Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 64 of 325
Found at i:19707565 original size:102 final size:102
Alignment explanation
Indices: 19707425--19707635 Score: 341
Period size: 102 Copynumber: 2.1 Consensus size: 102
19707415 GAGATGCCAA
* *
19707425 ATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGTCAAATCTACTATCTTCGATCTGCT
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCT
* *
19707490 TTCTGGCAATACAGAGACGCCAAATCTACTATCTTCG
66 CTCTGACAATACAGAGACGCCAAATCTACTATCTTCG
* *
19707527 ATCTGCTATCTTCGATCTGCTCTCTTACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCT
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCT
* * *
19707592 CTCTGACAATACAGAGACGCCAATTTTGCTATCTTCG
66 CTCTGACAATACAGAGACGCCAAATCTACTATCTTCG
19707629 ATCTGCT
1 ATCTGCT
19707636 CTTTGACAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (102 bp):
ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCT
CTCTGACAATACAGAGACGCCAAATCTACTATCTTCG
Found at i:19707575 original size:44 final size:44
Alignment explanation
Indices: 19707527--19707684 Score: 255
Period size: 44 Copynumber: 3.6 Consensus size: 44
19707517 ACTATCTTCG
19707527 ATCTGCTATCTTCGATCTGCTCTCTTACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTTACAATACAGAGACGCCAA
*
19707571 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTTACAATACAGAGACGCCAA
* * *
19707615 TTTTGCTATCTTCGATCTGCTCT-TTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTT-ACAATACAGAGACGCCAA
*
19707659 ATCTGCTATCTTCGATCTGCTATCTT
1 ATCTGCTATCTTCGATCTGCTCTCTT
19707685 CGATCTGCTC
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
43 1 0.01
44 101 0.97
45 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.34
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTTACAATACAGAGACGCCAA
Found at i:19707646 original size:146 final size:146
Alignment explanation
Indices: 19707381--19707745 Score: 561
Period size: 146 Copynumber: 2.5 Consensus size: 146
19707371 GAGACGTCAA
* * *
19707381 ATCTGCTATCTTTGATTTGCTCTCTGACAATACAGAGATGCCAAATCTACTATCTTCGATCTGCT
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCT
* *
19707446 CTCTGACAATACAGAGACGTCAAATCTACTATCTTCGATCTGCTTTCTGGCAATACAGAGACGCC
66 CTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTTTCTGACAATACAGAGACGCC
19707511 AAATCTACTATCTTCG
131 AAATCTACTATCTTCG
* *
19707527 ATCTGCTATCTTCGATCTGCTCTCTTACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCT
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCT
* * * *
19707592 CTCTGACAATACAGAGACGCCAATTTTGCTATCTTCGATCTGCTCTT-TGACAATACAGAGATGC
66 CTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCT-TTCTGACAATACAGAGACGC
*
19707656 CAAATCTGCTATCTTCG
130 CAAATCTACTATCTTCG
* * * *
19707673 ATCTGCTATCTTCGATCTGCTCTCTGATAATACAGAGACGTCAAATCTACTATCTTCAATCTACT
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCT
*
19707738 CTTTGACA
66 CTCTGACA
19707746 GAGACGCCAA
Statistics
Matches: 199, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
146 197 0.99
147 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (146 bp):
ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCT
CTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTTTCTGACAATACAGAGACGCC
AAATCTACTATCTTCG
Found at i:19707678 original size:14 final size:14
Alignment explanation
Indices: 19707659--19707693 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
19707649 GAGATGCCAA
19707659 ATCTGCTATCTTCG
1 ATCTGCTATCTTCG
19707673 ATCTGCTATCTTCG
1 ATCTGCTATCTTCG
19707687 ATCTGCT
1 ATCTGCT
19707694 CTCTGATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (14 bp):
ATCTGCTATCTTCG
Found at i:19707686 original size:58 final size:58
Alignment explanation
Indices: 19707618--19707734 Score: 180
Period size: 58 Copynumber: 2.0 Consensus size: 58
19707608 ACGCCAATTT
* * * *
19707618 TGCTATCTTCGATCTGCTCTTTGACAATACAGAGATGCCAAATCTGCTATCTTCGATC
1 TGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCAATC
* *
19707676 TGCTATCTTCGATCTGCTCTCTGATAATACAGAGACGTCAAATCTACTATCTTCAATC
1 TGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCAATC
19707734 T
1 T
19707735 ACTCTTTGAC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (58 bp):
TGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCAATC
Found at i:19722252 original size:47 final size:47
Alignment explanation
Indices: 19722198--19722391 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
19722188 TTAGGATTTT
** * *
19722198 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
19722245 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
19722292 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
19722339 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
19722386 ATGTGA
1 ATGTGA
19722392 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:19722298 original size:22 final size:22
Alignment explanation
Indices: 19722227--19722298 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
19722217 GTATATATGA
19722227 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
19722249 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
19722274 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
19722296 GAT
1 GAT
19722299 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:19722347 original size:25 final size:25
Alignment explanation
Indices: 19722272--19722347 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
19722262 ATGCATATAT
19722272 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
19722297 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
19722319 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
19722344 GTGA
1 GTGA
19722348 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:19722424 original size:48 final size:48
Alignment explanation
Indices: 19722361--19722543 Score: 323
Period size: 48 Copynumber: 3.8 Consensus size: 48
19722351 TGAACATGCA
19722361 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
19722409 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
19722457 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATGAGATATG
*
19722505 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
19722544 GGCGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
47 1 0.01
48 126 0.98
49 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:19724082 original size:40 final size:40
Alignment explanation
Indices: 19724027--19724413 Score: 676
Period size: 40 Copynumber: 9.8 Consensus size: 40
19724017 GAGAATTGAG
19724027 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
19724067 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
19724107 AGTGATGTATCC-GGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
19724146 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
19724186 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
19724226 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
19724266 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
19724306 AGTGATATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
19724345 AGTGATGTATCC--GCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
19724383 -GTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
19724414 ATCATGCTGG
Statistics
Matches: 332, Mismatches: 11, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
37 16 0.05
38 18 0.05
39 83 0.25
40 215 0.65
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:19724331 original size:159 final size:159
Alignment explanation
Indices: 19724027--19724413 Score: 701
Period size: 159 Copynumber: 2.5 Consensus size: 159
19724017 GAGAATTGAG
*
19724027 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
19724092 AAGAGCATTCGTGCTAGTGATGTATCCGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATC
66 AAGAGCATTCGTGCTAGTGATGTATCCGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATC
19724157 CGGGCTAAGTCCCGAAGAGCATTCGTGCT
131 CGGGCTAAGTCCCGAAGAGCATTCGTGCT
19724186 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
19724251 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
66 AAGAGCATTCGTGCTAGTGATGTATCC-GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
19724316 CCGGGCTAAGT-CCGAAGAGCATTCGTGCT
130 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
19724345 AGTGATGTATCC--GCTAAGTTCCGAAGAGCATTCGTGCT-GTGTTATATCCGGGCTAGGTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
19724407 AAGAGCA
66 AAGAGCA
19724414 ATCATGCTGG
Statistics
Matches: 223, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
156 29 0.13
157 25 0.11
159 121 0.54
160 48 0.22
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (159 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AAGAGCATTCGTGCTAGTGATGTATCCGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATC
CGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:19728497 original size:47 final size:47
Alignment explanation
Indices: 19728443--19728639 Score: 270
Period size: 47 Copynumber: 4.1 Consensus size: 47
19728433 TTAGGATTTT
** * *
19728443 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
19728490 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
19728537 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
19728584 ATGTGGTATGAATGCATGAA-ATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGT-G-ATGAATG--TGAACATGCATATATGTGATAAGGCCGAATGGCCA
19728634 ATGTGA
1 ATGTGA
19728640 AATATGTATG
Statistics
Matches: 135, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
47 92 0.68
48 2 0.01
49 8 0.06
50 30 0.22
51 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:19728543 original size:22 final size:22
Alignment explanation
Indices: 19728472--19728543 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
19728462 GTATATATGA
19728472 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
19728494 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
19728519 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
19728541 GAT
1 GAT
19728544 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:19728915 original size:36 final size:37
Alignment explanation
