Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 76 of 172
Found at i:25208085 original size:17 final size:17
Alignment explanation
Indices: 25208063--25208098 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
25208053 GGGCCTAATG
25208063 GGCTTTCGGACCCATTT
1 GGCTTTCGGACCCATTT
25208080 GGCTTTCGGACCCATTT
1 GGCTTTCGGACCCATTT
25208097 GG
1 GG
25208099 GTAAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.28, G:0.28, T:0.33
Consensus pattern (17 bp):
GGCTTTCGGACCCATTT
Found at i:25208450 original size:18 final size:20
Alignment explanation
Indices: 25208427--25208523 Score: 78
Period size: 20 Copynumber: 5.0 Consensus size: 20
25208417 TGATACGTGG
25208427 GATATGATA-G-ACATGATT
1 GATATGATATGCACATGATT
25208445 GATATGATATGCACATGATAT
1 GATATGATATGCACATGAT-T
* * *
25208466 G-TATAAAATGCACATGAGAT
1 GATATGATATGCACATGA-TT
* *
25208486 G-TATGAAATGCACGTGATAT
1 GATATGATATGCACATGAT-T
*
25208506 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
25208524 GTATTCATAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
18 9 0.13
19 1 0.01
20 55 0.82
21 2 0.03
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (20 bp):
GATATGATATGCACATGATT
Found at i:25208462 original size:20 final size:20
Alignment explanation
Indices: 25208437--25208523 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
25208427 GATATGATAG
*
25208437 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
25208457 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
*
25208477 ACATGAGATGTATGAAATGC
1 ACATGATATGTATGAAATGC
*
25208497 ACGTGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
25208517 ACATGAT
1 ACATGAT
25208524 GTATTCATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 57 0.97
21 2 0.03
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:25208602 original size:26 final size:26
Alignment explanation
Indices: 25208573--25208708 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
25208563 GAGGAAGTGC
*
25208573 AAAAGGGCTTATGCCCCAGTCTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
25208599 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
25208625 AAAATGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
25208651 AAAAGGGATT-TGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
25208676 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
25208699 AAAAGAGGCT
1 AAAAG-GGCT
25208709 AGGCCTTCAG
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 28 0.30
26 54 0.57
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:25208656 original size:52 final size:51
Alignment explanation
Indices: 25208573--25208708 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 51
25208563 GAGGAAGTGC
* *
25208573 AAAAGGGCTTATGCCCCAGTCTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAATTTACCG
* *
25208625 AAAATGGCTTATGCCCCAGTTTATTGAAAAGGGATTTGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCG
25208676 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
25208709 AGGCCTTCAG
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
48 5 0.06
49 8 0.10
50 8 0.10
51 23 0.30
52 33 0.43
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCG
Found at i:25208900 original size:42 final size:42
Alignment explanation
Indices: 25208841--25208932 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
25208831 TAGTCTCCCC
* ** *
25208841 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
25208883 AAATGGGCTTTCATACATCCATTGACATTACATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
25208925 AAATGGGC
1 AAATGGGC
25208933 CTGTGGCCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:25208983 original size:32 final size:31
Alignment explanation
Indices: 25208947--25209026 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
25208937 GGCCCATACC
25208947 ATTTACAATAAAGGCTTCAGCCCAGTGATATG
1 ATTTACAA-AAAGGCTTCAGCCCAGTGATATG
** * * *
25208979 ATTTATGAAAAGGCTTCGGCCTAGTGGTATG
1 ATTTACAAAAAGGCTTCAGCCCAGTGATATG
**
25209010 ATTTATGAAAAGGCTTC
1 ATTTACAAAAAGGCTTC
25209027 GGCCTAGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 37 0.86
32 6 0.14
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (31 bp):
ATTTACAAAAAGGCTTCAGCCCAGTGATATG
Found at i:25209027 original size:31 final size:31
Alignment explanation
Indices: 25208956--25209034 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
25208946 CATTTACAAT
* *
25208956 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
*
25208987 AAAGGCTTCGGCCTAGTGGTATGATTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
25209018 AAAGGCTTCGGCCTAGT
1 AAAGGCTTCGGCCTAGT
25209035 AACCATTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCTAGTGATATGATTTATGA
Found at i:25209846 original size:28 final size:28
Alignment explanation
Indices: 25209814--25209872 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
25209804 CATCTTGACA
25209814 ACCTAATGTCATGACATTCGTATCCGAT
1 ACCTAATGTCATGACATTCGTATCCGAT
25209842 ACCTAATGTCATGACATTCGTATCCGAT
1 ACCTAATGTCATGACATTCGTATCCGAT
25209870 ACC
1 ACC
25209873 ATTCCTATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (28 bp):
ACCTAATGTCATGACATTCGTATCCGAT
Found at i:25221046 original size:28 final size:28
Alignment explanation
Indices: 25221013--25221111 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
25221003 ATGAATATAT
25221013 GCACTATGTGTGCGAAATTATTAACCGA
1 GCACTATGTGTGCGAAATTATTAACCGA
* **
25221041 GCACTATGTGTGCGAGATCGGGTGTAA--G-
1 GCACTATGTGTGCGAAAT--TAT-TAACCGA
*
25221069 GCACTATGTGCGCGAAATTATTAACCGA
1 GCACTATGTGTGCGAAATTATTAACCGA
25221097 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
25221112 GATCGGGTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 1 0.02
28 47 0.82
29 1 0.02
30 1 0.02
31 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (28 bp):
GCACTATGTGTGCGAAATTATTAACCGA
Found at i:25221077 original size:56 final size:56
Alignment explanation
Indices: 25221013--25221136 Score: 230
Period size: 56 Copynumber: 2.2 Consensus size: 56
25221003 ATGAATATAT
25221013 GCACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCGAGATCGGGTGTAAG
1 GCACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCGAGATCGGGTGTAAG
*
25221069 GCACTATGTGCGCGAAATTATTAACCGAGCACTATGTGTGCGAGATCGGGTGTAAG
1 GCACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCGAGATCGGGTGTAAG
*
25221125 GCACTGTGTGTG
1 GCACTATGTGTG
25221137 TGTGAAATTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 65 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (56 bp):
GCACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCGAGATCGGGTGTAAG
Found at i:25221128 original size:28 final size:28
Alignment explanation
Indices: 25221041--25221136 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 28
25221031 TATTAACCGA
25221041 GCACTATGTGTGCGAGATCGGGTGTAAG
1 GCACTATGTGTGCGAGATCGGGTGTAAG
* * **
25221069 GCACTATGTGCGCGAAAT--TAT-TAACCG
1 GCACTATGTGTGCGAGATCGGGTGTAA--G
25221096 AGCACTATGTGTGCGAGATCGGGTGTAAG
1 -GCACTATGTGTGCGAGATCGGGTGTAAG
*
25221125 GCACTGTGTGTG
1 GCACTATGTGTG
25221137 TGTGAAATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 43 0.81
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGGTGTAAG
Found at i:25224403 original size:28 final size:28
Alignment explanation
Indices: 25224370--25224468 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
25224360 ATGAATATAT
25224370 GCACTATGTGTGCGAAATTATTAACCAA
1 GCACTATGTGTGCGAAATTATTAACCAA
* * ** *
25224398 GCACTATGTGTGCTAGATCGGGTGT-A--AG
1 GCACTATGTGTGCGAAAT--TAT-TAACCAA
*
25224426 GCACTATGTGTGCGAAATTATTAACCGA
1 GCACTATGTGTGCGAAATTATTAACCAA
*
25224454 GCATTATGTGTGCGA
1 GCACTATGTGTGCGA
25224469 GATCGGGTGT
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
25 1 0.02
26 2 0.04
28 47 0.89
30 2 0.04
31 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAAATTATTAACCAA
Found at i:25224434 original size:56 final size:56
Alignment explanation
Indices: 25224370--25224505 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
25224360 ATGAATATAT
*
25224370 GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCTAGATCGGGTGTAAG
1 GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCGAGATCGGGTGTAAG
* *
25224426 GCACTATGTGTGCGAAATTATTAACCGAGCATTATGTGTGCGAGATCGGGTGTAAG
1 GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCGAGATCGGGTGTAAG
*
25224482 GCACTGTGTGTGTGCGAAATTATT
1 GCAC--TATGTGTGCGAAATTATT
25224506 TAGGGAATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
56 57 0.77
58 17 0.23
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (56 bp):
GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCGAGATCGGGTGTAAG
Found at i:25224491 original size:28 final size:28
Alignment explanation
Indices: 25224398--25224493 Score: 90
Period size: 28 Copynumber: 3.4 Consensus size: 28
25224388 TATTAACCAA
*
25224398 GCACTATGTGTGCTAGATCGGGTGTAAG
1 GCACTATGTGTGCGAGATCGGGTGTAAG
* **
25224426 GCACTATGTGTGCGAAAT--TAT-TAACCG
1 GCACTATGTGTGCGAGATCGGGTGTAA--G
*
25224453 AGCATTATGTGTGCGAGATCGGGTGTAAG
1 -GCACTATGTGTGCGAGATCGGGTGTAAG
*
25224482 GCACTGTGTGTG
1 GCACTATGTGTG
25224494 TGCGAAATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 42 0.81
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGGTGTAAG
Found at i:25229726 original size:28 final size:26
Alignment explanation
Indices: 25229665--25229736 Score: 63
Period size: 28 Copynumber: 2.6 Consensus size: 26
25229655 GTTAAATATG
*
25229665 TTTTATTTATGTCTTAGTTAATACATA
1 TTTTAATT-TGTCTTAGTTAATACATA
* *
25229692 TCATTAATTTGTCTTAGTTTATTACATCA
1 T-TTTAATTTGTCTTAG-TTAATACAT-A
* *
25229721 TTTTAATGTGTTTTAG
1 TTTTAATTTGTCTTAG
25229737 CTCCAGCCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
27 9 0.25
28 25 0.69
29 2 0.06
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (26 bp):
TTTTAATTTGTCTTAGTTAATACATA
Found at i:25234483 original size:28 final size:28
Alignment explanation
Indices: 25234418--25234497 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
25234408 AGTATAATAT
* *
25234418 GATTTGGGCCTAATGGGCCACATAAATGT
1 GATTT-GGCCTAATGGGCCATATAAATGA
* *
25234447 GAATGGGCCTAATGGGCCATATGAAA-GA
1 GATTTGGCCTAATGGGCCATAT-AAATGA
* *
25234475 GATTTGGCCTAGTGGACCATATA
1 GATTTGGCCTAATGGGCCATATA
25234498 TATACAGGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
27 1 0.02
28 35 0.83
29 6 0.14
