Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 90 of 213
Found at i:24805580 original size:40 final size:39
Alignment explanation
Indices: 24805400--24805609 Score: 307
Period size: 39 Copynumber: 5.3 Consensus size: 39
24805390 GGACTAAGAT
24805400 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
24805439 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
*
24805478 CCAAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
24805517 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * *
24805557 CCGAAGGCATTTGTGCGA-ATTACT-ATAACTGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
24805597 CCGAAGGCATTTG
1 CCGAAGGCATTTG
24805610 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 112 0.71
40 45 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:24813464 original size:39 final size:40
Alignment explanation
Indices: 24813369--24813630 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
24813359 TTGAATGATG
*
24813369 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
24813407 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
24813448 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
24813487 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
24813526 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
24813565 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
24813604 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24813631 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:24823673 original size:44 final size:43
Alignment explanation
Indices: 24823618--24823738 Score: 154
Period size: 44 Copynumber: 2.8 Consensus size: 43
24823608 GAATAGGGCG
* *
24823618 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-AT
* *
24823662 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAT
* * *
24823705 AGATCTTATCTCTCTAAAGTTGCAG-AGAGCAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
24823739 CGCATCTAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
43 10 0.15
44 57 0.85
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAT
Found at i:24825587 original size:22 final size:24
Alignment explanation
Indices: 24825535--24825585 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
24825525 CATGTCATTG
24825535 TTTT-TTTATTATTTATATTAATT
1 TTTTATTTATTATTTATATTAATT
24825558 TCGTTTATTTATTATTTATATT-ATT
1 T--TTTATTTATTATTTATATTAATT
24825583 TTT
1 TTT
24825586 ATATAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
23 3 0.12
25 7 0.28
26 15 0.60
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTATTTATTATTTATATTAATT
Found at i:24829021 original size:21 final size:21
Alignment explanation
Indices: 24828996--24829050 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
24828986 ATCTTCGAGG
24828996 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
24829017 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
24829038 ATAT--AATCTTAGA
1 ATATGCAATCTTAGA
24829051 AGATATGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.26
21 25 0.74
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:24829083 original size:22 final size:23
Alignment explanation
Indices: 24829041--24829083 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
24829031 ATATGATATA
*
24829041 TAATCTTAGAAGATATGATTTTG
1 TAATCTTAGAAGATATAATTTTG
*
24829064 TAATCTTAG-AGATTTAATTT
1 TAATCTTAGAAGATATAATTT
24829084 GTAGATACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTG
Found at i:24829727 original size:23 final size:21
Alignment explanation
Indices: 24829685--24829748 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 21
24829675 AATTATTTCT
*
24829685 TTTATTT-TTAATTAGTTTTTA
1 TTTATTTATTTATT-GTTTTTA
*
24829706 TTTATATATATTTGTTGTTTTTA
1 TTTAT-T-TATTTATTGTTTTTA
24829729 TTTATTTATTTATT-TTTTTA
1 TTTATTTATTTATTGTTTTTA
24829749 AAACAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 6 0.16
21 12 0.32
22 2 0.05
23 13 0.35
24 4 0.11
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTATTTATTTATTGTTTTTA
Found at i:24835371 original size:32 final size:32
Alignment explanation
Indices: 24835329--24835393 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
24835319 ACTCTATAAG
24835329 TTTCTAAATAATACAGGAGCCTGAAACATGAC
1 TTTCTAAATAATACAGGAGCCTGAAACATGAC
*
24835361 TTTCTGAATAATACAGGAGCCTGAAACATGAC
1 TTTCTAAATAATACAGGAGCCTGAAACATGAC
24835393 T
1 T
24835394 ATTATTTAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (32 bp):
TTTCTAAATAATACAGGAGCCTGAAACATGAC
Found at i:24836298 original size:132 final size:132
Alignment explanation
Indices: 24836061--24836624 Score: 725
Period size: 132 Copynumber: 4.1 Consensus size: 132
24836051 GTGAAACACT
* * * * *
24836061 AAGCCTTGTCTCCTTGAGCAACAGCGGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
24836126 TAGTGGAGTAGATCG-AGTACGGAAAATCTTTTCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
66 TAGTGGAGAAGATCGAAG-ACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
24836190 ACC
130 ACC
* *
24836193 AAGCCTTGTCTCCTTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * **
24836258 TAGTGGAGAAGATTGAAGACGAAAAATCTTATCTTTCCAAGATAATCTTATCTTTCCAAGATAGT
66 TAGTGGAGAAGATCGAAGACGAAAAATCTTATCTTTCCAAG---A---TA---GT--GGGA-A--
* *
24836323 GGGAAGCAGATTTAAGCCACC
117 --GCAGA---TTTAAGCCACC
* *
24836344 AAGCCTTGTCTCCCTGAGCAGCAGTAGAGTAGGTTGAAGATTGTAGATTTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
24836409 TAGTGGAGAAGATTGAAGACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
24836474 CC
131 CC
24836476 AAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* ** * *
24836541 TAGTGGAGCAGATCGAAGACGGCAAATCATATCTTTCCAAGATAGTGGGAAGCTGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
24836606 CC
131 CC
24836608 AAGCCTTGTCTCCCTGA
1 AAGCCTTGTCTCCCTGA
24836625 AGTTGCAATG
Statistics
Matches: 383, Mismatches: 29, Indels: 40
0.85 0.06 0.09
Matches are distributed among these distances:
132 248 0.65
133 2 0.01
135 4 0.01
138 2 0.01
139 1 0.00
140 2 0.01
141 1 0.00
142 1 0.00
143 2 0.01
144 1 0.00
145 2 0.01
148 4 0.01
151 113 0.30
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGAAGATCGAAGACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:24836306 original size:19 final size:19
Alignment explanation
Indices: 24836282--24836320 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
24836272 GAAGACGAAA
24836282 AATCTTATCTTTCCAAGAT
1 AATCTTATCTTTCCAAGAT
24836301 AATCTTATCTTTCCAAGAT
1 AATCTTATCTTTCCAAGAT
24836320 A
1 A
24836321 GTGGGAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (19 bp):
AATCTTATCTTTCCAAGAT
Found at i:24836424 original size:151 final size:151
Alignment explanation
Indices: 24836150--24836452 Score: 561
Period size: 151 Copynumber: 2.0 Consensus size: 151
24836140 GAGTACGGAA
* *
24836150 AATCTTTTCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAGC
1 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
*
24836215 AGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACGA
66 AGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACGA
24836280 AAAATCTTATCTTTCCAAGAT
131 AAAATCTTATCTTTCCAAGAT
24836301 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
1 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
* *
24836366 AGTAGAGTAGGTTGAAGATTGTAGATTTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACGA
66 AGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACGA
24836431 AAAATCTTATCTTTCCAAGAT
131 AAAATCTTATCTTTCCAAGAT
24836452 A
1 A
24836453 GTGGGAAGCA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
151 147 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (151 bp):
AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
AGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACGA
AAAATCTTATCTTTCCAAGAT
Found at i:24836576 original size:283 final size:283
Alignment explanation
Indices: 24836061--24836584 Score: 870
Period size: 283 Copynumber: 1.9 Consensus size: 283
24836051 GTGAAACACT
* * *