Indices: 19728853--19728959 Score: 180
Period size: 36 Copynumber: 2.9 Consensus size: 37
19728843 GGAAATATAT
19728853 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
19728890 TCCGGGTAAGACCC-ATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
19728926 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
19728960 TCGTCTGAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 35 0.53
37 31 0.47
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:19730520 original size:15 final size:15
Alignment explanation
Indices: 19730500--19730535 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
19730490 AATGACGCCA
19730500 TTTTAAAGCTTATTG
1 TTTTAAAGCTTATTG
19730515 TTTTAAAGCTTATTG
1 TTTTAAAGCTTATTG
19730530 TTTTAA
1 TTTTAA
19730536 GCAAAACGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.56
Consensus pattern (15 bp):
TTTTAAAGCTTATTG
Found at i:19733337 original size:12 final size:12
Alignment explanation
Indices: 19733320--19733345 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19733310 AAAATTCATG
19733320 AAAATTAATTAA
1 AAAATTAATTAA
19733332 AAAATTAATTAA
1 AAAATTAATTAA
19733344 AA
1 AA
19733346 TTCAACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAATTAA
Found at i:19740470 original size:28 final size:29
Alignment explanation
Indices: 19740433--19740528 Score: 122
Period size: 29 Copynumber: 3.3 Consensus size: 29
19740423 AAGTCTACAT
* * *
19740433 ACATGCATATGGCCCACTAGGCCC-ACTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
19740461 TCATTCATATAGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
19740490 ACATTCGTATGTCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
19740519 ACATTCATAT
1 ACATTCATAT
19740529 ACATGCTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 20 0.35
29 37 0.65
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:19746166 original size:51 final size:51
Alignment explanation
Indices: 19746001--19746178 Score: 238
Period size: 52 Copynumber: 3.5 Consensus size: 51
19745991 ACTAGTGACT
*
19746001 CAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
* *
19746050 CAAGTGTGGTACTATGTGAAGGCCAGTTTATGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* * * *
19746102 CAAGTGTAGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGATTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
19746153 CAAG-GATGGTACTATGTGCAA-GCCAC
1 CAAGTG-TGGTACTATGTG-AAGGCCAC
19746179 CGGGTATCCA
Statistics
Matches: 114, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
49 32 0.28
50 1 0.01
51 40 0.35
52 41 0.36
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:19748741 original size:40 final size:40
Alignment explanation
Indices: 19748671--19748888 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
19748661 AAACCAAGTA
* * *
19748671 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGAGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
19748710 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
19748750 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
19748790 CCTTCGAGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
19748830 CCTTCGAGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGAGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
19748870 CCTTCGGGACTTAGCCCGG
1 CCTTCGAGACTTAGCCCGG
19748889 TTACCATCCG
Statistics
Matches: 169, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 15 0.09
40 154 0.91
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19758459 original size:79 final size:80
Alignment explanation
Indices: 19758299--19758523 Score: 228
Period size: 79 Copynumber: 2.8 Consensus size: 80
19758289 TTGAATGATG
* * * * * * * *
19758299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCAAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCAAAGGCAT
19758362 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
*
19758379 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCAAAGGCA
1 TCCGGACTAAG-TCCCAAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCAAAGGCA
*
19758440 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** * * *
19758458 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCAAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCAAAGGCATTT
19758523 G
66 G
19758524 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
78 2 0.02
79 66 0.54
80 44 0.36
81 9 0.07
82 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCAAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCAAAGGCATTT
GTGCGAGATACTAAA
Found at i:19758488 original size:40 final size:40
Alignment explanation
Indices: 19758299--19758523 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
19758289 TTGAATGATG
* * * *
19758299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
19758339 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
19758379 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19758419 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
19758458 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19758499 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19758524 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19758542 original size:119 final size:120
Alignment explanation
Indices: 19758299--19758529 Score: 267
Period size: 119 Copynumber: 1.9 Consensus size: 120
19758289 TTGAATGATG
* *
19758299 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCAAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
19758364 GTGCGAGATACTAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCAAAGGCATTTGAACGAGATACTAAT
* * * **
19758419 TCCGGGCTAAG-CCCAAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
19758481 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCAAAGGCATTTGAACGAG
19758530 GAGCTATATC
Statistics
Matches: 94, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
118 3 0.03
119 71 0.76
120 20 0.21
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCAAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCAAAGGCATTTGAACGAGATACTAAT
Found at i:19758545 original size:79 final size:79
Alignment explanation
Indices: 19758355--19758556 Score: 182
Period size: 79 Copynumber: 2.6 Consensus size: 79
19758345 CTAAGATCCG
** ** *
19758355 AAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAA
1 AAGGCATTTGAACGAG-TGACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATACTAA
*
19758418 TTCCGGGCTAAGCCCA
64 TACCGGGCTAAGCCCA
** * *
19758434 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 AAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
19758497 AACCGGGCTATGTCCCG
65 -ACCGGGCTAAG-CCCA
* *
19758514 AAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 AAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
19758557 TACGTGATTT
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
78 5 0.05
79 75 0.72
80 24 0.23
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (79 bp):
AAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAATA
CCGGGCTAAGCCCA
Found at i:19762893 original size:51 final size:51
Alignment explanation
Indices: 19762769--19762988 Score: 263
Period size: 51 Copynumber: 4.4 Consensus size: 51
19762759 ACTAGTGACT
*
19762769 CAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
* * *
19762818 CAAGTGTGGTACCATGTGAAGGCCAGTTTATGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* * * * *
19762870 CAAGTGTAGTACTATGTG-AGGCCATTTTGTGAAGAAGGTAGCTTTGATTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
* *
19762920 CAAG-GATGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTG-TGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
19762971 CAAG-GATGGTACTATGTG
1 CAAGTG-TGGTACTATGTG
19762989 CAGGTCACCG
Statistics
Matches: 149, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
49 32 0.21
50 28 0.19
51 66 0.44
52 23 0.15
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:19762974 original size:101 final size:101
Alignment explanation
Indices: 19762764--19762988 Score: 264
Period size: 101 Copynumber: 2.2 Consensus size: 101
19762754 ACGTCACTAG
*
19762764 TGACT-CAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAGAGATAGCTTGGTCACAAGTGTGGT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAGAGATAGCTTGATCACAAGTGTGGT
*
19762828 ACCATGTGAAGGCCAGTTTATGAAGAAAGATAGCTT
66 ACCATGTGAAGGCCACTTTATGAAGAAAGATAGCTT
* * * * * *
19762864 TG-GTCACAAGTGTAGTACTATGTG-AGGCCATTTTGTGAAGAAGGTAGCTTTGATTACAAG-GA
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAG-AGATAGC-TTGATCACAAGTG-
* * *
19762926 TGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTT
62 TGGTACCATGTGAAGGCCACTTTATGAAGAAAGATAGCTT
19762965 TGACTACAAG-GATGGTACTATGTG
1 TGACTACAAGTG-TGGTACTATGTG
19762989 CAGGTCACCG
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
99 1 0.01
100 17 0.16
101 51 0.49
102 36 0.34
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (101 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAGAGATAGCTTGATCACAAGTGTGGT
ACCATGTGAAGGCCACTTTATGAAGAAAGATAGCTT
Found at i:19769702 original size:20 final size:20
Alignment explanation
Indices: 19769677--19769721 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
19769667 CATTAATTAT
*
19769677 ATTTTATTAAATGGAAA-TAA
1 ATTTTAATAAAT-GAAACTAA
*
19769697 ATTTTAATACATGAAACTAA
1 ATTTTAATAAATGAAACTAA
19769717 ATTTT
1 ATTTT
19769722 TAAATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (20 bp):
ATTTTAATAAATGAAACTAA
Found at i:19771317 original size:14 final size:14
Alignment explanation
Indices: 19771299--19771329 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
19771289 GTATTTTAGA
19771299 ATTTTTTA-TTTTT
1 ATTTTTTACTTTTT
19771312 ATTTTTTACTTTTT
1 ATTTTTTACTTTTT
19771326 ATTT
1 ATTT
19771330 AATAAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (14 bp):
ATTTTTTACTTTTT
Found at i:19773027 original size:51 final size:49
Alignment explanation
Indices: 19772834--19773034 Score: 206
Period size: 50 Copynumber: 4.0 Consensus size: 49
19772824 CACTTGTAGC
* * * *
19772834 CAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
1 CAAA-CTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