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (28 bp):
GATTTGGCCTAATGGGCCATATAAATGA
Found at i:25236254 original size:49 final size:50
Alignment explanation
Indices: 25236182--25236280 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 50
25236172 TAGGGGACGA
*
25236182 AGCTGGTGTGTAGCAGATAGATAATTT-AATGGGATTACATTGCATGTTT
1 AGCTGGTATGTAGCAGATAGATAATTTGAATGGGATTACATTGCATGTTT
* * *
25236231 AGCTGGTATGTAGCGGATGGATAATTTGAATGGGATTGCATTGCATGTTT
1 AGCTGGTATGTAGCAGATAGATAATTTGAATGGGATTACATTGCATGTTT
25236281 GATGTATGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 24 0.53
50 21 0.47
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.36
Consensus pattern (50 bp):
AGCTGGTATGTAGCAGATAGATAATTTGAATGGGATTACATTGCATGTTT
Found at i:25240756 original size:49 final size:49
Alignment explanation
Indices: 25240624--25240805 Score: 154
Period size: 49 Copynumber: 3.7 Consensus size: 49
25240614 GGGATAAGAT
* * * * *
25240624 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACAT-T-AAA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTATCATATATCGAG
* * * * * *
25240672 GTCGATGCCGTGTCCTAGACAGGTCTTAAATTGGCTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATATATCGAG
* * * *
25240721 GCCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCGTCTATCG-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATATATCGAG
** **
25240769 TGTTGATGCCATGTCCCAGACATTTCTTACACTGGCT
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCT
25240806 CACATACCAC
Statistics
Matches: 106, Mismatches: 25, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
47 17 0.16
48 19 0.18
49 70 0.66
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATATATCGAG
Found at i:25242214 original size:42 final size:42
Alignment explanation
Indices: 25242107--25242216 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
25242097 TCGTTTCAAT
* * ** *
25242107 GCCATATCCCCGATATGGTCTTACATGAAATATCATATCGAT
1 GCCATATCCCAGATATGGTCTTATACAAAATATCATATCGAG
* * *
25242149 GCCATGTCCCTGACATGGTCTTATACAAAATCA-CATA-CTGAG
1 GCCATATCCCAGATATGGTCTTATACAAAAT-ATCATATC-GAG
25242191 GCCATATCCCAGATATGGTCTTATAC
1 GCCATATCCCAGATATGGTCTTATAC
25242217 GGAATCTTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.02
42 54 0.96
43 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTATACAAAATATCATATCGAG
Found at i:25244032 original size:18 final size:20
Alignment explanation
Indices: 25244009--25244050 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
25243999 AGTCTTTTTT
25244009 CCATA-TTTT-TTTTATCAA
1 CCATATTTTTGTTTTATCAA
25244027 CCATATTTTTGTTTTATCAA
1 CCATATTTTTGTTTTATCAA
25244047 CCAT
1 CCAT
25244051 TGCATTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.23
19 4 0.18
20 13 0.59
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.52
Consensus pattern (20 bp):
CCATATTTTTGTTTTATCAA
Found at i:25246316 original size:17 final size:15
Alignment explanation
Indices: 25246284--25246317 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
25246274 CTAATGGAAC
25246284 TTTACTTTTATACTT
1 TTTACTTTTATACTT
25246299 TTTACTATTTAGTACTT
1 TTTACT-TTTA-TACTT
25246316 TT
1 TT
25246318 CACCTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTACTTTTATACTT
Found at i:25249695 original size:47 final size:49
Alignment explanation
Indices: 25249622--25249752 Score: 150
Period size: 47 Copynumber: 2.8 Consensus size: 49
25249612 ATTTGTATGC
* *
25249622 TAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGA-GACGA-GAG-T
1 TAGTGTAAGACCATTTCTGGGACATGGCATCGGCATTGATG--GATGAGCT
*
25249670 TAGTGTAAGA-CATTTCTGGGACATGGCATCGAC-TTGATGGATGAGCT
1 TAGTGTAAGACCATTTCTGGGACATGGCATCGGCATTGATGGATGAGCT
*
25249717 T-GTGTAAGACCATGTT-TGGGGCATGGCATCGGCATT
1 TAGTGTAAGACCAT-TTCTGGGACATGGCATCGGCATT
25249753 ATAACCTATG
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
45 2 0.03
46 15 0.21
47 41 0.57
48 14 0.19
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (49 bp):
TAGTGTAAGACCATTTCTGGGACATGGCATCGGCATTGATGGATGAGCT
Found at i:25267437 original size:15 final size:15
Alignment explanation
Indices: 25267410--25267447 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
25267400 AATGCTGATT
25267410 GTATGAGAAAATCTTG
1 GTATGA-AAAATCTTG
25267426 GTATGAAAAATCTTG
1 GTATGAAAAATCTTG
*
25267441 GTCTGAA
1 GTATGAA
25267448 TGGTAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.32
Consensus pattern (15 bp):
GTATGAAAAATCTTG
Found at i:25271946 original size:19 final size:19
Alignment explanation
Indices: 25271898--25271951 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
25271888 TAAAAATGTT
25271898 TTTTATTTCTATTTAATAA
1 TTTTATTTCTATTTAATAA
*
25271917 -TTTATCATCTA-TTAATAA
1 TTTTAT-TTCTATTTAATAA
25271935 TTTTGATTTCTAATTTA
1 TTTT-ATTTCT-ATTTA
25271952 GTCCTTAGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 12 0.43
19 10 0.36
20 3 0.11
21 3 0.11
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTATTTCTATTTAATAA
Found at i:25273303 original size:33 final size:33
Alignment explanation
Indices: 25273266--25273336 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
25273256 CTCAGCCTTC
* **
25273266 ATCAG-AATCAATTGGGCCTAGCCCATTTTCAAA
1 ATCAGTAA-CAATTGGGCCTAGCCAATTAACAAA
*
25273299 ATCAGTAACAGTTGGGCCTAGCCAATTAACAAA
1 ATCAGTAACAATTGGGCCTAGCCAATTAACAAA
25273332 ATCAG
1 ATCAG
25273337 GTGGGCCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (33 bp):
ATCAGTAACAATTGGGCCTAGCCAATTAACAAA
Found at i:25273529 original size:22 final size:22
Alignment explanation
Indices: 25273504--25273546 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
25273494 CACTAAGTCA
* *
25273504 ACAGAACGGCTCAATGCCATAG
1 ACAGAACGGCTAAAGGCCATAG
*
25273526 ACAGAATGGCTAAAGGCCATA
1 ACAGAACGGCTAAAGGCCATA
25273547 AATATCGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (22 bp):
ACAGAACGGCTAAAGGCCATAG
Found at i:25275954 original size:40 final size:39
Alignment explanation
Indices: 25275898--25276030 Score: 171
Period size: 40 Copynumber: 3.4 Consensus size: 39
25275888 ATGATAACCG
*
25275898 GGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
25275937 GAGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACC
1 G-GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
25275977 GGGCTAAGTCCAGAAGGCATTTGAGCGAG-TAGCTATATCC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
*
25276017 GGCTAAAT-CCGAAG
1 GGCTAAGTCCCGAAG
25276031 ATACTTGGGT
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.06
39 9 0.11
40 67 0.82
41 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:25288211 original size:84 final size:84
Alignment explanation
Indices: 25288070--25288406 Score: 638
Period size: 84 Copynumber: 4.0 Consensus size: 84
25288060 TCTGATTTTG
*
25288070 ATGAATGTTTTGAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
1 ATGAATGTTTTGAGTTATGTCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
25288135 AAGGTTATGTTTTACATTA
66 AAGGTTATGTTTTACATTA
25288154 ATGAATGTTTTGAGTTATGTCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
1 ATGAATGTTTTGAGTTATGTCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
25288219 AAGGTTATGTTTTACATTA
66 AAGGTTATGTTTTACATTA
25288238 ATGAATGTTTTGAGTTATGTCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
1 ATGAATGTTTTGAGTTATGTCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
25288303 AAGGTTATGTTTTACATTA
66 AAGGTTATGTTTTACATTA
25288322 ATGAATGTTTTGAGTTATGTCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
1 ATGAATGTTTTGAGTTATGTCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
* * *
25288387 AAAGATATGTTTTAGATTA
66 AAGGTTATGTTTTACATTA
25288406 A
1 A
25288407 CATGTTTTGT
Statistics
Matches: 249, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 249 1.00
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.48
Consensus pattern (84 bp):
ATGAATGTTTTGAGTTATGTCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
AAGGTTATGTTTTACATTA
Found at i:25291730 original size:47 final size:45
Alignment explanation
Indices: 25291533--25291889 Score: 210
Period size: 47 Copynumber: 7.6 Consensus size: 45
25291523 GATATATTGT
* * * *
25291533 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ATCATCT-C-AGTGC
* * *
25291583 TGATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTC-TTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCATCATCTCAGT-GC
* * * * *
25291627 CGATGCATGTCCCAAACACGTCTTACACTGGCTATCTTTTTCGAG-GC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-ATC-ATCTC-AGTGC
* *
25291674 CAATGCATGTCCCAGACATGTCCTACACTAGCACTCATCTCAGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCA-TCATCTCAGTGC
* * *
25291720 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATAGT-A-TGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ATCAT-CTCAGT-GC
* * * * *
25291768 TGATGCATGTCCCAGACATGTCTTACACTAGCCTTCGTCT-GGATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAG-CATCATCTCAG-TGC
* * *
25291814 TGATGCCATGTCCCAGACATGGTCTTACA-TTGTC-TC-TCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CATCATC-TCA-GT-GC
*
25291862 CGAAGCATGTCCCAGACATGTCTTACAC
1 CGATGCATGTCCCAGACATGTCTTACAC
25291890 CGGCACACAA
Statistics
Matches: 244, Mismatches: 40, Indels: 49
0.73 0.12 0.15
Matches are distributed among these distances:
43 1 0.00
44 30 0.12
45 7 0.03
46 45 0.18
47 94 0.39
48 47 0.19
49 16 0.07
50 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCATCATCTCAGTGC
Found at i:25291786 original size:94 final size:92
Alignment explanation
Indices: 25291533--25291889 Score: 366
Period size: 94 Copynumber: 3.8 Consensus size: 92
25291523 GATATATTGT
* * *
25291533 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATA--TG-GCCGATGCATGTCCCAG
* *
25291598 ACATGTCTTACACTAGCA--CAACTCTTAGC
63 ACATGTCTTACACTAGCACTCATCTCGT-GC
* * * * *
25291627 CGATG-CATGTCCCAAACA-CGTCTTACACTGGCTATC-TTTTTCGAGGCCAATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATAT---GGCCGATGCATGTCCCAG
*
25291689 ACATGTCCTACACTAGCACTCATCTCAGTGC
63 ACATGTCTTACACTAGCACTCATCTC-GTGC
* *
25291720 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-TATGGCCGATGCATGTCCCAGAC
* * *
25291785 ATGTCTTACACTAGC-CTTCGTCTGGATGT
65 ATGTCTTACACTAGCAC-TCATCTCG-TGC
* * * * * *
25291814 TGATGCCATGTCCCAGACATGGTCTTACATTGTCTCTCATAATGTGGCCGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-ATATGGCCGATGCATGTCCCAGAC
