CCGAAGG
1 CCGAAGG
22454350 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:22460068 original size:27 final size:27
Alignment explanation
Indices: 22460038--22460215 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
22460028 ATATTGAGCC
* * * *
22460038 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
22460065 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
22460092 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
22460120 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
22460147 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
22460174 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22460201 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22460216 GTACAATTTT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:22460177 original size:82 final size:81
Alignment explanation
Indices: 22460059--22460214 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
22460049 TGCTATATAA
* * * *
22460059 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
22460124 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
22460141 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
22460205 CACTTAGTGC
65 CACTTAGTGC
22460215 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:22492514 original size:40 final size:40
Alignment explanation
Indices: 22492452--22492698 Score: 235
Period size: 40 Copynumber: 6.2 Consensus size: 40
22492442 CGGATGATAA
* *
22492452 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATAT
* * *
22492492 CCGGGCTAAGTCCCAAAGGCATTCGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
*
22492532 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGA--GCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--ATAT
*
22492572 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT--TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
* * *
22492610 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
* * *
22492651 CCGGGCTAAGTCCCGAAGACATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTAATAT
22492691 CC-GGCTAA
1 CCGGGCTAA
22492699 ACTCCGAAGG
Statistics
Matches: 175, Mismatches: 19, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 39 0.22
40 125 0.71
41 5 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
Found at i:22492655 original size:79 final size:79
Alignment explanation
Indices: 22492451--22492675 Score: 283
Period size: 80 Copynumber: 2.8 Consensus size: 79
22492441 TCGGATGATA
* * ** *
22492451 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCAAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCAT
*
22492514 TCGTGCGAGCTACTAT
64 TTGTGCGAGCTACTAT
* * * *
22492530 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
* *
22492595 TGTGCGAGTTATTAT
65 TGTGCGAGCTACTAT
* *
22492610 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGACATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
22492675 G
66 G
22492676 AGCTAGTGGC
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 60 0.48
80 63 0.50
81 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGCTACTAT
Found at i:22492664 original size:119 final size:120
Alignment explanation
Indices: 22492452--22492668 Score: 312
Period size: 119 Copynumber: 1.8 Consensus size: 120
22492442 CGGATGATAA
* * *
22492452 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCAAAGGCATTCG
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCAAAGGCATTCG
* *
22492517 TGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
66 TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
* * * * *
22492572 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCAAAGGCATTC
*
22492635 GTGCAAGTTACTATAACCGGGCTAAGTCCCGAAG
65 GTGCAAGCTACTATAACCGGGCTAAGTCCCGAAG
22492669 ACATTTGAGC
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
119 57 0.67
120 28 0.33
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCAAAGGCATTCG
TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
Found at i:22492708 original size:79 final size:80
Alignment explanation
Indices: 22492492--22492698 Score: 249
Period size: 79 Copynumber: 2.6 Consensus size: 80
22492482 GTGGCTAATT
* * * * *
22492492 CCGGGCTAAGTCCCAAAGGCATTCGTGCGAGCT-ACTATATCCGGGCTAAGTCCCGAAGGCGTTT
1 CCGGGCTAAGTCCCGAAGACATTTGAGCGAG-TGACTATATCCGGGCTAAGTCCCGAAGGCATTT
* * *
22492556 GTGCGAGCTATTATAT
65 GTGCAAGCTACTATAA
* * * *
22492572 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGACATTTGAGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
22492636 TGCAAGTTACTATAA
66 TGCAAGCTACTATAA
* *
22492651 CCGGGCTAAGTCCCGAAGACATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGACATTTGAGCGAGTGACTATATCCGGGCTAA
