Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 56 of 199
Found at i:21924743 original size:12 final size:12
Alignment explanation
Indices: 21924728--21924759 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21924718 TCAGGTTATT
21924728 ACACGGCCTGGC
1 ACACGGCCTGGC
*
21924740 ACACGGTCTGGC
1 ACACGGCCTGGC
21924752 ACACGGCC
1 ACACGGCC
21924760 GTGTGACCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.41, G:0.31, T:0.09
Consensus pattern (12 bp):
ACACGGCCTGGC
Found at i:21928015 original size:18 final size:18
Alignment explanation
Indices: 21927992--21928037 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
21927982 TTTTAATAAT
*
21927992 TATTTTTA-TTTTTTGTG
1 TATTTTTATTTTTTTATG
21928009 TATTTTTATTTTTTTATG
1 TATTTTTATTTTTTTATG
*
21928027 TATTTTAATTT
1 TATTTTTATTT
21928038 ATATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (18 bp):
TATTTTTATTTTTTTATG
Found at i:21930016 original size:21 final size:21
Alignment explanation
Indices: 21929990--21930030 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21929980 TGGGTGAATC
* *
21929990 AGCTCTTATGAGCTTCTGTTA
1 AGCTCTCACGAGCTTCTGTTA
21930011 AGCTCTCACGAGCTTCTGTT
1 AGCTCTCACGAGCTTCTGTT
21930031 CAACTTTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (21 bp):
AGCTCTCACGAGCTTCTGTTA
Found at i:21935667 original size:14 final size:14
Alignment explanation
Indices: 21935645--21935687 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
21935635 TGAATAAAGG
* *
21935645 AATACTATAATACT
1 AATAATATAATAAT
21935659 AATAATATAATAAT
1 AATAATATAATAAT
*
21935673 AATAAGATTAATAAT
1 AATAATA-TAATAAT
21935688 CACGTCATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:21935920 original size:4 final size:4
Alignment explanation
Indices: 21935911--21935952 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
21935901 ATAAAAATAA
* *
21935911 AAAT AAAT AAGT -AAT AAAT GAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
21935953 ATTTTGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 2 0.06
4 31 0.94
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:21937642 original size:42 final size:42
Alignment explanation
Indices: 21937583--21937666 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
21937573 CTATATACAC
* * * *
21937583 CACACGGCTGGGACACATGCCCGTGTCCTTGTACGTGTGGTT
1 CACACGGCTAGGACACATGCCCATGTCCTTGCACGTATGGTT
* *
21937625 CACACGGCCTAGG-CACATGTCTATGTCCTTGCACGTATGGTT
1 CACACGG-CTAGGACACATGCCCATGTCCTTGCACGTATGGTT
21937667 TTAAAGCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (42 bp):
CACACGGCTAGGACACATGCCCATGTCCTTGCACGTATGGTT
Found at i:21939261 original size:3 final size:3
Alignment explanation
Indices: 21939253--21939337 Score: 75
Period size: 3 Copynumber: 27.3 Consensus size: 3
21939243 ATATATAAGT
* * *
21939253 ATA ATA ATA TTA ATA TGTA AT- ATA ATA ATAA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
*
21939299 ATA CAGTA ATA ATA ACA ATA ATA ATA ATTA AT- ATA ATA A
1 ATA -A-TA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA A
21939338 AATTAATGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
2 4 0.06
3 51 0.76
4 10 0.15
5 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:21939343 original size:14 final size:15
Alignment explanation
Indices: 21939316--21939353 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
21939306 AATAATAACA
21939316 ATAATAATAATTAAT-
1 ATAATAA-AATTAATG
21939331 ATAATAAAATTAATG
1 ATAATAAAATTAATG
21939346 AT-ATAAAA
1 ATAATAAAA
21939354 GAAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
ATAATAAAATTAATG
Found at i:21940490 original size:50 final size:50
Alignment explanation
Indices: 21940430--21941260 Score: 425
Period size: 50 Copynumber: 16.6 Consensus size: 50
21940420 CACCGCTAAA
* * * * ** *
21940430 GAAATAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTGTGCTGTCGGG
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
** * * * *
21940480 GAAATCAGATCCGTTGTTGTGACTTTAATCTTTTTAATTGCGCTGTCGGG
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
** * * *
21940530 GAAA-CTAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGG
1 GAAATC-AGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
* * ** * * * *
21940580 GAAGTAAGATCTACCGTTGTGGCTTCAATCCTTTT-AATTACGCTGTCGGG
1 GAAATCAGATCCGCCGTTGTGACTTCAAT-CTTTTCAATTGCACTGTCAGG
** * ** * * * * * *
21940630 GAAA-CTAGATCCGTTGTCGTGACTTCAATCTGCTCCACTACACCGCCAGA
1 GAAATC-AGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
* * ** * * * *
21940680 GAAGTAAGATCTACCGTTGTGGCTTCAATCTTTTAAATTGCGCTGTCGGG
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
* ** ** * * * * * *
21940730 GAAACCAGATCCGTTGTTGTGACTTCAATCTGCTCCACTACACCGCCAGA
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
* * * * * * **
21940780 GAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTAAATTGCGCTGTTGGG
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
* ** * * * *
21940830 GAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGG
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
* * * * * **
21940880 GAAGTAAGATCTGCCGTTGTGGCTTCAATCCTTTTAAATTGTGCTGTC-GAG
1 GAAATCAGATCCGCCGTTGTGACTTCAAT-CTTTTCAATTGCACTGTCAG-G
* * * ** * * * * *
21940931 GAAACCAGATCTGCCGATGTGACTTCAATCTGCTCCACTACACCGCCAGG
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
* * * * *
21940981 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACACTGTC-GAG
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAG-G
* ** * * * *
21941031 GAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGG
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
* * * ** * * *
21941081 GAAGTAAGATTCATCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGG
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
* * * *** * *
21941131 GAAACCAGATCCGTCGTTGTGACTTCAAT-TTGCTCCGCTGCACCGCCAGG
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTT-TTCAATTGCACTGTCAGG
* * * * ** *
21941181 GAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTT-AATTGTGCTGTCGGG
1 GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
* *
21941230 GAAACCAGATCCGCCATTGTGACTTCAATCT
1 GAAATCAGATCCGCCGTTGTGACTTCAATCT
21941261 GCTTCGCTAC
Statistics
Matches: 544, Mismatches: 224, Indels: 27
0.68 0.28 0.03
Matches are distributed among these distances:
49 39 0.07
50 464 0.85
51 41 0.08
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (50 bp):
GAAATCAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCACTGTCAGG
Found at i:21940556 original size:100 final size:100
Alignment explanation
Indices: 21940495--21941263 Score: 797
Period size: 100 Copynumber: 7.7 Consensus size: 100
21940485 CAGATCCGTT
* * *
21940495 GTTGTGACTTTAATCTTTTTAATTGCGCTGTCGGGGAAACTAGATCCGCCGTTGTGACTTCAATC
1 GTTGTGACTTCAATCCTTTTAATTACGCTGTCGGGGAAACTAGATCCGCCGTTGTGACTTCAATC
* * *
21940560 TGCTCCACTGCACTGCCAGGGAAGTAAGATCTACC
66 TGCTCAACTGCACTGCCAGGGAAATAAGATCCACC
* ** *
21940595 GTTGTGGCTTCAATCCTTTTAATTACGCTGTCGGGGAAACTAGATCCGTTGTCGTGACTTCAATC
1 GTTGTGACTTCAATCCTTTTAATTACGCTGTCGGGGAAACTAGATCCGCCGTTGTGACTTCAATC
* * * * * *
21940660 TGCTCCACTACACCGCCAGAGAAGTAAGATCTACC
66 TGCTCAACTGCACTGCCAGGGAAATAAGATCCACC
* * * **
21940695 GTTGTGGCTTCAAT-CTTTTAAATTGCGCTGTCGGGGAAACCAGATCCGTTGTTGTGACTTCAAT
1 GTTGTGACTTCAATCCTTTT-AATTACGCTGTCGGGGAAACTAGATCCGCCGTTGTGACTTCAAT
* * * * * **
21940759 CTGCTCCACTACACCGCCAGAGAAGTAAGATCTGCC
65 CTGCTCAACTGCACTGCCAGGGAAATAAGATCCACC
* * * *
21940795 GTTGTGGCTTCAAT-CTTTTAAATTGCGCTGTTGGGGAAACCAGATCCGCCGTTGTGACTTCAAT
1 GTTGTGACTTCAATCCTTTT-AATTACGCTGTCGGGGAAACTAGATCCGCCGTTGTGACTTCAAT
* * * **
21940859 CTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCC
65 CTGCTCAACTGCACTGCCAGGGAAATAAGATCCACC
* ** * * * *
21940895 GTTGTGGCTTCAATCCTTTTAAATTGTGCTGTCGAGGAAACCAGATCTGCCGATGTGACTTCAAT
1 GTTGTGACTTCAATCCTTTT-AATTACGCTGTCGGGGAAACTAGATCCGCCGTTGTGACTTCAAT
* * * * *
21940960 CTGCTCCACTACACCGCCAGGGAAGTAAGATCCGCC
65 CTGCTCAACTGCACTGCCAGGGAAATAAGATCCACC
* * * * *
21940996 GTTGTGGCTTCAATCTTTTTAATTACACTGTCGAGGAAACCAGATCCGCCGTTGTGACTTCAATC
1 GTTGTGACTTCAATCCTTTTAATTACGCTGTCGGGGAAACTAGATCCGCCGTTGTGACTTCAATC
* * * * *
21941061 TGCTCCACTGCACCGCCAGGGAAGTAAGATTCATC
66 TGCTCAACTGCACTGCCAGGGAAATAAGATCCACC
* * * * * * *
21941096 GTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATCCGTCGTTGTGACTTCAATT
1 GTTGTGACTTCAATCCTTTTAATTACGCTGTCGGGGAAACTAGATCCGCCGTTGTGACTTCAATC
** * * **
21941161 TGCTCCGCTGCACCGCCAGGGAAGTAAGATCTGCC
66 TGCTCAACTGCACTGCCAGGGAAATAAGATCCACC
* ** * *
21941196 GTTGTGGCTTCAAT-CTTTTAATTGTGCTGTCGGGGAAACCAGATCCGCCATTGTGACTTCAATC
1 GTTGTGACTTCAATCCTTTTAATTACGCTGTCGGGGAAACTAGATCCGCCGTTGTGACTTCAATC
21941260 TGCT
66 TGCT
21941264 TCGCTACAAC
Statistics
Matches: 614, Mismatches: 53, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
99 53 0.09
100 463 0.75
101 98 0.16
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (100 bp):
GTTGTGACTTCAATCCTTTTAATTACGCTGTCGGGGAAACTAGATCCGCCGTTGTGACTTCAATC
TGCTCAACTGCACTGCCAGGGAAATAAGATCCACC
Found at i:21942580 original size:15 final size:15
Alignment explanation
Indices: 21942560--21942606 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
21942550 CCCTAGCCTC
21942560 TCCATTTTTACTTTT
1 TCCATTTTTACTTTT
21942575 TCCATTTTT-CATTTT
1 TCCATTTTTAC-TTTT
* *
21942590 TCTATTTTTATTTTT