24836061 AAGCCTTGTCTCCTTGAGCAACAGCGGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAACAGCAGAGTAGGTTGAAGATCGTAGATCTTATCTCCCTAAGCAG
* * *
24836126 TAGTGGAGTAGATCGAGTACGGAAAATCTTTTCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAGTACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
* *
24836191 CCAAGCCTTGTCTCCTTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
131 CCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* *
24836256 AGTAGTGGAGAAGATTGAAGACGAAAAATCTTATCTTTCCAAGATAATCTTATCTTTCCAAGATA
196 AGTAGTGGAGAAGATCGAAGACGAAAAATCATATCTTTCCAAGATAATCTTATCTTTCCAAGATA
24836321 GTGGGAAGCAGATTTAAGCCACC
261 GTGGGAAGCAGATTTAAGCCACC
* * * *
24836344 AAGCCTTGTCTCCCTGAGCAGCAGTAGAGTAGGTTGAAGATTGTAGATTTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAACAGCAGAGTAGGTTGAAGATCGTAGATCTTATCTCCCTAAGCAG
*
24836409 TAGTGGAGAAGATTGAAG-ACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
66 TAGTGGAGAAGATCG-AGTACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
24836473 ACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
130 ACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* **
24836538 CAGTAGTGGAGCAGATCGAAGACGGCAAATCATATCTTTCCAAGATA
195 CAGTAGTGGAGAAGATCGAAGACGAAAAATCATATCTTTCCAAGATA
24836585 GTGGGAAGCT
Statistics
Matches: 222, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
283 220 0.99
284 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (283 bp):
AAGCCTTGTCTCCCTGAGCAACAGCAGAGTAGGTTGAAGATCGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGAAGATCGAGTACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
AGTAGTGGAGAAGATCGAAGACGAAAAATCATATCTTTCCAAGATAATCTTATCTTTCCAAGATA
GTGGGAAGCAGATTTAAGCCACC
Found at i:24836745 original size:44 final size:44
Alignment explanation
Indices: 24836655--24837027 Score: 191
Period size: 44 Copynumber: 8.6 Consensus size: 44
24836645 AAACCTTGGA
* * * *
24836655 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGT-ATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAG
*
24836695 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAATCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAG
* *
24836739 TCTTATC-CTCCTGAAGTTGCAAT-GAGGCAGATTGAAG--ATGGCGAA-
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTAAT--C-AAG
* * * * *
24836784 TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAG
* * * * *
24836828 TCCTGTCTCTCTGAAGTTGCAGTGGAGCAGATTAA--AACCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCA-AG
* * * * * * *
24836871 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCA--CATCGAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAG
* * * * *
24836913 TCTTATCTCCCTAAAGTTGCAGTCGAGCAGACTCCAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAATCAAG
* * * * * * * *
24836958 CCTTATCCCCCTGAAATTGCAGTGGGGCATACTAAATAAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAG
* * * *
24837002 TCATGTCTCTCT-AAGTTGTAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
24837028 TGGATTAGAG
Statistics
Matches: 253, Mismatches: 59, Indels: 39
0.72 0.17 0.11
Matches are distributed among these distances:
40 20 0.08
41 33 0.13
42 8 0.03
43 27 0.11
44 101 0.40
45 59 0.23
46 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAG
Found at i:24837349 original size:17 final size:18
Alignment explanation
Indices: 24837335--24837418 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 18
24837325 ATAATCTTCG
24837335 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
24837353 TATGATATGCAATCTTAGATA
1 -AGGATATGCAATCTTAG--A
*
24837374 AGATATATGCAATCTTAGA
1 AG-GATATGCAATCTTAGA
* *
24837393 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
24837412 A-GATATG
1 AGGATATG
24837419 ATTTTGTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
17 6 0.11
18 1 0.02
19 31 0.56
20 2 0.04
21 15 0.27
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:24837361 original size:19 final size:19
Alignment explanation
Indices: 24837337--24837411 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
24837327 AATCTTCGAG
24837337 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
24837356 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAT
24837375 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
24837396 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
24837412 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24837383 original size:21 final size:21
Alignment explanation
Indices: 24837338--24837400 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
24837328 ATCTTCGAGG
24837338 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
24837357 ATATGCAATCTTAGATAAGAT
1 ATATGCAATCTTAGATATGAT
24837378 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
24837399 AT
1 AT
24837401 GTAATCTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 18 0.45
21 22 0.55
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:24837437 original size:22 final size:22
Alignment explanation
Indices: 24837390--24837434 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
24837380 ATGCAATCTT
*
24837390 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATATTAGA
*
24837412 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGTAATATTAGA
24837435 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (22 bp):
AGATATGATATGTAATATTAGA
Found at i:24837444 original size:22 final size:23
Alignment explanation
Indices: 24837400--24837444 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24837390 AGATATGATA
* *
24837400 TGTAATCTTAGAAGATATGATTT
1 TGTAATATTAGAAGATATAATTT
*
24837423 TGTAATATTAG-AGATTTAATTT
1 TGTAATATTAGAAGATATAATTT
24837445 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATATTAGAAGATATAATTT
Found at i:24837639 original size:19 final size:21
Alignment explanation
Indices: 24837615--24837653 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
24837605 GGCTTACTGT
*
24837615 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
24837634 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
24837654 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:24838095 original size:21 final size:20
Alignment explanation
Indices: 24838065--24838114 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
24838055 TTTAATTAGT
*
24838065 TTTTATTTATATATATATTTG
1 TTTT-TTTATATATATATTTA
* *
24838086 TTGTTTTTATTTATTTATTTA
1 TT-TTTTTATATATATATTTA
24838107 TTTTTTTA
1 TTTTTTTA
24838115 AAACAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 17 0.68
22 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (20 bp):
TTTTTTTATATATATATTTA
Found at i:24842233 original size:15 final size:15
Alignment explanation
Indices: 24842194--24842233 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
24842184 CTGCTGTTGT
*
24842194 TTGAAATCTTTTTCA
1 TTGAAATCTGTTTCA
24842209 TTGCAAATCTGTTTCA
1 TTG-AAATCTGTTTCA
24842225 TTGAAATCT
1 TTGAAATCT
24842234 ATATATCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (15 bp):
TTGAAATCTGTTTCA
Found at i:24844512 original size:9 final size:9
Alignment explanation
Indices: 24844498--24844537 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
24844488 GTTAAACGAA
24844498 TCGAGTTAT
1 TCGAGTTAT
24844507 TCGAGTTAT
1 TCGAGTTAT
*
24844516 TCGAGTTAA
1 TCGAGTTAT
24844525 TCGAGTTAT
1 TCGAGTTAT
24844534 TCGA
1 TCGA
24844538 ATCAACTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:24844606 original size:9 final size:9
Alignment explanation
Indices: 24844589--24844624 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
24844579 TGAGTTTTCG
24844589 AATTCGAAT
1 AATTCGAAT
*
24844598 AACTCGAAT
1 AATTCGAAT
*
24844607 AATTCAAAT
1 AATTCGAAT
24844616 AATTCGAAT
1 AATTCGAAT
24844625 CTTAAACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24844702 original size:21 final size:21
Alignment explanation
Indices: 24844663--24844702 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24844653 CCTAAACTCC
*
24844663 CAAAACTTTTTACTTTTCCTT
1 CAAAACTTTTTACTCTTCCTT
24844684 CAAAAC-TTTTACTCCTTCC
1 CAAAACTTTTTACT-CTTCC