* * * * *
19772884 CCAATTATCCGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGA
1 CAAACTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
* * * * *
19772933 CCTAACCATCTA-ATACACGTAGTTGCCTGCACTTAGTACTACACACGTGA
1 -CAAACTATC-AGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
* *
19772983 TCAAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
1 -CAAA-CTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
19773034 C
1 C
19773035 CTTACAATAG
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
49 38 0.31
50 49 0.40
51 37 0.30
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CAAACTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
Found at i:19773031 original size:101 final size:99
Alignment explanation
Indices: 19772853--19773036 Score: 278
Period size: 101 Copynumber: 1.8 Consensus size: 99
19772843 CTGGTACGCA
* * * * *
19772853 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGTACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCAGGTACACATAGTAGCCTGCACTTA
19772918 GTACTACACACGTGACCTAACCATCTAATACACG
66 GTACTACACACGTGACCTAACCATCTAATACACG
* * *
19772952 TAGTTGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CAAA-TTATCAGGTACACATAGTAGCCTGCACT
19773017 TAGTACTACACACGTGACCT
64 TAGTACTACACACGTGACCT
19773037 TACAATAGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
99 28 0.37
100 3 0.04
101 44 0.59
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTAATACACG
Found at i:19774808 original size:18 final size:20
Alignment explanation
Indices: 19774771--19774812 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
19774761 TCATTGTTTC
19774771 AAAATCAATTGATTTACAGA
1 AAAATCAATTGATTTACAGA
*
19774791 AAAATCAA-T-ATTTTCAGA
1 AAAATCAATTGATTTACAGA
19774809 AAAA
1 AAAA
19774813 ATGTTTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 1 0.05
20 8 0.38
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAATCAATTGATTTACAGA
Found at i:19775383 original size:20 final size:20
Alignment explanation
Indices: 19775350--19775392 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
19775340 TACCTGCAAG
19775350 AAAACAAAAGGGAC-AACAAC
1 AAAACAAAAGGGACGAA-AAC
19775370 AAAA-AAAAGAGGACGAAAAC
1 AAAACAAAAG-GGACGAAAAC
19775390 AAA
1 AAA
19775393 TTGTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.24
20 14 0.67
21 2 0.10
ACGTcount: A:0.70, C:0.14, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAACAAAAGGGACGAAAAC
Found at i:19776587 original size:23 final size:22
Alignment explanation
Indices: 19776524--19776603 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
19776514 CTCTATACTT
*
19776524 TATTATTTTTTATACATGTTATTTA
1 TATTATTTTTTA-A-AT-TTATGTA
*
19776549 TATTAATTTTTAAATTTATGTA
1 TATTATTTTTTAAATTTATGTA
* *
19776571 TATTATTTGTTTAAATTAATGCA
1 TATTATTT-TTTAAATTTATGTA
19776594 TATTATTTTT
1 TATTATTTTT
19776604 GCATATTACT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.31
23 22 0.45
24 1 0.02
25 11 0.22
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (22 bp):
TATTATTTTTTAAATTTATGTA
Found at i:19778761 original size:19 final size:19
Alignment explanation
Indices: 19778739--19778778 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
19778729 GTTTTATGTA
19778739 AAGGAATTTATTTTCTAGG
1 AAGGAATTTATTTTCTAGG
*
19778758 AAGGAATTTGTTTTCTAGG
1 AAGGAATTTATTTTCTAGG
19778777 AA
1 AA
19778779 AGTTGTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.40
Consensus pattern (19 bp):
AAGGAATTTATTTTCTAGG
Found at i:19783789 original size:226 final size:226
Alignment explanation
Indices: 19783476--19783952 Score: 837
Period size: 226 Copynumber: 2.1 Consensus size: 226
19783466 GATAGCGAAT
19783476 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTTTGA
1 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTTTGA
*
19783541 AATTGCAGTAGAGCAGATCATAGCAAGCCCTATCTCTCTAAAGTTGCAGTGGAACAGGTTAAAAT
66 AATTGCAGTAGAGCAGATCATAGCAAGCCCTATCTCCCTAAAGTTGCAGTGGAACAGGTTAAAAT
*
19783606 GACAGGTCTTATTTCCCTGAAGTTGTAGTGGAGCAGACCAAAAACGGAAAATCTTATCTCCATGT
131 GACAGGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACCAAAAACGGAAAATCTTATCTCCATGT
19783671 ATCGGCAATGGAGCAGATTTAAGCCATAAGC
196 ATCGGCAATGGAGCAGATTTAAGCCATAAGC
19783702 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTTTGA
1 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTTTGA
* * * * * *
19783767 AGTTGCAGTAGAGCATATCATAGCAAGCCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGT
66 AATTGCAGTAGAGCAGATCATAGCAAGCCCTATCTCCCTAAAGTTGCAGTGGAACAGGTTAAAAT
* * *
19783832 GACAGGTCTTATTTCCCTGAGGTTGCAGTGGAGCAGACCAAAGACGGCAAATCTTATCTCCATGT
131 GACAGGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACCAAAAACGGAAAATCTTATCTCCATGT
19783897 ATCGGCAATGGAGCAGATTTAAGCCATAAGC
196 ATCGGCAATGGAGCAGATTTAAGCCATAAGC
* *
19783928 CTTATCTCCCTAAAGTTGCAGTGGA
1 CTTATTTCCCTGAAGTTGCAGTGGA
19783953 GCAGGCTCAA
Statistics
Matches: 238, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
226 238 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (226 bp):
CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTTTGA
AATTGCAGTAGAGCAGATCATAGCAAGCCCTATCTCCCTAAAGTTGCAGTGGAACAGGTTAAAAT
GACAGGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACCAAAAACGGAAAATCTTATCTCCATGT
ATCGGCAATGGAGCAGATTTAAGCCATAAGC
Found at i:19784188 original size:44 final size:45
Alignment explanation
Indices: 19784105--19784198 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 45
19784095 AGCCACTAGC
*** *
19784105 CTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGACGATTGTAG-T
1 CTTATCTCTCTAAGGTAGCAAGAGAGCAGACCGAAGATTGTAGAT
*
19784149 CTTATCTTTCTAAGGTAGCAAG-GAAGCAGACCGAAGATTGTAGAT
1 CTTATCTCTCTAAGGTAGCAAGAG-AGCAGACCGAAGATTGTAGAT
19784194 CTTAT
1 CTTAT
19784199 TTCCCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 36 0.84
45 6 0.14
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (45 bp):
CTTATCTCTCTAAGGTAGCAAGAGAGCAGACCGAAGATTGTAGAT
Found at i:19784847 original size:17 final size:16
Alignment explanation
Indices: 19784827--19784867 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
19784817 TTTTCAAAGG
19784827 CCCAAATTAACCCTAAA
1 CCCAAATTAACCCT-AA
**
19784844 CCCAAACAAACCCTAA
1 CCCAAATTAACCCTAA
19784860 CCCAAATT
1 CCCAAATT
19784868 GACCAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (16 bp):
CCCAAATTAACCCTAA
Found at i:19786738 original size:10 final size:10
Alignment explanation
Indices: 19786720--19786786 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
19786710 TTTACATACA
19786720 TATTATATAT
1 TATTATATAT
*
19786730 TATTCTATAT
1 TATTATATAT
*
19786740 TATTATGTCAT
1 TATTATAT-AT
* *
19786751 T-TTGTATAC
1 TATTATATAT
19786760 TATTATATAT
1 TATTATATAT
* *
19786770 TTTTATCTAT
1 TATTATATAT
19786780 ATATTAT
1 -TATTAT
19786787 CATTATTAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
9 2 0.05
10 33 0.77
11 8 0.19
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (10 bp):
TATTATATAT
Found at i:19786745 original size:20 final size:19
Alignment explanation
Indices: 19786715--19786783 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
19786705 TTATTTTTAC
19786715 ATACATATTATATATTATTCT
1 ATAC-TATTATATATT-TTCT
* * *
19786736 ATATTATTATGTCATTTTGT
1 ATACTATTATAT-ATTTTCT
19786756 ATACTATTATATATTTT-T
1 ATACTATTATATATTTTCT
19786774 AT-CTA-TATAT
1 ATACTATTATAT
19786784 TATCATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
18 3 0.07
19 5 0.12
20 20 0.48
21 6 0.14
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (19 bp):
ATACTATTATATATTTTCT
Found at i:19789226 original size:22 final size:25
Alignment explanation
Indices: 19789183--19789233 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 25
19789173 TTCTATACTT
* *
19789183 TATTATTTTTTATACATGTTATTTA
1 TATTAATTTTTATACATGTTATGTA
19789208 TATTAATTTTT-TA-AT-TTATGTA
1 TATTAATTTTTATACATGTTATGTA
19789230 TATT
1 TATT
19789234 CTTTGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 2 0.08
24 2 0.08
25 10 0.42
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (25 bp):
TATTAATTTTTATACATGTTATGTA
Found at i:19791862 original size:333 final size:334
Alignment explanation
Indices: 19791256--19791923 Score: 1302
Period size: 333 Copynumber: 2.0 Consensus size: 334
19791246 CACACCAATG
19791256 CCTTAATATTCGAGAAAACCCCAAAATCACCAAATCAATATCCCCAACCTAACATGATAGACAAT
1 CCTTAATATTCGAGAAAACCCCAAAATCACCAAATCAATATCCCCAACCTAACATGATAGACAAT
19791321 GAAACAATACCAAACTTACCACAATCTCTTGAATACGACACTATGAACAACACTCTCAAAATGAC
66 GAAACAATACCAAACTTACCACAATCTCTTGAATACGACACTATGAACAACACTCTCAAAATGAC
19791386 TCAATGGCCCCAACAAAAACAAGATTTAATTTGACAAAAACCAAGAAAAACCAAACCAAGAGACA
131 TCAATGGCCCCAACAAAAACAAGATTTAATTTGACAAAAACCAAGAAAAACCAAACCAAGAGACA
19791451 AAGAGATGAAAATGAAAACGGCGTGAAGTGGGAAGAGAAGAAAAAAGGAAAAACGTGGGAGAAGT
196 AAGAGATGAAAATGAAAACGGCGTGAAGTGGGAAGAGAAGAAAAAAGGAAAAACGTGGGAGAAGT
19791516 GTAACAGATTTTTAGGGTCAAAAATAAATTAAAAC-AAAAAAAAATCAAATCAAATACAAATCTC
261 GTAACAGATTTTTAGGGTCAAAAATAAATTAAAACAAAAAAAAAATCAAATCAAATACAAATCTC
19791580 TGGCCAACT
326 TGGCCAACT
19791589 CCTTAATATTCGAGAAAACCCCAAAATCACCAAATCAATATCCCCAACCTAACATGATAGACAAT
1 CCTTAATATTCGAGAAAACCCCAAAATCACCAAATCAATATCCCCAACCTAACATGATAGACAAT
19791654 GAAACAATACCAAACTTACCACAATCTCTTGAATACGACACTATGAACAACACTCTCAAAATGAC
66 GAAACAATACCAAACTTACCACAATCTCTTGAATACGACACTATGAACAACACTCTCAAAATGAC
*
19791719 TCAATGGCCCCAACAAAAACAAGATTTAATTTGACAAAAACCAAGAAAAACCAAAGCAAGAGACA
131 TCAATGGCCCCAACAAAAACAAGATTTAATTTGACAAAAACCAAGAAAAACCAAACCAAGAGACA
*
19791784 AAGAGATGAAAATGAAAACGGCGTGAAGTGGGAAGAGAAGAAAAAAGGAAAAATGTGGGAGAAGT
196 AAGAGATGAAAATGAAAACGGCGTGAAGTGGGAAGAGAAGAAAAAAGGAAAAACGTGGGAGAAGT
*
19791849 GTAGCAGATTTTTAGGGTCAAAAATAAATTAAAACAAAAAAAAAATCAAATCAAATACAAATCTC
261 GTAACAGATTTTTAGGGTCAAAAATAAATTAAAACAAAAAAAAAATCAAATCAAATACAAATCTC
19791914 TGGCCAACT
326 TGGCCAACT
19791923 C
1 C
19791924 ACTCCTCCCC
Statistics
Matches: 331, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
333 292 0.88
334 39 0.12
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (334 bp):