1 TCCATTTTTACTTTT
21942605 TC
1 TC
21942607 ACATCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 27 0.96
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCCATTTTTACTTTT
Found at i:21947267 original size:2 final size:2
Alignment explanation
Indices: 21947262--21947288 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21947252 ATATGAAAAA
21947262 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21947289 ATGCGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21947564 original size:3 final size:3
Alignment explanation
Indices: 21947556--21947640 Score: 75
Period size: 3 Copynumber: 27.3 Consensus size: 3
21947546 ATATAAAAGT
* * *
21947556 ATA ATA ATA TTA ATA TGTA AT- ATA ATA ATAA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
*
21947602 ATA CAGTA ATA ATA ACA ATA ATA ATA ATTA AT- ATA ATA A
1 ATA -A-TA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA A
21947641 AATTAATGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
2 4 0.06
3 51 0.76
4 10 0.15
5 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:21947571 original size:28 final size:28
Alignment explanation
Indices: 21947538--21947640 Score: 79
Period size: 29 Copynumber: 3.6 Consensus size: 28
21947528 ATGCGTATAT
*
21947538 ATATATATATATAA-AAGTATAATAATATTA
1 ATATATA-ATATAATAA-TA-AATAATACTA
*
21947568 ATATGTAATATAATAATAAATAATACTA
1 ATATATAATATAATAATAAATAATACTA
* *
21947596 ATA-ATAATACAGTAATAAT-AACAATAATA
1 ATATATAAT--A-TAATAATAAATAATACTA
21947625 ATA-ATTAATATAATAA
1 ATATA-TAATATAATAA
21947641 AATTAATGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
27 10 0.16
28 13 0.21
29 21 0.33
30 19 0.30
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (28 bp):
ATATATAATATAATAATAAATAATACTA
Found at i:21947646 original size:14 final size:15
Alignment explanation
Indices: 21947619--21947656 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
21947609 AATAATAACA
21947619 ATAATAATAATTAAT-
1 ATAATAA-AATTAATG
21947634 ATAATAAAATTAATG
1 ATAATAAAATTAATG
21947649 AT-ATAAAA
1 ATAATAAAA
21947657 GAAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
ATAATAAAATTAATG
Found at i:21948210 original size:21 final size:21
Alignment explanation
Indices: 21948177--21948228 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
21948167 TATTTTTTAC
*
21948177 AAAAAAAACAACAG-AAAAATG
1 AAAAAAAA-AACAGTAAAAAGG
21948198 AAAACAAAAAACAGTAAAAAGG
1 AAAA-AAAAAACAGTAAAAAGG
21948220 AAAAAAAAA
1 AAAAAAAAA
21948229 TGGAGAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.79, C:0.08, G:0.10, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAACAGTAAAAAGG
Found at i:21952392 original size:82 final size:81
Alignment explanation
Indices: 21952276--21952431 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
21952266 AAATTGTACA
* * * *
21952276 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
21952340 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21952357 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
21952422 TGCGAGTTGA
65 TGCGAATTGA
21952432 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21952399 original size:55 final size:52
Alignment explanation
Indices: 21952275--21952428 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
21952265 TAAATTGTAC
* *
21952275 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
21952328 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
21952383 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
21952429 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:21952433 original size:27 final size:27
Alignment explanation
Indices: 21952276--21952431 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
21952266 AAATTGTACA
*
21952276 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
21952303 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
21952330 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
21952357 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
21952385 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
21952412 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
21952432 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:21952442 original size:27 final size:27
Alignment explanation
Indices: 21952268--21952452 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
21952258 GCGGGATTAA
*
21952268 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
21952295 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
21952322 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
21952349 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
21952377 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
21952404 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
21952431 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
21952453 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:21952443 original size:82 final size:81
Alignment explanation
Indices: 21952268--21952452 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
21952258 GCGGGATTAA
* * * *
21952268 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
21952333 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
21952349 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
21952413 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
21952431 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
21952453 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:21960469 original size:82 final size:81
Alignment explanation
Indices: 21960353--21960508 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
21960343 AAATTGTACA
* * * *
21960353 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
21960417 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21960434 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
21960499 TGCGAGTTGA
65 TGCGAATTGA
21960509 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21960476 original size:55 final size:52
Alignment explanation
Indices: 21960352--21960505 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
21960342 TAAATTGTAC
* *
21960352 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
21960405 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
21960460 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
21960506 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:21960510 original size:27 final size:27
Alignment explanation
Indices: 21960353--21960508 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
21960343 AAATTGTACA
*
21960353 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
21960380 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
21960407 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
21960434 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
21960462 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
21960489 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
21960509 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:21960519 original size:27 final size:27
Alignment explanation
Indices: 21960345--21960529 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
21960335 GCGGGATTAA
*
21960345 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
21960372 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
21960399 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
21960426 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
21960454 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
21960481 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
21960508 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
21960530 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:21960520 original size:82 final size:81
Alignment explanation
Indices: 21960345--21960529 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
21960335 GCGGGATTAA
* * * *
21960345 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
21960410 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
21960426 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
21960490 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
21960508 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
21960530 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:21963015 original size:50 final size:49
Alignment explanation
Indices: 21962959--21963097 Score: 145
Period size: 50 Copynumber: 2.8 Consensus size: 49
21962949 ATTAGGGGAT
*
21962959 GAGATCCCATGTAAGACCATGTCTAGGATATGGCGTTGGCACCGAGATGA
1 GAGATCCCATGTAAGACCATGTCT-GGATATGGCATTGGCACCGAGATGA
*** * * *
21963009 GAGATCCCCCATAAGACCATGTCTGCGACATGGCATGGGCACCGATATGA
1 GAGATCCCATGTAAGACCATGTCTG-GATATGGCATTGGCACCGAGATGA
* * *
21963059 GA-ACTCCTATGTAAGACCATATTTGGGATATGGCATTGG
1 GAGA-TCCCATGTAAGACCATGTCT-GGATATGGCATTGG
21963098 TAGTACAGGA
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
49 2 0.03
50 68 0.96
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
GAGATCCCATGTAAGACCATGTCTGGATATGGCATTGGCACCGAGATGA
Found at i:21969275 original size:15 final size:15
Alignment explanation
Indices: 21969242--21969284 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21969232 GTTAAAAATA
21969242 TAAAATATAAAATTC
1 TAAAATATAAAATTC
* * *
21969257 TAAAATATATATTTT
1 TAAAATATAAAATTC
21969272 TAAAA-ATAAAATT
1 TAAAATATAAAATT