25291879 ATGTCTTACAC
65 ATGTCTTACAC
25291890 CGGCACACAA
Statistics
Matches: 220, Mismatches: 30, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
91 34 0.15
92 17 0.08
93 26 0.12
94 122 0.55
95 18 0.08
96 1 0.00
97 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATATGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCGTGC
Found at i:25297873 original size:26 final size:27
Alignment explanation
Indices: 25297822--25297873 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
25297812 AAATTAGCTA
**
25297822 AGAAATGCATGATGTGATGATTTTGTG
1 AGAAATGCATGATGTGATGAACTTGTG
*
25297849 AGAAATGTATG-TGTGATGAACTTGT
1 AGAAATGCATGATGTGATGAACTTGT
25297874 ATGAATGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.37
Consensus pattern (27 bp):
AGAAATGCATGATGTGATGAACTTGTG
Found at i:25298662 original size:29 final size:29
Alignment explanation
Indices: 25298348--25298685 Score: 306
Period size: 29 Copynumber: 11.8 Consensus size: 29
25298338 ATATAAGTGA
*
25298348 GCCTTTGTGGCTATCTC--TAAAAGGAA-
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
** * *
25298374 GCCTTTGCAGCGATCTCTGTTATATGGAA-
1 GCCTTTGTGGCTATCTCTGTTA-AAGGAAT
* *
25298403 GCCTTTTTGGCGATCTCTGTTAAATGGAA-
1 GCCTTTGTGGCTATCTCTGTTAAA-GGAAT
*
25298432 GCCTTTGTGGCTATCTCTAG-TATAA-GAAA
1 GCCTTTGTGGCTATCTCT-GTTA-AAGGAAT
25298461 GCCTTTGTGGCTATCTCTGTTGAAAGG-AT
1 GCCTTTGTGGCTATCTCTGTT-AAAGGAAT
* ** * **
25298490 GTCTTTGTGTTTATCTTTGTTAAAAAAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
*
25298519 ACCTTTGTGGCTATCTCTGTTAAAGGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
**
25298548 GCCTTTGTGGCTATCTCAATTAAAAGG-AT
1 GCCTTTGTGGCTATCTCTGTT-AAAGGAAT
* * *
25298577 TCCTTTGTGGCTATCCCTATTAAAGGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
*
25298606 GCC-TTGTGGCAAAT-TCTGTTAAAGGAAT
1 GCCTTTGTGGC-TATCTCTGTTAAAGGAAT
25298634 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
* *
25298663 GTC-TTGTGGCAAAT-TCTGTTAAA
1 GCCTTTGTGGC-TATCTCTGTTAAA
25298686 AATGTGCTTT
Statistics
Matches: 257, Mismatches: 38, Indels: 32
0.79 0.12 0.10
Matches are distributed among these distances:
26 14 0.05
28 55 0.21
29 178 0.69
30 10 0.04
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (29 bp):
GCCTTTGTGGCTATCTCTGTTAAAGGAAT
Found at i:25298680 original size:28 final size:28
Alignment explanation
Indices: 25298596--25298685 Score: 137
Period size: 28 Copynumber: 3.2 Consensus size: 28
25298586 GCTATCCCTA
25298596 TTAAAGGAATGCCTTGTGGCAAATTCTG
1 TTAAAGGAATGCCTTGTGGCAAATTCTG
*
25298624 TTAAAGGAATGCCTTTGTGGC-TATCTCTG
1 TTAAAGGAATGCC-TTGTGGCAAAT-TCTG
*
25298653 TTAAAGGAATGTCTTGTGGCAAATTCTG
1 TTAAAGGAATGCCTTGTGGCAAATTCTG
25298681 TTAAA
1 TTAAA
25298686 AATGTGCTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
28 31 0.55
29 25 0.45
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (28 bp):
TTAAAGGAATGCCTTGTGGCAAATTCTG
Found at i:25298698 original size:57 final size:57
Alignment explanation
Indices: 25298403--25298701 Score: 242
Period size: 57 Copynumber: 5.2 Consensus size: 57
25298393 TTATATGGAA
* * *
25298403 GCCTTTTTGGCGATCTCTGTTAAATGGAA-GCCTTTGTGGC-TATCTCTAGTATAAGAAA--
1 GCCTTTGTGGCTATCTCTGTTAAA-GGAATGCC-TTGTGGCAAATCTCT-GT-TAA-AAATT
* *** * *
25298461 GCCTTTGTGGCTATCTCTGTTGAAAGG-ATGTCTT-TGTGTTTATCTTTGTTAAAAAAAT
1 GCCTTTGTGGCTATCTCTGTT-AAAGGAATGCCTTGTG-GCAAATCTCTGTT-AAAAATT
* * **
25298519 ACCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTTGTGGC-TATCTCAATTAAAAGGATT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAATGCC-TTGTGGCAAATCTCTGTTAAAA--ATT
* *
25298578 -CCTTTGTGGCTATCCCTATTAAAGGAATGCCTTGTGGCAAAT-TCTGTTAAAGGAA-T
1 GCCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTGTGGCAAATCTCTGTTAAA--AATT
*
25298634 GCCTTTGTGGCTATCTCTGTTAAAGGAATGTCTTGTGGCAAAT-TCTGTTAAAAATGT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTGTGGCAAATCTCTGTTAAAAAT-T
*
25298691 GCTTTTGTGGC
1 GCCTTTGTGGC
25298702 AGAATCTGAA
Statistics
Matches: 202, Mismatches: 21, Indels: 37
0.78 0.08 0.14
Matches are distributed among these distances:
55 2 0.01
56 7 0.03
57 91 0.45
58 91 0.45
59 9 0.04
60 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (57 bp):
GCCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTGTGGCAAATCTCTGTTAAAAATT
Found at i:25309424 original size:16 final size:16
Alignment explanation
Indices: 25309403--25309437 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
25309393 CTACCAGAGG
25309403 CTACACAAATATATCT
1 CTACACAAATATATCT
25309419 CTACACAAATATATCT
1 CTACACAAATATATCT
25309435 CTA
1 CTA
25309438 TATCTTCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (16 bp):
CTACACAAATATATCT
Found at i:25319067 original size:19 final size:19
Alignment explanation
Indices: 25319043--25319095 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
25319033 AAACTCAAAT
25319043 TGGTATCGATACCTGGCTA
1 TGGTATCGATACCTGGCTA
25319062 TGGTATCGATACCTGGCTA
1 TGGTATCGATACCTGGCTA
25319081 TGGTATCGATACCTG
1 TGGTATCGATACCTG
25319096 ATTGAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (19 bp):
TGGTATCGATACCTGGCTA
Found at i:25321523 original size:10 final size:10
Alignment explanation
Indices: 25321508--25321537 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
25321498 TTTATCGGCA
25321508 CAAAACGAAG
1 CAAAACGAAG
25321518 CAAAACGAAG
1 CAAAACGAAG
25321528 CAAAACGAAG
1 CAAAACGAAG
25321538 GGCAGGCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (10 bp):
CAAAACGAAG
Found at i:25322666 original size:33 final size:33
Alignment explanation
Indices: 25322624--25322688 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
25322614 TGAGATTTTG
25322624 ATTGAAATGATAATATTTAAAAAATTAAAATCA
1 ATTGAAATGATAATATTTAAAAAATTAAAATCA
25322657 ATTGAAATGATAATATTTAAAAAATTAAAATC
1 ATTGAAATGATAATATTTAAAAAATTAAAATC
25322689 TTTATTATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (33 bp):
ATTGAAATGATAATATTTAAAAAATTAAAATCA
Found at i:25330711 original size:43 final size:43
Alignment explanation
Indices: 25330650--25330812 Score: 140
Period size: 42 Copynumber: 3.8 Consensus size: 43
25330640 CAACGCTAAC
*
25330650 GTCCCAGAC-GTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACAG-GGTCTTACACGTAATCACATATCGATGCCACT
* * *
25330693 GTCCCAAACAGGGTCTTACACG-AA-CTCATATACGATGCCAAT
1 GTCCCAGACAGGGTCTTACACGTAATCACATAT-CGATGCCACT
* *
25330735 GTCCCAGACATGGTCTTACACGTAAATCACGA-ATTGATGCCAAC-
1 GTCCCAGACAGGGTCTTACACGT-AATCAC-ATATCGATGCC-ACT
* * * *
25330779 GTCCCAGA-TGTGGTCTTATATGAAATCACATATC
1 GTCCCAGACAG-GGTCTTACACGTAATCACATATC
25330813 AAAATCCTAT
Statistics
Matches: 96, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
41 6 0.06
42 32 0.33
43 26 0.27
44 26 0.27
45 5 0.05
46 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGTAATCACATATCGATGCCACT
Found at i:25331941 original size:13 final size:13
Alignment explanation
Indices: 25331923--25331947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25331913 ACAAACAATA
25331923 AAATTTTCACACG
1 AAATTTTCACACG
25331936 AAATTTTCACAC
1 AAATTTTCACAC
25331948 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:25337442 original size:47 final size:47
Alignment explanation
Indices: 25337322--25337442 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 47
25337312 CCCTTCGGGA
* * *
25337322 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
25337369 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
25337416 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
25337443 TATTCAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.27, C:0.31, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:25343510 original size:23 final size:24
Alignment explanation
Indices: 25343434--25343538 Score: 144
Period size: 23 Copynumber: 4.4 Consensus size: 24
25343424 GAGACATGGC
* *
25343434 CAGTAAGCTCTTCAAGAGCTGATAA
1 CAGTAAGCTCTTC-TGAGCTGAAAA
25343459 CAGTAAGCTCTAT-TGAGCTGAAAA
1 CAGTAAGCTCT-TCTGAGCTGAAAA
25343483 CAGTAAGCTCTTCTGAGCT-AAAA
1 CAGTAAGCTCTTCTGAGCTGAAAA
*
25343506 TAGTAAGCTCTTCTGAGCT-AAAA
1 CAGTAAGCTCTTCTGAGCTGAAAA
25343529 CAGTAAGCTC
1 CAGTAAGCTC
25343539 ATACAAGCTA
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
23 36 0.49
24 26 0.35
25 11 0.15
26 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (24 bp):
CAGTAAGCTCTTCTGAGCTGAAAA
Found at i:25343523 original size:47 final size:48
Alignment explanation
Indices: 25343434--25343538 Score: 144
Period size: 47 Copynumber: 2.2 Consensus size: 48
25343424 GAGACATGGC
*
25343434 CAGTAAGCTCTTCAAGAGCTGATAACAGTAAGCTCTATTGAGCTGAAAA
1 CAGTAAGCTCTTCAAGAGCTGAAAACAGTAAGCTCTATTGAGCT-AAAA
* *
25343483 CAGTAAGCTCTTC-TGAGCT-AAAATAGTAAGCTCT-TCTGAGCTAAAA
1 CAGTAAGCTCTTCAAGAGCTGAAAACAGTAAGCTCTAT-TGAGCTAAAA
25343529 CAGTAAGCTC
1 CAGTAAGCTC
25343539 ATACAAGCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
46 15 0.29
47 19 0.37
48 5 0.10
49 13 0.25
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (48 bp):
CAGTAAGCTCTTCAAGAGCTGAAAACAGTAAGCTCTATTGAGCTAAAA
Found at i:25343548 original size:46 final size:47
Alignment explanation
Indices: 25343460--25343548 Score: 121
Period size: 46 Copynumber: 1.9 Consensus size: 47
25343450 AGCTGATAAC
* *
25343460 AGTAAGCTCTATTGAGCTGAAAACAGTAAGCTCTTCTGAGCTAAAAT
1 AGTAAGCTCTATTGAGCTGAAAACAGTAAGCTCTACTAAGCTAAAAT
25343507 AGTAAGCTCT-TCTGAGCT-AAAACAGTAAGCTCATAC-AAGCTA
1 AGTAAGCTCTAT-TGAGCTGAAAACAGTAAGCTC-TACTAAGCTA
25343549 TGGTGAGTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
46 20 0.53
47 18 0.47
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (47 bp):
AGTAAGCTCTATTGAGCTGAAAACAGTAAGCTCTACTAAGCTAAAAT
Found at i:25362526 original size:48 final size:48
Alignment explanation
Indices: 25362373--25362554 Score: 177
Period size: 50 Copynumber: 3.7 Consensus size: 48
25362363 TCCATCAAGT
* * * * * *
25362373 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAGGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTCCTCTATA-CG-TGC
* * * * *
25362422 CGACGCCATGTTCCTAAACATGGTCTTACACTGGCTCTCACATATCCGTGC
1 CGATGCCATG-TCCCAAACATGGTCTTACACTGACTC-CTC-TATACGTGC
* *
25362473 CGATGCCATGTCCCAGACATGGTCTTATACTGACTCCTCTATACGTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTCCTCTATACGTGC
* *
25362521 CGATGCCATGTCTCAAACATGGTCTTACATTGAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGAC
25362555 ACATCTCGCA
Statistics
Matches: 107, Mismatches: 22, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
48 38 0.36
49 11 0.10
50 44 0.41
51 10 0.09
52 3 0.03
53 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACTCCTCTATACGTGC
Found at i:25362595 original size:44 final size:45
Alignment explanation
Indices: 25362471--25362733 Score: 144
Period size: 46 Copynumber: 5.6 Consensus size: 45
25362461 ACATATCCGT
* * * **
25362471 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACT-CCTCTATACG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGACTACATCTCGA-G
* *
25362518 TGCCGATGCCATGTCTCAAACATGGTCTTACATTGAC-ACATCTCGCA-
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACATTGACTACATCTCG-AG
* *
25362565 GCCGATGCATGTCCCAGAGATGTCTTACATTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACATTGAC-TACATCTCGAG
* * * * * *
25362611 GCTGATGCATG-CCCTAGACATGTCTTACAATAGGTCT-CGTCTCAAT
1 GCCGATGCATGTCCC-AGACATGTCTTAC-AT-TGACTACATCTCGAG
* * * * * *
25362657 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGACT-ACAT-CTCGAG
25362705 GCCGATGCATGTCCCAGAC-TAGTCTTACA
1 GCCGATGCATGTCCCAGACAT-GTCTTACA
25362734 CTAGCGCACA
Statistics
Matches: 171, Mismatches: 30, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
44 12 0.07
45 15 0.09
46 61 0.36
47 24 0.14
48 57 0.33
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACATTGACTACATCTCGAG
Found at i:25362709 original size:48 final size:47
Alignment explanation
Indices: 25362323--25362735 Score: 209
Period size: 48 Copynumber: 8.7 Consensus size: 47
25362313 TAGGGTGTAA
* * * *
25362323 TGCCGATGTCATGTCCCAGATATGGTCTTACATTGGCTTATCCATCAA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCT-CAT-AATG
* *
25362372 T--CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGA-AATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAAT-G
* * * * * *
25362418 AGGTCGACGCCATGTTCCTAAACATGGTCTTACACTGGCTCTCACATATCCG
1 -TGCCGATGCCATG-TCCCAGACATGGTCTTACACTGGCTCTCATA-AT--G
* * *
25362470 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCCTC-TATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCATA-ATG
* * * * * *
25362518 TGCCGATGCCATGTCTCAAACATGGTCTTACATTGACACATC-T--CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATG
* * * *
25362563 CAGCCGATG-CATGTCCCAGAGAT-GTCTTACATTGGCT-TACAT-CTCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-G
* * *
25362609 AGGCTGATG-CATG-CCCTAGACAT-GTCTTACAATAGGTCTCGTC-TCAA--
1 -TGCCGATGCCATGTCCC-AGACATGGTCTTACACT-GG-CTC-TCAT-AATG
*
25362656 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
*
25362703 TGGCCGATG-CATGTCCCAGAC-TAGTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
25362736 AGCGCACAAA
Statistics
Matches: 290, Mismatches: 43, Indels: 65
0.73 0.11 0.16
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 15 0.05
45 21 0.07
46 58 0.20
47 56 0.19
48 59 0.20
49 12 0.04
50 50 0.17
51 15 0.05
52 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
Found at i:25369212 original size:31 final size:31
Alignment explanation
Indices: 25369174--25369234 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
25369164 AACCGCTCTC
* *
25369174 GCTTCCTTATTGGATTTTTAATTTATAAGTT
1 GCTTCCTTATTGCATTTTTAATTTAAAAGTT
25369205 GCTTCCTTATTGCATTTTTAATTTAAAAGT
1 GCTTCCTTATTGCATTTTTAATTTAAAAGT
25369235 AGTTTATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.52
Consensus pattern (31 bp):
GCTTCCTTATTGCATTTTTAATTTAAAAGTT
Found at i:25369903 original size:27 final size:27
Alignment explanation
Indices: 25369865--25369921 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
25369855 ACCTTATATA
25369865 ATAAAACTCTACTTTAACATAATTTTC
1 ATAAAACTCTACTTTAACATAATTTTC
25369892 ATAAAACTCTACTTTAACATAATTTTC
1 ATAAAACTCTACTTTAACATAATTTTC
25369919 ATA
1 ATA
25369922 CTTTTTCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (27 bp):
ATAAAACTCTACTTTAACATAATTTTC
Found at i:25371324 original size:33 final size:33
Alignment explanation
Indices: 25371279--25371344 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
25371269 CAAAAAATTA
*
25371279 TCAATACGTGGCCAAATGGTATTGATACTTTTT
1 TCAATACATGGCCAAATGGTATTGATACTTTTT
25371312 TCAATACATGGCCAAATGGTATTGATACTTTTT
1 TCAATACATGGCCAAATGGTATTGATACTTTTT
25371345 GGCCAGGAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (33 bp):
TCAATACATGGCCAAATGGTATTGATACTTTTT
Found at i:25373508 original size:20 final size:20
Alignment explanation
Indices: 25373466--25373514 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
25373456 AACTCTCGTG
* **
25373466 GTATCGATATTTTTCCACGA
1 GTATCGATATTTTTACAAAA
*
25373486 GTATCGATATTTTTATAAAA
1 GTATCGATATTTTTACAAAA
25373506 GTATCGATA
1 GTATCGATA
25373515 CCAAATTAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (20 bp):
GTATCGATATTTTTACAAAA
Found at i:25386086 original size:42 final size:43
Alignment explanation
Indices: 25385976--25386148 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
25385966 AAAGCTCATA
* * * ** *
25385976 CAATGCCAACGTTCCAGACGTGGTCTTACACGTAATAAAATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATAT
* * *
25386019 CAATGCCACTGTCCCAGATAGGGTCTTACACAAAATCAAATA-
1 CAATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATAT
* **
25386061 CGATGCCAATGTCCCAGACATGGTCTTACATGTAAATCATAA-AT
1 CAATGCCAATGTCCCAGACATGGTCTTACA-CAAAATCA-AATAT
* * ** *
25386105 CGATGCCAATGTCCCAAATGTGGTCTTACACGAAAA-CACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACAC-AAAATCAAATAT
25386148 C
1 C
25386149 GGATCCTATG
Statistics
Matches: 104, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
42 27 0.26
43 45 0.43
44 32 0.31
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATAT
Found at i:25391845 original size:27 final size:27
Alignment explanation
Indices: 25391815--25391992 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
25391805 ATATTGAGCC
* *
25391815 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
25391842 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25391869 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * **
25391897 CGCACACTTAGTGCCGCATGATCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
25391924 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * **
25391951 CGCACACTTAGTGCAACATAGTCATTT
1 CGCACACTTAGTGCTACATAATCAACT
25391978 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25391993 GTACAGTTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25391954 original size:82 final size:81
Alignment explanation
Indices: 25391841--25391991 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
25391831 TATAATCAAC
* *
25391841 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-AACTCGCACACTT
25391906 AGTGCCGCATGATCATT
65 AGTGCCGCATGATCATT
* ** **
25391923 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCATTTCGCACACTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAACTCGCACACTT
25391987 AGTGC
65 AGTGC
25391992 TGTACAGTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 18 0.30
82 43 0.70
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAACTCGCACACTTA
GTGCCGCATGATCATT
Found at i:25391976 original size:54 final size:54
Alignment explanation
Indices: 25391815--25391991 Score: 198
Period size: 54 Copynumber: 3.3 Consensus size: 54
25391805 ATATTGAGCC
* * * **
25391815 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCCACATAGTCATTT
* *
25391869 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCAT-GATCATTT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCCACATAG-TCATTT
* ** *
25391924 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCATTT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCCACATAGTCATTT
25391978 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25391992 TGTACAGTTT
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
52 1 0.01
54 57 0.54
55 46 0.44
56 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCCACATAGTCATTT
Found at i:25394254 original size:30 final size:30
Alignment explanation
Indices: 25394220--25394282 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
25394210 ACTTATTTTA
25394220 TTGTTAATTTTGTTACTATTTTAAAGACAT
1 TTGTTAATTTTGTTACTATTTTAAAGACAT
* * *
25394250 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTACTATTTTAAAGACAT
25394280 TTG
1 TTG
25394283 CTTATTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTACTATTTTAAAGACAT
Found at i:25397102 original size:27 final size:27
Alignment explanation
Indices: 25397072--25397144 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
25397062 GGATAAGTGG
25397072 CAAAGACACTAGAACAGTAAAACATGA
1 CAAAGACACTAGAACAGTAAAACATGA
* *
25397099 CAAAGACACTAGAACAGTAAAACGTGG
1 CAAAGACACTAGAACAGTAAAACATGA
* *
25397126 CAAAGCCACTAGTACAGTA
1 CAAAGACACTAGAACAGTA
25397145 CTTCCTCCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.12
Consensus pattern (27 bp):
CAAAGACACTAGAACAGTAAAACATGA
Found at i:25401732 original size:40 final size:40
Alignment explanation
Indices: 25401670--25401874 Score: 256
Period size: 40 Copynumber: 5.2 Consensus size: 40
25401660 AAACCAAGTA
* * *
25401670 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
25401709 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
25401749 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
25401789 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
25401829 CCTTCGGGACTTAGCCCGGA-ATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
25401869 CCTTCG
1 CCTTCG
25401875 TTGTCATCCG
Statistics
Matches: 151, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 137 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25405973 original size:34 final size:32
Alignment explanation
Indices: 25405930--25405997 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
25405920 AATAAATCTC
*
25405930 TAGATGCATATATATAGTATATATAACAGAACCA
1 TAGAGGCATATATAT-GT-TATATAACAGAACCA
* *
25405964 TAGAGGCATATATATGTTATATAATAGGACCA
1 TAGAGGCATATATATGTTATATAACAGAACCA
25405996 TA
1 TA
25405998 TATGTATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 15 0.48
33 2 0.06
34 14 0.45
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (32 bp):
TAGAGGCATATATATGTTATATAACAGAACCA
Found at i:25412373 original size:34 final size:34
Alignment explanation