22492699 ACTCCGAAGG
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 75 0.68
80 36 0.32
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGACATTTGAGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCAAGCTACTATAA
Found at i:22499705 original size:44 final size:43
Alignment explanation
Indices: 22499633--22499737 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 43
22499623 TCTCAGATGT
* * * *
22499633 GGTCTTACATGTAATCACATATTAATGCCATCGTCCCAAAGAG
1 GGTCTTACACGTAATCACAAATTAATGCCAACGTCCCAAACAG
* * *
22499676 GGTCTTACACGTAAATCACAAATTGATGCCAACGTCCCAGACAT
1 GGTCTTACACGT-AATCACAAATTAATGCCAACGTCCCAAACAG
22499720 GGTCTTACACG-AATCACA
1 GGTCTTACACGTAATCACA
22499738 TATCGGAATC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 7 0.13
43 11 0.20
44 36 0.67
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGTAATCACAAATTAATGCCAACGTCCCAAACAG
Found at i:22500874 original size:13 final size:13
Alignment explanation
Indices: 22500856--22500882 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22500846 CACAAACGAT
22500856 AAAATTTTCACAC
1 AAAATTTTCACAC
22500869 AAAATTTTCACAC
1 AAAATTTTCACAC
22500882 A
1 A
22500883 TATGAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:22503592 original size:34 final size:34
Alignment explanation
Indices: 22503532--22503617 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
22503522 TTAGCCCCTC
*
22503532 TTTCAGTAGCAGTAGCAATCTAGGCCTGAGCCCA
1 TTTCAGTAACAGTAGCAATCTAGGCCTGAGCCCA
* * * *
22503566 TTTCAGTAACAGTGGCAGTCTGGGCCTTAGCCCA
1 TTTCAGTAACAGTAGCAATCTAGGCCTGAGCCCA
22503600 TTTCAGT-ACAGTATGCAA
1 TTTCAGTAACAGTA-GCAA
22503618 ATAAAGAACC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 5 0.11
34 39 0.89
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (34 bp):
TTTCAGTAACAGTAGCAATCTAGGCCTGAGCCCA
Found at i:22509412 original size:27 final size:28
Alignment explanation
Indices: 22509350--22509439 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
22509340 AGGAAGCATC
*
22509350 CTGGTGGCTA-TGCCACAAATTA-TCTGTT
1 CTGGTGGC-ACTGCCACAAAATACT-TGTT
* *
22509378 CTGGTGGCCCTGCCAC-ATATACTTGTT
1 CTGGTGGCACTGCCACAAAATACTTGTT
*
22509405 CTGGTGGCACTGCCACAAAATATTTGTAT
1 CTGGTGGCACTGCCACAAAATACTTGT-T
22509434 CTGGTG
1 CTGGTG
22509440 ACTCCGTCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 22 0.42
28 23 0.44
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATACTTGTT
Found at i:22510555 original size:11 final size:10
Alignment explanation
Indices: 22510527--22510560 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22510517 AGCCTGCAAG
22510527 TATTCTGAAT
1 TATTCTGAAT
*
22510537 TTTTCTGAAT
1 TATTCTGAAT
22510547 ATATTCTGAAT
1 -TATTCTGAAT
22510558 TAT
1 TAT
22510561 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:22517182 original size:28 final size:27
Alignment explanation
Indices: 22517141--22517230 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
22517131 AGGAAGCGTC
22517141 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
22517169 CTGGTGGCCCTGCCACATATACCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
22517196 CTGGTGGCACTGCCATAAAATATCTGTAT
1 CTGGTGGCACTGCCA-CAAATATCTGT-T
22517225 CTGGTG
1 CTGGTG
22517231 ACTCCGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 21 0.40
28 24 0.46
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:22517202 original size:27 final size:28
Alignment explanation
Indices: 22517141--22517230 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
22517131 AGGAAGCGTC
*
22517141 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTACCTGTT
* *
22517169 CTGGTGGCCCTGCCACATA-TACCTGTT
1 CTGGTGGCACTGCCACAAATTACCTGTT
* * *
22517196 CTGGTGGCACTGCCATAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTACCTGT-T
22517225 CTGGTG
1 CTGGTG
22517231 ACTCCGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTACCTGTT
Found at i:22521947 original size:22 final size:22
Alignment explanation
Indices: 22521922--22521977 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
22521912 TAGTTAAAAA
22521922 AATTAGA-TAATTATTAATATAT
1 AATTAGATTAATTA-TAATATAT
* *
22521944 AATTATATTCATTATAATATAT
1 AATTAGATTAATTATAATATAT
22521966 -ATTA-ATT-ATTAT
1 AATTAGATTAATTAT
22521978 CAATTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 5 0.16
20 3 0.10
21 4 0.13
22 14 0.45
23 5 0.16
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTAGATTAATTATAATATAT
Found at i:22521966 original size:16 final size:15
Alignment explanation
Indices: 22521933--22521974 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