21969285 ATTATATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAATATAAAATTC
Found at i:21969644 original size:21 final size:21
Alignment explanation
Indices: 21969589--21969644 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
21969579 ACATGGATGG
* *
21969589 TCAACAATGGTCCACGGTCGA
1 TCAACAATGGTCAACAGTCGA
* * *
21969610 TCAAC-GTCGATCAACAGTCTA
1 TCAACAAT-GGTCAACAGTCGA
21969631 TCAACAATGGTCAA
1 TCAACAATGGTCAA
21969645 TGTCGGTCAA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (21 bp):
TCAACAATGGTCAACAGTCGA
Found at i:21970431 original size:28 final size:27
Alignment explanation
Indices: 21970385--21970461 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
21970375 AAAAATTTTA
*
21970385 TATTTATATTTTTTGAATTTTTAATAAT
1 TATTTATATTTTAT-AATTTTTAATAAT
* *
21970413 TATTTATATTTTAATAATTTCTATTAAT
1 TATTTATATTTT-ATAATTTTTAATAAT
*
21970441 T-TTGTA-ATTTTATGATTTTTA
1 TATT-TATATTTTATAATTTTTA
21970462 GAAATATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 8 0.19
27 7 0.17
28 26 0.62
29 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (27 bp):
TATTTATATTTTATAATTTTTAATAAT
Found at i:21970506 original size:20 final size:20
Alignment explanation
Indices: 21970455--21970506 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
21970445 TAATTTTATG
*
21970455 ATTTTTAGA-AATATTTAAT
1 ATTTTTAAATAATATTTAAT
* * **
21970474 AATATTATTTAATATTTAAT
1 ATTTTTAAATAATATTTAAT
21970494 ATTTTTAAATAAT
1 ATTTTTAAATAAT
21970507 TGCTAATAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTTTAAATAATATTTAAT
Found at i:21970657 original size:20 final size:21
Alignment explanation
Indices: 21970624--21970663 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
21970614 TAAAATAAAA
*
21970624 TTTTAGAATATTTTATTAATT
1 TTTTAAAATATTTTATTAATT
*
21970645 TTTTAAAAT-TTTTGTTAAT
1 TTTTAAAATATTTTATTAAT
21970664 GTGACATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTAAAATATTTTATTAATT
Found at i:21975220 original size:2 final size:2
Alignment explanation
Indices: 21975213--21975238 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21975203 GGCTAACATC
21975213 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21975239 TAATTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21976819 original size:22 final size:22
Alignment explanation
Indices: 21976791--21976832 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
21976781 TATATTAAAC
*
21976791 CATGTATTTATTTGATTGATGA
1 CATGTATTTATTTAATTGATGA
21976813 CATGTATTTATTTAATTGAT
1 CATGTATTTATTTAATTGAT
21976833 ATGTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (22 bp):
CATGTATTTATTTAATTGATGA
Found at i:21982657 original size:2 final size:2
Alignment explanation
Indices: 21982650--21982675 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21982640 TGCACCCATA
21982650 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21982676 CAACCACCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21982849 original size:41 final size:41
Alignment explanation
Indices: 21982804--21982909 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
21982794 ACTGGCAATT
* *
21982804 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* *
21982845 AGCCTGCTAGACGTATAGTCAGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
21982886 AGCCTACTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
21982910 TTATCTCATT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:21993621 original size:20 final size:20
Alignment explanation
Indices: 21993584--21993623 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21993574 AATATGGGTA
* *
21993584 AATTATATAGATAGTCATTT
1 AATTATATAAAAAGTCATTT
*
21993604 AATTATATAAAAATTCATTT
1 AATTATATAAAAAGTCATTT
21993624 TAGGCACTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
AATTATATAAAAAGTCATTT
Found at i:22002955 original size:11 final size:11
Alignment explanation
Indices: 22002939--22002963 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22002929 TTACTTTATG
22002939 AATGCCAGAGA
1 AATGCCAGAGA
22002950 AATGCCAGAGA
1 AATGCCAGAGA
22002961 AAT
1 AAT
22002964 TTTCCACGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.24, T:0.12
Consensus pattern (11 bp):
AATGCCAGAGA
Found at i:22006278 original size:22 final size:22
Alignment explanation
Indices: 22006261--22006324 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
22006251 TATTAAATAT
22006261 ATATATTTTTATTTTTAATCAA
1 ATATATTTTTATTTTTAATCAA
22006283 ATATATTTTTATTTTTAATCAA
1 ATATATTTTTATTTTTAATCAA
*
22006305 ATATATTTTTTGTTTTTAAT
1 ATATA-TTTTTATTTTTAAT
22006325 TTAGATTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
22 27 0.68
23 13 0.32
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (22 bp):
ATATATTTTTATTTTTAATCAA
Found at i:22010038 original size:10 final size:10
Alignment explanation
Indices: 22010025--22010053 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
22010015 TTTCTGCTTG
22010025 TTTATTTTAT
1 TTTATTTTAT
22010035 TTTATTTTA-
1 TTTATTTTAT
22010044 TTTATTTTAT
1 TTTATTTTAT
22010054 CTTTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:22010049 original size:4 final size:5
Alignment explanation
Indices: 22010025--22010053 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
22010015 TTTCTGCTTG
22010025 TTTAT TTTAT TTTAT TTTA- TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
22010054 CTTTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:22012443 original size:49 final size:49
Alignment explanation
Indices: 22012377--22012520 Score: 216
Period size: 49 Copynumber: 2.9 Consensus size: 49
22012367 ATGTGAACAT
* *
22012377 GTGATTATGCGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
*
22012427 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
22012476 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
22012521 AGAAAACGAA
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 83 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:22015717 original size:46 final size:45
Alignment explanation
Indices: 22015650--22016067 Score: 518
Period size: 46 Copynumber: 9.6 Consensus size: 45
22015640 TTTGAGTACT
*
22015650 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
22015696 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
22015742 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
22015788 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
22015824 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
22015870 TCTAATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
22015906 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
22015952 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACCCTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* * *
22015998 TCTGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
22016043 TCTGATC-AG-G-GACAAGTGATAAGTG
1 TCTGATCAAGTGAGA-AAGTGATAAGTG
22016068 ATCATATGTA
Statistics
Matches: 333, Mismatches: 18, Indels: 45
0.84 0.05 0.11
Matches are distributed among these distances:
36 57 0.17
37 2 0.01
38 1 0.00
39 2 0.01
40 5 0.02
41 1 0.00
42 7 0.02
43 15 0.05
44 3 0.01
45 20 0.06
46 220 0.66
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:22015819 original size:36 final size:36
Alignment explanation
Indices: 22015778--22015932 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
22015768 GGTAGCATTA
22015778 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
22015814 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
*
22015859 AGCTACACTTATCTAATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
22015896 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
22015932 G
1 G
22015933 GTAGCCTTAG
Statistics
Matches: 101, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 64 0.63
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:22015825 original size:82 final size:81
Alignment explanation
Indices: 22015732--22016067 Score: 451
Period size: 82 Copynumber: 4.0 Consensus size: 81
22015722 GGTAGCATTA
*
22015732 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
22015797 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
* *
22015814 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
22015879 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
* *
22015896 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAA
*
22015961 GTGAGAAAGTGATAAGTGGT
65 GTGAAAAAGTGATAA---GT
* *
22015981 AGCCTTAGCTACCCTTATCTGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCT
1 -G-C-TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCT
* *
22016046 GATC-AG-GGACAAGTGATAAGT
59 GATCAAGTGAAAAAGTGATAAGT
22016067 G
1 G
22016068 ATCATATGTA
Statistics
Matches: 227, Mismatches: 16, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
82 151 0.67
83 1 0.00
85 3 0.01
86 3 0.01
87 1 0.00
88 2 0.01
89 10 0.04
90 3 0.01
91 19 0.08
92 34 0.15
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (81 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAG
TGAAAAAGTGATAAGT
Found at i:22015842 original size:128 final size:126
Alignment explanation
Indices: 22015686--22016067 Score: 469
Period size: 128 Copynumber: 3.0 Consensus size: 126
22015676 GGTAGCATTA
22015686 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
*
22015751 GTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GTGAAAAAGTGATAAGTGGTAGC--TAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * * *
22015814 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAA
1 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
*
22015879 GTGAAAAAGTGATAA---GT-GCTA--T--ACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
66 GTGAAAAAGTGATAAGTGGTAGCTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT
* *
22015935 AGCCTTAGCTACTCTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACCCTTATC
1 -G-C-TA-C-A--CTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATC
* * * *
22016000 TGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTGAT
59 TGATCAAGTGAAAAAGTGATAAGTGGTAG-CTAGCTACACTTATCTGATCAAGTGAAAAAGTGAT
22016063 AAGT
123 AAGT
22016067 G
1 G
22016068 ATCATATGTA
Statistics
Matches: 219, Mismatches: 16, Indels: 35
0.81 0.06 0.13
Matches are distributed among these distances:
118 28 0.13
120 1 0.00
121 2 0.01
122 3 0.01
123 1 0.00
124 4 0.02
125 3 0.01
126 1 0.00
128 142 0.65
131 3 0.01
132 3 0.01
133 3 0.01
135 11 0.05
136 2 0.01
137 12 0.05
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (126 bp):
GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
GTGAAAAAGTGATAAGTGGTAGCTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:22018923 original size:29 final size:29
Alignment explanation
Indices: 22018855--22018957 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
22018845 ATTATCATTG
* * * *
22018855 CACTATGACCCTTAAACTTTTTGAAATTT
1 CACTTTGACCCCTAAACTTTTTAAAATTA
* *
22018884 CACTTTAACCCCTCAACTTTTTAAAATTA
1 CACTTTGACCCCTAAACTTTTTAAAATTA
* *
22018913 CATTTTGACCCC-AAAATTTTCTCAAAATTA
1 CACTTTGACCCCTAAACTTTT-T-AAAATTA
22018943 CACTTTGA-CCCTAAA
1 CACTTTGACCCCTAAA
22018958 AGTTTTGTTG
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
28 6 0.10
29 37 0.62
30 17 0.28
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (29 bp):
CACTTTGACCCCTAAACTTTTTAAAATTA
Found at i:22018940 original size:30 final size:31
Alignment explanation
Indices: 22018906--22018963 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
22018896 TCAACTTTTT
*
22018906 AAAATTACATTTTGACCCCAAAA-TTTTCTC
1 AAAATTACACTTTGACCCCAAAAGTTTTCTC
*
22018936 AAAATTACACTTTGACCCTAAAAGTTTT
1 AAAATTACACTTTGACCCCAAAAGTTTT
22018964 GTTGTGTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (31 bp):
AAAATTACACTTTGACCCCAAAAGTTTTCTC
Found at i:22019430 original size:3 final size:3
Alignment explanation
Indices: 22019424--22019530 Score: 78
Period size: 3 Copynumber: 35.0 Consensus size: 3
22019414 GGGGCTGAAC
* * * *
22019424 GAA GAA GAA -AG GAA AAA GAA GAA GAA AAA AAA GAAA GAA -AA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA
*
22019467 GAA GAA GAA GAAA GAA AAA G-A GAAA GAAA GAA GGAA GAA GAA GAA GAA
1 GAA GAA GAA G-AA GAA GAA GAA G-AA G-AA GAA -GAA GAA GAA GAA GAA
*
22019515 GAA GAAA GAA AAA GAA
1 GAA G-AA GAA GAA GAA
22019531 AAAAGAAAGA
Statistics
Matches: 86, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
2 7 0.08
3 61 0.71
4 18 0.21
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22019461 original size:13 final size:13
Alignment explanation
Indices: 22019428--22019548 Score: 81
Period size: 13 Copynumber: 9.2 Consensus size: 13
22019418 CTGAACGAAG
*
22019428 AAGAAAGGAAAAAG
1 AAGAAA-GAAAAAA
22019442 AAG-AAGAAAAAA
1 AAGAAAGAAAAAA
22019454 AAGAAAGAAAAAA
1 AAGAAAGAAAAAA
*
22019467 GAAG-AAGAAGAAAG
1 -AAGAAAGAA-AAAA
*
22019481 AA-AAAGAGAAAGA
1 AAGAAAGA-AAAAA
* * *
22019494 AAGAAGGAAGAAG
1 AAGAAAGAAAAAA
*
22019507 AAG-AAGAAGAAGA
1 AAGAAAGAA-AAAA
22019520 AAGAAA-AAGAAAA
1 AAGAAAGAA-AAAA
*
22019533 AAGAAAGAGAAAA
1 AAGAAAGAAAAAA
22019546 AAG
1 AAG
22019549 GAAAAAGGAA
Statistics
Matches: 84, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
12 13 0.15
13 54 0.64
14 17 0.20
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAAA
Found at i:22019531 original size:6 final size:6
Alignment explanation
Indices: 22019425--22019561 Score: 89
Period size: 6 Copynumber: 21.3 Consensus size: 6
22019415 GGGCTGAACG
* * *
22019425 AAGAAGA AAGGAAA AAGAAG AAGAAA AAAAAGA AAGAAAA AAGAAG AAGAAGA
1 AAGAA-A AA-GAAA AAGAAA AAGAAA AAGAA-A AAG-AAA AAGAAA AAGAA-A
* * * *
22019478 AAGAAA AAGAGA AAG--A AAGAAGG AAGAAG AAGAAG AAGAAGA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAA-A AAGAAA AAGAAA AAGAA-A AAGAAA
*
22019526 AAGAAAA AAGAAA GAGAAAA AAGGAAA AAGGAAA AA
1 AAG-AAA AAGAAA AAG-AAA AA-GAAA AA-GAAA AA
22019562 AATATTTTAT
Statistics
Matches: 108, Mismatches: 11, Indels: 22
0.77 0.08 0.16
Matches are distributed among these distances:
4 4 0.04
6 49 0.45
7 49 0.45
8 6 0.06
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:22019548 original size:26 final size:26
Alignment explanation
Indices: 22019428--22019562 Score: 109
Period size: 26 Copynumber: 5.1 Consensus size: 26
22019418 CTGAACGAAG
22019428 AAGAAAG-G-AAAAAGAAGAAGAAAA
1 AAGAAAGAGAAAAAAGAAGAAGAAAA
*
22019452 AA-AAGAAAGAAAAAAGAAGAAGAAGAA
1 AAGAA-AGAGAAAAAAGAAGAAGAA-AA
* *
22019479 AGAAAAAGAGAAAGAAAGAAGGAAG-AAG
1 A-AGAAAGAGAAA-AAAGAA-GAAGAAAA
* *
22019507 AAG-AAGAAGAAGAAAGAAAAAGAAAA
1 AAGAAAG-AGAAAAAAGAAGAAGAAAA
*
22019533 AAGAAAGAGAAAAAAGGAAAAAGGAAAA
1 AAGAAAGAGAAAAAA-GAAGAA-GAAAA
22019561 AA
1 AA
22019563 ATATTTTATA
Statistics
Matches: 90, Mismatches: 8, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
23 2 0.02
24 3 0.03
25 4 0.04
26 35 0.39
27 17 0.19
28 16 0.18
29 9 0.10
30 4 0.04
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (26 bp):
AAGAAAGAGAAAAAAGAAGAAGAAAA
Found at i:22019563 original size:36 final size:37
Alignment explanation
Indices: 22019432--22019563 Score: 112
Period size: 36 Copynumber: 3.5 Consensus size: 37
22019422 ACGAAGAAGA
* *
22019432 AAGGAAAAAGAAGAAGAA-AAAAAAGAAAGAAAAAAG
1 AAGGAAAAAGAAGAAAAAGAAAAAAGAAAGAGAAAAG
* *
22019468 AA-GAAGAAGAAAGAAAAAG-AGAAAGAAAGAAGGAAGAAG
1 AAGGAAAAAG-AAGAAAAAGAAAAAAGAAAG-A-GAA-AAG
*
22019507 AAGAAGAAGAAGAAAGAAAAAGAAAAAAGAAAGAGAAAA-
1 AAG--GAAAAAG-AAGAAAAAGAAAAAAGAAAGAGAAAAG
22019546 AAGGAAAAAGGAA-AAAAA
1 AAGGAAAAA-GAAGAAAAA
22019564 TATTTTATAT
Statistics
Matches: 80, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
35 6 0.08
36 23 0.29
37 8 0.10
38 3 0.04
39 8 0.10
40 2 0.03
41 3 0.04
42 18 0.22
43 9 0.11
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (37 bp):
AAGGAAAAAGAAGAAAAAGAAAAAAGAAAGAGAAAAG
Found at i:22020000 original size:6 final size:5
Alignment explanation
Indices: 22019985--22020027 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
22019975 TTTAAGTATT
*
22019985 TTTTA TTTTA TATTTA TGTTT- TTTAA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA T-TTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TT
22020028 CATTAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
4 2 0.06
5 23 0.70
6 8 0.24
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:22020008 original size:20 final size:20
Alignment explanation
Indices: 22019983--22020021 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22019973 TTTTTAAGTA
22019983 TTTTTT-ATTTTATATTTATG
1 TTTTTTAATTTTAT-TTTATG
22020003 TTTTTTAATTTTATTTTAT
1 TTTTTTAATTTTATTTTAT
22020022 TTTATTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTTTTAATTTTATTTTATG
Found at i:22020359 original size:15 final size:15
Alignment explanation
Indices: 22020332--22020364 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
22020322 AAAGAAAGAA
22020332 AAATTTTGTG-TTTC
1 AAATTTTGTGTTTTC
22020346 AAATTTTCGTGTTTTC
1 AAATTTT-GTGTTTTC
22020362 AAA
1 AAA
22020365 AATTACTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 3 0.18
16 7 0.41
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (15 bp):
AAATTTTGTGTTTTC
Found at i:22020469 original size:21 final size:21
Alignment explanation
Indices: 22020406--22020470 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
22020396 TCGCATTTTC
* *
22020406 AAAAGTCT-TCGTGTTTCAAAA
1 AAAAATCTCTCGTATTTC-AAA
* * * *
22020427 AAAAATTTCGCGTTTTTTAAA
1 AAAAATCTCTCGTATTTCAAA
22020448 AAAAATCTCTCGTATTTCAAA
1 AAAAATCTCTCGTATTTCAAA
22020469 AA
1 AA
22020471 TTGTCGCGTT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 28 0.82
22 6 0.18
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (21 bp):
AAAAATCTCTCGTATTTCAAA
Found at i:22020488 original size:19 final size:18
Alignment explanation
Indices: 22020425--22020493 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 18
22020415 CGTGTTTCAA
22020425 AAAAAAATTTCGCGTTTTTT
1 AAAAAAATTTCGCG--TTTT
* *
22020445 AAAAAAAATCTCTCGTATTT
1 -AAAAAAATTTCGCGT-TTT
*
22020465 -CAAAAATTGTCGCGTTTT
1 AAAAAAATT-TCGCGTTTT
22020483 AAAAAAATTTC
1 AAAAAAATTTC
22020494 TTGTTTTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 11 0.28
19 13 0.33
20 3 0.08
21 12 0.31
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (18 bp):
AAAAAAATTTCGCGTTTT
Found at i:22020607 original size:17 final size:17
Alignment explanation
Indices: 22020478--22020611 Score: 90
Period size: 17 Copynumber: 7.6 Consensus size: 17
22020468 AAATTGTCGC
22020478 GTTTTAAAAAAATTTCTT
1 GTTTT-AAAAAATTTCTT
* *
22020496 GTTTTCAATAATTCTCTT
1 GTTTTAAAAAATT-TCTT
* * * *
22020514 GTTTCACAAATTTTCGT
1 GTTTTAAAAAATTTCTT
* *
22020531 GTTTTAAAAATTTTCGT
1 GTTTTAAAAAATTTCTT
*
22020548 GTTTTCAAAAAATTTACCCT
1 GTTTT-AAAAAATTT--CTT
* * * *
22020568 ATTTTCAAAAA-TCCTC