24844703 CACTTTTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (21 bp):
CAAAACTTTTTACTCTTCCTT
Found at i:24850344 original size:40 final size:40
Alignment explanation
Indices: 24850300--24850509 Score: 287
Period size: 40 Copynumber: 5.3 Consensus size: 40
24850290 GGACTAAGAT
* * * *
24850300 CCGAAGGCCTTTGTGCGAGATACTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
24850340 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
*
24850380 CCGAAGGCATACGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * *
24850420 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * * * * *
24850460 CTGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
24850499 CCGAAGGCATT
1 CCGAAGGCATT
24850510 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 32 0.21
40 121 0.79
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
Found at i:24850529 original size:79 final size:80
Alignment explanation
Indices: 24850312--24850544 Score: 220
Period size: 80 Copynumber: 2.9 Consensus size: 80
24850302 GAAGGCCTTT
* * * ** * * *
24850312 GTGCGAGATACTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAAGCCGGGTTA
1 GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCTAAATCCGGGTTA
24850376 AGTCCCGAAGGCATAC
65 AGTCCCGAAGGCATAC
* * * ** ** * *
24850392 GTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAC
1 GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAA
* *
24850457 GTCCTGAAGGCAT-T
66 GTCCCGAAGGCATAC
* * * *
24850471 GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAA
1 GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAA
*
24850535 ATCCCGAAGG
66 GTCCCGAAGG
24850545 TACGTGATTT
Statistics
Matches: 130, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 13 0.10
79 47 0.36
80 70 0.54
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (80 bp):
GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAA
GTCCCGAAGGCATAC
Found at i:24858327 original size:79 final size:80
Alignment explanation
Indices: 24858241--24858448 Score: 278
Period size: 79 Copynumber: 2.6 Consensus size: 80
24858231 GGACTAAGAT
*
24858241 CCGAAGGCCTTTGTGCGAGATACTAAAGCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTA
1 CCGAAGGCCTTTGTGCGAGTTACTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
24858305 AAGCCGGGTTAAGTC
66 AAGCCGGGTTAAGTC
* ** * *
24858320 CCGAAGGCATACGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCTTTGTGCGAGTTACTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
* *
24858385 AATCCGGGTTACGTC
66 AAGCCGGGTTAAGTC
* * * * *
24858400 CCGAAGG-CATTGTGTGAGTTACTAAAACC-GGCTATGTCCCGAAGGCATT
1 CCGAAGGCCTTTGTGCGAGTTACTAAAGCCGGGTTAAGTCCCGAAGGCATT
24858449 TGAACGAGGA
Statistics
Matches: 111, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
78 18 0.16
79 49 0.44
80 44 0.40
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGAAGGCCTTTGTGCGAGTTACTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
AAGCCGGGTTAAGTC
Found at i:24858335 original size:40 final size:40
Alignment explanation
Indices: 24858241--24858448 Score: 278
Period size: 40 Copynumber: 5.3 Consensus size: 40
24858231 GGACTAAGAT
* * * *
24858241 CCGAAGGCCTTTGTGCGAGATACTAAAGCCGGGTTAAGT-
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
24858280 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
*
24858320 CCGAAGGCATACGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * *
24858360 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * * * *
24858400 CCGAAGGCATT-GTGTGAGTTACTAAAACC-GGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
24858438 CCGAAGGCATT
1 CCGAAGGCATT
24858449 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 18 0.12
39 49 0.32
40 86 0.56
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
Found at i:24860489 original size:49 final size:50
Alignment explanation
Indices: 24860355--24860497 Score: 182
Period size: 49 Copynumber: 2.9 Consensus size: 50
24860345 TTCTTGTACA
* * * **
24860355 GCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
* * * * *
24860405 GCCCATGCCATGTCCCATACATGGTCTTAC-GGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
24860454 GCCAACG-CATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
24860498 ATCTCAATTA
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
48 21 0.27
49 32 0.41
50 26 0.33
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
Found at i:24862861 original size:15 final size:16
Alignment explanation
Indices: 24862833--24862863 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
24862823 CAAATATTGT
24862833 ATTAATTCATAATTTA
1 ATTAATTCATAATTTA
24862849 ATTAATT-ATAATTTA
1 ATTAATTCATAATTTA
24862864 TTCCCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTAATTCATAATTTA
Found at i:24874709 original size:31 final size:34
Alignment explanation
Indices: 24874586--24874714 Score: 92
Period size: 39 Copynumber: 3.7 Consensus size: 34
24874576 ATATCCGGAC
* * *
24874586 TAAGATCCGAAGGCCTTTGTGCGAGATACTAAACCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAG-TATTAAA-C--GT
*
24874625 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGG
1 TAAGT-CCGAAGGCATTCGTGCGAG-TATTAAA--CGT
24874663 T-AGT-CGAA-GCA-TCGTGCGAG-ATT-AA-GT
1 TAAGTCCGAAGGCATTCGTGCGAGTATTAAACGT
24874690 TAAGTCCGAAGGCATTCGTGCGAGT
1 TAAGTCCGAAGGCATTCGTGCGAGT
24874715 TGTTAATCCG
Statistics
Matches: 77, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
27 2 0.03
28 3 0.04
29 4 0.05
30 5 0.06
31 12 0.16
33 9 0.12
34 3 0.04
35 4 0.05
37 3 0.04
38 3 0.04
39 27 0.35
40 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (34 bp):
TAAGTCCGAAGGCATTCGTGCGAGTATTAAACGT
Found at i:24882562 original size:40 final size:40
Alignment explanation
Indices: 24882518--24882727 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
24882508 GGACTAAGAT
* * * *
24882518 CCGAAGGCCTTTGTGCGAGATACTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
24882558 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
*
24882598 CCGAAGGCATACGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * *
24882638 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * * * *
24882678 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
24882717 CCGAAGGCATT
1 CCGAAGGCATT
24882728 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 33 0.21
40 122 0.79
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
Found at i:24882747 original size:79 final size:80
Alignment explanation
Indices: 24882530--24882762 Score: 229
Period size: 80 Copynumber: 2.9 Consensus size: 80
24882520 GAAGGCCTTT
* * * ** * * *
24882530 GTGCGAGATACTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAAGCCGGGTTA
1 GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCTAAATCCGGGTTA
24882594 AGTCCCGAAGGCATAC
65 AGTCCCGAAGGCATAC
* * * ** ** * *
24882610 GTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAC
1 GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAA
*
24882675 GTCCCGAAGGCAT-T
66 GTCCCGAAGGCATAC
* * * *
24882689 GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAA
1 GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAA
*
24882753 ATCCCGAAGG
66 GTCCCGAAGG
24882763 TACGTGATTT
Statistics
Matches: 132, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
78 14 0.11
79 47 0.36
80 71 0.54
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAA
GTCCCGAAGGCATAC
Found at i:24884713 original size:50 final size:50
Alignment explanation
Indices: 24884639--24884782 Score: 191
Period size: 50 Copynumber: 2.9 Consensus size: 50
24884629 TTCTTGTACA
* * **
24884639 GCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
* * ** *
24884689 GCCCATGCCATGTCCCATACATGGTCTTACGGGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
*
24884739 GCCAACG-CATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
24884783 ATCTCAATTA
Statistics
Matches: 79, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
49 33 0.42
50 46 0.58
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