22521923 ATTAGATAAT
22521933 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
22521949 TATTCATTATAATATA
1 TATTAATTATAAT-TA
22521965 TATTAATTAT
1 TATTAATTAT
22521975 TATCAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:22522086 original size:22 final size:24
Alignment explanation
Indices: 22522041--22522086 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
22522031 TAATCTTTAA
22522041 TATATAATTATATCTATTATAATT
1 TATATAATTATATCTATTATAATT
22522065 TATAT-ATTA-ATCT-TTATCAATT
1 TATATAATTATATCTATTAT-AATT
22522087 AGCATAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 4 0.19
24 5 0.24
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATAATTATATCTATTATAATT
Found at i:22526793 original size:39 final size:39
Alignment explanation
Indices: 22526749--22526829 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
22526739 TTACTAAATA
22526749 ATAATCCACAAAGCATAATATTTCATGATAATAATCATC
1 ATAATCCACAAAGCATAATATTTCATGATAATAATCATC
22526788 ATAATCCACAAAGCATAATATTTCATGATAATAATCATC
1 ATAATCCACAAAGCATAATATTTCATGATAATAATCATC
22526827 ATA
1 ATA
22526830 TCATATAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (39 bp):
ATAATCCACAAAGCATAATATTTCATGATAATAATCATC
Found at i:22535655 original size:31 final size:31
Alignment explanation
Indices: 22535612--22535787 Score: 311
Period size: 31 Copynumber: 5.7 Consensus size: 31
22535602 TTAGTCTTGA
* *
22535612 CATAT-ACTGGGCCGAAGCCTTTCCGTAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
22535642 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
22535673 CATATCACT-GGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
22535703 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
22535734 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
22535765 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
22535788 ACTATAAACG
Statistics
Matches: 140, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
30 34 0.24
31 106 0.76
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:22535692 original size:61 final size:62
Alignment explanation
Indices: 22535612--22535787 Score: 311
Period size: 61 Copynumber: 2.9 Consensus size: 62
22535602 TTAGTCTTGA
* *
22535612 CATAT-ACTGGGCCGAAGCCTTTCCGTAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
*
22535673 CATATCACT-GGCTGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
22535734 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTT
22535788 ACTATAAACG
Statistics
Matches: 109, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
61 63 0.58
62 46 0.42
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (62 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:22535774 original size:92 final size:92
Alignment explanation
Indices: 22535612--22535787 Score: 309
Period size: 92 Copynumber: 1.9 Consensus size: 92
22535602 TTAGTCTTGA
*
22535612 CATATACTGGGCCGAAGCCTTTCCGTAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCATA
1 CATATACTGGGCCGAAGCCTTTCCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCATA
*
22535677 TCACT-GGCTGAAGCCTTTTCATAAAT
66 TCACTGGGCCGAAGCCTTTTCATAAAT
*
22535703 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCAT
1 CATAT-ACTGGGCCGAAGCCTTTCCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCAT
22535768 ATCACTGGGCCGAAGCCTTT
65 ATCACTGGGCCGAAGCCTTT
22535788 ACTATAAACG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
91 5 0.06
92 63 0.79
93 12 0.15
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (92 bp):
CATATACTGGGCCGAAGCCTTTCCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCATA
TCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:22535870 original size:42 final size:42
Alignment explanation
Indices: 22535811--22535944 Score: 243
Period size: 42 Copynumber: 3.2 Consensus size: 42
22535801 TGGCCCTTAG
22535811 GCCCATTTCAATATCACATGTAATGTCAAT-AGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGA-ATGTATGCAA
*
22535853 GCCCATTTCAATATCACATGTAATTTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
22535895 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
22535937 GCCCATTT
1 GCCCATTT
22535945 GGGGAGACTA
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
42 88 0.99
43 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:22536120 original size:25 final size:24
Alignment explanation
Indices: 22536092--22536160 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 24
22536082 CTCTTTTAAT
22536092 AACTGGGGCAAAGCCCTTTCTGATA
1 AACTGGGGCAAAGCCCTTTC-GATA
*
22536117 AACTGGGGCAAAGCCCGTTTCGGTA
1 AACTGGGGCAAAGCCC-TTTCGATA
*
22536142 AACTGGGGCAGAGCCCTTT