1 GTTTTAAAAAATTTCTT
*
22020584 GTGTTAAAAAATTTCTT
1 GTTTTAAAAAATTTCTT
22020601 GTTTTAAAAAA
1 GTTTTAAAAAA
22020612 AAAATCGTGT
Statistics
Matches: 88, Mismatches: 23, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
16 9 0.10
17 42 0.48
18 26 0.30
19 5 0.06
20 6 0.07
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (17 bp):
GTTTTAAAAAATTTCTT
Found at i:22020666 original size:72 final size:68
Alignment explanation
Indices: 22020478--22020666 Score: 173
Period size: 72 Copynumber: 2.7 Consensus size: 68
22020468 AAATTGTCGC
* * * * **
22020478 GTTTTAAAAAAATTTCTTGTTTTCAATAATTCTCTTGTTTCACAAATTTTCGTGTTTTAAAAATT
1 GTTTTCAAAAAATTTATTGTTTTCAA-AATTCTCGTGTTTCA-AAAATTTCGTGTTTTAAAAAAA
*
22020543 TTCGT
64 ATCGT
* * * * *
22020548 GTTTTCAAAAAATTTACCCTATTTTCAAAAATCCTCGTG-TTAAAAAATTTCTTGTTTTAAAAAA
1 GTTTTCAAAAAATTTA--TTGTTTTC-AAAATTCTCGTGTTTCAAAAATTTCGTGTTTT--AAAA
22020612 AAAATCGT
61 AAAATCGT
*
22020620 GTTTTCAAAAAAGTTATTGTGTTTCAAAATTCTCGTGTTTTCAAAAA
1 GTTTTCAAAAAATTTATTGT-TTTCAAAATTCTCGTG-TTTCAAAAA
22020667 AAAAATCTCG
Statistics
Matches: 94, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
70 40 0.43
71 7 0.07
72 45 0.48
73 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (68 bp):
GTTTTCAAAAAATTTATTGTTTTCAAAATTCTCGTGTTTCAAAAATTTCGTGTTTTAAAAAAAAT
CGT
Found at i:22039308 original size:9 final size:9
Alignment explanation
Indices: 22039294--22039324 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22039284 GTTAAACGAA
22039294 TCGAGTTAT
1 TCGAGTTAT
*
22039303 TCGAGTTAA
1 TCGAGTTAT
22039312 TCGAGTTAT
1 TCGAGTTAT
22039321 TCGA
1 TCGA
22039325 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:22039395 original size:9 final size:9
Alignment explanation
Indices: 22039378--22039414 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22039368 TAAGTTTTCG
22039378 AATTCGAAT
1 AATTCGAAT
*
22039387 AACTCGAAT
1 AATTCGAAT
22039396 AATTCGAAT
1 AATTCGAAT
22039405 AATTCGAAT
1 AATTCGAAT
22039414 A
1 A
22039415 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22039700 original size:7 final size:7
Alignment explanation
Indices: 22039688--22039718 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
22039678 TCCCTTTCCA
22039688 TCCCACC
1 TCCCACC
22039695 TCCCACC
1 TCCCACC
22039702 TCCCACC
1 TCCCACC
22039709 TCCCACC
1 TCCCACC
22039716 TCC
1 TCC
22039719 ATCTACTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.71, G:0.00, T:0.16
Consensus pattern (7 bp):
TCCCACC
Found at i:22046262 original size:18 final size:18
Alignment explanation
Indices: 22046208--22046272 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 18
22046198 TTAATTTTTA
22046208 TGAAT-TTTTTATTGAATTT
1 TGAATATTTTTA-T-AATTT
* * *
22046227 TG-ATTTTTTTGTACTTT
1 TGAATATTTTTATAATTT
22046244 TGAATATTTTTATAATTTT
1 TGAATATTTTTATAA-TTT
22046263 TGAATCATTT
1 TGAAT-ATTT
22046273 GTTTACGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 6 0.16
18 12 0.32
19 15 0.41
20 4 0.11
ACGTcount: A:0.25, C:0.03, G:0.09, T:0.63
Consensus pattern (18 bp):
TGAATATTTTTATAATTT
Found at i:22046457 original size:30 final size:31
Alignment explanation
Indices: 22046395--22046457 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
22046385 AAAAAATGAT
*
22046395 TTTAACTTTTTAAAAAAAATTAATAATAAAA
1 TTTAACTTTTTAAAAAAAATTAAGAATAAAA
* *
22046426 TTTAAC-TTTTAAAAAAAATTAAGGATTAAA
1 TTTAACTTTTTAAAAAAAATTAAGAATAAAA
22046456 TT
1 TT
22046458 AATTAAAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (31 bp):
TTTAACTTTTTAAAAAAAATTAAGAATAAAA
Found at i:22053448 original size:16 final size:16
Alignment explanation
Indices: 22053437--22053498 Score: 79
Period size: 16 Copynumber: 3.7 Consensus size: 16
22053427 ATTAGATTAA
22053437 AGGTGTAATAGAATAG
1 AGGTGTAATAGAATAG
* *
22053453 AGTCGCTGTATTAGATTAG
1 AG--G-TGTAATAGAATAG
22053472 AGGTGTAATAGAATAG
1 AGGTGTAATAGAATAG
22053488 AGGTGTAATAG
1 AGGTGTAATAG
22053499 CAAATCAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 24 0.62
17 1 0.03
18 1 0.03
19 13 0.33
ACGTcount: A:0.37, C:0.03, G:0.31, T:0.29
Consensus pattern (16 bp):
AGGTGTAATAGAATAG
Found at i:22053466 original size:35 final size:35
Alignment explanation
Indices: 22053420--22053489 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
22053410 CACGATTGGT
22053420 TCGCTGTATTAGATTAAAGGTGTAATAGAATAGAG
1 TCGCTGTATTAGATTAAAGGTGTAATAGAATAGAG
*
22053455 TCGCTGTATTAGATTAGAGGTGTAATAGAATAGAG
1 TCGCTGTATTAGATTAAAGGTGTAATAGAATAGAG
22053490 GTGTAATAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (35 bp):
TCGCTGTATTAGATTAAAGGTGTAATAGAATAGAG
Found at i:22053738 original size:9 final size:9
Alignment explanation
Indices: 22053724--22053755 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
22053714 ACATAATTAT
22053724 TATTAAATA
1 TATTAAATA
22053733 TATTAAATA
1 TATTAAATA
22053742 TATTAAATA
1 TATTAAATA
22053751 TATTA
1 TATTA
22053756 TAATTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
TATTAAATA
Found at i:22053765 original size:16 final size:16
Alignment explanation
Indices: 22053710--22053769 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 16
22053700 TTAATCATAT
*
22053710 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
22053726 TT-AAATATATTA-AA
1 TTAAAATATATTATAA
22053740 TATATTAAATATATTATAA
1 T-TA--AAATATATTATAA
22053759 TTAAAATATAT
1 TTAAAATATAT
22053770 AATTTAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
14 5 0.14
15 7 0.19
16 10 0.27
18 12 0.32
19 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:22053776 original size:14 final size:15
Alignment explanation
Indices: 22053719--22053778 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 15
22053709 TTTAAACATA
*
22053719 ATTATTATTAAATAT
1 ATTATAATTAAATAT
22053734 ATTAAATATATTAAATAT
1 ATT--ATA-ATTAAATAT
22053752 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
22053766 A-TATAATTTAATA
1 ATTATAATTAAATA
22053779 AAATTCTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 9 0.23
14 4 0.10
15 9 0.23
16 3 0.08
17 2 0.05
18 12 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:22054997 original size:36 final size:37
Alignment explanation
Indices: 22054953--22055038 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 37
22054943 AAGAAACGGG
* *
22054953 GGGAGCAAATCGGCAGAAAAGAAAAGAAAATAAAC-T
1 GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
*
22054989 GGGAGCAAATCGGCAGAAAAGAAAAGCAAAGAAACAA
1 GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
*
22055026 GGAAGCAAATCGG
1 GGGAGCAAATCGG
22055039 ATGAAGGTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 33 0.73
37 12 0.27
ACGTcount: A:0.53, C:0.13, G:0.28, T:0.06
Consensus pattern (37 bp):
GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
Found at i:22055861 original size:8 final size:7
Alignment explanation
Indices: 22055824--22055858 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
22055814 TCAATATTTT
22055824 TTTAAAA
1 TTTAAAA
22055831 TTTAAAA
1 TTTAAAA
22055838 TTTAAAA
1 TTTAAAA
22055845 TTTAAATA
1 TTTAAA-A
22055853 TTTAAA
1 TTTAAA
22055859 TATATCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:22056951 original size:20 final size:21
Alignment explanation
Indices: 22056921--22056965 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
22056911 TTTCTTCTTT
*
22056921 TTTTGTTATATAAATTTTTTA
1 TTTTGTTATATAAATTTTCTA
*
22056942 TTTT-TTATATTAATTTTCTA
1 TTTTGTTATATAAATTTTCTA
22056962 TTTT
1 TTTT
22056966 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTGTTATATAAATTTTCTA
Found at i:22069116 original size:16 final size:15
Alignment explanation
Indices: 22069095--22069144 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 15
22069085 AAAGATTGTT
22069095 AAAACTCTTATAAAAG
1 AAAACTCTTA-AAAAG
*
22069111 AAAACTC--AAAGAG
1 AAAACTCTTAAAAAG
*
22069124 -AAATTCTTAAAAAG
1 AAAACTCTTAAAAAG
22069138 AAAACTC
1 AAAACTC
22069145 AAAAATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
12 5 0.19
13 4 0.15
14 6 0.22
15 5 0.19
16 7 0.26
ACGTcount: A:0.58, C:0.14, G:0.08, T:0.20
Consensus pattern (15 bp):
AAAACTCTTAAAAAG
Found at i:22073294 original size:15 final size:15
Alignment explanation
Indices: 22073262--22073309 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
22073252 AAATTTTATA
*
22073262 ACTTAAA-TTT-AGT
1 ACTTAAATTTTCAAT
22073275 ACTTAAATTTTCAAT
1 ACTTAAATTTTCAAT
* *
22073290 ACTTAATTTTTCAAC
1 ACTTAAATTTTCAAT
22073305 ACTTA
1 ACTTA
22073310 CTTTTTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 7 0.23
14 3 0.10
15 20 0.67
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.46
Consensus pattern (15 bp):
ACTTAAATTTTCAAT
Found at i:22073314 original size:15 final size:15
Alignment explanation
Indices: 22073275--22073315 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
22073265 TAAATTTAGT
* *
22073275 ACTTAAATTTTCAAT
1 ACTTAATTTTTCAAC
22073290 ACTTAATTTTTCAAC
1 ACTTAATTTTTCAAC
*
22073305 ACTTACTTTTT
1 ACTTAATTTTT
22073316 TGGCACCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (15 bp):
ACTTAATTTTTCAAC
Found at i:22075259 original size:18 final size:17
Alignment explanation
Indices: 22075236--22075303 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
22075226 AGTTTGACAA
22075236 AATACATCTCACCATATT
1 AATACAT-TCACCATATT
* *
22075254 AATACAAATCACCAAATT