Indices: 25412335--25412401 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
25412325 AAACTACCTT
25412335 TAAATTAAAAATCCAATAAGAAAGCAAGAGCGGA
1 TAAATTAAAAATCCAATAAGAAAGCAAGAGCGGA
* * * * *
25412369 TAAATTAAAAGTCGAATACGGAAGCATGAGCGG
1 TAAATTAAAAATCCAATAAGAAAGCAAGAGCGG
25412402 TTGTATGGCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.16
Consensus pattern (34 bp):
TAAATTAAAAATCCAATAAGAAAGCAAGAGCGGA
Found at i:25413481 original size:43 final size:43
Alignment explanation
Indices: 25413420--25413505 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
25413410 ATGTCTCAAA
*
25413420 TTCGATATTTCAAGTAATAGCTCTAGCACTTTATTCTTTCCCT
1 TTCGATATTTCAAGTAATAGCTCTAACACTTTATTCTTTCCCT
*
25413463 TTCGATATTTCAGGTAATAGCTCTAACACTTTATTCTTTCCCT
1 TTCGATATTTCAAGTAATAGCTCTAACACTTTATTCTTTCCCT
25413506 ATACTTCTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.44
Consensus pattern (43 bp):
TTCGATATTTCAAGTAATAGCTCTAACACTTTATTCTTTCCCT
Found at i:25416211 original size:46 final size:46
Alignment explanation
Indices: 25416144--25416316 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
25416134 AACCCGCCCC
* *
25416144 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCA
* * * * *
25416190 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGT-TACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGTATCCA
* * * * *
25416236 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCA
25416283 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25416317 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.02
46 65 0.64
47 33 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCA
Found at i:25416256 original size:93 final size:93
Alignment explanation
Indices: 25416149--25416319 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
25416139 GCCCCTAAGT
* * * *
25416149 GAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
25416214 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
25416242 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25416307 CGAGTTCGGATGC
66 CGAGTTCGGATGC
25416320 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:25431415 original size:177 final size:176
Alignment explanation
Indices: 25431206--25431608 Score: 542
Period size: 177 Copynumber: 2.3 Consensus size: 176
25431196 CTCAATATAC
* * *
25431206 AAGTCTTATCTTCTTGAGGTAGAAAGGAAGCAGACTGAAGACTGAAGATCTTATCTCCCTAAGCA
1 AAGTATTATCTTC-TGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCA
* * *
25431271 GTAGTGGAGCAGATCG-AAGATGATGAATCTTATCTCCATGTATTGGA-AATGAAGCAGATTTTA
65 GTAGTGGAGCAGATCGAAAGA-GACGAATCTTATCTCCACGTA-TCGATAATGAAGCAGA-TTTA
* * *
25431334 A-CCACTAGCCTTATCTCTTTGAGGTAACAAGAGAGCAGGTTGAAGATTG
127 AGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGATTGAAGATTG
** * *
25431383 TGGTATTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTGTCTCCTTAAGCA
1 AAGTATTATC-TTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCA
* * * *
25431448 GTAGTGGAGTAGATCGAAAGAGGCGAATCTTATCTCTACGTATCGATAATGGAGCAGATTTAAGC
65 GTAGTGGAGCAGATCGAAAGAGACGAATCTTATCTCCACGTATCGATAATGAAGCAGATTTAAGC
** *
25431513 CACCAGCCTTATCTCTCTGAGGTAGTAAGAGAGTAGATTGAAGATTG
130 CACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGATTGAAGATTG
* *
25431560 AAGTCTTATCTTCCGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATC
1 AAGTATTATCTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATC
25431609 GAAGCAGACT
Statistics
Matches: 198, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
176 46 0.23
177 145 0.73
178 7 0.04
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (176 bp):
AAGTATTATCTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAAGAGACGAATCTTATCTCCACGTATCGATAATGAAGCAGATTTAAGCC
ACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGATTGAAGATTG
Found at i:25431598 original size:43 final size:44
Alignment explanation
Indices: 25431520--25431605 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
25431510 AGCCACCAGC
* * * *
25431520 CTTATCTCTCTGAGGTAGTAAGAGAGTAGATTGAAGATTGAAGT
1 CTTATCTCTCCGAGGTAGCAAGAGAGCAGACTGAAGATTGAAGT
25431564 CTTATCT-TCCGAGGTAGCAAG-GAAGCAGACTGAAGATTGAAG
1 CTTATCTCTCCGAGGTAGCAAGAG-AGCAGACTGAAGATTGAAG
25431606 ATCGAAGCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.03
43 29 0.78
44 7 0.19
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.27
Consensus pattern (44 bp):
CTTATCTCTCCGAGGTAGCAAGAGAGCAGACTGAAGATTGAAGT
Found at i:25431612 original size:24 final size:24
Alignment explanation
Indices: 25431585--25431632 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
25431575 AGGTAGCAAG
25431585 GAAGCAGACTGAAGATTGAAGATC
1 GAAGCAGACTGAAGATTGAAGATC
25431609 GAAGCAGACTGAAGATTGAAGATC
1 GAAGCAGACTGAAGATTGAAGATC
25431633 TTATCTCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.29, T:0.17
Consensus pattern (24 bp):
GAAGCAGACTGAAGATTGAAGATC
Found at i:25431766 original size:200 final size:200
Alignment explanation
Indices: 25431409--25431770 Score: 541
Period size: 200 Copynumber: 1.8 Consensus size: 200
25431399 AGGTAGCAAG
* * * *
25431409 GAAGCAGACTGAAGATTGAAGATCTTGTCTCCTTAAGCAGTAGTGGAGTAGATCGAAAGAGGCGA
1 GAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAAGAGGCGA
* * * *
25431474 ATCTTATCTCTACGTATCGATAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGT
66 ATCTTATCTCCACGTATCGATAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTAGT
* *
25431539 AAGAGAGTAGATTGAAGATTGAAGTCTTATCTTCCGAGGTAGCAAGGAAGCAGACTGAAGATTGA
131 AAGAGAGCAGATTCAAGATTGAAGTCTTATCTTCCGAGGTAGCAAGGAAGCAGACTGAAGATTGA
25431604 AGATC
196 AGATC
25431609 GAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAAGAGGCGA
1 GAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAAGAGGCGA
* * *
25431674 ATCTTATCTCCATGTATCGGTAATGGAGCAGATTTAAGCC-CCAAGACTTATCTCCCTGAAGTTG
66 ATCTTATCTCCACGTATCGATAATGGAGCAGATTTAAGCCACC-AGACTTATCTCCCTGAAGTAG
* *
25431738 -CAGTAGAGCAGGTTCAAGATAT-AAGTCTTATCT
130 TAAG-AGAGCAGATTCAAGAT-TGAAGTCTTATCT
25431771 CCTTAAGCAG
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
199 4 0.03
200 139 0.97
201 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (200 bp):
GAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAAGAGGCGA
ATCTTATCTCCACGTATCGATAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTAGT
AAGAGAGCAGATTCAAGATTGAAGTCTTATCTTCCGAGGTAGCAAGGAAGCAGACTGAAGATTGA
AGATC
Found at i:25431868 original size:132 final size:132
Alignment explanation
Indices: 25431631--25431873 Score: 303
Period size: 132 Copynumber: 1.8 Consensus size: 132
25431621 AGATTGAAGA
* *
25431631 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAAGAGGCGAATCTTATCTCCATGTATCGGTA
1 TCTTATCTCCCTAAGCAGTAGAGGAGCAGATAGAAAGAGGCGAATCTTATCTCCATGTATCGGCA
* ** * *
25431696 ATGGAGCAGATTTAAGCCCCAAGACTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTCAAGATATA
66 ATAGAGCAGATTTAAGCCCCAAGACCCATCTCCCTAAAGTTACAGTAGAGCAGGTTCAAGATATA
25431761 AG
131 AG
* * * * *
25431763 TCTTATCTCCTTAAGCAGTTGAGGAGCAGATCG-AGGATGGTGAATCTTATCTCCATGTATCGGC
1 TCTTATCTCCCTAAGCAGTAGAGGAGCAGATAGAAAGA-GGCGAATCTTATCTCCATGTATCGGC
* * *
25431827 AATAGAGTAGATTT-AGACCACC-AGTCCCATTTCCCTAAAGTTACAGT
65 AATAGAGCAGATTTAAG-CC-CCAAGACCCATCTCCCTAAAGTTACAGT
25431874 CGAGATTCAA
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
131 5 0.05
132 86 0.92
133 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (132 bp):
TCTTATCTCCCTAAGCAGTAGAGGAGCAGATAGAAAGAGGCGAATCTTATCTCCATGTATCGGCA
ATAGAGCAGATTTAAGCCCCAAGACCCATCTCCCTAAAGTTACAGTAGAGCAGGTTCAAGATATA
AG
Found at i:25431943 original size:42 final size:42
Alignment explanation
Indices: 25431884--25431964 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
25431874 CGAGATTCAA
*
25431884 CAAAATCGGGCAAAATTAGCCATATTTGAAGTCTTTGCTAAG
1 CAAAATAGGGCAAAATTAGCCATATTTGAAGTCTTTGCTAAG
*
25431926 CAAAATAGGGCAAAATTAGCCCTATTTGAAGTCTTTGCT
1 CAAAATAGGGCAAAATTAGCCATATTTGAAGTCTTTGCT
25431965 CTATTCTCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (42 bp):
CAAAATAGGGCAAAATTAGCCATATTTGAAGTCTTTGCTAAG
Found at i:25432061 original size:10 final size:10
Alignment explanation
Indices: 25432043--25432081 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
25432033 AAAAAAATAG
*
25432043 AAATTAAAAA
1 AAATAAAAAA
25432053 AAATAAAAAA
1 AAATAAAAAA
**
25432063 AAATAAATTA
1 AAATAAAAAA
25432073 AAATAAAAA
1 AAATAAAAA
25432082 CCAATAAGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:25432070 original size:24 final size:25
Alignment explanation
Indices: 25432032--25432080 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
25432022 CCGAGCCCCT
*
25432032 TAAAAAAATAGAAATTAAAA-AAAA
1 TAAAAAAAAAGAAATTAAAATAAAA
*
25432056 TAAAAAAAAATAAATTAAAATAAAA
1 TAAAAAAAAAGAAATTAAAATAAAA
25432081 ACCAATAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (25 bp):
TAAAAAAAAAGAAATTAAAATAAAA
Found at i:25433573 original size:203 final size:201
Alignment explanation
Indices: 25433223--25433626 Score: 503
Period size: 203 Copynumber: 2.0 Consensus size: 201
25433213 ATTTTAATTC
* * * *
25433223 TATTTTAATTGAGTTTTCTATTTGTATAACTTACTATTTTAAAATTCATTTAGTATTTTATATAT
1 TATTTTAATTGAGTTTTCTATTTGTATAACTTACTATTTTAAAATTCACTTAATATTTTATAAAA
* * * ***
25433288 ATGTGTTGAGTTATTTTAATAATTTTGCTTTGTTTTTATTTGTATAATTATTTTGAAATTCTTTT
66 ATGTGTTGAGCTATTTTAATAACTTTACTTTGTTTTTATTAAAATAATTATTTTGAAATTCTTTT
* * * * *
25433353 TTATATCATATTATTTTAACATTTTGTAG-AATATTTGGTTTAAATATTTTTTTATATATTTGTA
131 TCATATCATACTATTTTAACATTTTAT-GTAATATTTGGTTCAAATATTTTTATATATATTTGTA
25433417 CATATAT
195 CATATAT
* * *
25433424 TATTTTAATTGAGTTTTCTATTTGTA-ATACTTA-TTTTTTAAAAATTTACTTAATATTTTTTTA
1 TATTTTAATTGAGTTTTCTATTTGTATA-ACTTACTATTTT-AAAATTCACTTAATA-TTTTATA
*
25433487 AAAATTGTGTTGAGCTATTTTTAATAACTTTACTTTGTTTTTA-TAAAATCATTATTTT-AAAGT
63 AAAA-TGTGTTGAGCTA-TTTTAATAACTTTACTTTGTTTTTATTAAAATAATTATTTTGAAA-T
* * * *
25433550 TCTTTTTCATATCATACTATTTTAATATTTTATGTAATATTTTGTTCAAGTGTTTTTATATATAT
125 TCTTTTTCATATCATACTATTTTAACATTTTATGTAATATTTGGTTCAAATATTTTTATATATAT
25433615 TTGTACATATAT
190 TTGTACATATAT
25433627 AATTCATGGT
Statistics
Matches: 173, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
200 6 0.03
201 43 0.25
202 12 0.07
203 89 0.51
204 23 0.13
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (201 bp):
TATTTTAATTGAGTTTTCTATTTGTATAACTTACTATTTTAAAATTCACTTAATATTTTATAAAA