1 AACTGGGGCAAAGCCCTTT
22536161 TAGCACTTCC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 3 0.07
25 34 0.83
26 4 0.10
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.22
Consensus pattern (24 bp):
AACTGGGGCAAAGCCCTTTCGATA
Found at i:22537119 original size:27 final size:27
Alignment explanation
Indices: 22537066--22537275 Score: 147
Period size: 27 Copynumber: 7.7 Consensus size: 27
22537056 TTTCATCCTA
* * *
22537066 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
22537093 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * * *
22537120 TAATGGTATTTCT-ATAATTTTTAGAAAAT
1 CAAGGGTATTT-TGGTAA-TTTTA-CAAAC
** *
22537149 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* * *
22537176 CAGGGGTGTTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
22537203 TAAGGGTATTTCGATAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
22537229 CTAGAGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* *
22537257 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
22537276 CTATCCTACA
Statistics
Matches: 144, Mismatches: 33, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
26 3 0.02
27 114 0.79
28 10 0.07
29 17 0.12
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:22537331 original size:27 final size:27
Alignment explanation
Indices: 22537296--22537412 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
22537286 GTAATTACAC
22537296 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
22537323 AAGCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
22537350 AATCGAAGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
22537377 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
22537404 AATCGAGGG
1 AATCGAGGG
22537413 CATTTTAGTA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:22537355 original size:54 final size:54
Alignment explanation
Indices: 22537291--22537412 Score: 172
Period size: 54 Copynumber: 2.2 Consensus size: 54
22537281 CTACAGTAAT
* * *
22537291 TACACAATCGAGGGTAAAACGGTAATTTTGTAAAGCGAGGGTAAAATGGTAATTT
1 TACA-AATCGAGGGTAAAACGGTAATTCTATAAAGCGAGGGTAAAATGGTAATTC
** * *
22537346 TGTAAATCGAAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTC
1 TACAAATCGAGGGTAAAACGGTAATTCTATAAAGCGAGGGTAAAATGGTAATTC
22537400 TACAAATCGAGGG
1 TACAAATCGAGGG
22537413 CATTTTAGTA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 55 0.96
55 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (54 bp):
TACAAATCGAGGGTAAAACGGTAATTCTATAAAGCGAGGGTAAAATGGTAATTC
Found at i:22544321 original size:47 final size:46
Alignment explanation
Indices: 22544164--22544473 Score: 222
Period size: 47 Copynumber: 6.7 Consensus size: 46
22544154 CGATTTGTGC
* * * **
22544164 GCCAGAGTAAGACATGGCTGGGACATGCATCGGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGATA
* * **
22544210 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATAC-GATGATA
** * * * *
22544258 GTTATTGTTAGACATGTCTGGGACATGCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGATA
* * * * *
22544304 GCCAATGTACGACCATGTCTGGCATATGGCATCGGCACAGA-GATGAGTA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CATACGATGA-TA
22544353 -CCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--AC-GATGATA
* * * * * *
22544399 GCTAGTGTAAGACTTGTTTGGGACACGCATTGG-C-TAAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGATA
*
22544442 TGCTAGTGTAAGACATGTCTGGGACATGCATC
1 -GCCAGTGTAAGACATGTCTGGGACATGCATC
22544474 AACACTCGTA
Statistics
Matches: 206, Mismatches: 44, Indels: 30
0.74 0.16 0.11
Matches are distributed among these distances:
43 6 0.03
44 28 0.14
45 1 0.00
46 40 0.19
47 86 0.42
48 40 0.19
49 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGATA
Found at i:22544334 original size:94 final size:93
Alignment explanation
Indices: 22544170--22544527 Score: 275
Period size: 94 Copynumber: 3.8 Consensus size: 93
22544160 GTGCGCCAGA
* * * * *
22544170 GTAAGACATGGCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGGGAC
1 GTAAGACATGTCTGGGACATGCATCAGCCACACTATGATAGCCAATGTAAGACCATGTCTGGCAC
* * *
22544235 ATGGCATCGGCATCCAGACGA-GGGT-TATT
66 ATGGCATCGGCA--CAGA-GATGAGTACAGT
* * * *
22544264 GTTAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAATGTACGACCATGTCTGGCAT
1 GTAAGACATGTCTGGGACATGCATCAGCCACACTATGATAGCCAATGTAAGACCATGTCTGGCAC
22544329 ATGGCATCGGCACAGAGATGAGTACCAGT
66 ATGGCATCGGCACAGAGATGAGTA-CAGT
* * * * * * * *
22544358 GTAAGACATGTCTGGGACATGCATCGGCCTCGAC-AGAGATAGCTAGTGTAAGA-CTTGTTTGGG
1 GTAAGACATGTCTGGGACATGCATCAGCCAC-ACTA-TGATAGCCAATGTAAGACCATGTCTGGC
* * *
22544421 ACA-CGCATTGGCTA-AGAGAT-A-TGCTAGT
64 ACATGGCATCGGC-ACAGAGATGAGTAC-AGT