1 AATAC-ATTCACCATATT
* *
22075272 AACACAGTTCACCATAAT
1 AATACA-TTCACCATATT
*
22075290 AATATAATTCACCA
1 AATA-CATTCACCA
22075304 AGTTAACATG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 1 0.03
18 36 0.92
19 2 0.05
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.26
Consensus pattern (17 bp):
AATACATTCACCATATT
Found at i:22079602 original size:31 final size:33
Alignment explanation
Indices: 22079560--22079640 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 33
22079550 ATGGGCACAC
*
22079560 ATGCCCTTGTGGCCCACACACCCAGAT-TGG-CT
1 ATGCCCGTGTGGCCCACACACCCA-ATATGGCCT
*
22079592 -TGCCCGTGTGGCCCACACGCCCAATATGGCCT
1 ATGCCCGTGTGGCCCACACACCCAATATGGCCT
*
22079624 AT-CCCGTGTGGCTCACA
1 ATGCCCGTGTGGCCCACA
22079641 TGACCACACT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
30 2 0.05
31 24 0.56
32 16 0.37
33 1 0.02
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.21
Consensus pattern (33 bp):
ATGCCCGTGTGGCCCACACACCCAATATGGCCT
Found at i:22082742 original size:42 final size:42
Alignment explanation
Indices: 22082683--22082766 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
22082673 AATTTAACTA
22082683 AACCTAAATGTACTCCTAGGTTAATGTATCAACTTTTCCTAT
1 AACCTAAATGTACTCCTAGGTTAATGTATCAACTTTTCCTAT
22082725 AACCTAAATGTACTCCTAGGTTAATGTATCAACTTTTCCTAT
1 AACCTAAATGTACTCCTAGGTTAATGTATCAACTTTTCCTAT
22082767 TCCTTGTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (42 bp):
AACCTAAATGTACTCCTAGGTTAATGTATCAACTTTTCCTAT
Found at i:22084176 original size:26 final size:26
Alignment explanation
Indices: 22084146--22084221 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
22084136 GCCAACACAC
22084146 CAATATCGCAGCAAAGCTGCCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* ** *
22084172 TAATATCATAGCAAAGCTGCCAATAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* * *
22084198 CAGTAACGCATCAAAGCTGCCAGT
1 CAATATCGCAGCAAAGCTGCCAGT
22084222 GACAGTATAT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.18
Consensus pattern (26 bp):
CAATATCGCAGCAAAGCTGCCAGTAA
Found at i:22084433 original size:27 final size:28
Alignment explanation
Indices: 22084403--22084537 Score: 136
Period size: 27 Copynumber: 5.0 Consensus size: 28
22084393 GGGTACAACA
*
22084403 GTCATTTTACCCAATAG-GGGTATTTCG
1 GTCATTTTACCCAATCGAGGGTATTTCG
* * *
22084430 GTCATTTTA-CCATTCGAAGGTATTTTG
1 GTCATTTTACCCAATCGAGGGTATTTCG
* *
22084457 GTCATTTTACCCTAT-GGGGGTATTTCG
1 GTCATTTTACCCAATCGAGGGTATTTCG
* *
22084484 GTAATTTTACCC-TTCGAGGGTATTTCG
1 GTCATTTTACCCAATCGAGGGTATTTCG
* *
22084511 GTAATTTTTA-CCATTCGAGGGTATTTC
1 GTCA-TTTTACCCAATCGAGGGTATTTC
22084538 AGTACTTTTT
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.07
27 63 0.69
28 22 0.24
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.41
Consensus pattern (28 bp):
GTCATTTTACCCAATCGAGGGTATTTCG
Found at i:22084485 original size:54 final size:54
Alignment explanation
Indices: 22084403--22084518 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
22084393 GGGTACAACA
* *
22084403 GTCATTTTACCCAATAGGGGTATTTCGGTCATTTTACCATTCGAAGGTATTTTG
1 GTCATTTTACCCAATAGGGGTATTTCGGTAATTTTACCATTCGAAGGTATTTCG
* * * *
22084457 GTCATTTTACCCTATGGGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCAATAGGGGTATTTCGGTAATTTTACCATTCGAAGGTATTTCG
*
22084511 GTAATTTT
1 GTCATTTT
22084519 TACCATTCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCAATAGGGGTATTTCGGTAATTTTACCATTCGAAGGTATTTCG
Found at i:22084528 original size:28 final size:27
Alignment explanation
Indices: 22084420--22084546 Score: 148
Period size: 27 Copynumber: 4.7 Consensus size: 27
22084410 TACCCAATAG
*
22084420 GGGTATTTCGGTCATTTTACCATTCGA
1 GGGTATTTCGGTAATTTTACCATTCGA
* * * * *
22084447 AGGTATTTTGGTCATTTTACCCTAT-GG
1 GGGTATTTCGGTAATTTTACCAT-TCGA
*
22084474 GGGTATTTCGGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCATTCGA
22084501 GGGTATTTCGGTAATTTTTACCATTCGA
1 GGGTATTTCGGTAA-TTTTACCATTCGA
* *
22084529 GGGTATTTCAGTACTTTT
1 GGGTATTTCGGTAATTTT
22084547 TTAGCCCAAG
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 60 0.70
28 25 0.29
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCATTCGA
Found at i:22088448 original size:13 final size:14
Alignment explanation
Indices: 22088430--22088463 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
22088420 ACAATTGTGT
22088430 AATTATAATTTAA-
1 AATTATAATTTAAG
22088443 AATTATAATTTAAG
1 AATTATAATTTAAG
22088457 AATTATA
1 AATTATA
22088464 TATAATTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
AATTATAATTTAAG
Found at i:22089504 original size:6 final size:6
Alignment explanation
Indices: 22089476--22089535 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
22089466 GTTTTTTAGT
* * * * *
22089476 TTATT- TTATTA ATATAA TTATTT TTATTT TTATTA TTACTA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
22089523 TTA-TA TTTATTA T
1 TTATTA -TTATTA T
22089536 ACTTACATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
5 7 0.16
6 35 0.80
7 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (6 bp):
TTATTA
Found at i:22089510 original size:24 final size:24
Alignment explanation
Indices: 22089475--22089538 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
22089465 AGTTTTTTAG
22089475 TTTA-TTTTATTAATA-TAATTATT
1 TTTATTTTTATTAATACT-ATTATT
*
22089498 TTTATTTTTATTATTACTATTATT
1 TTTATTTTTATTAATACTATTATT
* *
22089522 ATTATATTTATT-ATACT
1 TTTATTTTTATTAATACT
22089539 TACATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 8 0.23
24 26 0.74
25 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATTTTTATTAATACTATTATT
Found at i:22089713 original size:26 final size:24
Alignment explanation
Indices: 22089678--22089744 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 24
22089668 ATTATATACA
22089678 TTCATATTTTTATAATT-ATTTATGTT
1 TTCAT-TTTTTATAATTCA--TATGTT
*
22089704 TTCATGTTTTATAATTCATATGTT
1 TTCATTTTTTATAATTCATATGTT
22089728 TATACATTTTTTATAAT
1 T-T-CATTTTTTATAAT
22089745 ATGTACAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 7 0.19
25 11 0.31
26 18 0.50
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.61
Consensus pattern (24 bp):
TTCATTTTTTATAATTCATATGTT
Found at i:22094606 original size:12 final size:13
Alignment explanation
Indices: 22094591--22094619 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
22094581 AAGAAGAGAG
22094591 AAAACAAAAAAA-
1 AAAACAAAAAAAC
22094603 AAAACAAAAAAAC
1 AAAACAAAAAAAC
22094616 AAAA
1 AAAA
22094620 AAATAGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAAAAAAC
Found at i:22094635 original size:15 final size:15
Alignment explanation
Indices: 22094591--22094648 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
22094581 AAGAAGAGAG
*
22094591 AAAACAAAAA-AAAA
1 AAAAGAAAAAGAAAA
*
22094605 AACAA-AAAAACAAAA
1 AA-AAGAAAAAGAAAA
*
22094620 AAATAGGAAAAGAAAA
1 AAA-AGAAAAAGAAAA
22094636 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
22094649 CCCCACTGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 8 0.22
15 18 0.49
16 11 0.30
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAGAAAA
Found at i:22096511 original size:44 final size:43
Alignment explanation
Indices: 22096462--22096906 Score: 182
Period size: 44 Copynumber: 10.2 Consensus size: 43
22096452 ATACTAATTC
*
22096462 TATCTCCCTGGTTGGTAGTGGAATAGATTGAAGATTTCAGATCT
1 TATCTCCCTGGTT-GTAGTGGAATAGATTGAAGATGTCAGATCT
* ** * * * *
22096506 TATCTCCCTAGGCAT-TAGTGGAGCAGATCGAAGACGACAGATTT
1 TATCTCCCT-GG-TTGTAGTGGAATAGATTGAAGATGTCAGATCT
* ** * * **
22096550 TACCTCCCTCTGGTTACAGTGGAGTACATTGAAGCCGT-A-AT-T
1 TATCT-CC-CTGGTTGTAGTGGAATAGATTGAAGATGTCAGATCT
*
22096592 CTATCTCCCTGGTTGGTAGTGGAATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTGGTT-GTAGTGGAATAGATTGAAGATGTCAGATCT
* * * *
22096637 TATCTCCCTAGGCAT-TAGTGGAGA-AGATCGAAGATGGCAGATTT
1 TATCTCCCT-GG-TTGTAGTGGA-ATAGATTGAAGATGTCAGATCT
* ** * * **
22096681 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGT-A-AT-T
1 TATCTCCC--TGGTTGTAGTGGAATAGATTGAAGATGTCAGATCT
* * *
22096723 CTATCTCCCTGGTTGGCAGTGGGATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTGGTT-GTAGTGGAATAGATTGAAGATGTCAGATCT
* * * * ** *
22096768 TATCTCCTTAGGCAT-TAGTAGAGTAGATCAAAGATGGT-AGATTT
1 TATCTCCCT-GG-TTGTAGTGGAATAGATTGAAGAT-GTCAGATCT
* ** * *
22096812 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA-GT-A-AT-T
1 TATCTCCCT--GGTTGTAGTGGAATAGATTGAAG--ATGTCAGATCT
* *
22096855 CTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTGGTT-GTAGTGGAATAGATTGAAGATGTCAGATCT
22096900 TATCTCC
1 TATCTCC
22096907 TTAAGCGGTA
Statistics
Matches: 297, Mismatches: 69, Indels: 70
0.68 0.16 0.16
Matches are distributed among these distances:
41 12 0.04
42 41 0.14
43 35 0.12
44 136 0.46
45 66 0.22
46 6 0.02
47 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TATCTCCCTGGTTGTAGTGGAATAGATTGAAGATGTCAGATCT
Found at i:22096928 original size:132 final size:132
Alignment explanation
Indices: 22096456--22097192 Score: 1138
Period size: 132 Copynumber: 5.6 Consensus size: 132
22096446 TCGAAGATAC
* *
22096456 TAATTCTATCTCCCTGGTTGGTAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAT
* * **
22096521 TAGTGGAGCAGATCGAAGACGACAGATTTTACCTCCCTCTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGCC
22096586 -G
131 AG
* *
22096587 TAATTCTATCTCCCTGGTTGGTAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAT
* *
22096652 TAGTGGAGAAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGCC
22096717 -G
131 AG
* * *
22096718 TAATTCTATCTCCCTGGTTGGCAGTGGGATAGATTGAAGATTTCAGATCTTATCTCCTTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAT
* * * * *
22096783 TAGTAGAGTAGATCAAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGCC
22096848 AG
131 AG
* **
22096850 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAAGCGG
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAT
22096915 TAGTGGAGCAGATCGAAGATGGC-GAATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGC
66 TAGTGGAGCAGATCGAAGATGGCAG-ATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGC
22096979 CAG
130 CAG
* *
22096982 TAATTCTATCCCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATTTCCCTAAGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAT
22097047 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGCC
22097112 AG
131 AG
* * * * * ** *
22097114 TAATTCTATCTCCTTGGTCGACAGTGGAATCGATCGAAGAATAGCAGATTTTATCTCCCTAAGCA
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAG-ATTTCAGATCTTATCTCCCTAAGCA
* *
22097179 GTAGTGGAGTAGAT
65 TTAGTGGAGCAGAT
22097193 GATGACGGCG
Statistics
Matches: 564, Mismatches: 38, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
131 250 0.44
132 280 0.50
133 34 0.06
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (132 bp):
TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAT
TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGCC
AG
Found at i:22098657 original size:3 final size:3
Alignment explanation
Indices: 22098633--22098691 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
22098623 GTTTTTTAGT
* * *
22098633 TTA TT- TTA TTA ATA TAA TTA TTA TTA TT- TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22098679 TTA -TA TTTA TTA T
1 TTA TTA -TTA TTA T
22098692 ACTTACATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 6 0.13
3 38 0.83
4 2 0.04
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:22098660 original size:23 final size:23
Alignment explanation
Indices: 22098633--22098694 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
22098623 GTTTTTTAGT
22098633 TTATTTTATTAATA-TAATTATTA
1 TTATTTTATTAATACT-ATTATTA
*
22098656 TTATTTTATTATTACTATTATTA
1 TTATTTTATTAATACTATTATTA
22098679 TTATATTTATT-ATACT
1 TTAT-TTTATTAATACT
22098695 TACATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 28 0.80
24 7 0.20
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (23 bp):
TTATTTTATTAATACTATTATTA
Found at i:22098674 original size:20 final size:21
Alignment explanation
Indices: 22098651--22098690 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
22098641 TTAATATAAT
*
22098651 TATTATTATTTTA-TTATTAC
1 TATTATTATTATATTTATTAC
22098671 TATTATTATTATATTTATTA
1 TATTATTATTATATTTATTA
22098691 TACTTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTATTATTATATTTATTAC
Found at i:22098818 original size:15 final size:14
Alignment explanation
Indices: 22098796--22098837 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
22098786 TTTTATTACC
22098796 ATAT-TTTATATAT
1 ATATATTTATATAT
22098809 ATATAGTTTATATAT
1 ATATA-TTTATATAT
22098824 ATATATATTATATA
1 ATATAT-TTATATA
22098838 CATTCATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.15
14 1 0.04
15 21 0.81
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
ATATATTTATATAT
Found at i:22098876 original size:25 final size:26
Alignment explanation
Indices: 22098848--22098907 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
22098838 CATTCATATT
22098848 TTTTATAATT-ATTTATGTTT-T-CATG
1 TTTTATAATTCA--TATGTTTATACATG
*
22098873 TTTTATAATTCATATGTTTATACATT
1 TTTTATAATTCATATGTTTATACATG
22098899 TTTTATAAT
1 TTTTATAAT
22098908 ATGTACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 7 0.23
25 11 0.35
26 13 0.42
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (26 bp):
TTTTATAATTCATATGTTTATACATG
Found at i:22098876 original size:26 final size:26
Alignment explanation
Indices: 22098845--22098907 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
22098835 ATACATTCAT
22098845 ATTTTTTATAATT-ATTTATGTTT-T-C
1 ATTTTTTATAATTCA--TATGTTTATAC
*
22098870 ATGTTTTATAATTCATATGTTTATAC
1 ATTTTTTATAATTCATATGTTTATAC
22098896 ATTTTTTATAAT
1 ATTTTTTATAAT
22098908 ATGTACAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 7 0.21
25 13 0.39
26 13 0.39
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (26 bp):
ATTTTTTATAATTCATATGTTTATAC
Found at i:22100241 original size:21 final size:22
Alignment explanation
Indices: 22100217--22100257 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22100207 GTGTAATACA
*
22100217 ATGAAAAT-TTTATTTAATTGT
1 ATGAAAATATTTAATTAATTGT
22100238 ATGAAAATATTTAATTAATT
1 ATGAAAATATTTAATTAATT
22100258 TCAAATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (22 bp):
ATGAAAATATTTAATTAATTGT
Found at i:22108847 original size:23 final size:25
Alignment explanation
Indices: 22108795--22108848 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
22108785 ATATTAACAA
* *
22108795 CTAAATTTCACAATATTTCATGTTG
1 CTAAATATCAAAATATTTCATGTTG
22108820 -T-AATATCAAAATATTT-A-GTTG
1 CTAAATATCAAAATATTTCATGTTG
22108841 CTAAATAT
1 CTAAATAT
22108849 AATCTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 4 0.16
22 2 0.08
23 18 0.72
24 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (25 bp):
CTAAATATCAAAATATTTCATGTTG
Found at i:22115261 original size:20 final size:18
Alignment explanation
Indices: 22115230--22115280 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
22115220 GCATAATTTT
* *
22115230 AAATTTTAAAAATTTAAA
1 AAATTATAAAAATTGAAA
22115248 ATAATATATAAAAATTGAAA
1 A-AAT-TATAAAAATTGAAA
*
22115268 AAATTAAAAAAAT
1 AAATTATAAAAAT
22115281 ATTTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 9 0.32
19 6 0.21
20 13 0.46
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATTATAAAAATTGAAA
Found at i:22115499 original size:19 final size:20
Alignment explanation
Indices: 22115477--22115518 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
22115467 TAAATTTTAG
22115477 TTTTATA-A-TTTATATGTTT
1 TTTTATAGATTTTATAT-TTT
*
22115496 TTTTCTAGATTTTATATTTT
1 TTTTATAGATTTTATATTTT
22115516 TTT
1 TTT
22115519 CTGAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 7 0.35
21 7 0.35
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTATAGATTTTATATTTT
Found at i:22115516 original size:20 final size:21
Alignment explanation
Indices: 22115485--22115556 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 21
22115475 AGTTTTATAA
*
22115485 TTTATATGTTTTTTTCTAGA-
1 TTTATATATTTTTTTCTAGAT
22115505 TTT-TATATTTTTTTCT-GAATT
1 TTTATATATTTTTTTCTAG-A-T
*
22115526 TTTATATATTTATTTCT--AT
1 TTTATATATTTTTTTCTAGAT
22115545 TTT-TATATTTTT
1 TTTATATATTTTT
22115557 AATGTGTCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 9 0.20
19 17 0.38
20 4 0.09
21 3 0.07
22 12 0.27
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTATATATTTTTTTCTAGAT
Found at i:22115557 original size:20 final size:19
Alignment explanation
Indices: 22115485--22115556 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
22115475 AGTTTTATAA
*
22115485 TTTATATGTTTTTTTCTAGAT
1 TTTATAT-TTTTTTTCTA-TT
22115506 TTTATA-TTTTTTTCTGAATT
1 TTTATATTTTTTTTCT--ATT
*
22115526 TTTATATATTTATTTCTATT
1 TTTATAT-TTTTTTTCTATT
22115546 TTTATATTTTT
1 TTTATATTTTT
22115557 AATGTGTCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
19 12 0.27
20 17 0.39
21 7 0.16
22 8 0.18
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTATATTTTTTTTCTATT
Found at i:22117272 original size:6 final size:6
Alignment explanation
Indices: 22117263--22117335 Score: 85
Period size: 6 Copynumber: 11.8 Consensus size: 6
22117253 GAAAGTAAAA
* *
22117263 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAC GTGT-T CGTGTAC
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT -GTGTAT
*
22117311 GTGTACGT GTGTGT GTGTAT GTGTA
1 GTGTA--T GTGTAT GTGTAT GTGTA
22117336 ATAATATGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
6 53 0.93
8 4 0.07
ACGTcount: A:0.14, C:0.05, G:0.36, T:0.45
Consensus pattern (6 bp):
GTGTAT
Found at i:22117687 original size:30 final size:31
Alignment explanation
Indices: 22117651--22117714 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
22117641 ATGATTCATC
*
22117651 ATTGGAAA-ATTAAATAA-AGAAA-ATGACTAA
1 ATTGGAAAGATGAAATAATA-AAAGATGA-TAA
22117681 ATTGGAAAGATGAAATAATAAAAGATGATAA
1 ATTGGAAAGATGAAATAATAAAAGATGATAA
22117712 ATT
1 ATT
22117715 AATTAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.27
31 17 0.57
32 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.25
Consensus pattern (31 bp):
ATTGGAAAGATGAAATAATAAAAGATGATAA
Found at i:22118739 original size:25 final size:28
Alignment explanation
Indices: 22118711--22118771 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
22118701 CTTATGAGTG
*
22118711 TCTCGATATATA-GCTC-TTC-GGAGCT
1 TCTCGATATAAAGGCTCTTTCAGGAGCT
*
22118736 TCTCGAT-TAAAGGCTCTTTCATGAGCT
1 TCTCGATATAAAGGCTCTTTCAGGAGCT
22118763 TCTCGATAT
1 TCTCGATAT
22118772 TGGCTCTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 3 0.10
25 11 0.37
26 3 0.10
27 12 0.40
28 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (28 bp):