CCTTAATATTCGAGAAAACCCCAAAATCACCAAATCAATATCCCCAACCTAACATGATAGACAAT
GAAACAATACCAAACTTACCACAATCTCTTGAATACGACACTATGAACAACACTCTCAAAATGAC
TCAATGGCCCCAACAAAAACAAGATTTAATTTGACAAAAACCAAGAAAAACCAAACCAAGAGACA
AAGAGATGAAAATGAAAACGGCGTGAAGTGGGAAGAGAAGAAAAAAGGAAAAACGTGGGAGAAGT
GTAACAGATTTTTAGGGTCAAAAATAAATTAAAACAAAAAAAAAATCAAATCAAATACAAATCTC
TGGCCAACT
Found at i:19802881 original size:69 final size:69
Alignment explanation
Indices: 19802768--19803341 Score: 309
Period size: 69 Copynumber: 8.3 Consensus size: 69
19802758 AGATAATCAG
* * * * *** *
19802768 TTGAGAGCTTTGCTCTTGTTAACTATATTGGAGTCTATGGCTCTTCACCTACTAGCCTTAGTATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTACGAGCCTTAGTATG
19802833 ATAC
66 ATAC
* * ** * *
19802837 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGTTGCAACTCTTTGCTTACAAGCCTTAGTATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTACGAGCCTTAGTATG
* *
19802902 GTAG
66 ATAC
* * *** * * **
19802906 ATGAGAGTTTTGCTCTCATTAACAGTGTTGAAGGCTGCAGCTCTTCACCTGTGAGCCTTAGTATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTACGAGCCTTAGTATG
*
19802971 ATAG
66 ATAC
* * * * * * *
19802975 TTG-GAGCTTTGTTCTTACTAACTGTGTTAGAGGCTGTACCTCTTCACCTGCGAGCCTTAATATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTACGAGCCTTAGTATG
*
19803039 ACAGC
66 ATA-C
* * * * **
19803044 -TGGGAACTTTAG-TCTTGCTAACTGTGTTGGAGGCTGCGGCTTTTTGCCTACGAGCCTTAGTAT
1 TTGAGAGCTTT-GCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTACGAGCCTTAGTAT
*
19803107 GACAAC
65 GA-TAC
* * * * * * ** * *
19803113 TAG-GAACTTTACTCTTGCTAATTGTGTTGGAGACTGCAGCTATTTGCATACGAGCCTTACTATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTACGAGCCTTAGTATG
*
19803177 ACAAC
66 A-TAC
* *** * * * ** * ** * *
19803182 -GGA-AGCAAAGCTCTCGCTAACTGTATTAGAGGCTGTGGCTCTTCGCCTGTGAGCTTTACTATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTACGAGCCTTAGTATG
*
19803245 AAAGC
66 ATA-C
* * * * * * * ** *
19803250 -TGGGAGCTTTGCTCTCGCTAACTATGCTAGG-GGCTACGGATCTTTGCCTGCGAGCCTTAGTAT
1 TTGAGAGCTTTGCTCTTGCTAACTGTG-TTGGAGGCTGCAGCTCTTCACCTACGAGCCTTAGTAT
* *
19803313 GACAG
65 GATAC
* *
19803318 TTGGGAGCTTTGCTCTCGCTAACT
1 TTGAGAGCTTTGCTCTTGCTAACT
19803342 ATGTAACACT
Statistics
Matches: 392, Mismatches: 102, Indels: 22
0.76 0.20 0.04
Matches are distributed among these distances:
67 2 0.01
68 100 0.26
69 285 0.73
70 5 0.01
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (69 bp):
TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTACGAGCCTTAGTATG
ATAC
Found at i:19805224 original size:39 final size:39
Alignment explanation
Indices: 19805170--19805288 Score: 220
Period size: 39 Copynumber: 3.1 Consensus size: 39
19805160 TACCAGCACT
* *
19805170 AGCACGAAGCCTGCGGGTCTTTAGCCCGGACACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
19805209 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
19805248 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
19805287 AG
1 AG
19805289 TGTCTTGCAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:19807018 original size:69 final size:69
Alignment explanation
Indices: 19806941--19807308 Score: 336
Period size: 69 Copynumber: 5.3 Consensus size: 69
19806931 GTTTCACCTA
* *
19806941 GAGCTTTGCTCTCACTAATTGTGCTAGGGGTTACGACTCTTCGCCTGTGAGCCTTAGTATGGCAG
1 GAGCTTTGCTCTCACTAATTGTGCTAGGGGTTACGACTCTTCGCCTGCGAGCCTTAGTATGACAG
19807006 TTGG
66 TTGG
19807010 GAGCTTTGCTCTCACTAATTGTGCTAGGGGTTACGACTCTTCGCCTGCGAGCCTTAGTATGGA-A
1 GAGCTTTGCTCTCACTAATTGTGCTAGGGGTTACGACTCTTCGCCTGCGAGCCTTAGTAT-GACA
19807074 GTTGG
65 GTTGG
* * * *
19807079 GAGCTTTGCTCTCATTAATTGT-ATAGGAGGTTTC-AGCTCTTCACCTGCGAGCCTTAGTATGAC
1 GAGCTTTGCTCTCACTAATTGTGCTAGG-GGTTACGA-CTCTTCGCCTGCGAGCCTTAGTATGAC
19807142 A-TCTGG
64 AGT-TGG
* * * * * * ** * * * * * *
19807148 GAGCTCTGCTCTCTCTAACTCT-ATTGGAGGTTGTGACTCTTTGCTTGCAAGTCTTAATTTGACA
1 GAGCTTTGCTCTCACTAATTGTGCTAGG-GGTTACGACTCTTCGCCTGCGAGCCTTAGTATGACA
** *
19807212 ACTAG
65 GTTGG
* * * * * * *
19807217 GAGCTTTGCTCTCACTAACTATGCTAGGGGCTGTA-G-CTATTCTCATGTGAGCCTTACTATGAC
1 GAGCTTTGCTCTCACTAATTGTGCTAGGGG-T-TACGACTCTTCGCCTGCGAGCCTTAGTATGAC
19807280 AGTTGG
64 AGTTGG
* *
19807286 GAGCTTTTCTCTCGCTAATTGTG
1 GAGCTTTGCTCTCACTAATTGTG
19807309 ATGTGGGCTG
Statistics
Matches: 244, Mismatches: 45, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
68 8 0.03
69 228 0.93
70 7 0.03
71 1 0.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (69 bp):
GAGCTTTGCTCTCACTAATTGTGCTAGGGGTTACGACTCTTCGCCTGCGAGCCTTAGTATGACAG
TTGG
Found at i:19807220 original size:138 final size:138
Alignment explanation
Indices: 19807078--19807421 Score: 337
Period size: 138 Copynumber: 2.5 Consensus size: 138
19807068 ATGGAAGTTG
* * * * *
19807078 GGAGCTTTGCTCTCATTAA-T-TGTATAGGAGG-TTTCAGCTCTTCACCTGCGAGCCTTAGTATG
1 GGAGCTTTGCTCTCACTAACTATG-ATAGG-GGCTGT-AGCTATTCACATGCGAGCCTTACTATG
* * **
19807140 ACA-TCTGGGAGCTCTGCTCTCTCTAACTCT-AT-TGGAGGTTGT-GACTCTTTGCTTGCAAGTC
63 ACAGT-TGGGAGCTCTGCTCTCGCTAACTCTGATGT-G-GGCTGTAG-CTCTTTGCTCACAAGTC
19807201 TTAATTTGACAACTA
124 TTAATTTGACAACTA
* * *
19807216 GGAGCTTTGCTCTCACTAACTATGCTAGGGGCTGTAGCTATTCTCATGTGAGCCTTACTATGACA
1 GGAGCTTTGCTCTCACTAACTATGATAGGGGCTGTAGCTATTCACATGCGAGCCTTACTATGACA
* * * * *
19807281 GTTGGGAGCTTTTCTCTCGCTAATTGTGATGTGGGCTGTAGCTCTTTGCTCACAAGTCTTAGTTT
66 GTTGGGAGCTCTGCTCTCGCTAACTCTGATGTGGGCTGTAGCTCTTTGCTCACAAGTCTTAATTT
19807346 GACAACTA
131 GACAACTA
* * * * * * * *
19807354 GGAGCTTTGCTCTCACTAGCTGTGCT-GAGGCTGTAGCTATTCGCCTACGAG-CTTAATATGACA
1 GGAGCTTTGCTCTCACTAACTATGATAGGGGCTGTAGCTATTCACATGCGAGCCTTACTATGACA
19807417 GTTGG
66 GTTGG
19807422 ATGCTAGGGG
Statistics
Matches: 174, Mismatches: 25, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
136 16 0.09
137 20 0.11
138 123 0.71
139 12 0.07
140 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (138 bp):
GGAGCTTTGCTCTCACTAACTATGATAGGGGCTGTAGCTATTCACATGCGAGCCTTACTATGACA
GTTGGGAGCTCTGCTCTCGCTAACTCTGATGTGGGCTGTAGCTCTTTGCTCACAAGTCTTAATTT
GACAACTA
Found at i:19817741 original size:13 final size:14
Alignment explanation
Indices: 19817711--19817743 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19817701 GAGAGGAAGA
19817711 AAGGAGAAAAATGG
1 AAGGAGAAAAATGG
*
19817725 AAGGAGAAAGA-GG
1 AAGGAGAAAAATGG
19817738 AAGGAG
1 AAGGAG
19817744 TGGCCAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.03
Consensus pattern (14 bp):
AAGGAGAAAAATGG
Found at i:19822565 original size:20 final size:20
Alignment explanation
Indices: 19822524--19822566 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
19822514 ATTTCCTACG
* *
19822524 TTGGCCCATTTTTTCGGTTT
1 TTGGCCCATTTTCTCGCTTT
19822544 TTGGCCCA-TTTCTCGCTCTT
1 TTGGCCCATTTTCTCGCT-TT
19822564 TTG
1 TTG
19822567 ACTCTCCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.05, C:0.26, G:0.19, T:0.51
Consensus pattern (20 bp):
TTGGCCCATTTTCTCGCTTT
Found at i:19826936 original size:27 final size:28
Alignment explanation
Indices: 19826905--19827033 Score: 117
Period size: 27 Copynumber: 4.8 Consensus size: 28
19826895 CTGCCAGAAC
*
19826905 AGATA-ATGTGACAGAGTCACCAGATAT
1 AGATATATGTGACAGAGCCACCAGATAT
* *
19826932 AGATA-ATCGTGGCAGAGCCACCAGA-AC
1 AGATATAT-GTGACAGAGCCACCAGATAT
19826959 AGATATATGT-AGCAGAGCCACCAGAT-T
1 AGATATATGTGA-CAGAGCCACCAGATAT
* * *
19826986 AGATATTTGTGGCAGAGCCACCAGAT-C
1 AGATATATGTGACAGAGCCACCAGATAT
* * *
19827013 AGATATTTGTGGCATAGCCAC
1 AGATATATGTGACAGAGCCAC
19827034 TAGAACGCTT
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
27 71 0.81
28 17 0.19
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (28 bp):
AGATATATGTGACAGAGCCACCAGATAT
Found at i:19826962 original size:54 final size:54
Alignment explanation
Indices: 19826898--19827033 Score: 177
Period size: 54 Copynumber: 2.5 Consensus size: 54
19826888 AGCATGGCTG
*
19826898 CCAGAACAGATA-ATGT-GACAGAGTCACCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTAG-CAGAGCCACCAGAT-TAGATAATCGTGGCAGAGCCA
* *
19826952 CCAGAACAGATATATGTAGCAGAGCCACCAGATTAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTAGCAGAGCCACCAGATTAGATAATCGTGGCAGAGCCA
* * * *
19827006 CCAGATCAGATATTTGTGGCATAGCCAC
1 CCAGAACAGATATATGTAGCAGAGCCAC
19827034 TAGAACGCTT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
54 55 0.75
55 17 0.23
56 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (54 bp):
CCAGAACAGATATATGTAGCAGAGCCACCAGATTAGATAATCGTGGCAGAGCCA
Found at i:19828667 original size:26 final size:26
Alignment explanation
Indices: 19828631--19828792 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
19828621 CATGAAATTC
19828631 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19828657 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19828683 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
19828709 TTATCATGAAACATATACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19828735 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
19828761 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19828787 TTATCA
1 TTATCA
19828793 ATTTGTATCA
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 128 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19828764 original size:78 final size:78
Alignment explanation
Indices: 19828631--19828792 Score: 297
Period size: 78 Copynumber: 2.1 Consensus size: 78
19828621 CATGAAATTC
*
19828631 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATATACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
19828696 TTTACCTAACCTA
66 TTTACCTAACCTA
* *
19828709 TTATCATGAAACATATACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATATACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
19828774 TTTACCTAACCTA
66 TTTACCTAACCTA
19828787 TTATCA
1 TTATCA
19828793 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (78 bp):
TTATCATGAAACATATACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:19832779 original size:27 final size:28
Alignment explanation
Indices: 19832742--19832881 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
19832732 AGCATGGCTG
* *
19832742 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
19832768 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