* * * * * *
22544449 GTAAGACATGTCTGGGACATGCATCA-ACACTCGTATATGAGAGCTAGTGTAAGACCATGTTTGG
1 GTAAGACATGTCTGGGACATGCATCAGCCACAC---TATGATAGCCAATGTAAGACCATGTCTGG
* *
22544513 GACATGGCATTGGCA
63 CACATGGCATCGGCA
22544528 ATATATCCCA
Statistics
Matches: 216, Mismatches: 35, Indels: 27
0.78 0.13 0.10
Matches are distributed among these distances:
89 1 0.00
90 3 0.01
91 31 0.14
92 23 0.11
93 27 0.12
94 116 0.54
95 15 0.07
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (93 bp):
GTAAGACATGTCTGGGACATGCATCAGCCACACTATGATAGCCAATGTAAGACCATGTCTGGCAC
ATGGCATCGGCACAGAGATGAGTACAGT
Found at i:22544465 original size:44 final size:46
Alignment explanation
Indices: 22544170--22544518 Score: 216
Period size: 47 Copynumber: 7.5 Consensus size: 46
22544160 GTGCGCCAGA
* * *
22544170 GTAAGACATGGCTGGGACATGCATCGG-C-CACATTATGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCACA-GA-GATAGCTAGT
* ** * *
22544216 GTAAGACCATGTCTGGGACATGGCATCGGCATC-CAGACGAGGGTTATT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCTCACAGA-GATAGCTAGT
* * * * *
22544264 GTTAGACATGTCTGGGACATGCATCAGCCAT-ACTA-TGATAGCCAAT
1 GTAAGACATGTCTGGGACATGCATCGGCC-TCAC-AGAGATAGCTAGT
* * * *
22544310 GTACGACCATGTCTGGCATATGGCATCGG---CACAGAGATGAGTACCAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCTCACAGAGAT-AG--CTAGT
22544358 GTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTC-ACAGAGATAGCTAGT
* * * *
22544405 GTAAGACTTGTTTGGGACACGCATTGG-CT-A-AGAGATATGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGATA-GCTAGT
** ** * *
22544449 GTAAGACATGTCTGGGACATGCATCAACACTCGTATATGAGAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGC-CTCACAGA-GATAGCTAGT
*
22544497 GTAAGACCATGTTTGGGACATG
1 GTAAGA-CATGTCTGGGACATG
22544519 GCATTGGCAA
Statistics
Matches: 235, Mismatches: 43, Indels: 47
0.72 0.13 0.14
Matches are distributed among these distances:
43 7 0.03
44 29 0.12
45 5 0.02
46 35 0.15
47 80 0.34
48 48 0.20
49 22 0.09
50 9 0.04
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGATAGCTAGT
Found at i:22544467 original size:91 final size:94
Alignment explanation
Indices: 22544355--22544526 Score: 246
Period size: 91 Copynumber: 1.9 Consensus size: 94
22544345 GATGAGTACC
** *
22544355 AGTGTAAGACATGTCTGGGACATGCATCGGC-CTCG-ACA-GAGATAGCTAGTGTAAGA-CTTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAACACTCGTACATGAG--AGCTAGTGTAAGACCATGT
22544416 TTGGGACA-CGCATTGGCTAAGAGATATGCT
64 TTGGGACATCGCATTGGCTAAGAGATATGCT
*
22544446 AGTGTAAGACATGTCTGGGACATGCATCAACACTCGTATATGAGAGCTAGTGTAAGACCATGTTT
1 AGTGTAAGACATGTCTGGGACATGCATCAACACTCGTACATGAGAGCTAGTGTAAGACCATGTTT
*
22544511 GGGACATGGCATTGGC
66 GGGACATCGCATTGGC
22544527 AATATATCCC
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
91 29 0.41
92 17 0.24
93 14 0.20
94 11 0.15
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACACTCGTACATGAGAGCTAGTGTAAGACCATGTTT
GGGACATCGCATTGGCTAAGAGATATGCT
Found at i:22549445 original size:41 final size:42
Alignment explanation
Indices: 22549400--22549506 Score: 155
Period size: 41 Copynumber: 2.6 Consensus size: 42
22549390 TGATGAATCA
*
22549400 GCTATATATGGCACTTAGTGTGCGAGATCGAAATAGCTTC-G
1 GCTATATATGGCACTTAGTGTGCGAGATCGAAATAGATTCTG
* * *
22549441 GCTATATATGGAACTTAGTGTGCGAGATTGAGATAGATTCTG
1 GCTATATATGGCACTTAGTGTGCGAGATCGAAATAGATTCTG
*
22549483 G-TATATATGGCCCTTAGTGTGCGA
1 GCTATATATGGCACTTAGTGTGCGA
22549507 TTTGAGATAG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 57 0.97
42 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (42 bp):
GCTATATATGGCACTTAGTGTGCGAGATCGAAATAGATTCTG
Found at i:22552865 original size:28 final size:29
Alignment explanation
Indices: 22552828--22552894 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
22552818 AAGTCTACAT
*
22552828 ACATGCATATGGCCCACTAAGCCC-AATC
1 ACATTCATATGGCCCACTAAGCCCAAATC
* * *
22552856 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAAGCCCAAATC
22552885 ACATTCATAT
1 ACATTCATAT
22552895 ACATGCTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 20 0.61
29 13 0.39
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAAGCCCAAATC
Found at i:22559102 original size:40 final size:39
Alignment explanation
Indices: 22558954--22559136 Score: 178
Period size: 39 Copynumber: 4.6 Consensus size: 39
22558944 AGAACTCGTT
* *
22558954 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
22558994 C-AAT-CCTTCGCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTT--CGGACTTAGCCCGGAATTAGTAACTCGCA
* *
22559033 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
22559072 CAAATGCCTTTGGATCTTAGTCC-GAGATTAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