TCTCGATATAAAGGCTCTTTCAGGAGCT
Found at i:22130008 original size:43 final size:43
Alignment explanation
Indices: 22129960--22130043 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
22129950 ACACTAGGGT
*
22129960 AGGACTTTCATTCATTTTCAGACTGTATGCGCCTGATTTTTTG
1 AGGACTTCCATTCATTTTCAGACTGTATGCGCCTGATTTTTTG
22130003 AGGACTTCCATTCATTTTCAGACTGTATGCGCCTGATTTTT
1 AGGACTTCCATTCATTTTCAGACTGTATGCGCCTGATTTTT
22130044 ACTGTTAAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (43 bp):
AGGACTTCCATTCATTTTCAGACTGTATGCGCCTGATTTTTTG
Found at i:22144241 original size:23 final size:23
Alignment explanation
Indices: 22144215--22144259 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
22144205 AATTGGTAGT
22144215 TTCTAGGCTTTGATTGTTCTGTC
1 TTCTAGGCTTTGATTGTTCTGTC
22144238 TTCTAGGCTTTGATTGTTCTGT
1 TTCTAGGCTTTGATTGTTCTGT
22144260 TTGCTTGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.09, C:0.16, G:0.22, T:0.53
Consensus pattern (23 bp):
TTCTAGGCTTTGATTGTTCTGTC
Found at i:22150265 original size:6 final size:6
Alignment explanation
Indices: 22150254--22150339 Score: 172
Period size: 6 Copynumber: 14.3 Consensus size: 6
22150244 TGCTTAGTTG
22150254 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
22150302 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GT
22150340 GTGTGTGTTT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 80 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:22151613 original size:19 final size:19
Alignment explanation
Indices: 22151589--22151625 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
22151579 GTTAGGGGAT
22151589 GTGTCAGCAAAGCGCGGTC
1 GTGTCAGCAAAGCGCGGTC
22151608 GTGTCAGCAAAGCGCGGT
1 GTGTCAGCAAAGCGCGGT
22151626 AATGTCAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.24, G:0.38, T:0.16
Consensus pattern (19 bp):
GTGTCAGCAAAGCGCGGTC
Found at i:22151631 original size:19 final size:19
Alignment explanation
Indices: 22151590--22151633 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
22151580 TTAGGGGATG
**
22151590 TGTCAGCAAAGCGCGGTCG
1 TGTCAGCAAAGCGCGGTAA
22151609 TGTCAGCAAAGCGCGGTAA
1 TGTCAGCAAAGCGCGGTAA
22151628 TGTCAG
1 TGTCAG
22151634 AGCGTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.34, T:0.18
Consensus pattern (19 bp):
TGTCAGCAAAGCGCGGTAA
Found at i:22151876 original size:12 final size:12
Alignment explanation
Indices: 22151855--22151892 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22151845 TTTTCATAAA
*
22151855 CAAATCTTCTCT
1 CAAATTTTCTCT
22151867 CAAATTTTCTCT
1 CAAATTTTCTCT
*
22151879 C-AATTTCCTCT
1 CAAATTTTCTCT
22151890 CAA
1 CAA
22151893 TTTCCTTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (12 bp):
CAAATTTTCTCT
Found at i:22151889 original size:11 final size:11
Alignment explanation
Indices: 22151863--22151898 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
22151853 AACAAATCTT
*
22151863 CTCTCAAATTTT
1 CTCTC-AATTTC
22151875 CTCTCAATTTC
1 CTCTCAATTTC
22151886 CTCTCAATTTC
1 CTCTCAATTTC
22151897 CT
1 CT
22151899 TCCTGATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:22152964 original size:20 final size:21
Alignment explanation
Indices: 22152931--22152970 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
22152921 TAATGAGGTA
22152931 AATTTTATATTAGAT-TTTAC
1 AATTTTATATTAGATATTTAC
22152951 AATTATTATA-TAGATATTTA
1 AATT-TTATATTAGATATTTA
22152971 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (21 bp):
AATTTTATATTAGATATTTAC
Found at i:22153846 original size:18 final size:18
Alignment explanation
Indices: 22153811--22153848 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22153801 CAGGTGCGTT
* *
22153811 TCCTAACCCTTTTTTGTA
1 TCCTAACCCTTATATGTA
22153829 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
22153847 TC
1 TC
22153849 TTTTTTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.29, G:0.05, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:22154419 original size:22 final size:22
Alignment explanation
Indices: 22154376--22154903 Score: 173
Period size: 21 Copynumber: 24.5 Consensus size: 22
22154366 TTTAAAATCC
22154376 TAAACTTAAAAACCTCATAACCT
1 TAAACTTAAAAACCTCA-AACCT
22154399 TAAACTTAAAAACCTCAAACCT
1 TAAACTTAAAAACCTCAAACCT
* * *
22154421 TAAACCT-AAAACATCTAACCT
1 TAAACTTAAAAACCTCAAACCT
* *
22154442 TTAACTT-AAAACCCCAAACCT
1 TAAACTTAAAAACCTCAAACCT
* ** **
22154463 CAAACCTT-AAAA-CTTTAATTT
1 TAAA-CTTAAAAACCTCAAACCT
* *
22154484 TAAAACCTTAACCCTAATCCT-AACCCT
1 T-AAA-CTTAA----AAACCTCAAACCT
*
22154511 TAAA-TTAAAAAAC-CATAACCT
1 TAAACTTAAAAACCTCA-AACCT
* *
22154532 TTAACTTAAAAACCTCAAACCC
1 TAAACTTAAAAACCTCAAACCT
* *
22154554 TAAACCTAAAAACC-C-CACCT
1 TAAACTTAAAAACCTCAAACCT
*
22154574 TAAACCTAAAAA-CTCTAAACC-
1 TAAACTTAAAAACCTC-AAACCT
* ** *
22154595 TAAACTTAAAAACATTTAACCC
1 TAAACTTAAAAACCTCAAACCT
*
22154617 TAAACTTAAAAA-CTCTAACCT
1 TAAACTTAAAAACCTCAAACCT
* *
22154638 TTAAC-TAAAAACCCCAAA-CT
1 TAAACTTAAAAACCTCAAACCT
* * *
22154658 CTAAACCTAAAACCCTTAATA-CT
1 -TAAACTTAAAAACCTCAA-ACCT
* *
22154681 T-AATTTAAAAAACC-CAAACCC
1 TAAACTT-AAAAACCTCAAACCT
* * * *
22154702 CAAAATT-AAAACCTTAAACCC
1 TAAACTTAAAAACCTCAAACCT
22154723 TAAACTTAAAAATCCT-AAACACT
1 TAAACTTAAAAA-CCTCAAAC-CT
* * * *
22154746 AAAACTT--TAACTTTAAAACCT
1 TAAACTTAAAAAC-CTCAAACCT
* *
22154767 TAACAC-T--AATCCT-AACCCT
1 TAA-ACTTAAAAACCTCAAACCT
*
22154786 T-AACTTAAAAACC-CTAACCCT
1 TAAACTTAAAAACCTC-AAACCT
* * *
22154807 T-AGCTTAAAAATGCT-AACCCT
1 TAAACTTAAAAA-CCTCAAACCT
* *
22154828 T-AACTTAAAAACCTTAAACTT
1 TAAACTTAAAAACCTCAAACCT
* * *
22154849 TAAACCTAAAAA-CTATAAACCC
1 TAAACTTAAAAACCT-CAAACCT
* * * *
22154871 TAAACTTTAAAACATAAAACCC
1 TAAACTTAAAAACCTCAAACCT
*
22154893 TAAACCTAAAA
1 TAAACTTAAAA
22154904 CTTAAAAATC
Statistics
Matches: 382, Mismatches: 81, Indels: 85
0.70 0.15 0.16
Matches are distributed among these distances:
17 2 0.01
18 2 0.01
19 7 0.02
20 43 0.11
21 141 0.37
22 139 0.36
23 34 0.09
24 4 0.01
26 3 0.01
27 5 0.01
28 2 0.01
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAACTTAAAAACCTCAAACCT
Found at i:22154853 original size:14 final size:14
Alignment explanation
Indices: 22154836--22154881 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
22154826 CTTAACTTAA
22154836 AAACCTTAAACTTT
1 AAACCTTAAACTTT
* *
22154850 AAACCTAAAAACTAT
1 AAACCT-TAAACTTT
*
22154865 AAACCCTAAACTTT
1 AAACCTTAAACTTT
22154879 AAA
1 AAA
22154882 ACATAAAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (14 bp):
AAACCTTAAACTTT
Found at i:22154896 original size:29 final size:30
Alignment explanation
Indices: 22154836--22154911 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 30
22154826 CTTAACTTAA
* * *
22154836 AAACCTTAAACTTT-AAACCTAAAAACTAT
1 AAACCCTAAACTTTAAAACATAAAAACCAT
*
22154865 AAACCCTAAACTTTAAAACAT-AAAACCCT
1 AAACCCTAAACTTTAAAACATAAAAACCAT
*
22154894 AAA-CCTAAAACTTAAAAA
1 AAACCCT-AAACTTTAAAA
22154912 TCCCTAACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.08
29 32 0.80
30 5 0.12
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.22
Consensus pattern (30 bp):
AAACCCTAAACTTTAAAACATAAAAACCAT
Found at i:22154923 original size:23 final size:21
Alignment explanation
Indices: 22154849--22154924 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 21
22154839 CCTTAAACTT
22154849 TAAACCTAAAA-ACTATAAACCC
1 TAAACCTAAAACA-TA-AAACCC
*
22154871 TAAACTTTAAAACATAAAACCC
1 TAAAC-CTAAAACATAAAACCC
*
22154893 TAAACCTAAAACTTAAAAATCCC
1 TAAACCTAAAACAT-AAAA-CCC
*
22154916 TAACCCTAA
1 TAAACCTAA
22154925 CCCTAAACCT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.15
22 20 0.43
23 18 0.39
24 1 0.02
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCTAAAACATAAAACCC
Found at i:22154946 original size:21 final size:21
Alignment explanation
Indices: 22154917--22155310 Score: 82
Period size: 22 Copynumber: 17.9 Consensus size: 21
22154907 AAAAATCCCT
*
22154917 AACCCTAACCCTAAACCTAAA
1 AACCTTAACCCTAAACCTAAA
* *
22154938 AACCTTAACCCTTAACTTAAA
1 AACCTTAACCCTAAACCTAAA
* *
22154959 AACCATAAACCATAAACCTAAA
1 AACC-TTAACCCTAAACCTAAA
* * * *
22154981 AACAC-TAACCTTTAACTTTTAA
1 AAC-CTTAACCCTAAAC-CTAAA
* *
22155003 ACCCTAAACCCTAAACCATAAA
1 AACCTTAACCCTAAACC-TAAA
*** ** *
22155025 ACACAAAAACTTTAAACCT-TA
1 A-ACCTTAACCCTAAACCTAAA
*
22155046 AA-CTTAAAAACCTTAAACCCT-AA
1 AACCTT---AACCCTAAA-CCTAAA
** *
22155069 AACCTTAACTTTAAAACTCTAACCCT
1 AACCTTAACCCT-AAAC-CTAA---A
* * *
22155095 AATCTTAACCCTTAACTTAAA
1 AACCTTAACCCTAAACCTAAA
* *
22155116 AACCATAACCCTTAAA-TTAAA
1 AACCTTAACCC-TAAACCTAAA
* *
22155137 AACAC-TAACCCTTAACTTAAAA
1 AAC-CTTAACCCTAAACCT-AAA
**
22155159 AATCCCAAACCCTAAACCTAAAA
1 AA-CCTTAACCCTAAACCT-AAA
* **
22155182 AATCTTAAACTTTAAA-CTCAAA
1 AACCTT-AACCCTAAACCT-AAA
* * * *
22155204 ACCCTAAACCTTAAACTTAAA
1 AACCTTAACCCTAAACCTAAA
* *
22155225 AACCTTAAACTCTAAACTTAAAA
1 AACCTT-AACCCTAAACCT-AAA
** * *
22155248 AACCCAAACCTTAAACTTAAA
1 AACCTTAACCCTAAACCTAAA
* *
22155269 AACATTAAACCCTAAACTTAAAA
1 AACCTT-AACCCTAAACCT-AAA
* *
22155292 AACCTCAAACCTCAAACCT
1 AACCTTAACCCT-AAACCT
22155311 TAAACCTCAA
Statistics
Matches: 272, Mismatches: 71, Indels: 58
0.68 0.18 0.14
Matches are distributed among these distances:
20 4 0.01
21 85 0.31
22 103 0.38
23 62 0.23
24 6 0.02
25 3 0.01
26 9 0.03
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCTTAACCCTAAACCTAAA
Done.