19832796 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
19832823 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
19832850 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
19832877 CCAGA
1 CCAGA
19832882 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:19834533 original size:26 final size:26
Alignment explanation
Indices: 19834497--19834632 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
19834487 CATGAAATTC
*
19834497 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
19834523 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
19834549 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
19834575 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
19834601 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
19834627 TTATCA
1 TTATCA
19834633 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:19840749 original size:15 final size:15
Alignment explanation
Indices: 19840731--19840769 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
19840721 TCATATATAT
19840731 ATAATTCATTTAACA
1 ATAATTCATTTAACA
19840746 ATAATTCATTTAACA
1 ATAATTCATTTAACA
*
19840761 ATAGTTCAT
1 ATAATTCAT
19840770 CAAGATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (15 bp):
ATAATTCATTTAACA
Found at i:19843953 original size:43 final size:43
Alignment explanation
Indices: 19843905--19843986 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
19843895 CAATTATCTT
19843905 AGATATGAAATTGGGATACAATGATCAAATTGAATAAGTTTTA
1 AGATATGAAATTGGGATACAATGATCAAATTGAATAAGTTTTA
*
19843948 AGATATGATATTGGGATACAATGATCAAATTGAATAAGT
1 AGATATGAAATTGGGATACAATGATCAAATTGAATAAGT
19843987 AGAAGAACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (43 bp):
AGATATGAAATTGGGATACAATGATCAAATTGAATAAGTTTTA
Found at i:19851287 original size:17 final size:18
Alignment explanation
Indices: 19851251--19851290 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
19851241 CGGGTCACTT
*
19851251 GCCCATGTTGGCCCACAC
1 GCCCATGTTGGCCCAAAC
*
19851269 GCCCATG-TGGCGCAAAC
1 GCCCATGTTGGCCCAAAC
19851286 GCCCA
1 GCCCA
19851291 GATTGGCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.20, C:0.42, G:0.25, T:0.12
Consensus pattern (18 bp):
GCCCATGTTGGCCCAAAC
Found at i:19851384 original size:17 final size:17
Alignment explanation
Indices: 19851362--19851438 Score: 127
Period size: 17 Copynumber: 4.5 Consensus size: 17
19851352 TACTCATATG
**
19851362 GGCCCACACGTCCGTGT
1 GGCCCACACACCCGTGT
19851379 GGCCCACACACCCGTGT
1 GGCCCACACACCCGTGT
19851396 GGCCCACACACCCGTGT
1 GGCCCACACACCCGTGT
*
19851413 GGCCCGCACACCCGTGT
1 GGCCCACACACCCGTGT
19851430 GGCCCACAC
1 GGCCCACAC
19851439 GGCCACACTC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 56 1.00
ACGTcount: A:0.16, C:0.47, G:0.26, T:0.12
Consensus pattern (17 bp):
GGCCCACACACCCGTGT
Found at i:19861780 original size:27 final size:27
Alignment explanation
Indices: 19861742--19861795 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
19861732 GAAAATTGGT
*
19861742 AGTGTCTACCTAACAAGCAGCACCAAA
1 AGTGCCTACCTAACAAGCAGCACCAAA
* *
19861769 AGTGCCTACCTAACAGGCGGCACCAAA
1 AGTGCCTACCTAACAAGCAGCACCAAA
19861796 GGAAGCAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (27 bp):
AGTGCCTACCTAACAAGCAGCACCAAA
Found at i:19867845 original size:16 final size:16
Alignment explanation
Indices: 19867824--19867856 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19867814 GATTTACAGG
*
19867824 TAAAATCTAAATATGA
1 TAAAATATAAATATGA
19867840 TAAAATATAAATATGA
1 TAAAATATAAATATGA
19867856 T
1 T
19867857 TTACAGGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAATATAAATATGA
Found at i:19868611 original size:21 final size:21
Alignment explanation
Indices: 19868587--19868631 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
19868577 CTTAAAATAG
19868587 TTAAATGCATGTCAAACAGAT
1 TTAAATGCATGTCAAACAGAT
19868608 TTAAATGCATGTCAAACAGAT
1 TTAAATGCATGTCAAACAGAT
19868629 TTA
1 TTA
19868632 TCAAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (21 bp):
TTAAATGCATGTCAAACAGAT
Found at i:19869811 original size:12 final size:11
Alignment explanation
Indices: 19869783--19869830 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
19869773 GGGTTAAGAG
*
19869783 AAAAACAAAAT
1 AAAAAGAAAAT
19869794 -AAAAGAAAAT
1 AAAAAGAAAAT
*
19869804 AGAAAAGAAAAG
1 A-AAAAGAAAAT
*
19869816 AAAAATAAAAT
1 AAAAAGAAAAT
19869827 AAAA
1 AAAA
19869831 TAAAAACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 9 0.29
11 12 0.39
12 10 0.32
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAGAAAAT
Found at i:19869812 original size:28 final size:27
Alignment explanation
Indices: 19869781--19869836 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
19869771 GTGGGTTAAG
19869781 AGAAAA-ACAAAATAAAAGAAAATAGAAA
1 AGAAAAGA-AAAATAAAAGAAAATA-AAA
*
19869809 AGAAAAGAAAAATAAAATAAAATAAAA
1 AGAAAAGAAAAATAAAAGAAAATAAAA
19869836 A
1 A
19869837 CAATCTGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.15
28 21 0.81
29 1 0.04
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (27 bp):
AGAAAAGAAAAATAAAAGAAAATAAAA
Found at i:19880855 original size:26 final size:27
Alignment explanation
Indices: 19880826--19880900 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
19880816 TTGTTAAAGC
19880826 AATT-GTTATCCTTC-AGTCTTTGATGT
1 AATTAGTT-TCCTTCTAGTCTTTGATGT
** *
19880852 AATTAGTTTGTTTCTAGTTTTTGATGT
1 AATTAGTTTCCTTCTAGTCTTTGATGT
**
19880879 AATTAGTTTGTTTCTAGT-TTTG
1 AATTAGTTTCCTTCTAGTCTTTG
19880901 TTTCTTTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 12 0.27
27 32 0.73
ACGTcount: A:0.19, C:0.08, G:0.17, T:0.56
Consensus pattern (27 bp):
AATTAGTTTCCTTCTAGTCTTTGATGT
Found at i:19880874 original size:27 final size:27
Alignment explanation
Indices: 19880844--19880899 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
19880834 TCCTTCAGTC
19880844 TTTGATGTAATTAGTTTGTTTCTAGTT
1 TTTGATGTAATTAGTTTGTTTCTAGTT
19880871 TTTGATGTAATTAGTTTGTTTCTAGTT
1 TTTGATGTAATTAGTTTGTTTCTAGTT
19880898 TT
1 TT
19880900 GTTTCTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.61
Consensus pattern (27 bp):
TTTGATGTAATTAGTTTGTTTCTAGTT
Found at i:19889710 original size:27 final size:28
Alignment explanation
Indices: 19889673--19889812 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
19889663 AGCATGGCTG
** *
19889673 CCAGA-ACAGATA-ATGTGATAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
19889699 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
19889727 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
19889754 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
19889781 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
19889808 CCAGA
1 CCAGA
19889813 ACGCTTCCTC
Statistics
Matches: 105, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.80
28 16 0.15
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:19889978 original size:28 final size:26
Alignment explanation
Indices: 19889917--19889989 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 26
19889907 AAATTAACCC
* *
19889917 TAGGGGTATAACGGTAA-TTTACACC
1 TAGGGGTATAACAGTAATTTTACACA
*
19889942 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTT--ACACA
* *
19889970 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
19889990 AGCTACTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
25 16 0.40
26 3 0.08
28 21 0.52
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTACACA
Found at i:19891393 original size:26 final size:26
Alignment explanation
Indices: 19891357--19891492 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
19891347 CATGATATTC
19891357 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
19891383 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19891409 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19891435 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19891461 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19891487 TTATCA
1 TTATCA
19891493 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19894236 original size:22 final size:22
Alignment explanation
Indices: 19894208--19894249 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19894198 TGAATAAGCC
* *
19894208 AAATAAACTTTATTTCTGTAGA
1 AAATAAACTTAATATCTGTAGA
19894230 AAATAAACTTAATATCTGTA
1 AAATAAACTTAATATCTGTA
19894250 AACTGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (22 bp):
AAATAAACTTAATATCTGTAGA
Found at i:19896815 original size:16 final size:16
Alignment explanation
Indices: 19896768--19896824 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 16
19896758 ACAATACTAA
* *
19896768 AAAAAATAAAT-AAAC
1 AAAATATAAATCAAAT
* *
19896783 AAATTATAAA-CATAT
1 AAAATATAAATCAAAT
19896798 AAAATATAAATCAAAT
1 AAAATATAAATCAAAT
*
19896814 AAAATAAAAAT
1 AAAATATAAAT
19896825 AAAGATATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
15 19 0.58
16 14 0.42
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATATAAATCAAAT
Found at i:19897192 original size:10 final size:10
Alignment explanation
Indices: 19897173--19897212 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
19897163 TGTATGTAAT
19897173 ATAATATATA
1 ATAATATATA
*
19897183 ATAATGTATA
1 ATAATATATA
19897193 ATAATATAATAA
1 ATAATAT-AT-A
19897205 ATAATATA
1 ATAATATA
19897213 CAAAGATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
ATAATATATA
Found at i:19897203 original size:25 final size:25
Alignment explanation
Indices: 19897144--19897210 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
19897134 TAATATATAA
19897144 AATAATAT-ATATAGTAA-AATGTAT
1 AATAATATAATATA-TAATAATGTAT
*
19897168 -GTAATATAATATATAATAATGTAT
1 AATAATATAATATATAATAATGTAT
*
19897192 AATAATATAATAAATAATA
1 AATAATATAATATATAATA
19897211 TACAAAGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.24
24 12 0.32
25 16 0.43
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (25 bp):
AATAATATAATATATAATAATGTAT
Found at i:19902528 original size:26 final size:26
Alignment explanation
Indices: 19902499--19902607 Score: 148
Period size: 26 Copynumber: 4.2 Consensus size: 26