22559113 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGA
22559137 CATCATTCGA
Statistics
Matches: 121, Mismatches: 13, Indels: 18
0.80 0.09 0.12
Matches are distributed among these distances:
38 4 0.03
39 73 0.60
40 32 0.26
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:22559103 original size:79 final size:78
Alignment explanation
Indices: 22558956--22559136 Score: 183
Period size: 79 Copynumber: 2.3 Consensus size: 78
22558946 AACTCGTTCA
* *
22558956 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATCCTTCGCGGACTTAACCCGGAT
1 AATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAATCCTTC-CGGACTTAACCCGGAT
*
22559020 TTAGTAAC-TCGCACC
64 TTAGTAACTTAGCA-C
* **
22559035 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTT-TGGATCTTAGTCCGAG
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCAC-AAT-CCTTCCGGA-CTTAACCCG-G
*
22559098 A-TTAGTCACTTAGCAC
62 ATTTAGTAACTTAGCAC
* *
22559114 AAAGCCTTCGGACTTAGCCCGGA
1 AATGCCTTCGGGCTTAGCCCGGA
22559137 CATCATTCGA
Statistics
Matches: 87, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 25 0.29
79 52 0.60
80 10 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAATCCTTCCGGACTTAACCCGGATTT
AGTAACTTAGCAC
Found at i:22566050 original size:13 final size:13
Alignment explanation
Indices: 22566032--22566057 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22566022 TATATATTAG
22566032 ATGATATATATGT
1 ATGATATATATGT
22566045 ATGATATATATGT
1 ATGATATATATGT
22566058 TGTGCTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
ATGATATATATGT
Found at i:22577572 original size:9 final size:9
Alignment explanation
Indices: 22577558--22577685 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
22577548 ATGTATTAGT
22577558 TAAGTTATG
1 TAAGTTATG
22577567 TAAGTTGTTATG
1 TAA---GTTATG
*
22577579 TACGTTATG
1 TAAGTTATG
*
22577588 TGAGTTATG
1 TAAGTTATG
*
22577597 TAAATTATG
1 TAAGTTATG
22577606 TAAGTTATG
1 TAAGTTATG
*
22577615 TGAGTTATG
1 TAAGTTATG
22577624 TAAGTTGTTATG
1 TAA---GTTATG
*
22577636 TAAATTATG
1 TAAGTTATG
*
22577645 TAAGTTATA
1 TAAGTTATG
* *
22577654 TGAGTTATT
1 TAAGTTATG
22577663 TAAGTTATG
1 TAAGTTATG
* *
22577672 TAATTTATT
1 TAAGTTATG
22577681 TAAGT
1 TAAGT
22577686 AATGATCAAT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
9 78 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:22577685 original size:57 final size:57
Alignment explanation
Indices: 22577558--22577685 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
22577548 ATGTATTAGT
** * *
22577558 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * * *
22577615 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATTTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
22577672 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
22577686 AATGATCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:22578288 original size:240 final size:241
Alignment explanation
Indices: 22577864--22578349 Score: 866
Period size: 240 Copynumber: 2.0 Consensus size: 241
22577854 TTAAGGTTAT
22577864 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
* *
22577929 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACACCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGAAGGATCCATTATATCTTACAACTCGATATAAGGCA
*
22577994 ACCCGTCAGATTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGATTTCCAGCCTATATACTTTGAATATTTAAAATATTTAAAATAAGGTTGGAGAGAA
22578059 GGTCAGCTATTGTTGTAATTTTAATGAACAAGCAAGCTACATAGTA
196 GGTCAGCTATTGTTGTAATTTTAATGAACAAGCAAGCTACATAGTA
* *
22578105 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA-TTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
*
22578169 TCATCATGCGTGGCGTTGTTACACCTAGGAAGGATCCATTATATCTTACAACTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGAAGGATCCATTATATCTTACAACTCGATATAAGGCA
*
22578234 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATATTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGATTTCCAGCCTATATACTTTGAATATTTAAAATATTTAAAATAAGGTTGGAGAGAA
* * * *
22578299 TGTCAGTTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGAACAAGCAAGCTACATAGTA
22578345 ATAAA
1 ATAAA
22578350 ATTAATTCAT
Statistics
Matches: 234, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
240 182 0.78
241 52 0.22
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGAAGGATCCATTATATCTTACAACTCGATATAAGGCA
ACCCGTCAGATTTCCAGCCTATATACTTTGAATATTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTAATGAACAAGCAAGCTACATAGTA
Found at i:22583424 original size:81 final size:79
Alignment explanation
Indices: 22583301--22583477 Score: 246