ATGTGTTGAGCTATTTTAATAACTTTACTTTGTTTTTATTAAAATAATTATTTTGAAATTCTTTT
TCATATCATACTATTTTAACATTTTATGTAATATTTGGTTCAAATATTTTTATATATATTTGTAC
ATATAT
Found at i:25438147 original size:48 final size:48
Alignment explanation
Indices: 25438095--25438192 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
25438085 GGCTAAAGAG
*
25438095 AAAGGGTGTATATGCGCATCAGAATCCACAATGAATGTCCCGAAAGTC
1 AAAGGGTGTATATGCGCATCAAAATCCACAATGAATGTCCCGAAAGTC
*
25438143 AAAGGGTGTATATGCGCGTCAAAATCCACAATGAATGTCCCGAAAGTC
1 AAAGGGTGTATATGCGCATCAAAATCCACAATGAATGTCCCGAAAGTC
25438191 AA
1 AA
25438193 TTATCCTGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (48 bp):
AAAGGGTGTATATGCGCATCAAAATCCACAATGAATGTCCCGAAAGTC
Found at i:25444740 original size:54 final size:54
Alignment explanation
Indices: 25444658--25444765 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
25444648 ACTTCAATGA
25444658 CGGCCCGACCCCGCAAAAATAGATGAGTCCAAGCAACCTATAGTGGGTGACAAG
1 CGGCCCGACCCCGCAAAAATAGATGAGTCCAAGCAACCTATAGTGGGTGACAAG
25444712 CGGCCCGACCCCGCAAAAATAGATGAGTCCAAGCAACCTATAGTGGGTGACAAG
1 CGGCCCGACCCCGCAAAAATAGATGAGTCCAAGCAACCTATAGTGGGTGACAAG
25444766 GAAACATCGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.33, C:0.28, G:0.26, T:0.13
Consensus pattern (54 bp):
CGGCCCGACCCCGCAAAAATAGATGAGTCCAAGCAACCTATAGTGGGTGACAAG
Found at i:25445039 original size:71 final size:71
Alignment explanation
Indices: 25444952--25445094 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 71
25444942 TTCTATATGC
*
25444952 TCATCAATAGGGCATTGAAGCAATCTCATAAATCGATTTATTTTCGTTACAATCAAACGACTATA
1 TCATCAATAGGACATTGAAGCAATCTCATAAATCGATTTATTTTCGTTACAATCAAACGACTATA
25445017 CGGCCT
66 CGGCCT
* *
25445023 TCATCAATAGGACATTGAAGCAATTTCATAAATCGATTTGTTTTCGTTACAATCAAACGACTATA
1 TCATCAATAGGACATTGAAGCAATCTCATAAATCGATTTATTTTCGTTACAATCAAACGACTATA
25445088 CGGCCT
66 CGGCCT
25445094 T
1 T
25445095 TCACCCATCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (71 bp):
TCATCAATAGGACATTGAAGCAATCTCATAAATCGATTTATTTTCGTTACAATCAAACGACTATA
CGGCCT
Found at i:25445326 original size:46 final size:46
Alignment explanation
Indices: 25445270--25445365 Score: 158
Period size: 46 Copynumber: 2.1 Consensus size: 46
25445260 CATAGTGTCC
* *
25445270 GTAATGATTCACGAATGTATATTGAGTCTGCACACTCAGTGCTATA
1 GTAATGATTCACGAATGTATATCGAGTCCGCACACTCAGTGCTATA
*
25445316 GTAATTATTCACGAATGTATATCGAGTCCGCACACTCAGTGCTATA
1 GTAATGATTCACGAATGTATATCGAGTCCGCACACTCAGTGCTATA
25445362 -TAAT
1 GTAAT
25445366 CAACTCGCAC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 4 0.09
46 43 0.91
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (46 bp):
GTAATGATTCACGAATGTATATCGAGTCCGCACACTCAGTGCTATA
Found at i:25445374 original size:27 final size:27
Alignment explanation
Indices: 25445344--25445521 Score: 153
Period size: 27 Copynumber: 6.6 Consensus size: 27
25445334 ATATCGAGTC
* *
25445344 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
25445371 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
25445398 TGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
25445426 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
25445453 CGCACACTTAGTGC-ATCATAGTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
25445480 CACACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
25445507 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
25445522 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25445486 original size:82 final size:81
Alignment explanation
Indices: 25445365--25445520 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
25445355 TGCTATATAA
* *
25445365 TCAACTCGCACACTTAGTGCTACATAATCAAATTGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATTACACACTTAGTGCAACATAGTCAAA-TCGCA
25445430 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * * *
25445447 TCAATTCGCACACTTAGTGC-ATCATAGTC-ATTTCACACACTTAGTGCAACATAGTCGAATCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATT-ACACACTTAGTGCAACATAGTCAAATCGC
*
25445510 ACCCTTAGTGC
64 ACACTTAGTGC
25445521 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATTACACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25455858 original size:79 final size:82
Alignment explanation
Indices: 25455747--25455931 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
25455737 GCTACTCGTT
* * * *
25455747 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGTCTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
25455811 GACT-TAGTAAC-TCGCA
66 GA-TATAGTAACTTAGCA
* **
25455827 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
25455890 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
25455907 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25455932 CATCGTTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:25455931 original size:40 final size:40
Alignment explanation
Indices: 25455728--25455931 Score: 213
Period size: 40 Copynumber: 5.1 Consensus size: 40
25455718 CGGAATTTAA
** *
25455728 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
25455768 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
25455808 CCGGACT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGA-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25455847 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
25455887 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
25455927 CCGGA
1 CCGGA
25455932 CATCGTTCAA
Statistics
Matches: 138, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 90 0.65
41 13 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:25471274 original size:87 final size:87
Alignment explanation
Indices: 25471163--25471327 Score: 294
Period size: 87 Copynumber: 1.9 Consensus size: 87
25471153 CTAGCTAACA
* *
25471163 TGCTACTTTGCCCATCTCTTACCCATATTGGTCCGTAAGCCCATTGGGCCTAGTTTTGGCCCATC
1 TGCTACTTTGCCCATCTCTTACCCATATTGGTCCGTAAGCCCATTGGGCCCAATTTTGGCCCATC
25471228 GAGGCCCCTTTTTCTGAAAAAT
66 GAGGCCCCTTTTTCTGAAAAAT
* *
25471250 TGCTACTTTGCCCATCTCTTACCCATATTGGTCCGTAAGCCTATTGGGCCCAATTTTGGCCTATC
1 TGCTACTTTGCCCATCTCTTACCCATATTGGTCCGTAAGCCCATTGGGCCCAATTTTGGCCCATC
25471315 GAGGCCCCTTTTT
66 GAGGCCCCTTTTT
25471328 TCAAAATACG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.35
Consensus pattern (87 bp):
TGCTACTTTGCCCATCTCTTACCCATATTGGTCCGTAAGCCCATTGGGCCCAATTTTGGCCCATC
GAGGCCCCTTTTTCTGAAAAAT
Found at i:25477463 original size:16 final size:16
Alignment explanation
Indices: 25477438--25477471 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25477428 TAGGGGCAAA
*
25477438 AATGTAATTTTTGTAT
1 AATGTAATTTTTGGAT
*
25477454 AATGTGATTTTTGGAT
1 AATGTAATTTTTGGAT
25477470 AA
1 AA
25477472 AAATAAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (16 bp):
AATGTAATTTTTGGAT
Found at i:25478005 original size:66 final size:67
Alignment explanation
Indices: 25477876--25478005 Score: 165
Period size: 66 Copynumber: 1.9 Consensus size: 67
25477866 GGGATGTATC
* *
25477876 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGATAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
25477941 AGGACA
62 AGGACA
* *
25477947 CCATGTAGACAAGAGAGATAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGATACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
25478006 TTCACCATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.17
68 1 0.02
71 20 0.37
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGATACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:25483369 original size:55 final size:55
Alignment explanation
Indices: 25483303--25483413 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
25483293 ACAGATGGTC
*
25483303 AGTCGAAAAGAGTAATCCAGGTACTCGAGGATATGCTTAGATGCTGTGTCTTAGA
1 AGTCGAAAAGAGTAATCCAGGTACTCAAGGATATGCTTAGATGCTGTGTCTTAGA
*
25483358 AGTCGAAAAGAGTAATCTAGGTACTCAAGGATATGCTTAGATGCTGTGTCTTAGA
1 AGTCGAAAAGAGTAATCCAGGTACTCAAGGATATGCTTAGATGCTGTGTCTTAGA
25483413 A
1 A
25483414 TTTGGAGGTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (55 bp):
AGTCGAAAAGAGTAATCCAGGTACTCAAGGATATGCTTAGATGCTGTGTCTTAGA
Found at i:25485562 original size:66 final size:67
Alignment explanation
Indices: 25485433--25485562 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 67
25485423 GGGATGTATC
*
25485433 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
25485498 AGGACA
62 AGGACA
* *
25485504 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
25485563 TTCACCATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.16
68 1 0.02
71 21 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:25488836 original size:43 final size:42
Alignment explanation
Indices: 25488704--25488864 Score: 123
Period size: 43 Copynumber: 3.8 Consensus size: 42
25488694 TGTGTTTTCG
* * * *
25488704 TGTAAGACCACATCTGGGACATTGGCATCG-ACTTATAATT-TA
1 TGTAAGACCACGTCTGGGACAGTGGCATCGTA-TT-TGATTACA
* * * * * *
25488746 TGTGTAGACCATGTCTAGGACA-TCGGTATCGTATTTGATTTCG
1 TGT-AAGACCACGTCTGGGACAGT-GGCATCGTATTTGATTACA
*
25488789 TGTAAGACC-CTGTCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATTTGATTACA
* *
25488832 TGTAAGACCACGTCTGGGACATTGGCATTGTAT
1 TGTAAGACCACGTCTGGGACAGTGGCATCGTAT
25488865 GAGCTTTCCA
Statistics
Matches: 93, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
42 30 0.32
43 61 0.66
44 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:25490344 original size:23 final size:23
Alignment explanation
Indices: 25490308--25490362 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
25490298 TTCTGATATG
**
25490308 TCCGGTGATGCCTTTAACCCTAT
1 TCCGGTGACACCTTTAACCCTAT
*
25490331 TTCGGTGACACCTTTAACCCTAT
1 TCCGGTGACACCTTTAACCCTAT
25490354 TCCGGTGAC
1 TCCGGTGAC
25490363 GTATGCGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (23 bp):
TCCGGTGACACCTTTAACCCTAT
Found at i:25508342 original size:42 final size:44
Alignment explanation
Indices: 25508277--25508405 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 44
25508267 TCCTACATGT
* * *
25508277 AATCAAATATCGATGTCATTGTCCCAAATAGGGTCTTACAC-AA
1 AATCAAATATCGATGCCAATGTCCCAAACAGGGTCTTACACGAA
* * * *
25508320 AATCATATA-CGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATATCGATGCCAATGTCCCAAACAGGGTCTTACACGAA
* * *
25508363 AATCACAA-ATCGATGCCAACGTCCCAGAC-GTGGTCTTAAACGA
1 AATCA-AATATCGATGCCAATGTCCCAAACAG-GGTCTTACACGA
25508406 TAACACATAT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
42 26 0.37
43 15 0.21