19902489 TGATACAAAT
* *
19902499 TGATAAAAGGTAAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19902525 TGATAATAGGTTA-GTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
19902550 TGATAATGGGTTAGGTATATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
19902576 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19902602 TGATAA
1 TGATAA
19902608 GAATTTCATG
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 24 0.32
26 52 0.68
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:19902554 original size:51 final size:52
Alignment explanation
Indices: 19902499--19902607 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 52
19902489 TGATACAAAT
19902499 TGATAAAAGGTAAGGTAAATGTTCCATGATAATAGGTTA-GTAAATGTTCCA
1 TGATAAAAGGTAAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
** * * * * *
19902550 TGATAATGGGTTAGGTATATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAAAGGTAAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
19902602 TGATAA
1 TGATAA
19902608 GAATTTCATG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 33 0.66
52 17 0.34
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAAAAGGTAAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:19904639 original size:137 final size:137
Alignment explanation
Indices: 19904393--19904679 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
19904383 GAGTAGTCTC
19904393 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
19904458 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAAGTACC
66 TATTATATGAATAAGGGGATAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAAGTACC
19904523 ACTGTTA
131 ACTGTTA
19904530 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
19904595 TATTATATGAATAAGGGGATAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATATGAATAAGGGGATAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAAGTACC
19904660 ACTGTTA
131 ACTGTTA
**
19904667 CCTGAATGGGCTT
1 CCCAAATGGGCTT
19904680 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATATGAATAAGGGGATAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAAGTACC
ACTGTTA
Found at i:19907567 original size:60 final size:60
Alignment explanation
Indices: 19907474--19907595 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
19907464 TCATGCCAAG
19907474 ATAGAGATCTATTGCCCACCAATCATTTGGGCTTCTTCCTTCTAAATAGAAGAGAAAAAT
1 ATAGAGATCTATTGCCCACCAATCATTTGGGCTTCTTCCTTCTAAATAGAAGAGAAAAAT
* *
19907534 ATAGAGATCTATTGTCCACCAATCATTTGGGCTTCTTTCTTCTAAATAGAAGAGAAAAAT
1 ATAGAGATCTATTGCCCACCAATCATTTGGGCTTCTTCCTTCTAAATAGAAGAGAAAAAT
19907594 AT
1 AT
19907596 TCCTGACTGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (60 bp):
ATAGAGATCTATTGCCCACCAATCATTTGGGCTTCTTCCTTCTAAATAGAAGAGAAAAAT
Found at i:19910681 original size:19 final size:20
Alignment explanation
Indices: 19910637--19910681 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
19910627 ATATTTTTCA
*
19910637 TATTTTTAACATAATTTAGT
1 TATTTTTAACATAATTTAAT
19910657 TA-TTTTATA-AT-ATTTAAT
1 TATTTTTA-ACATAATTTAAT
19910675 TATTTTT
1 TATTTTT
19910682 CGACAAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 8 0.36
19 11 0.50
20 3 0.14
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:19911285 original size:20 final size:20
Alignment explanation
Indices: 19911252--19911290 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19911242 ATATTTTCAC
*
19911252 ATCGTAATTGAAAATAGAGT
1 ATCGTAATTGAAAACAGAGT
* *
19911272 ATCGTAGTTTAAAACAGAG
1 ATCGTAATTGAAAACAGAG
19911291 CTTTTCAGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.28
Consensus pattern (20 bp):
ATCGTAATTGAAAACAGAGT
Found at i:19915294 original size:42 final size:43
Alignment explanation
Indices: 19915185--19915296 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
19915175 TTAATCTATT
* * *
19915185 CGAGCTTGTTGAGTGGTCCAAGTTCATGATATGTATGAGATTT
1 CGAGCTTGTTGAGTGGTCCAAGTTCATGAGATATATGAGATTC
* * * *
19915228 TGAACTTGTTGAGTGGCCCAAGTTCATGAGATATGTG-GCA-TC
1 CGAGCTTGTTGAGTGGTCCAAGTTCATGAGATATATGAG-ATTC
*
19915270 CGAGCTTGTTGAGTGGTCCGAGTTCAT
1 CGAGCTTGTTGAGTGGTCCAAGTTCAT
19915297 TATGGATGCG
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.34
Consensus pattern (43 bp):
CGAGCTTGTTGAGTGGTCCAAGTTCATGAGATATATGAGATTC
Found at i:19922002 original size:14 final size:14
Alignment explanation
Indices: 19921983--19922011 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19921973 TTGTTTTTAG
19921983 TCTAATTTTTCTTT
1 TCTAATTTTTCTTT
19921997 TCTAATTTTTCTTT
1 TCTAATTTTTCTTT
19922011 T
1 T
19922012 GTCTGCCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (14 bp):
TCTAATTTTTCTTT
Found at i:19930377 original size:27 final size:27
Alignment explanation
Indices: 19930347--19930414 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
19930337 TTTCTAATTA
*
19930347 AATTCAATTTTAATCCTTT-TATATTTT
1 AATT-AATTTTAATACTTTATATATTTT
* *
19930374 AATTTACTTTAAATACTTTATATATTTT
1 AA-TTAATTTTAATACTTTATATATTTT
* *
19930402 TATTAATATTAAT
1 AATTAATTTTAAT
19930415 TATATATTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (27 bp):
AATTAATTTTAATACTTTATATATTTT
Found at i:19930492 original size:17 final size:17
Alignment explanation
Indices: 19930452--19930493 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
19930442 TTTTATCACA
19930452 TATTTTAT-CTATAAAT
1 TATTTTATACTATAAAT
* *
19930468 TATATTATACTATATAT
1 TATTTTATACTATAAAT
*
19930485 TTTTTTATA
1 TATTTTATA
19930494 TATTTCTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTATACTATAAAT
Found at i:19930497 original size:24 final size:22
Alignment explanation
Indices: 19930468--19930515 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
19930458 ATCTATAAAT
*
19930468 TATATTATACTATATATTTTTTTA
1 TATATT-T-CTATATATATTTTTA
*
19930492 TATATTTCTTTATATATTTTTA
1 TATATTTCTATATATATTTTTA
19930514 TA
1 TA
19930516 AACTCGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 1 0.05
24 6 0.27
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
TATATTTCTATATATATTTTTA
Found at i:19930507 original size:14 final size:12
Alignment explanation
Indices: 19930478--19930512 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
19930468 TATATTATAC
19930478 TATATATTTTTT
1 TATATATTTTTT
*
19930490 TATATATTTCTT
1 TATATATTTTTT
19930502 TATATATTTTT
1 TATATATTTTT
19930513 ATAAACTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TATATATTTTTT
Found at i:19930850 original size:22 final size:22
Alignment explanation
Indices: 19930816--19930868 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
19930806 AATATCTATC
* *
19930816 TTTATTATATTTTTATATATTA
1 TTTATTTTATTTTTATATACTA
* *
19930838 TTTATTTTGTTTTTTTATACTA
1 TTTATTTTATTTTTATATACTA
19930860 TTTATTTTA
1 TTTATTTTA
19930869 CTATATTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTATTTTATTTTTATATACTA
Found at i:19934006 original size:31 final size:31
Alignment explanation
Indices: 19933971--19934034 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
19933961 AATTTAAGAG
19933971 AAAGAATTTGGAACTTGAAAAGAAGATAGAA
1 AAAGAATTTGGAACTTGAAAAGAAGATAGAA
*
19934002 AAAGAATTTGGAGCTTGAAAAGAAGATAGAA
1 AAAGAATTTGGAACTTGAAAAGAAGATAGAA
19934033 AA
1 AA
19934035 GCTTGAGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.55, C:0.03, G:0.23, T:0.19
Consensus pattern (31 bp):
AAAGAATTTGGAACTTGAAAAGAAGATAGAA
Found at i:19938191 original size:40 final size:40
Alignment explanation
Indices: 19938154--19938338 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
19938144 GCTACTCGTT
*
19938154 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
19938194 GAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
19938234 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
19938273 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
19938314 CAAA-GCCTTCGGGACTTATCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19938339 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 76 0.62
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19946337 original size:79 final size:81
Alignment explanation
Indices: 19946228--19946410 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
19946218 TACTCGTTCA
* *
19946228 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
19946291 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
19946308 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
19946371 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
19946387 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
19946411 CATCATTTGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:19946410 original size:40 final size:40
Alignment explanation
Indices: 19946207--19946410 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
19946197 CGGAATTTAA
** *
19946207 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19946247 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19946287 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
19946326 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
19946366 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19946406 CCGGA
1 CCGGA
19946411 CATCATTTGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19954746 original size:207 final size:207
Alignment explanation
Indices: 19954223--19955123 Score: 1466
Period size: 207 Copynumber: 4.4 Consensus size: 207
19954213 GCAGATCTAG
* * * *
19954223 CTGAAGCAAGATCCAAGATGATTTAGCATCCTTGTGCTTATAAGGAACAAATCGAA-ATTATAGT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGC
19954287 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
65 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
19954352 GAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCT
130 GAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCT
* *
19954417 TCAGATGATTAGA
195 TCAGATGTTTATA
*
19954430 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGC
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGC
* * * * *
19954493 TGATTTGGCTTTCACATGTTTACGATGAAGCAAATCTAAGATGATTTGACATTTCTGTATTGTTA
65 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* * * *