Period size: 81 Copynumber: 2.2 Consensus size: 79
22583291 GTGGCGTTTT
* * *
22583301 TTTTTTAAAAACGCCGGTACTCCCCTAAAAATCTAATAAAAACGACGACGTTTTCGTTAAACTGC
1 TTTTTAAAAAACGCCGCTACTCCCCTAAAAATCCAATAAAAACGACGACGTTTT-GTT-AACTGC
22583366 TATGTTTTTTGCGGCG
64 TATGTTTTTTGCGGCG
* * * * *
22583382 TTTTTAAAAAATGCCGCTACTCTCCTAAATATCCAATTAAAACGACGCCGTTTTGTTAACTGCTA
1 TTTTTAAAAAACGCCGCTACTCCCCTAAAAATCCAATAAAAACGACGACGTTTTGTTAACTGCTA
22583447 TGTTTTTTGCGGCG
66 TGTTTTTTGCGGCG
22583461 TTTTTTAAATAAACGCC
1 -TTTTTAAA-AAACGCC
22583478 AGTAATCTCT
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 22 0.26
80 11 0.13
81 52 0.61
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.36
Consensus pattern (79 bp):
TTTTTAAAAAACGCCGCTACTCCCCTAAAAATCCAATAAAAACGACGACGTTTTGTTAACTGCTA
TGTTTTTTGCGGCG
Found at i:22584361 original size:41 final size:40
Alignment explanation
Indices: 22584279--22584399 Score: 163
Period size: 40 Copynumber: 3.0 Consensus size: 40
22584269 GTTATATGAC
* *
22584279 TTTTAGCGGCGTTTTATC-AAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTTTCTAAAA-CGCCGCTATTGCTCTGT
*
22584319 TTTTAGCGGCGTTTTTTACTAAAACGCCGCTATTGCTTTGT
1 TTTTAGCGGCGTTTTTT-CTAAAACGCCGCTATTGCTCTGT
* * *
22584360 TTTTAGCGGCATTTTTTGTAAGACGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTTTCTAAAACGCCGCTATTGCTCTGT
22584400 GTTTGACAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
40 36 0.50
41 32 0.44
42 4 0.06
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTTCTAAAACGCCGCTATTGCTCTGT
Found at i:22589055 original size:25 final size:26
Alignment explanation
Indices: 22588974--22589056 Score: 62
Period size: 25 Copynumber: 3.1 Consensus size: 26
22588964 TATCAAGCTA
* * *
22588974 AATATTAAATTAATAAATAAAATTTT
1 AATATTAAATTAATAAAGATATTTTT
* *
22589000 AAT-TTAATTTAATATTAAGATAATCAATTT
1 AATATTAAATTAATA--AAGAT-AT--TTTT
22589030 AATATTAAATTAATAAA-ATATTTTT
1 AATATTAAATTAATAAAGATATTTTT
22589055 AA
1 AA
22589057 GATAAGTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
25 15 0.34
26 3 0.07
27 5 0.11
28 3 0.07
29 2 0.05
30 6 0.14
31 10 0.23
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (26 bp):
AATATTAAATTAATAAAGATATTTTT
Found at i:22592563 original size:31 final size:30
Alignment explanation
Indices: 22592506--22592592 Score: 147
Period size: 31 Copynumber: 2.9 Consensus size: 30
22592496 CGAAAAAGTT
22592506 AACTAAATATTTTCATTTATTTTTTAGTAA
1 AACTAAATATTTTCATTTATTTTTTAGTAA
*
22592536 AACTACATATTTTCATTTATTTTTTTAGTAA
1 AACTAAATATTTTCATTTA-TTTTTTAGTAA
*
22592567 AACTAAATATTTTCATTTACTTTTTA
1 AACTAAATATTTTCATTTATTTTTTA
22592593 CTAATTTGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
30 24 0.45
31 29 0.55
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.54
Consensus pattern (30 bp):
AACTAAATATTTTCATTTATTTTTTAGTAA
Found at i:22592720 original size:20 final size:21
Alignment explanation
Indices: 22592695--22592734 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
22592685 AATCATTGTG
*
22592695 TATTAAGATT-TATTTATTTT
1 TATTAAGATTATATATATTTT
*
22592715 TATTAATATTATATATATTT
1 TATTAAGATTATATATATTT
22592735 CATATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTAAGATTATATATATTTT
Found at i:22599670 original size:2 final size:2
Alignment explanation
Indices: 22599663--22599694 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
22599653 TTAGAAAACT
*
22599663 TA TA TA TA TA TA TA CA 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
22599695 AACTGAAACC
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:22603807 original size:16 final size:16
Alignment explanation
Indices: 22603779--22603813 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22603769 TCAAACATGA
22603779 ACCAAATATTTTTAATG
1 ACCAAATATTTTTAA-G
22603796 ACCAAA-ATTTTTAAG
1 ACCAAATATTTTTAAG
22603811 ACC
1 ACC
22603814 GAGAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 8 0.44
17 6 0.33
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (16 bp):
ACCAAATATTTTTAAG
Found at i:22606937 original size:50 final size:52
Alignment explanation
Indices: 22606882--22607000 Score: 188
Period size: 50 Copynumber: 2.3 Consensus size: 52
22606872 TTAATAAAAC
* *
22606882 CATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
*
22606932 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGT
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
*
22606984 CATGCATTAGGTAACTC
1 CATGCATTATGTAACTC
22607001 ATTTGTTCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 27 0.43
51 12 0.19
52 24 0.38
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