44 29 0.41
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (44 bp):
AATCAAATATCGATGCCAATGTCCCAAACAGGGTCTTACACGAA
Found at i:25508387 original size:44 final size:43
Alignment explanation
Indices: 25508246--25508400 Score: 127
Period size: 42 Copynumber: 3.6 Consensus size: 43
25508236 ATCTCGTACA
* * * * *
25508246 ATGCCAACATCCTAGACGTGGTCCTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAA-ATCG
* ** * * * * *
25508289 ATGTCATTGTCCCAAATAGGGTCTTACAC-AAAATC-ATATACG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAAAT-CG
*
25508331 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AAATCG
*
25508375 ATGCCAACGTCCCAGACGTGGTCTTA
1 ATGCCAACGTCCCAGACATGGTCTTA
25508401 AACGATAACA
Statistics
Matches: 85, Mismatches: 22, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
41 2 0.02
42 27 0.32
43 27 0.32
44 26 0.31
45 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAAATCG
Found at i:25512076 original size:31 final size:31
Alignment explanation
Indices: 25512035--25512098 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
25512025 CCTTTTCATA
*
25512035 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
25512066 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
25512097 TT
1 TT
25512099 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:25512344 original size:24 final size:24
Alignment explanation
Indices: 25512311--25512457 Score: 190
Period size: 24 Copynumber: 6.2 Consensus size: 24
25512301 GGCCTTGCCT
* *
25512311 CTTTTAATAACTGGGGCAAAATCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
25512335 CTTTTTATAACTGGAGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
25512359 C-TTTAATAACTAGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
25512382 CTGTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
25512406 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
25512430 C-TTTAATAACTGGAGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
25512453 CTTTT
1 CTTTT
25512458 TCACTTCCTC
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
23 40 0.38
24 66 0.62
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:25512395 original size:71 final size:71
Alignment explanation
Indices: 25512317--25512454 Score: 215
Period size: 71 Copynumber: 1.9 Consensus size: 71
25512307 GCCTCTTTTA
* * *
25512317 ATAACTGGGGCAAAATCCCTTTTTATAACTGGAGCATAAGCCCTTTAATAACTAGG-GCGTAAGC
1 ATAACTGGGGCAAAAGCCCTTTTGATAACTGGAGCATAAGCCCTTTAATAACT-GGAGCATAAGC
25512381 CCTGTTG
65 CCTGTTG
* *
25512388 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGAGCATAAGCC
1 ATAACTGGGGCAAAAGCCCTTTTGATAACTGGAGCATAAGCCCTTTAATAACTGGAGCATAAGCC
25512453 CT
66 CT
25512455 TTTTCACTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 2 0.03
71 59 0.97
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
ATAACTGGGGCAAAAGCCCTTTTGATAACTGGAGCATAAGCCCTTTAATAACTGGAGCATAAGCC
CTGTTG
Found at i:25512457 original size:47 final size:47
Alignment explanation
Indices: 25512311--25512457 Score: 197
Period size: 47 Copynumber: 3.1 Consensus size: 47
25512301 GGCCTTGCCT
* * *
25512311 CTTTTAATAACTGGGGCAAAATCCCTTTTTATAACTGGAGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGAGCATAAGCC
* * * *
25512359 C-TTTAATAACTAGGGCGTAAGCCCTGTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCT-TTAATAACTGGAGCATAAGCC
*
25512406 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGAGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGAGCATAAGCC
25512453 CTTTT
1 CTTTT
25512458 TCACTTCCTC
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
46 1 0.01
47 63 0.73
48 22 0.26
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGAGCATAAGCC
Found at i:25512532 original size:20 final size:20
Alignment explanation
Indices: 25512507--25512573 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
25512497 TTATGAATAC
25512507 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
25512527 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
25512547 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
25512567 ACCATGT
1 ATCATGT
25512574 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:25512538 original size:11 final size:11
Alignment explanation
Indices: 25512507--25512562 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
25512497 TTATGAATAC
25512507 ATCATGTGCAT
1 ATCATGTGCAT
*
25512518 ATCA--TACAT
1 ATCATGTGCAT
25512527 ATCATGTGCAT
1 ATCATGTGCAT
*
25512538 ATCA--TACAT
1 ATCATGTGCAT
*
25512547 GTCATGTGCAT
1 ATCATGTGCAT
25512558 ATCAT
1 ATCAT
25512563 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:25512656 original size:25 final size:25
Alignment explanation
Indices: 25512610--25512657 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
25512600 ATACATAAAC
* **
25512610 CCTAGGGGTATAATGGTAATTTTTA
1 CCTAGGGGTAAAACAGTAATTTTTA
*
25512635 CCTAGGGGTAAAACAGTCATTTT
1 CCTAGGGGTAAAACAGTAATTTT
25512658 CATGTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGTAAAACAGTAATTTTTA
Found at i:25516566 original size:27 final size:27
Alignment explanation
Indices: 25516536--25516713 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
25516526 ATATTGAGCC
* *
25516536 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
25516563 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
25516590 CGCACACTTAGTGGTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * **
25516618 CGCACACTTAGTGCCGCATGATCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
25516645 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
25516672 CACACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
25516699 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25516714 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 102 0.82
28 22 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25523573 original size:31 final size:31
Alignment explanation
Indices: 25523532--25523595 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
25523522 CCTTTTCATA
*
25523532 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
25523563 TTTCAAATTTCATATTATTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
25523594 TT
1 TT
25523596 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:25523846 original size:24 final size:23
Alignment explanation
Indices: 25523814--25523954 Score: 192
Period size: 24 Copynumber: 6.0 Consensus size: 23
25523804 GCCTCGTTTA
*
25523814 ATAACTGGGGCAAAAGCCCCTTTT
1 ATAACTGGGGCATAAG-CCCTTTT
* *
25523838 ATAATTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTT
*
25523861 ATAACTGGGGCGTAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
*
25523884 GATAACTCGGGCATAAGCCCTTTT
1 -ATAACTGGGGCATAAGCCCTTTT
*
25523908 GATAACTGGGGCATAAGCCCTTTA
1 -ATAACTGGGGCATAAGCCCTTTT
*
25523932 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
25523955 TCACTCCCTC
Statistics
Matches: 104, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
23 47 0.45
24 57 0.55
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTT
Found at i:25523864 original size:47 final size:46
Alignment explanation
Indices: 25523810--25523953 Score: 198
Period size: 47 Copynumber: 3.1 Consensus size: 46
25523800 CCTTGCCTCG
* * *
25523810 TTTAATAACTGGGGCAAAAGCCCCTTTTATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAG-CCCTTTTATAACTAGGGCATAAGCCC
* *
25523857 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTCGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTT-ATAACTAGGGCATAAGCCC
* *
25523904 TTTTGATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTATAACTAGGGCATAAGCCC
25523951 TTT
1 TTT
25523954 TTCACTCCCT
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
46 10 0.11
47 53 0.61
48 24 0.28
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTTATAACTAGGGCATAAGCCC
Found at i:25523902 original size:71 final size:71
Alignment explanation
Indices: 25523814--25523954 Score: 221
Period size: 71 Copynumber: 2.0 Consensus size: 71
25523804 GCCTCGTTTA
* * * *
25523814 ATAACTGGGGCAAAAGCCCCTTTT-ATAATTGGGGCATAAGCCCTTTAATAACTGGGGCGTAAGC
1 ATAACTCGGGCAAAAG-CCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGC
25523878 CCTTTTG
65 CCTTTTG
*
25523885 ATAACTCGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
1 ATAACTCGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
25523950 CTTTT
66 CTTTT
25523955 TCACTCCCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 7 0.11
71 57 0.89
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
ATAACTCGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
CTTTTG
Found at i:25524029 original size:20 final size:20
Alignment explanation
Indices: 25524004--25524050 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
25523994 TTATGAATAC
25524004 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
25524024 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
25524044 ACCATGT
1 ATCATGT
25524051 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:25524118 original size:25 final size:25
Alignment explanation
Indices: 25524086--25524136 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
25524076 CATACATAAA
* * *
25524086 ACCTAGGGGTATAATGGTCATTTTC
1 ACCTAGGGGCAAAACGGTCATTTTC
25524111 ACCTAGGGGCAAAACGGTCATTTTC
1 ACCTAGGGGCAAAACGGTCATTTTC
25524136 A
1 A
25524137 TGTTATAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (25 bp):
ACCTAGGGGCAAAACGGTCATTTTC
Found at i:25525274 original size:19 final size:19
Alignment explanation
Indices: 25525250--25525296 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
25525240 AAGAAGAAAT
25525250 AAGAGAAAAACTAAAACAA
1 AAGAGAAAAACTAAAACAA
25525269 AAGAGAAAAACTAAAACAA
1 AAGAGAAAAACTAAAACAA
25525288 AAGAGAAAA
1 AAGAGAAAA
25525297 CGGCACAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.74, C:0.09, G:0.13, T:0.04
Consensus pattern (19 bp):
AAGAGAAAAACTAAAACAA
Found at i:25539634 original size:6 final size:6
Alignment explanation
Indices: 25539604--25539796 Score: 110
Period size: 6 Copynumber: 31.3 Consensus size: 6
25539594 AAGAAACATT
* *
25539604 ATCAGA A-CTAGA ATCAAA ATTAGA ATCAGA ATCAGA ATCAG- ATGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
25539653 ATCAGA ATCAAA ATTAGA ATCAAA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * * * *
25539702 ATCAGGTA AT-AGA ATCAGA ATCAGA ATCAAA ATCAAA ATCAAA ATTAGGTG