19954558 GAGAACAAATTGAAGTTTAGCATCTCCATATTCGACGGATAGCAGACACATAGCAGATCTGGCCT
130 GAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCT
19954623 TCAGATGTTTATA
195 TCAGATGTTTATA
*
19954636 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAATAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* *
19954701 GATTTGGCTTTCATGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
19954766 AGAGCAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAACAGACACATAGTAGATCTAGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
19954831 CAGATGTTTATA
196 CAGATGTTTATA
19954843 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
19954908 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAA
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * * *
19954973 AGAACAAATAGAAGTTTGGTGTCTCCATGTTTGACGGAGAGCAGACACATAACAGATCTGGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
*
19955038 CAGATGTTTACA
196 CAGATGTTTATA
* *
19955050 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAACT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
19955115 AATTTGGCT
66 GATTTGGCT
19955124 GAAGCAGACC
Statistics
Matches: 643, Mismatches: 49, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
206 190 0.30
207 452 0.70
208 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (207 bp):
CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
CAGATGTTTATA
Found at i:19956683 original size:28 final size:28
Alignment explanation
Indices: 19956652--19956707 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
19956642 TTTCTAATTA
* * *
19956652 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
19956680 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
19956708 TATTAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:19956812 original size:14 final size:13
Alignment explanation
Indices: 19956784--19956819 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
19956774 TATATTATAC
19956784 TATATATTTTTTA
1 TATATATTTTTTA
19956797 TATATATTTCTTTA
1 TATATATTT-TTTA
19956811 TATAT-TTTT
1 TATATATTTT
19956820 ATAAAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 12 0.55
14 9 0.41
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TATATATTTTTTA
Found at i:19956814 original size:16 final size:14
Alignment explanation
Indices: 19956778--19956822 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
19956768 ATAAATTATA
19956778 TTATACTATATATTT
1 TTATA-TATATATTT
19956793 TT-TATATATATTT
1 TTATATATATATTT
*
19956806 CT-T-TATATATTT
1 TTATATATATATTT
19956818 TTATA
1 TTATA
19956823 AAATTGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 10 0.38
13 12 0.46
14 2 0.08
15 2 0.08
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATATATATATTT
Found at i:19957139 original size:22 final size:22
Alignment explanation
Indices: 19957114--19957156 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19957104 CTTTCTTATA
*
19957114 TTTTTATATATTATTTATTTTG
1 TTTTTATATACTATTTATTTTG
*
19957136 TTTTTTTATACTATTTATTTT
1 TTTTTATATACTATTTATTTT
19957157 ACTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTATATACTATTTATTTTG
Found at i:19964841 original size:33 final size:33
Alignment explanation
Indices: 19964799--19964865 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
19964789 TTTAAGGAGA
19964799 AAATATTAAAGGGGGAATGATCTAGTTTGAAGT
1 AAATATTAAAGGGGGAATGATCTAGTTTGAAGT
19964832 AAATATTAAAGGGGGAATGATCTAGTTTGAAGT
1 AAATATTAAAGGGGGAATGATCTAGTTTGAAGT
19964865 A
1 A
19964866 TAGAAGTGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (33 bp):
AAATATTAAAGGGGGAATGATCTAGTTTGAAGT
Found at i:19970714 original size:14 final size:14
Alignment explanation
Indices: 19970697--19970734 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
19970687 TATAGCAATA
19970697 AAAATATATGTAAT
1 AAAATATATGTAAT
*
19970711 AAAATATATATAAT
1 AAAATATATGTAAT
*
19970725 ACAATATATG
1 AAAATATATG
19970735 AAGAACGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (14 bp):
AAAATATATGTAAT
Found at i:19970922 original size:7 final size:7
Alignment explanation
Indices: 19970894--19970998 Score: 58
Period size: 7 Copynumber: 15.0 Consensus size: 7
19970884 TACTAAAAAC
19970894 ATATAAT
1 ATATAAT
19970901 ATA-AAT
1 ATATAAT
19970907 ATA-AAT
1 ATATAAT
19970913 ATATAAT
1 ATATAAT
19970920 ATATAAT
1 ATATAAT
*
19970927 AAAT-AT
1 ATATAAT
*
19970933 ATGATAAAA
1 AT-AT-AAT
*
19970942 ATTAAAAAT
1 A-T-ATAAT
*
19970951 GTATAAT
1 ATATAAT
19970958 AATATAAT
1 -ATATAAT
* *
19970966 AGATAAA
1 ATATAAT
*
19970973 ATATAGT
1 ATATAAT
19970980 A-A-AAT
1 ATATAAT
*
19970985 AAATAAT
1 ATATAAT
19970992 ATATAAT
1 ATATAAT
19970999 GAAAATACAT
Statistics
Matches: 74, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
5 3 0.04
6 17 0.23
7 41 0.55
8 7 0.09
9 4 0.05
10 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (7 bp):
ATATAAT
Found at i:19970975 original size:17 final size:16
Alignment explanation
Indices: 19970838--19971012 Score: 61
Period size: 15 Copynumber: 10.9 Consensus size: 16
19970828 TAAATTTATA
*
19970838 AATAAAAT-GTATAAT
1 AATAAAATAATATAAT
*
19970853 AATATGAATAATATAAT
1 AATA-AAATAATATAAT
* * *
19970870 TATAGAATAATAT-GT
1 AATAAAATAATATAAT
*
19970885 ACTAAAA-ACATATAAT
1 AATAAAATA-ATATAAT
19970901 -ATAAATATAA-ATATAT
1 AATAAA-ATAATATA-AT
19970917 AATATATAATAAATATATGAT
1 AATA-A-AAT-AATATA--AT
*
19970938 AA-AAATTAA-A-AAT
1 AATAAAATAATATAAT
* *
19970951 -GTATAATAATATAAT
1 AATAAAATAATATAAT
19970966 AGATAAAAT-ATAGTAA-
1 A-ATAAAATAATA-TAAT
19970982 AAT-AAATAATAT-AT
1 AATAAAATAATATAAT
19970996 AATGAAAATACATATAA
1 AAT-AAAATA-ATATAA
19971013 CATATAGTAA
Statistics
Matches: 119, Mismatches: 16, Indels: 47
0.65 0.09 0.26
Matches are distributed among these distances:
13 8 0.07
14 10 0.08
15 29 0.24
16 27 0.23
17 27 0.23
18 6 0.05
19 4 0.03
20 4 0.03
21 4 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATAAT
Found at i:19970984 original size:41 final size:41
Alignment explanation
Indices: 19970901--19970998 Score: 98
Period size: 41 Copynumber: 2.4 Consensus size: 41
19970891 AACATATAAT
*
19970901 ATAAAT-ATAAATATATAATATATAATAAATATATGATAAAA
1 ATAAATAATATATA-ATAATATATAATAAATATATGATAAAA
*
19970942 ATTAAA-AATGTATAATAATATAATAGATAAA-ATAT-AGT-AAA
1 A-TAAATAATATATAATAATAT-ATA-ATAAATATATGA-TAAAA
19970983 ATAAATAATATATAAT
1 ATAAATAATATATAAT
19970999 GAAAATACAT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
40 4 0.08
41 22 0.46
42 17 0.35
43 5 0.10
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (41 bp):
ATAAATAATATATAATAATATATAATAAATATATGATAAAA
Found at i:19981328 original size:15 final size:16
Alignment explanation
Indices: 19981304--19981333 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19981294 TTTTTATTCT
19981304 TTTTACTTTTTTTGAC
1 TTTTACTTTTTTTGAC
19981320 TTTTA-TTTTTTTGA
1 TTTTACTTTTTTTGA
19981334 GAACAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTTACTTTTTTTGAC
Found at i:19982567 original size:15 final size:15
Alignment explanation
Indices: 19982537--19982565 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19982527 AATTAATTAC
19982537 TAAAATAAAAATAAA
1 TAAAATAAAAATAAA
19982552 TAAAAT-AAAATAAA
1 TAAAATAAAAATAAA
19982566 ATTAGGGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAATAAAAATAAA
Found at i:19984345 original size:18 final size:18
Alignment explanation
Indices: 19984318--19984354 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
19984308 CATCTTCTTT
*
19984318 TCTCAGTTTTGGTTCATC
1 TCTCAATTTTGGTTCATC
19984336 TCTCAATTTTGGTTCATC
1 TCTCAATTTTGGTTCATC
19984354 T
1 T
19984355 TTAACTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.51
Consensus pattern (18 bp):
TCTCAATTTTGGTTCATC
Found at i:19989012 original size:19 final size:18
Alignment explanation
Indices: 19988990--19989038 Score: 75
Period size: 16 Copynumber: 2.8 Consensus size: 18
19988980 AAGCAAAATT
19988990 AAAATTAAAATATATAAAA
1 AAAATTAAAATATAT-AAA
19989009 AAAATT-AAA-ATATAAA
1 AAAATTAAAATATATAAA
19989025 AAAATTAAAATATA
1 AAAATTAAAATATA
19989039 AGTATAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.32
17 7 0.25
18 6 0.21
19 6 0.21
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATTAAAATATATAAA
Found at i:19989034 original size:25 final size:25
Alignment explanation
Indices: 19988970--19989034 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
19988960 AAAAAAGAAA
19988970 AAAATAAA-AAAAGCAAAATTAAAATT
1 AAAATAAATAAAA--AAAATTAAAATT
*
19988996 AAAATATATAAAAAAAATTAAAATAT
1 AAAATAAATAAAAAAAATTAAAAT-T
*
19989022 AAAA-AAATTAAAA
1 AAAATAAATAAAAA
19989035 TATAAGTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 18 0.53
26 12 0.35
27 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (25 bp):
AAAATAAATAAAAAAAATTAAAATT
Found at i:19989116 original size:22 final size:20
Alignment explanation
Indices: 19988970--19989123 Score: 73
Period size: 20 Copynumber: 7.5 Consensus size: 20
19988960 AAAAAAGAAA
**
19988970 AAAATAAAAA-AAGCAAAATT
1 AAAATAAAAATAAATAAAA-T
* *
19988990 AAAATTAAAATATATAAAA-
1 AAAATAAAAATAAATAAAAT
19989009 AAAATTAAAATATAAA-AAAATT
1 AAAA-TAAAA-ATAAATAAAA-T
* * *
19989031 AAAATATAAGTATAAGAATAAT
1 AAAATAAAAATA-AATAA-AAT
* * * * *
19989053 AAATTAATTAATTAAT-TAGT
1 AAAATAA-AAATAAATAAAAT
**
19989073 AAAATAAAAATAAATACTAT
1 AAAATAAAAATAAATAAAAT
19989093 AACAATTAAAAATAAATAAAAT
1 AA-AA-TAAAAATAAATAAAAT
19989115 AAAATAAAA
1 AAAATAAAA
19989124 TTGGGGTAAT
Statistics
Matches: 98, Mismatches: 24, Indels: 24
0.67 0.16 0.16
Matches are distributed among these distances:
19 10 0.10
20 35 0.36
21 19 0.19
22 30 0.31
23 4 0.04
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAATAAAAATAAATAAAAT
Found at i:19991062 original size:18 final size:18
Alignment explanation
Indices: 19991041--19991098 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
19991031 AACCCAAATA
19991041 ATTTTTGAAAACTGTTTC
1 ATTTTTGAAAACTGTTTC
** * * **
19991059 ATTTACGAAAAATCTTAG
1 ATTTTTGAAAACTGTTTC
19991077 ATTTTTGAAAACTGTTTC
1 ATTTTTGAAAACTGTTTC
19991095 ATTT
1 ATTT
19991099 ACGAAAAATC
Statistics