Found at i:22608351 original size:46 final size:48
Alignment explanation
Indices: 22608292--22608563 Score: 162
Period size: 46 Copynumber: 5.8 Consensus size: 48
22608282 GGGTTATTGT
* *
22608292 GAGCTACTATAAGA-CATGTCTGGGACAT-GCATCGGCCACATTAAGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAAGA
* *
22608338 GAGCTAGTGTAAGATCATGTCTGGGACATGGCATCGG---CTTTGAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-A-A-GA
* * * * * *
22608386 GTGCTAGTGTAAGA-CATGTCTGGGATAT-GTATCGGCCTCGA-GACGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTAAG-A
* * * *
22608433 -AGTTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTAC---GAGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAAGA
* * * * *
22608475 TGTG-TCAGTGTAAGACCATGTCGGGGACATGGCATTGG-TACATATATGTTA
1 -GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT-TAAG--A
*
22608526 GAGCTTGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
22608564 ACCTTATCCC
Statistics
Matches: 175, Mismatches: 28, Indels: 41
0.72 0.11 0.17
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 10 0.06
45 19 0.11
46 56 0.32
47 29 0.17
48 23 0.13
49 2 0.01
50 31 0.18
51 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAAGA
Found at i:22608393 original size:48 final size:45
Alignment explanation
Indices: 22608301--22608505 Score: 195
Period size: 46 Copynumber: 4.4 Consensus size: 45
22608291 TGAGCTACTA
*
22608301 TAAGACATGTCTGGGACATGCATCGGCCACATT-AAGA-GAG-CTAGTG
1 TAAGACATGTCTGGGACATGCATCGG---C-TTCGAGACGAGTCTAGTG
*
22608347 TAAGATCATGTCTGGGACATGGCATCGGCTTTGAGACGAGTGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCTTCGAGACGAGT-CTAGTG
* * *
22608395 TAAGACATGTCTGGGATATGTATCGGCCTCGAGACGTAAGT-TAGTG
1 TAAGACATGTCTGGGACATGCATCGGCTTCGAGACG--AGTCTAGTG
* * * *
22608441 TAAGACATGTCTGGGACATGCATCAGCTACGAGATGTGTC-AGTG
1 TAAGACATGTCTGGGACATGCATCGGCTTCGAGACGAGTCTAGTG
*
22608485 TAAGACCATGTCGGGGACATG
1 TAAGA-CATGTCTGGGACATG
22608506 GCATTGGTAC
Statistics
Matches: 136, Mismatches: 13, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
44 13 0.10
45 18 0.13
46 57 0.42
47 27 0.20
48 21 0.15
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
TAAGACATGTCTGGGACATGCATCGGCTTCGAGACGAGTCTAGTG
Found at i:22616656 original size:9 final size:9
Alignment explanation
Indices: 22616629--22616659 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22616619 CCAATCAAAC
22616629 TGATTGAAT
1 TGATTGAAT
*
22616638 CGATTGAAT
1 TGATTGAAT
22616647 TGATTGAAT
1 TGATTGAAT
22616656 TGAT
1 TGAT
22616660 AAGACCAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.23, T:0.42
Consensus pattern (9 bp):
TGATTGAAT
Found at i:22616835 original size:26 final size:28
Alignment explanation
Indices: 22616769--22616824 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
22616759 AATTTAAGAT
22616769 AAATATTATTTTTATATATTCTTTCAAA
1 AAATATTATTTTTATATATTCTTTCAAA
22616797 AAATATTATTTTTATATATTCTTTCAAA
1 AAATATTATTTTTATATATTCTTTCAAA
22616825 GAGTTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (28 bp):
AAATATTATTTTTATATATTCTTTCAAA
Found at i:22617786 original size:28 final size:31
Alignment explanation
Indices: 22617731--22617796 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
22617721 ATAGGGCAAG
* *
22617731 CCGTGTGTCATACACGGTCTAAACACAC-GC
1 CCGTGTGTCACACACGGTCTAAACACACTAC
22617761 CCGTGTGTCACACACGGTCT-AA-ACACTAC
1 CCGTGTGTCACACACGGTCTAAACACACTAC
22617790 CCGTGTG
1 CCGTGTG
22617797 GACAATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 4 0.12
29 10 0.30
30 19 0.58
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (31 bp):
CCGTGTGTCACACACGGTCTAAACACACTAC
Found at i:22618603 original size:46 final size:44
Alignment explanation
Indices: 22618502--22618721 Score: 192
Period size: 46 Copynumber: 4.8 Consensus size: 44
22618492 GTCAGATGCT
* * *
22618502 GATGCCATGTCCCATACATGGTCTTACACTGACACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCTCG-AGGCC
* *
22618548 AATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-T-CATCTCGAGGCC
* * * *
22618594 GATGCATGTCCCAGACATGTCTTACACTAGTGCTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACT-G-GCTCATCTCGAGGCC
* * *
22618640 GATGCCATGTCCCAGACATGGTTTTACACTGGCTC-TCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATC-T--CGAGGCC
* *
22618688 GATGCATGTCCCAAACATGTCTTACACTAGCTCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCA
22618722 CACAAGTGAC
Statistics
Matches: 145, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
44 12 0.08
45 16 0.11
46 70 0.48
47 30 0.21
48 17 0.12
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCATCTCGAGGCC
Done.