Found at i:24887285 original size:15 final size:16
Alignment explanation
Indices: 24887257--24887287 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
24887247 AAATATGTGT
24887257 ATTAATTCATAATTTA
1 ATTAATTCATAATTTA
24887273 ATTAATT-ATAATTTA
1 ATTAATTCATAATTTA
24887288 TTCCCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTAATTCATAATTTA
Found at i:24894966 original size:19 final size:18
Alignment explanation
Indices: 24894920--24894967 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
24894910 GATAGAATTT
* *
24894920 TTGTCATAAAATTATTAAT
1 TTGT-ATAAAATAATTAAA
*
24894939 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
24894957 TTGTATTAAAA
1 TTGTA-TAAAA
24894968 ATTTGAACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:24895026 original size:20 final size:21
Alignment explanation
Indices: 24894982--24895029 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
24894972 GAACATGTTA
24894982 ATTTTTAGTAAATTTTACAATT
1 ATTTTTAGTAAATTTTA-AATT
* *
24895004 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTAAATTTTAAATT
24895024 ATTTTT
1 ATTTTT
24895030 GACAGATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTAAATTTTAAATT
Found at i:24905037 original size:24 final size:24
Alignment explanation
Indices: 24904962--24905039 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
24904952 ATTGAGCGCC
24904962 AGAATAGGGACTGAGAGAGGGGTA
1 AGAATAGGGACTGAGAGAGGGGTA
** * *
24904986 AGAATAAGATGGA-TTTGA-AGCGCT-
1 AGAAT-AG--GGACTGAGAGAGGGGTA
24905010 AGAATAGGGACTGAGAGAGGGGTA
1 AGAATAGGGACTGAGAGAGGGGTA
24905034 AGAATA
1 AGAATA
24905040 AGAATAAGAG
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
21 3 0.08
22 3 0.08
23 6 0.15
24 16 0.40
25 6 0.15
26 3 0.08
27 3 0.08
ACGTcount: A:0.40, C:0.05, G:0.38, T:0.17
Consensus pattern (24 bp):
AGAATAGGGACTGAGAGAGGGGTA
Found at i:24912323 original size:43 final size:43
Alignment explanation
Indices: 24912276--24912408 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 43
24912266 CCTAAGCTAC
24912276 TATACTGGCACACACAGTGCATCAATGGATAAATCAAAGAAAA
1 TATACTGGCACACACAGTGCATCAATGGATAAATCAAAGAAAA
* * * * * *
24912319 TATACAGGAAAACACAGTGCATCAACGTATAAATCGAAGAAAA
1 TATACTGGCACACACAGTGCATCAATGGATAAATCAAAGAAAA
* * * * *
24912362 TAAACTGGC-CTACATAGTGAATCATTGGATAAACCAAAGAAAA
1 TATACTGGCAC-ACACAGTGCATCAATGGATAAATCAAAGAAAA
24912405 TATA
1 TATA
24912409 TCGTTACACA
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.20
Consensus pattern (43 bp):
TATACTGGCACACACAGTGCATCAATGGATAAATCAAAGAAAA
Found at i:24923307 original size:371 final size:371
Alignment explanation
Indices: 24922624--24923369 Score: 1438
Period size: 371 Copynumber: 2.0 Consensus size: 371
24922614 TAGCAACATT
* *
24922624 CAATTTTTCTTGGAGGCCTTATTTTAATAGAATGAGCAGAAAAGAAGAGGAGCGCACTAGTCTGG
1 CAATTTTTCATGGAGGCCTTATTTTAACAGAATGAGCAGAAAAGAAGAGGAGCGCACTAGTCTGG
*
24922689 GTTTAGAGAAATCCTGGATTTGCTTCCTAGTTCCCTTCTCTTTAAGTTTCTTGTTTATGTTGTGA
66 GTTTAGAGAAATCCTAGATTTGCTTCCTAGTTCCCTTCTCTTTAAGTTTCTTGTTTATGTTGTGA
24922754 TTATGAATATGAATAATTTGTTTCTTATTGTCCTTGTTCTAATTAAAATGACTTAAATTAAATTT
131 TTATGAATATGAATAATTTGTTTCTTATTGTCCTTGTTCTAATTAAAATGACTTAAATTAAATTT
24922819 GTCTTAGATTGATTGCATTATGTCCACTTAAATTATTAAAATCATGTTTGTGTTGTTATAGGCAT
196 GTCTTAGATTGATTGCATTATGTCCACTTAAATTATTAAAATCATGTTTGTGTTGTTATAGGCAT
24922884 TAGTAAGTTGTTCAATTAAATAAAATCATGCTGATATTATACTTGCATTATAAAATGTAAGGTAA
261 TAGTAAGTTGTTCAATTAAATAAAATCATGCTGATATTATACTTGCATTATAAAATGTAAGGTAA
24922949 TGAATGAATTAATTATTAAAACTTTTAAAATTGTAATTAATTGTCA
326 TGAATGAATTAATTATTAAAACTTTTAAAATTGTAATTAATTGTCA
*
24922995 CAATTTTTCATGGAGGCCTTATTTTAACAGAATGAGCAGAGAAGAAGAGGAGCGCACTAGTCTGG
1 CAATTTTTCATGGAGGCCTTATTTTAACAGAATGAGCAGAAAAGAAGAGGAGCGCACTAGTCTGG
24923060 GTTTAGAGAAATCCTAGATTTGCTTCCTAGTTCCCTTCTCTTTAAGTTTCTTGTTTATGTTGTGA
66 GTTTAGAGAAATCCTAGATTTGCTTCCTAGTTCCCTTCTCTTTAAGTTTCTTGTTTATGTTGTGA
24923125 TTATGAATATGAATAATTTGTTTCTTATTGTCCTTGTTCTAATTAAAATGACTTAAATTAAATTT
131 TTATGAATATGAATAATTTGTTTCTTATTGTCCTTGTTCTAATTAAAATGACTTAAATTAAATTT
24923190 GTCTTAGATTGATTGCATTATGTCCACTTAAATTATTAAAATCATGTTTGTGTTGTTATAGGCAT
196 GTCTTAGATTGATTGCATTATGTCCACTTAAATTATTAAAATCATGTTTGTGTTGTTATAGGCAT
24923255 TAGTAAGTTGTTCAATTAAATAAAATCATGCTGATATTATACTTGCATTATAAAATGTAAGGTAA
261 TAGTAAGTTGTTCAATTAAATAAAATCATGCTGATATTATACTTGCATTATAAAATGTAAGGTAA
* *
24923320 TGAATGAATTAATTATTAAAATTTTTGAAATTGTAATTAATTGTCA
326 TGAATGAATTAATTATTAAAACTTTTAAAATTGTAATTAATTGTCA
24923366 CAAT
1 CAAT
24923370 ATTTAATTGC
Statistics
Matches: 369, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
371 369 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (371 bp):
CAATTTTTCATGGAGGCCTTATTTTAACAGAATGAGCAGAAAAGAAGAGGAGCGCACTAGTCTGG
GTTTAGAGAAATCCTAGATTTGCTTCCTAGTTCCCTTCTCTTTAAGTTTCTTGTTTATGTTGTGA
TTATGAATATGAATAATTTGTTTCTTATTGTCCTTGTTCTAATTAAAATGACTTAAATTAAATTT
GTCTTAGATTGATTGCATTATGTCCACTTAAATTATTAAAATCATGTTTGTGTTGTTATAGGCAT
TAGTAAGTTGTTCAATTAAATAAAATCATGCTGATATTATACTTGCATTATAAAATGTAAGGTAA
TGAATGAATTAATTATTAAAACTTTTAAAATTGTAATTAATTGTCA
Found at i:24937458 original size:21 final size:21
Alignment explanation
Indices: 24937419--24937467 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
24937409 AAGTGAGTTA
*
24937419 GACAAAAAGAGAAGCAACTTG
1 GACAAAAAGAGAAGCAACTCG
24937440 GACAAAAAGAGAA-CTAACTCG
1 GACAAAAAGAGAAGC-AACTCG
*
24937461 AACAAAA
1 GACAAAA
24937468 TAAACGGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.57, C:0.16, G:0.18, T:0.08
Consensus pattern (21 bp):
GACAAAAAGAGAAGCAACTCG
Found at i:24940583 original size:43 final size:42
Alignment explanation
Indices: 24940489--24940746 Score: 176
Period size: 43 Copynumber: 6.2 Consensus size: 42
24940479 GAAGTTTTGC
* * *
24940489 ACCCAGCGCTGGTCGGTAAAATCGACAAATATGTATATGTGT
1 ACCCAGCACTGGTCGGTAAAATCAACAAATATATATATGTGT
*
24940531 ACCCAGCACTGGTCGGTAAAATCAAAAAATATTATATATGTGT
1 ACCCAGCACTGGTCGGTAAAATCAACAAATA-TATATATGTGT
* * * * *
24940574 GCCCAGCACTAGTCGGTAAAACCAACAAATATATATGTATATAT
1 ACCCAGCACTGGTCGGTAAAATCAACAAATATATA--TATGTGT
* * * * ** *
24940618 ATGTCAAGCACTAGTTGGTGGAACCGAA-AAATATATATATGTG-
1 A--CCCAGCACTGGTCGGTAAAATC-AACAAATATATATATGTGT
* * **
24940661 -CCCAACACTGGTCTGTAAAA-CCGCAAATATATATATG-G-
1 ACCCAGCACTGGTCGGTAAAATCAACAAATATATATATGTGT
* * **
24940699 --CTAGCACTGGTCGGTAAAACCGGCAAATATATATATGTG-
1 ACCCAGCACTGGTCGGTAAAATCAACAAATATATATATGTGT
24940738 -CCCAGCACT
1 ACCCAGCACT
24940747 TCAAGATGCA
Statistics
Matches: 173, Mismatches: 33, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
37 16 0.09
38 17 0.10
39 15 0.09
40 19 0.11
42 32 0.18
43 37 0.21
44 9 0.05
46 26 0.15
47 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (42 bp):
ACCCAGCACTGGTCGGTAAAATCAACAAATATATATATGTGT
Found at i:24940632 original size:46 final size:45
Alignment explanation
Indices: 24940535--24940657 Score: 124
Period size: 46 Copynumber: 2.7 Consensus size: 45
24940525 ATGTGTACCC
* * * * *
24940535 AGCACTGGTCGGTAAAATCAAAAA-ATAT-TATATATGTGTGCCC
1 AGCACTAGTCGGTAAAACCAAAAATATATATATATATATATGCCA
* *
24940578 AGCACTAGTCGGTAAAACCAACAAATATATATGTATATATATGTCA
1 AGCACTAGTCGGTAAAACCAA-AAATATATATATATATATATGCCA
* **
24940624 AGCACTAGTTGGTGGAACCGAAAAATATATATAT
1 AGCACTAGTCGGTAAAACC-AAAAATATATATAT
24940658 GTGCCCAACA
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
43 19 0.29
44 3 0.05
45 4 0.06
46 37 0.57
47 2 0.03
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (45 bp):
AGCACTAGTCGGTAAAACCAAAAATATATATATATATATATGCCA
Found at i:24940707 original size:37 final size:40
Alignment explanation
Indices: 24940646--24940746 Score: 145
Period size: 37 Copynumber: 2.6 Consensus size: 40
24940636 TGGAACCGAA
*
24940646 AAATATATATATGTGCCCAACACTGGTCTGTAAAACC-GC
1 AAATATATATATGTGCCCAACACTGGTCGGTAAAACCGGC
* *
24940685 AAATATATATATG-G-CTAGCACTGGTCGGTAAAACCGGC
1 AAATATATATATGTGCCCAACACTGGTCGGTAAAACCGGC
*
24940723 AAATATATATATGTGCCCAGCACT
1 AAATATATATATGTGCCCAACACT
24940747 TCAAGATGCA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