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
25539753 AT-AGA ATCAAA ATCAGT ATCAAGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA AT
25539797 GTGAATGCAA
Statistics
Matches: 145, Mismatches: 25, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
5 11 0.08
6 114 0.79
7 12 0.08
8 8 0.06
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:25539654 original size:19 final size:19
Alignment explanation
Indices: 25539630--25539700 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
25539620 AAATTAGAAT
25539630 CAGAATCAGAATCAGATGA
1 CAGAATCAGAATCAGATGA
*
25539649 CAGAATCAGAATCA-A-AA
1 CAGAATCAGAATCAGATGA
* * * *
25539666 TTAGAATCAAAATTAGGTGA
1 -CAGAATCAGAATCAGATGA
25539686 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
25539701 TATCAGGTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
17 1 0.03
18 12 0.30
19 26 0.65
20 1 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATCAGATGA
Found at i:25539662 original size:31 final size:30
Alignment explanation
Indices: 25539625--25539796 Score: 91
Period size: 31 Copynumber: 5.6 Consensus size: 30
25539615 AATCAAAATT
*
25539625 AGAATCAGAATCAGAATCAGATGACAGAATC
1 AGAATCAGAATCAGAATCAGAT-AAAGAATC
* * * * * *
25539656 AGAATCAAAATTAGAATCAAAATTAGGTGA-C
1 AGAATCAGAATCAGAATC-AGATAAAG-AATC
* *
25539687 AGAATCAGAATCAGTATCAGGTAATAGAATC
1 AGAATCAGAATCAGAATCAGATAA-AGAATC
* * * *
25539718 AGAATCAGAATCAAAATCAAAATCAA-AATT
1 AGAATCAGAATCAGAATC-AGATAAAGAATC
* * *
25539748 AGGTGAT-AGAATCAAAATCAGTATCAAGTAA-C
1 A-G-AATCAGAATCAGAATCAG-ATAAAG-AATC
25539780 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
25539797 GTGAATGCAA
Statistics
Matches: 104, Mismatches: 26, Indels: 22
0.68 0.17 0.14
Matches are distributed among these distances:
30 11 0.11
31 81 0.78
32 10 0.10
33 2 0.02
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGATAAAGAATC
Found at i:25539672 original size:37 final size:37
Alignment explanation
Indices: 25539613--25539767 Score: 117
Period size: 37 Copynumber: 4.4 Consensus size: 37
25539603 TATCAGAACT
* * * *
25539613 AGAATCAAAATTAGAATCAGAATCAGAATCAGATGAC
1 AGAATCAGAATCAAAATCAGAATCAAAATCAGATGAC
* * *
25539650 AGAATCAGAATCAAAATTAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAAAATCAGAATCAAAATCAGATGAC
** *
25539687 AGAATCAGAATCAGTATCAG-GT---AAT-AGA--ATC
1 AGAATCAGAATCAAAATCAGAATCAAAATCAGATGA-C
* * * *
25539718 AGAATCAGAATCAAAATCAAAATCAAAATTAGGTGAT
1 AGAATCAGAATCAAAATCAGAATCAAAATCAGATGAC
*
25539755 AGAATCAAAATCA
1 AGAATCAGAATCA
25539768 GTATCAAGTA
Statistics
Matches: 91, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
30 1 0.01
31 18 0.20
32 3 0.03
33 3 0.03
35 3 0.03
36 3 0.03
37 59 0.65
38 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (37 bp):
AGAATCAGAATCAAAATCAGAATCAAAATCAGATGAC
Found at i:25539708 original size:25 final size:25
Alignment explanation
Indices: 25539680--25539793 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 25
25539670 AATCAAAATT
*
25539680 AGGTGACAGAATCAGAATCAGTATC
1 AGGTAACAGAATCAGAATCAGTATC
* *
25539705 AGGTAATAGAATCAGAATCAGAATC
1 AGGTAACAGAATCAGAATCAGTATC
* *
25539730 A--AAATCAAAATCA-AA--A-T-T-
1 AGGTAA-CAGAATCAGAATCAGTATC
* * *
25539748 AGGTGATAGAATCAAAATCAGTATC
1 AGGTAACAGAATCAGAATCAGTATC
*
25539773 AAGTAACAGAATCAGAATCAG
1 AGGTAACAGAATCAGAATCAG
25539794 AATGTGAATG
Statistics
Matches: 65, Mismatches: 15, Indels: 18
0.66 0.15 0.18
Matches are distributed among these distances:
18 1 0.02
19 7 0.11
20 3 0.05
21 1 0.02
22 1 0.02
23 5 0.08
24 7 0.11
25 40 0.62
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (25 bp):
AGGTAACAGAATCAGAATCAGTATC
Found at i:25539722 original size:62 final size:62
Alignment explanation
Indices: 25539625--25539792 Score: 210
Period size: 68 Copynumber: 2.6 Consensus size: 62
25539615 AATCAAAATT
* * * * *
25539625 AGAATCAGAATCAGAATCAGATGACAGAATCAGAATCAAAATTAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGAC
25539687 AGAATCAGAATCAGTATCAGGTAATAGAATCAGAATCAGAATCAAAATCAAAATCAAAATTAGGT
1 AGAATCAGAATCAGTATCAGG---T--AA-CAGAATCAGAATCAAAATCAAAATCAAAATTAGGT
*
25539752 GAT
60 GAC
* *
25539755 AGAATCAAAATCAGTATCAAGTAACAGAATCAGAATCA
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCA
25539793 GAATGTGAAT
Statistics
Matches: 92, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
62 33 0.36
63 2 0.02
65 2 0.02
67 1 0.01
68 54 0.59
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGAC
Found at i:25539734 original size:68 final size:68
Alignment explanation
Indices: 25539649--25539796 Score: 242
Period size: 68 Copynumber: 2.2 Consensus size: 68
25539639 AATCAGATGA
* * * * *
25539649 CAGAATCAGAATCAAAATTAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAATAG
1 CAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGACAGAATCAAAATCAGTATCAAGTAACAG
25539714 AAT
66 AAT
*
25539717 CAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGATAGAATCAAAATCAGTATCAAGTAACAG
1 CAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGACAGAATCAAAATCAGTATCAAGTAACAG
25539782 AAT
66 AAT
25539785 CAGAATCAGAAT
1 CAGAATCAGAAT
25539797 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.21
Consensus pattern (68 bp):
CAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGACAGAATCAAAATCAGTATCAAGTAACAG
AAT
Found at i:25539953 original size:27 final size:26
Alignment explanation
Indices: 25539923--25539999 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 26
25539913 GGCAGAGCAG
* *
25539923 ATATTGTGACAGAGTCACCAGATACAA
1 ATATTGTGACAAAGCCACCAGA-ACAA
* *
25539950 ATATTGTGGCAAAGCCACCAGAACAT
1 ATATTGTGACAAAGCCACCAGAACAA
* * *
25539976 ATATTTTTGGCATAGCCACCAGAA
1 ATA-TTGTGACAAAGCCACCAGAA
25540000 ACAGATAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.14
27 37 0.86
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (26 bp):
ATATTGTGACAAAGCCACCAGAACAA
Found at i:25540021 original size:27 final size:27
Alignment explanation
Indices: 25539938--25540021 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
25539928 GTGACAGAGT
* *
25539938 CACCAGATACAAATATTGTGGCAAAGC
1 CACCAGAAACAAATATTGTTGCAAAGC
* * *
25539965 CACCAG-AACATATATTTTTGGCATAGC
1 CACCAGAAACAAATATTGTT-GCAAAGC
* * *
25539992 CACCAGAAACAGATAATGTTGCAAATC
1 CACCAGAAACAAATATTGTTGCAAAGC
25540019 CAC
1 CAC
25540022 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 9 0.20
27 26 0.58
28 10 0.22
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.21
Consensus pattern (27 bp):
CACCAGAAACAAATATTGTTGCAAAGC
Found at i:25542280 original size:18 final size:18
Alignment explanation
Indices: 25542200--25542280 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
25542190 AAGAAACATT
* * *
25542200 ATCAGAACTAGAAACAAA
1 ATCAGAATTAGAATCAGA
*
25542218 ATGAGAATTAGAATCAGA
1 ATCAGAATTAGAATCAGA
* * * *
25542236 ATCATAAATAAAATTAG-
1 ATCAGAATTAGAATCAGA
*
25542253 GTGACAGAATTAGAATCAGA
1 AT--CAGAATTAGAATCAGA
25542273 ATCAGAAT
1 ATCAGAAT
25542281 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
17 1 0.02
18 32 0.71
19 11 0.24
20 1 0.02
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.21
Consensus pattern (18 bp):
ATCAGAATTAGAATCAGA
Found at i:25542452 original size:27 final size:26
Alignment explanation
Indices: 25542398--25542498 Score: 94
Period size: 27 Copynumber: 3.8 Consensus size: 26
25542388 AGCATGGCTG
*** **
25542398 CCAGAACAGATATTGTAATAGAGTCA
1 CCAGAACAGATATTGTGGCAGAACCA
25542424 CCAGATACAGATATTGTGGCAGAACCA
1 CCAGA-ACAGATATTGTGGCAGAACCA
* * *
25542451 CCAGAACAGATATTTGTGGCATAGCAA
1 CCAGAACAGATA-TTGTGGCAGAACCA
*
25542478 CCAGAAACAGATAATGTGGCA
1 CCAG-AACAGATATTGTGGCA
25542499 AAGCCATTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.19
27 43 0.68
28 8 0.13
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAACCA
Found at i:25543177 original size:27 final size:27
Alignment explanation
Indices: 25543118--25543256 Score: 154
Period size: 27 Copynumber: 5.2 Consensus size: 27
25543108 GGCAAAATGG
* * *
25543118 TAATTTTACCCCACAAGGGTA-TTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
25543144 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
25543171 TATTTCTACCCTACTAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * * *
25543198 TAATTCTATCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
25543225 TAATTCTACCTTACAAGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
25543252 TAATT
1 TAATT
25543257 TTGTAAATCG
Statistics
Matches: 95, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 18 0.19
27 77 0.81
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:25543216 original size:54 final size:54
Alignment explanation
Indices: 25543120--25543256 Score: 170
Period size: 54 Copynumber: 2.6 Consensus size: 54
25543110 CAAAATGGTA
* * **
25543120 ATTT-TACCCCACAAGGGTA-TTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAAT
* * *
25543172 ATTTCTACCCTACTAGGGTATTTCGATAATTCTATCCTATAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAAT
* * *
25543226 AATTCTACCTTACAAGGGTATTTCAATAATT
1 ATTTCTACCCTACAAGGGTATTTCGATAATT
25543257 TTGTAAATCG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 4 0.06
53 13 0.18
54 55 0.76
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAAT
Found at i:25545347 original size:6 final size:6
Alignment explanation
Indices: 25545317--25545416 Score: 64
Period size: 6 Copynumber: 16.3 Consensus size: 6
25545307 AAGAAACATT
* * *
25545317 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
25545365 ATTATGTG A-CAGA ATCAGA ATCAGTA AT-AGGTA A-CAGA CTCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAG-A ATCA-G-A ATCAGA ATCAGA ATCAGA
25545415 AT
1 AT
25545417 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
5 3 0.04
6 60 0.80
7 11 0.15
8 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:25545380 original size:25 final size:25
Alignment explanation
Indices: 25545349--25545416 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
25545339 GAATCAGAAT
* * *
25545349 CAGAATCAGAATTAGAATTATGTGA
1 CAGAATCAGAATCAGAATTAGGTAA
25545374 CAGAATCAGAATCAGTAA-TAGGTAA
1 CAGAATCAGAATCAG-AATTAGGTAA
*
25545399 CAGACTCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
25545417 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 33 0.89
26 2 0.05
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Done.