Matches: 28, Mismatches: 12, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (18 bp):
ATTTTTGAAAACTGTTTC
Found at i:19991088 original size:36 final size:36
Alignment explanation
Indices: 19991041--19991112 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
19991031 AACCCAAATA
19991041 ATTTTTGAAAACTGTTTCATTTACGAAAAATCTTAG
1 ATTTTTGAAAACTGTTTCATTTACGAAAAATCTTAG
19991077 ATTTTTGAAAACTGTTTCATTTACGAAAAATCTTAG
1 ATTTTTGAAAACTGTTTCATTTACGAAAAATCTTAG
19991113 TTTATTTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (36 bp):
ATTTTTGAAAACTGTTTCATTTACGAAAAATCTTAG
Found at i:19991104 original size:18 final size:18
Alignment explanation
Indices: 19991047--19991105 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
19991037 AATAATTTTT
19991047 GAAAACTGTTTCATTTAC
1 GAAAACTGTTTCATTTAC
* * ** **
19991065 GAAAAATCTTAGATTTTT
1 GAAAACTGTTTCATTTAC
19991083 GAAAACTGTTTCATTTAC
1 GAAAACTGTTTCATTTAC
19991101 GAAAA
1 GAAAA
19991106 ATCTTAGTTT
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (18 bp):
GAAAACTGTTTCATTTAC
Found at i:19991974 original size:18 final size:18
Alignment explanation
Indices: 19991948--19991994 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
19991938 CCATGTGGCC
*
19991948 CACCGGTGTGGGCCTACA
1 CACCCGTGTGGGCCTACA
19991966 CACCCGTGTGGGCCTACA
1 CACCCGTGTGGGCCTACA
19991984 CACCCGTGTGG
1 CACCCGTGTGG
19991995 CCCACACAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.36, G:0.32, T:0.17
Consensus pattern (18 bp):
CACCCGTGTGGGCCTACA
Found at i:19996593 original size:16 final size:16
Alignment explanation
Indices: 19996574--19996607 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
19996564 CTCTCTGTCC
19996574 TCGGCCCATGCTGTTA
1 TCGGCCCATGCTGTTA
19996590 TCGGCCCATGCTGTTA
1 TCGGCCCATGCTGTTA
19996606 TC
1 TC
19996608 ACCCCTAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.32, G:0.24, T:0.32
Consensus pattern (16 bp):
TCGGCCCATGCTGTTA
Found at i:20002759 original size:15 final size:15
Alignment explanation
Indices: 20002739--20002768 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20002729 AAAAAAATAG
*
20002739 GCGTCCCTAACATCT
1 GCGTCCCCAACATCT
20002754 GCGTCCCCAACATCT
1 GCGTCCCCAACATCT
20002769 TTCATCCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.43, G:0.13, T:0.23
Consensus pattern (15 bp):
GCGTCCCCAACATCT
Found at i:20002884 original size:14 final size:16
Alignment explanation
Indices: 20002851--20002887 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
20002841 TGCCATTGAC
20002851 ATATAGAACTAGAAAT
1 ATATAGAACTAGAAAT
20002867 ATATAGAACTAGAAAT
1 ATATAGAACTAGAAAT
20002883 ATATA
1 ATATA
20002888 CTTACTCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (16 bp):
ATATAGAACTAGAAAT
Found at i:20009218 original size:37 final size:37
Alignment explanation
Indices: 20009168--20009246 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20009158 TTATTACGAA
* * *
20009168 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
20009205 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
20009242 GTCTT
1 GTCTT
20009247 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:20009452 original size:47 final size:47
Alignment explanation
Indices: 20009365--20009955 Score: 894
Period size: 47 Copynumber: 12.4 Consensus size: 47
20009355 CCTTTCGGGA
* * * * * * * * *
20009365 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
20009412 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
20009459 CTTATCACATATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
20009506 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
20009553 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
20009600 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
20009647 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
20009694 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
20009741 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
20009788 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
*
20009839 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
*
20009890 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
20009937 CTTATCACATATATACACT
1 CTTATCACATATATACACT
20009956 CTCTTGGCTG
Statistics
Matches: 516, Mismatches: 22, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
47 416 0.81
48 1 0.00
49 11 0.02
50 1 0.00
51 87 0.17
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:20022626 original size:12 final size:12
Alignment explanation
Indices: 20022609--20022633 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20022599 TAATTAAATG
20022609 AATTAAAAGCCA
1 AATTAAAAGCCA
20022621 AATTAAAAGCCA
1 AATTAAAAGCCA
20022633 A
1 A
20022634 TTTTTGTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:20023636 original size:127 final size:127
Alignment explanation
Indices: 20023410--20023663 Score: 499
Period size: 127 Copynumber: 2.0 Consensus size: 127
20023400 ATTCGATACA
20023410 GAGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAG
1 GAGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAG
20023475 ATTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCC
66 ATTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCC
20023537 GAGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAG
1 GAGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAG
*
20023602 ATTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTGTGTGTACGAGATTCCC
66 ATTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCC
20023664 AAGTATCCTT
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 126 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (127 bp):
GAGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAG
ATTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCC
Found at i:20035193 original size:76 final size:76
Alignment explanation
Indices: 20035039--20035179 Score: 212
Period size: 76 Copynumber: 1.9 Consensus size: 76
20035029 TTGGCCGCTG
*
20035039 TAGTTTTCAATTTAAAAATCTGGAGGCACTGCCTGTACGATGAGAAGTGCACCATCTACACTGAT
1 TAGTTTTCAATTTAAAAATCTGGAGGCACTACCTGTACGATGAGAAGTGCACCATCTACACTGAT
20035104 AAAAAAAGCCT
66 AAAAAAAGCCT
** * * *
20035115 TAGTTTTCGTTTTGAAAATCTGGAGGCACTACCTGTAC-AGTGAGAAGTGTACTATCTACACTGA
1 TAGTTTTCAATTTAAAAATCTGGAGGCACTACCTGTACGA-TGAGAAGTGCACCATCTACACTGA
20035179 T
65 T
20035180 CACGAAAGTC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 1 0.02
76 57 0.98
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (76 bp):
TAGTTTTCAATTTAAAAATCTGGAGGCACTACCTGTACGATGAGAAGTGCACCATCTACACTGAT
AAAAAAAGCCT
Found at i:20049678 original size:15 final size:16
Alignment explanation
Indices: 20049652--20049681 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20049642 TTCTATTCTC
20049652 AAAATAAAAATAAATT
1 AAAATAAAAATAAATT
20049668 AAAAT-AAAATAAAT
1 AAAATAAAAATAAAT
20049682 ATTTTAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATAAAAATAAATT
Found at i:20052522 original size:22 final size:23
Alignment explanation
Indices: 20052497--20052539 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
20052487 ATCTTTAAAA
* *
20052497 TAATTAAAATT-TATAAAATAGT
1 TAATAAAAATTCTAAAAAATAGT
20052519 TAATAAAAATTCTAAAAAATA
1 TAATAAAAATTCTAAAAAATA
20052540 TTCTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TAATAAAAATTCTAAAAAATAGT
Found at i:20060009 original size:49 final size:48
Alignment explanation
Indices: 20059853--20060122 Score: 176
Period size: 49 Copynumber: 5.5 Consensus size: 48
20059843 TGTGTGTGCT
* * * * *
20059853 AGTGTAAGGCCTGTCTGGGACATGGGATCAGAACCA-ATAGATGAGAACC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCA-CAGATAG-TGAGAGCC
* * *
20059902 AGTGTAAGACCTGTCTGGGACACGGCATCGGCCTCGAGATA-TGCA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-CAC-AGATAGTG-AGAGCC
20059951 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACAGAT-AGTGAGAGCC
* * * * * * *
20060000 AATGCAAGACCTGTCTAGGACATGGCGTCAGC-CTCGAT-GT-ATGGAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-AGATAGTGA--G-AGCC
* ** ** **
20060049 AGTGTAAGACCTATCTCAGACATGGCATCAACTTAGAT-GTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACAGATAGTGAGAGCC
* *
20060096 AGTGTAAGACCATGTTTGGAACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
20060123 GTTAGCATCG
Statistics
Matches: 174, Mismatches: 33, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
46 1 0.01
47 20 0.11
48 17 0.10
49 130 0.75
50 3 0.02
51 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCACAGATAGTGAGAGCC
Found at i:20060021 original size:98 final size:98
Alignment explanation
Indices: 20059850--20060078 Score: 259
Period size: 98 Copynumber: 2.3 Consensus size: 98
20059840 TGATGTGTGT
* * * *
20059850 GCTAGTGTAAGGCCTGTCTGGGACATGGGATCAGAACCAATAGATGAGAACCAGTGTAAGACCTG
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGAACCAATAGATGAGAACCAATGCAAGACCTG
* *
20059915 TCTGGGACACGGCATCGGCCTCGA-GATATGCAA
66 TCTAGGACACGGCATCAGCCTCGATG-TATGCAA
* * *
20059948 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCA-CAGATA-AGTGAGAGCCAATGCAAGACC
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGAACCA-ATAGA-TGAGAACCAATGCAAGACC
* * *
20060011 TGTCTAGGACATGGCGTCAGCCTCGATGTATGGAA
64 TGTCTAGGACACGGCATCAGCCTCGATGTATGCAA
* **
20060046 G-TCAGTGTAAGACCTATCTCAGACATGGCATCA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCA
20060079 ACTTAGATGT
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
97 4 0.04
98 106 0.95
99 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (98 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGAACCAATAGATGAGAACCAATGCAAGACCTG
TCTAGGACACGGCATCAGCCTCGATGTATGCAA
Found at i:20061591 original size:26 final size:26
Alignment explanation
Indices: 20061544--20061604 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
20061534 ATATTTTTCA
20061544 CAAAATTTTATCAAGGGAAAAATCGT
1 CAAAATTTTATCAAGGGAAAAATCGT
* * *
20061570 TAAATTTTTAT-AATGGGTAAAATCGT
1 CAAAATTTTATCAA-GGGAAAAATCGT
20061596 CAAAATTTT
1 CAAAATTTT
20061605 GTTGAGGGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (26 bp):
CAAAATTTTATCAAGGGAAAAATCGT
Done.