37 18 0.33
38 16 0.29
39 14 0.25
40 7 0.13
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (40 bp):
AAATATATATATGTGCCCAACACTGGTCGGTAAAACCGGC
Found at i:24943056 original size:40 final size:40
Alignment explanation
Indices: 24942965--24943134 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
24942955 TCCTCGTTCA
* * * * *
24942965 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24943004 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
24943044 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
24943084 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
24943124 AAGGCCTTCGG
1 AATGCCTTCGG
24943135 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:24950931 original size:40 final size:40
Alignment explanation
Indices: 24950840--24951009 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
24950830 TCCTCGTTCA
* * * * *
24950840 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24950879 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
24950919 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
24950959 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
24950999 AAGGCCTTCGG
1 AATGCCTTCGG
24951010 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:24959130 original size:26 final size:26
Alignment explanation
Indices: 24959101--24959176 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
24959091 TACAAATATC
*
24959101 GCAGTAAAGCTGCCAGTAACAGTAAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
24959127 GCAGCAAAGCTGCCAGTAACAGTATAT
1 GCAGCAAAGCTGCCAGTAACAGTA-AT
** **
24959154 GTGGCAAAGCCACCAGT-ACAGTA
1 GCAGCAAAGCTGCCAGTAACAGTA
24959177 TACTTACCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 29 0.66
27 15 0.34
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAT
Found at i:24959342 original size:27 final size:27
Alignment explanation
Indices: 24959309--24959555 Score: 295
Period size: 27 Copynumber: 9.1 Consensus size: 27
24959299 ATATTTCAAC
24959309 TTTACCCTTC-AGGGGTATTTCAGTCAT
1 TTTACCCTTCGA-GGGTATTTCAGTCAT
* *
24959336 TTTACCCTGCGAGGGTATTTCAGTTAT
1 TTTACCCTTCGAGGGTATTTCAGTCAT
*
24959363 TTTACCCTTCGAGGGTTTTTC-GATCAT
1 TTTACCCTTCGAGGGTATTTCAG-TCAT
** * *
24959390 TCCACCCTGCGAGGGTATTTCGGTCAT
1 TTTACCCTTCGAGGGTATTTCAGTCAT
* **
24959417 TTTACCCTTTGAGGGTATTTTGGTCAT
1 TTTACCCTTCGAGGGTATTTCAGTCAT
*
24959444 TTTACCCTTCGGGGGTATTTC-GATCAT
1 TTTACCCTTCGAGGGTATTTCAG-TCAT
* *
24959471 TTTACCCTTCGAGGGTATTTCGGTCAC
1 TTTACCCTTCGAGGGTATTTCAGTCAT
*
24959498 TTTATCCTTC-AGGGGTATTTCAGTCAT
1 TTTACCCTTCGA-GGGTATTTCAGTCAT
*
24959525 TTTACCCTTCGAGGATATTTCAGTCAT
1 TTTACCCTTCGAGGGTATTTCAGTCAT
24959552 TTTA
1 TTTA
24959556 GGCCCATTAC
Statistics
Matches: 189, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.02
27 182 0.96
28 4 0.02
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.41
Consensus pattern (27 bp):
TTTACCCTTCGAGGGTATTTCAGTCAT
Found at i:24962190 original size:18 final size:18
Alignment explanation
Indices: 24962167--24962204 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
24962157 TTAAACACTT
24962167 ACCCACAAACCCAATATA
1 ACCCACAAACCCAATATA
24962185 ACCCACAAACCCAATATA
1 ACCCACAAACCCAATATA
24962203 AC
1 AC
24962205 AAGCTGAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.39, G:0.00, T:0.11
Consensus pattern (18 bp):
ACCCACAAACCCAATATA
Found at i:24967294 original size:9 final size:9
Alignment explanation
Indices: 24967280--24967362 Score: 96
Period size: 9 Copynumber: 9.2 Consensus size: 9
24967270 GTAGTGATTC
24967280 AATTCGGTT
1 AATTCGGTT
24967289 AATTCGGTT
1 AATTCGGTT
24967298 AATTCAGG-T
1 AATTC-GGTT
*
24967307 AATTCGGGT
1 AATTCGGTT
*
24967316 AATTCAGTT
1 AATTCGGTT
*
24967325 AATTCGGGT
1 AATTCGGTT
24967334 AATTCGGTT
1 AATTCGGTT
**
24967343 AATTCAATT
1 AATTCGGTT
*
24967352 AATTTGGTT
1 AATTCGGTT
24967361 AA
1 AA
24967363 CTTTTAACCA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
8 2 0.03
9 58 0.94
10 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:24967310 original size:27 final size:27
Alignment explanation
Indices: 24967280--24967355 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
24967270 GTAGTGATTC
*
24967280 AATTCGGTTAATTCGGTTAATTCAGGT
1 AATTCGGTTAATTCAGTTAATTCAGGT
* *
24967307 AATTCGGGTAATTCAGTTAATTCGGGT
1 AATTCGGTTAATTCAGTTAATTCAGGT
*
24967334 AATTCGGTTAATTCAATTAATT
1 AATTCGGTTAATTCAGTTAATT
24967356 TGGTTAACTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (27 bp):
AATTCGGTTAATTCAGTTAATTCAGGT
Found at i:24995740 original size:15 final size:15
Alignment explanation
Indices: 24995720--24995754 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
24995710 GGGAGAAGTG
24995720 TCATATGTTTTCTGA
1 TCATATGTTTTCTGA
24995735 TCATATGTTTTCTGA
1 TCATATGTTTTCTGA
24995750 TCATA
1 TCATA
24995755 AGAGTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.51
Consensus pattern (15 bp):
TCATATGTTTTCTGA
Found at i:25000635 original size:28 final size:27
Alignment explanation
Indices: 25000557--25000639 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
25000547 GAGACCCTAA
**
25000557 AATAGGTAAAATGACCAAAATACCCCT
1 AATAGGTAAAATGACCATTATACCCCT
* *
25000584 AA-AGGGTAAAATGACTATTTTACCCCT
1 AATA-GGTAAAATGACCATTATACCCCT
*
25000611 AATAGATAGAAATGACCATTATACCCCT
1 AATAGGTA-AAATGACCATTATACCCCT
25000639 A
1 A
25000640 GAGGTAGGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.02
27 26 0.57
28 19 0.41
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.24
Consensus pattern (27 bp):
AATAGGTAAAATGACCATTATACCCCT
Found at i:25003340 original size:20 final size:18
Alignment explanation
Indices: 25003315--25003351 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
25003305 ACCTAACACA
25003315 AATTAAATTCAAGACATATT
1 AATTAAATT-AA-ACATATT
25003335 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
25003352 CAACATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:25004236 original size:22 final size:22
Alignment explanation
Indices: 25004189--25004236 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
25004179 TATCTAAAAT
*
25004189 AATA-AAAATTAATCAAAATTT
1 AATATAAAATTAATCAAAATTC
* *
25004210 GATATAAAATTAATTAAAATTC
1 AATATAAAATTAATCAAAATTC
25004232 AATAT
1 AATAT
25004237 GTTCATAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATAAAATTAATCAAAATTC
Found at i:25007137 original size:25 final size:26
Alignment explanation
Indices: 25007108--25007166 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
25007098 TTAATTAGTG
*
25007108 TAAAATATTAA-TAATTCAAT-AAAT
1 TAAAATATTAATTAATTAAATAAAAT
*
25007132 TGAAA-ATTAATTAATTAAATAAAAT
1 TAAAATATTAATTAATTAAATAAAAT
25007157 TAAAAT-TTAA
1 TAAAATATTAA
25007167 GAGAAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 5 0.17
24 12 0.41
25 12 0.41
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
TAAAATATTAATTAATTAAATAAAAT
Found at i:25011235 original size:328 final size:327
Alignment explanation
Indices: 25010627--25011292 Score: 1206
Period size: 328 Copynumber: 2.0 Consensus size: 327
25010617 CTGAAAAAAT
* * *
25010627 TACAGTAAAGTTACAACATTGGGGTTTCGTGTCACGAAACCCTTGGCAAGCTACCGATATTGTGA
1 TACA-TAAAGTCACAACATTGGGGTTCCGTGTCACGAAACCCTTGGCAAGCTACCGATATCGTGA
*
25010692 CATCAAGATTCGATGTCCGTCACACTCTAAAATTTTTGAACCTAGGGTATTGACTGTTTGTCCCG
65 CATCAAGATTCGATGTCCGTCACACTCTAAAATTTTTGAACCTAGGGTATTGACTCTTTGTCCCG
25010757 ACACAGCACCCCTATATCATGAAATCGAGATAAATTTATCGATTTTTTAAATCTGTGAACGATGT
130 ACACAGCACCCCTATATCATGAAATCGAGATAAATTTATCGATTTTTTAAATCTGTGAACGATGT
25010822 CGCAACATAAAGGTTTCATTTTGCGACACCGGCTTTGTTTTGGCCTCTAGACTCAATTTTCAAGG
195 CGCAACATAAAGGTTTCATTTTGCGACACCGGCTTTGTTTTGGCCTCTAGACTCAATTTTCAAGG
*
25010887 TGTTCAGTTTAATACTTAATTAGTTCAAACGAAATTAAATTCTACACTACTCATAATAATGCATA
260 TGTTCAGTTTAATACTTAATTAGTTCAAACGAAATTAAATTCTACACTACTCATAATAATACATA
25010952 ATA
325 ATA
25010955 TACATAAAGTCACAACATTGGGGTTCCGTGTCACGAAACCCTTGGCAAGCTACCGATATCGTGAC
1 TACATAAAGTCACAACATTGGGGTTCCGTGTCACGAAACCCTTGGCAAGCTACCGATATCGTGAC
*
25011020 ATCAGGATTCGATGTCCGTCACACTCTAAAATTTTTGAACCTAGGGTATTGACTACTTTGTCCCG
66 ATCAAGATTCGATGTCCGTCACACTCTAAAATTTTTGAACCTAGGGTATTGACT-CTTTGTCCCG
**
25011085 ACACAGCACCCCTATATCATGAAATCGAGATAAATTTATCGATTTTTTAAATCTGTGAGTGATGT
130 ACACAGCACCCCTATATCATGAAATCGAGATAAATTTATCGATTTTTTAAATCTGTGAACGATGT
* * *
25011150 CGCAACATAGAGGTTTCGTTTTGCGACACTGGCTTTGTTTTGGCCTCTAGACTCAATTTTCAAGG
195 CGCAACATAAAGGTTTCATTTTGCGACACCGGCTTTGTTTTGGCCTCTAGACTCAATTTTCAAGG
*
25011215 TGTTCAGTTTAATACTTAATTAGTTCAAACGAAATTAAATTCTACAGTACTCATAATAATACATA
260 TGTTCAGTTTAATACTTAATTAGTTCAAACGAAATTAAATTCTACACTACTCATAATAATACATA
25011280 ATA
325 ATA
25011283 TACATAAAGT
1 TACATAAAGT
25011293 TTAATTCAAT
Statistics
Matches: 325, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
327 111 0.34
328 214 0.66
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (327 bp):
TACATAAAGTCACAACATTGGGGTTCCGTGTCACGAAACCCTTGGCAAGCTACCGATATCGTGAC
ATCAAGATTCGATGTCCGTCACACTCTAAAATTTTTGAACCTAGGGTATTGACTCTTTGTCCCGA
CACAGCACCCCTATATCATGAAATCGAGATAAATTTATCGATTTTTTAAATCTGTGAACGATGTC
GCAACATAAAGGTTTCATTTTGCGACACCGGCTTTGTTTTGGCCTCTAGACTCAATTTTCAAGGT
GTTCAGTTTAATACTTAATTAGTTCAAACGAAATTAAATTCTACACTACTCATAATAATACATAA
TA
Found at i:25014502 original size:41 final size:41
Alignment explanation
Indices: 25014451--25014632 Score: 186
Period size: 41 Copynumber: 4.4 Consensus size: 41
25014441 TTAACCCTTG
* ** *
25014451 AATTGCACATATGTATCCCTATTTGTACTTTGGTACCCCTA
1 AATTACACATATGTGCCCCTATTTGTACTTCGGTACCCCTA
* * * *
25014492 AATTACACATATGTGCCCCTGTTTGGACTTCAGTACCCCTG
1 AATTACACATATGTGCCCCTATTTGTACTTCGGTACCCCTA
* * *
25014533 AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTA
1 AATTACACATATGTGCCCCTATTTGTACTTCGGTACCCCTA
* * * * *
25014574 AATTACACATTTATGCCCCTGTTTGTTCTTCGAG-ACCCCTG
1 AATTACACATATGTGCCCCTATTTGTACTTCG-GTACCCCTA
* *
25014615 AATTGCACATACGTGCCC
1 AATTACACATATGTGCCC
25014633 TTGTTTACAC
Statistics
Matches: 113, Mismatches: 27, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (41 bp):
AATTACACATATGTGCCCCTATTTGTACTTCGGTACCCCTA
Found at i:25014591 original size:82 final size:82
Alignment explanation
Indices: 25014444--25014632 Score: 272
Period size: 82 Copynumber: 2.3 Consensus size: 82
25014434 TAGTTAATTA
* * ** * * *
25014444 ACCCTTGAATTGCACATATGTATCCCTATTTGTACTTTGGTACCCCTAAATTACACATATGTGCC
1 ACCCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTAAATTACACATATATGCC
25014509 CCTGTTTGGACTTC-AG
66 CCTGTTTGGACTTCGAG
*
25014525 TACCCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTAAATTACACATTTATGC
1 -ACCCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTAAATTACACATATATGC
**
25014590 CCCTGTTTGTTCTTCGAG
65 CCCTGTTTGGACTTCGAG
25014608 ACCCCTGAATTGCACATACGTGCCC
1 ACCCCTGAATTGCACATACGTGCCC
25014633 TTGTTTACAC
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 94 0.98
83 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (82 bp):
ACCCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTAAATTACACATATATGCC
CCTGTTTGGACTTCGAG
Found at i:25015966 original size:73 final size:74
Alignment explanation
Indices: 25015844--25015987 Score: 245
Period size: 73 Copynumber: 2.0 Consensus size: 74
25015834 AAGTTTTGAG
* *
25015844 TGTAAGCTTTCTATTTCCTTTGTTTTATTTTGGCAAATCATGTGATTATGTGAATAATTGTGGAT
1 TGTAAGCTTTCTATTTCCTTTGTTTTATTTTGGCAAATCATGTGATTATGTGAATAATTATGAAT
25015909 TGATTATTA
66 TGATTATTA
* *
25015918 TGTAAGCTTTCTATTT-CTTTGTTTTATTTTGGCAAATTATGTGGTTATGTGAATAATTATGAAT
1 TGTAAGCTTTCTATTTCCTTTGTTTTATTTTGGCAAATCATGTGATTATGTGAATAATTATGAAT
25015982 TGATTA
66 TGATTA
25015988 CTGTGATGCG
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 50 0.76
74 16 0.24
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (74 bp):
TGTAAGCTTTCTATTTCCTTTGTTTTATTTTGGCAAATCATGTGATTATGTGAATAATTATGAAT
TGATTATTA
Found at i:25016811 original size:22 final size:22
Alignment explanation
Indices: 25016786--25016827 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25016776 AATTTAAGTT
*
25016786 TCATGA-AAATTTTAGTATGTTC
1 TCATGATAAATTGT-GTATGTTC
25016808 TCATGATAAATTGTGTATGT
1 TCATGATAAATTGTGTATGT
25016828 AATCCTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (22 bp):
TCATGATAAATTGTGTATGTTC
Found at i:25018602 original size:9 final size:8
Alignment explanation
Indices: 25018589--25018660 Score: 67
Period size: 9 Copynumber: 8.4 Consensus size: 8
25018579 ACAATTTGGT
25018589 ATAAAAT-
1 ATAAAATA
25018596 ATATAAATAA
1 ATA-AAAT-A
25018606 ATAAAATA
1 ATAAAATA
25018614 ATGAAAACT-
1 AT-AAAA-TA
25018623 ATAAAATA
1 ATAAAATA
25018631 ATAATAATA
1 ATAA-AATA
25018640 ATAATAATA
1 ATAA-AATA
25018649 ATAATAATA
1 ATAA-AATA
25018658 ATA
1 ATA
25018661 GTAACGAAGT
Statistics
Matches: 58, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
7 4 0.07
8 15 0.26
9 35 0.60
10 4 0.07
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (8 bp):
ATAAAATA
Found at i:25018635 original size:3 final size:3
Alignment explanation
Indices: 25018623--25018660 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
25018613 AATGAAAACT
25018623 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25018661 GTAACGAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:25019589 original size:4 final size:4
Alignment explanation
Indices: 25019582--25019615 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
25019572 ATTTTCTTTA
25019582 AAAT AAAT AAA- ATAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AA
25019616 GCCAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 1 0.04
4 26 0.93
5 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:25020548 original size:217 final size:216
Alignment explanation
Indices: 25020245--25020744 Score: 664
Period size: 217 Copynumber: 2.3 Consensus size: 216
25020235 TCTGTTTGCA
* * * *
25020245 CCACTGCAACTTCAGGGGTATAAGATCTGCTTGCTTAGTCTGCTCCGCTACAACTTCAGGGAGAT
1 CCACTGC-ACTTCAGGGGGATAAGATCTGTTTGCTTAGTCTGCTCCGCTGCAACTTTAGGGAGAT
* * * *
25020310 AAGACTAGATGCGATCTGCTCTCTTCAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTTC
65 AAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTATCAGTTTAATCCGCTCC
* *
25020375 GCTACAACTTCAGGGAGATAGGATTATTGAATTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
130 ACTACAACTTCAAGGAGATAGGATTATTGAATTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
25020440 GATACGTC-ATCTTCAATCTGC-
195 GAT-CGTCTATCTTCAATCTGCT
* *
25020461 CCTACTGCAGCTTTAGGGGGATAAGAGCTGTTTGCTTAGTCTGCTCCGCTGCAACTTTAGGGAGA
1 CC-ACTGCA-CTTCAGGGGGATAAGATCTGTTTGCTTAGTCTGCTCCGCTGCAACTTTAGGGAGA
* * **
25020526 TAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTTAGTTTAATTTGCTC
64 TAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTATCAGTTTAATCCGCTC
* ** *
25020591 CACTGCAACTTCAAGGAGATAGGATTATTGGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATA
129 CACTACAACTTCAAGGAGATAGGATTATTGAATTTAATCTGCTCCACTGCAACTTCAGGGAGATA
**
25020656 AGATTTTCTATCTTCAATCTGCT
194 AGATCGTCTATCTTCAATCTGCT
* * * * **
25020679 CCACTGCTACTTCAGGGAGATAAGATTTGCTAT-CTTCAGTCCGCTCTACTGCAACTTTAGGGAG
1 CCACTGC-ACTTCAGGGGGATAAGATCTG-TTTGCTT-AGTCTGCTCCGCTGCAACTTTAGGGAG
25020743 AT
63 AT
25020745 GGGATTTGTA
Statistics
Matches: 247, Mismatches: 30, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
216 5 0.02
217 211 0.85
218 31 0.13
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (216 bp):
CCACTGCACTTCAGGGGGATAAGATCTGTTTGCTTAGTCTGCTCCGCTGCAACTTTAGGGAGATA
AGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTATCAGTTTAATCCGCTCCA
CTACAACTTCAAGGAGATAGGATTATTGAATTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
ATCGTCTATCTTCAATCTGCT
Found at i:25020699 original size:89 final size:90
Alignment explanation
Indices: 25020365--25020833 Score: 323
Period size: 89 Copynumber: 5.3 Consensus size: 90
25020355 CTATCATTTT
* * * * *
25020365 AATCCGCTTCGCTACAACTTCAGGGAGATAGGATTATTGAAT-TT-AATCTGCTCCACTGCAACT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATT-TT-TATCTTCAATCTGCTCCACTGCAACT
* **
25020428 TCAGGGAGATAAGA-TACG-TCATCTTC
64 TCAGGGAGATAGGATTTTGCT-ATCTTC
* * * * * * * *
25020454 AATCTGC-CCTACTGCAGCTTTAGGGGGATAAGAGCTGTTT-GCTT-AGTCTGCTCCGCTGCAAC
1 AATCCGCTCC-ACTGCAACTTCAGGGAGATAAGA--TTTTTATCTTCAATCTGCTCCACTGCAAC
* * ** *
25020516 TTTAGGGAGATAAGA-----CTAGATGC
63 TTCAGGGAGATAGGATTTTGCTATCTTC
* * * * *
25020539 AATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTTAGT-TT-AATTTGCTCCACTGCAACT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAT-TTTTA-TCTTCAATCTGCTCCACTGCAACT
* *
25020601 TCAAGGAGATAGGATTATTGGT-T-TT-
64 TCAGGGAGATAGGATT-TTGCTATCTTC
** *
25020626 AATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCAATCTGCTCCACTGCTACTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTT-TATCTTCAATCTGCTCCACTGCAACTT
*
25020691 CAGGGAGATAAGA-TTTGCTATCTTC
65 CAGGGAGATAGGATTTTGCTATCTTC
* * * ** * * *
25020716 AGTCCGCTCTACTGCAACTTTAGGGAGATGGGATTTGTATCTTCAATCCGCTCCACTGCAACTTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTTTATCTTCAATCTGCTCCACTGCAACTTC
25020781 AGGGAGATAGGA-TTTG-TATCTTC
66 AGGGAGATAGGATTTTGCTATCTTC
* *
25020804 AATCCACTCCACTGCAACTTGAGGGAGATA
1 AATCCGCTCCACTGCAACTTCAGGGAGATA
25020834 GAATTTGTGG
Statistics
Matches: 298, Mismatches: 60, Indels: 45
0.74 0.15 0.11
Matches are distributed among these distances:
82 1 0.00
83 2 0.01
84 47 0.16
85 11 0.04
86 1 0.00
87 14 0.05
88 63 0.21
89 126 0.42
90 32 0.11
91 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (90 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTTTATCTTCAATCTGCTCCACTGCAACTTC
AGGGAGATAGGATTTTGCTATCTTC
Found at i:25020834 original size:44 final size:44
Alignment explanation
Indices: 25020365--25020841 Score: 332
Period size: 44 Copynumber: 10.9 Consensus size: 44
25020355 CTATCATTTT
* * * *
25020365 AATCCGCTTCGCTACAACTTCAGGGAGATAGGATTATTGAAT-TT-
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-T-TTGTATCTTC
* * **
25020409 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATACGTCATCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGT-ATCTTC
* * * * * ** *
25020454 AATCTGC-CCTACTGCAGCTTTAGGGGGATAAGAGCTGTTTGCTT-
1 AATCCGCTCC-ACTGCAACTTCAGGGAGATAGGATTTGTAT-CTTC
* * * * * * * *
25020498 AGTCTGCTCCGCTGCAACTTTAGGGAGATAAGACTAG-A--TGC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTATCTTC
* * * * *
25020539 AATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTTAGT-TT-
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTG-TA-TCTTC
** *
25020582 AATTTGCTCCACTGCAACTTCAAGGAGATAGGATTATTGGT-T-TT-
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-T-TT-GTATCTTC
** * *
25020626 AATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTATCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTTGTATCTTC
* * *
25020671 AATCTGCTCCACTGCTACTTCAGGGAGATAAGATTTGCTATCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTG-TATCTTC
* * * *
25020716 AGTCCGCTCTACTGCAACTTTAGGGAGATGGGATTTGTATCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTATCTTC
*
25020760 AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTTGTATCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTATCTTC
* * *
25020804 AATCCACTCCACTGCAACTTGAGGGAGATAGAATTTGT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGT
25020842 GGTTTCACCG
Statistics
Matches: 357, Mismatches: 57, Indels: 38
0.79 0.13 0.08
Matches are distributed among these distances:
40 23 0.06
41 7 0.02
42 3 0.01
43 13 0.04
44 205 0.57
45 103 0.29
46 2 0.01
47 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (44 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTATCTTC
Found at i:25021783 original size:26 final size:26
Alignment explanation
Indices: 25021724--25021777 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
25021714 AGTATCTTGA
* *
25021724 AAAGAACAAAGTATTCCAAGAACGAC
1 AAAGAATAAAGTATTCCAAGAACAAC
25021750 AAAGAATAAAGTATTCCAAGAACAAC
1 AAAGAATAAAGTATTCCAAGAACAAC
25021776 AA
1 AA
25021778 GTAATACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.57, C:0.17, G:0.13, T:0.13
Consensus pattern (26 bp):
AAAGAATAAAGTATTCCAAGAACAAC
Found at i:25025722 original size:12 final size:12
Alignment explanation
Indices: 25025705--25025730 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25025695 AAAAAATCTA
25025705 AAAGAATAAAAG
1 AAAGAATAAAAG
25025717 AAAGAATAAAAG
1 AAAGAATAAAAG
25025729 AA
1 AA
25025731 TATTGGCTCA
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:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAGAATAAAAG
Found at i:25029443 original size:13 final size:14
Alignment explanation
Indices: 25029415--25029443 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25029405 ATTCTAATTC
25029415 AACTTTATTCAGAA
1 AACTTTATTCAGAA
25029429 AACTTTATT-AGAA
1 AACTTTATTCAGAA
25029442 AA
1 AA
25029444 TACATTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (14 bp):
AACTTTATTCAGAA
Found at i:25029994 original size:241 final size:241
Alignment explanation
Indices: 25029571--25030054 Score: 923
Period size: 241 Copynumber: 2.0 Consensus size: 241
25029561 ACAATCAACG
*
25029571 TATTAGCCTGTATTGCCAAAGTTTGCAGGTAATCTGCTATCTCTCGAATCTGAACCACAGCTTTT
1 TATTAGCCTGTATTGCCAAAGTTTGCAGGTAATCTGCTACCTCTCGAATCTGAACCACAGCTTTT
25029636 CCCATAATATGATCCCTGTTTCTAACTTGATTTTGAAAGTAATGAAGTTGCTCAGTCTGACGACT
66 CCCATAATATGATCCCTGTTTCTAACTTGATTTTGAAAGTAATGAAGTTGCTCAGTCTGACGACT
25029701 CTAATTTGCTTCCAGGTTCTCTATTCGGACCTCACAATTTCGCAATGTTGTTTCTAACTCTTCTA
131 CTAATTTGCTTCCAGGTTCTCTATTCGGACCTCACAATTTCGCAATGTTGTTTCTAACTCTTCTA
25029766 TTCTGCTCTTCATCTCTTCAATCTTGCTTAAACTTGCATTCAACTC
196 TTCTGCTCTTCATCTCTTCAATCTTGCTTAAACTTGCATTCAACTC
*
25029812 TATTAGCCTGTATTGCCAAAGTTTGCTGGTAATCTGCTACCTCTCGAATCTGAACCACAGCTTTT
1 TATTAGCCTGTATTGCCAAAGTTTGCAGGTAATCTGCTACCTCTCGAATCTGAACCACAGCTTTT
25029877 CCCATAATATGATCCCTGTTTCTAACTTGATTTTGAAAGTAATGAAGTTGCTCAGTCTGACGACT
66 CCCATAATATGATCCCTGTTTCTAACTTGATTTTGAAAGTAATGAAGTTGCTCAGTCTGACGACT
*
25029942 CTAATTTGCTTCCAGGTTCTCTATTCGGACCTTACAATTTCGCAATGTTGTTTCTAACTCTTCTA
131 CTAATTTGCTTCCAGGTTCTCTATTCGGACCTCACAATTTCGCAATGTTGTTTCTAACTCTTCTA
* *
25030007 TTCTGCTCTTCATCTTTTCAATCTTGCTTAAACTTGCTTTCAACTC
196 TTCTGCTCTTCATCTCTTCAATCTTGCTTAAACTTGCATTCAACTC
25030053 TA
1 TA
25030055 ATACAGAATT
Statistics
Matches: 238, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 238 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (241 bp):
TATTAGCCTGTATTGCCAAAGTTTGCAGGTAATCTGCTACCTCTCGAATCTGAACCACAGCTTTT
CCCATAATATGATCCCTGTTTCTAACTTGATTTTGAAAGTAATGAAGTTGCTCAGTCTGACGACT
CTAATTTGCTTCCAGGTTCTCTATTCGGACCTCACAATTTCGCAATGTTGTTTCTAACTCTTCTA
TTCTGCTCTTCATCTCTTCAATCTTGCTTAAACTTGCATTCAACTC
Found at i:25033421 original size:9 final size:8
Alignment explanation
Indices: 25033390--25033449 Score: 52
Period size: 9 Copynumber: 7.0 Consensus size: 8
25033380 ACAATTTGGC
25033390 ATAAAAT-
1 ATAAAATA
25033397 ATATAAATAA
1 ATA-AAAT-A
25033407 ATAAAATA
1 ATAAAATA
25033415 ATGAAAACT-
1 AT-AAAA-TA
25033424 ATAAAATA
1 ATAAAATA
25033432 ATAATAATA
1 ATAA-AATA
25033441 ATAATAATA
1 ATAA-AATA
25033450 GTAACGAAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
7 4 0.09
8 15 0.33
9 23 0.50
10 4 0.09
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (8 bp):
ATAAAATA
Found at i:25034398 original size:8 final size:9
Alignment explanation
Indices: 25034378--25034415 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
25034368 TCGTTTTCTT
25034378 TAAAATAAA
1 TAAAATAAA
25034387 TAAAAT-AA
1 TAAAATAAA
25034395 TAAAAATAAA
1 T-AAAATAAA
25034405 T-AAATAAA
1 TAAAATAAA
25034413 TAA
1 TAA
25034416 GCCAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 11 0.42
9 12 0.46
10 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAAATAAA
Found at i:25034422 original size:22 final size:22
Alignment explanation
Indices: 25034380--25034426 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
25034370 GTTTTCTTTA
*
25034380 AAATAAATAAAATAATAAAAAT
1 AAATAAATAAAATAACAAAAAT
*
25034402 AAATAAAT-AAATAAGCCAAAAT
1 AAATAAATAAAATAA-CAAAAAT
25034424 AAA
1 AAA
25034427 AAAACTACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATAAATAAAATAACAAAAAT
Found at i:25034801 original size:24 final size:23
Alignment explanation
Indices: 25034772--25034817 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
25034762 AATTCTGGGC
* *
25034772 TTTGGTTTGTTATATTTTTTTGTA
1 TTTGGTTTATTAT-TTTCTTTGTA
25034796 TTTGGTTTATTATTTTCTTTGT
1 TTTGGTTTATTATTTTCTTTGT
25034818 GTATGCGGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.11, C:0.02, G:0.15, T:0.72
Consensus pattern (23 bp):
TTTGGTTTATTATTTTCTTTGTA
Found at i:25036040 original size:15 final size:15
Alignment explanation
Indices: 25036000--25036043 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
25035990 TTATCTTAAA
25036000 ATATGAATATGTGTGT
1 ATATG-ATATGTGTGT
* *
25036016 ATTGTGATATGTGTTT
1 A-TATGATATGTGTGT
25036032 ATATGATATGTG
1 ATATGATATGTG
25036044 ACTATTATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 10 0.42
16 11 0.46
17 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (15 bp):
ATATGATATGTGTGT
Found at i:25046422 original size:27 final size:27
Alignment explanation
Indices: 25046392--25046569 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25046382 ATATTGAGTC
* * * *
25046392 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25046419 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25046446 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25046474 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25046501 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25046528 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25046555 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25046570 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25046531 original size:82 final size:81
Alignment explanation
Indices: 25046413--25046568 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25046403 TGCTATATAA
* *
25046413 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25046478 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25046495 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25046559 CACTTAGTGC
65 CACTTAGTGC
25046569 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25054478 original size:27 final size:27
Alignment explanation
Indices: 25054448--25054625 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
25054438 ATATTGAGTC
* *
25054448 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
25054475 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25054502 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
25054530 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
25054557 CACACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
25054584 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25054611 CGCACACCTAGTGCT
1 CGCACACTTAGTGCT
25054626 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25068226 original size:19 final size:20
Alignment explanation
Indices: 25068204--25068241 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
25068194 CAACTTTTGA
25068204 ACAAAAAATGGAA-CAAACT
1 ACAAAAAATGGAAGCAAACT
*
25068223 ACAAAAGATGGAAGCAAAC
1 ACAAAAAATGGAAGCAAAC
25068242 AAAAGCATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.61, C:0.16, G:0.16, T:0.08
Consensus pattern (20 bp):
ACAAAAAATGGAAGCAAACT
Found at i:25074317 original size:24 final size:24
Alignment explanation
Indices: 25074290--25074346 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
25074280 ATGGTGAAGT
25074290 CACTCAATAACATTGTGGCCAAGC
1 CACTCAATAACATTGTGGCCAAGC
* *
25074314 CACTCAATAGCATTGTGGTCAAGC
1 CACTCAATAACATTGTGGCCAAGC
25074338 CACTCAATA
1 CACTCAATA
25074347 TCACAGACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (24 bp):
CACTCAATAACATTGTGGCCAAGC
Found at i:25074385 original size:87 final size:87
Alignment explanation
Indices: 25074239--25074409 Score: 270
Period size: 87 Copynumber: 2.0 Consensus size: 87
25074229 ACACTCCACG
* * *
25074239 TTGTGGCCAAGCCACTCAATATCGCAGACAAGATGCACATTATGGTGAAGTCACTCAATAACATT
1 TTGTGGCCAAGCCACTCAATATCACAGACAAGATGCACATTATGGTCAAGCCACTCAATAACATT
*
25074304 GTGGCCAAGCCACTCAATAGCA
66 GTGACCAAGCCACTCAATAGCA
* * * *
25074326 TTGTGGTCAAGCCACTCAATATCACAGACAAGCTGCACGTTATGGTCAAGCCACTCAATAACGTT
1 TTGTGGCCAAGCCACTCAATATCACAGACAAGATGCACATTATGGTCAAGCCACTCAATAACATT
25074391 GTGACCAAGCCACTCAATA
66 GTGACCAAGCCACTCAATA
25074410 TTGCAGTAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (87 bp):
TTGTGGCCAAGCCACTCAATATCACAGACAAGATGCACATTATGGTCAAGCCACTCAATAACATT
GTGACCAAGCCACTCAATAGCA
Found at i:25075455 original size:11 final size:11
Alignment explanation
Indices: 25075441--25075477 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
25075431 TGGTCTGGCA
25075441 GTGGTGAAGTG
1 GTGGTGAAGTG
25075452 GTGGTGCAA-TG
1 GTGGTG-AAGTG
25075463 GTGGTGAAGTG
1 GTGGTGAAGTG
25075474 GTGG
1 GTGG
25075478 AGAATGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.08
11 20 0.83
12 2 0.08
ACGTcount: A:0.16, C:0.03, G:0.54, T:0.27
Consensus pattern (11 bp):
GTGGTGAAGTG
Found at i:25085230 original size:6 final size:6
Alignment explanation
Indices: 25085221--25085249 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
25085211 AAGTTGTTAG
25085221 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
25085250 TTTGTATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:25088867 original size:27 final size:27
Alignment explanation
Indices: 25088837--25089138 Score: 361
Period size: 27 Copynumber: 11.2 Consensus size: 27
25088827 TTACACTGTT
* * *
25088837 ATGACCAAAATACCTCCATAGGATAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
25088864 ATGACCAAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * *
25088891 ATGACTGAAATACCTCCATAAGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
25088918 ATGATCGAAATACCCCTATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
25088945 ATGACCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
**
25088972 ATGACCGAAATACCCCCATAGAATAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
25088999 ATGATCAAAATATCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
** * *
25089026 ATGACTAAAATACCCCTATAGGATAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
25089053 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
25089080 ATGATCGAAATACCCCCATAAGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
25089107 ATGACCGAAATACCCCCATAAGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
25089134 ATGAC
1 ATGAC
25089139 TGTTATACCC
Statistics
Matches: 238, Mismatches: 37, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 238 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:25096661 original size:342 final size:342
Alignment explanation
Indices: 25096032--25096720 Score: 1254
Period size: 342 Copynumber: 2.0 Consensus size: 342
25096022 TTTCTTTTGT
25096032 ATGGTGCTAAAAGAATACGGAATTGCACTGAGACAGCTTACGAGTATGGGTGTGCAAATTTTGGG
1 ATGGTGCTAAAAGAATACGGAATTGCACTGAGACAGCTTACGAGTATGGGTGTGCAAATTTTGGG
* * *
25096097 TAAAATCGAATTAATTCGGTTAATTGACTGAATTTATTTAATCAGTCAGTTAACTGGATTAATTC
66 TAAAATCGAATTAATTCGGTTAATTGACTGAATTCAGTTAATCAGTCAGTTAACTGAATTAATTC
* * **
25096162 GGTCAAAGGTCGATTAATAAATTTTAAAAGTCTGGTTAACGGTTAATTCAGTTCGAAATCGGTTA
131 AGTCAAAGGTCGATTAATAAATTTTAAAAGTCTGGTTAACGGTTAATTCAGTTCAAAATCAATTA
25096227 ATTAACTAAATTAACCAAAATTTTATATTTTTATATAAAAAAAATTATATGTTTTACACTTGTTT
196 ATTAACTAAATTAACCAAAATTTTATATTTTTATATAAAAAAAATTATATGTTTTACACTTGTTT
25096292 TTACCAAAAAAAACAAAAAAAATATAAATTTCAATTATTTCGGTTAATCGACCAAATTAACTGAA
261 TTACCAAAAAAAACAAAAAAAATATAAATTTCAATTATTTCGGTTAATCGACCAAATTAACTGAA
25096357 AAAGTTCGATTCGGTTA
326 AAAGTTCGATTCGGTTA
25096374 ATGGTGCTAAAAGAATACGGAATTGCACTGAGACAGCTTACGAGTATGGGTGTGCAAATTTTGGG
1 ATGGTGCTAAAAGAATACGGAATTGCACTGAGACAGCTTACGAGTATGGGTGTGCAAATTTTGGG
*
25096439 TAAAATCGAATTAATTCGGTTAATTGACTGAATTCAGTTAATCAGTCAGTTAGCTGAATTAATTC
66 TAAAATCGAATTAATTCGGTTAATTGACTGAATTCAGTTAATCAGTCAGTTAACTGAATTAATTC
25096504 AGTCAAAGGTCGATTAATAAATTTTAAAAGTCTGGTTAACGGTTAATTCAGTTCAAAATCAATTA
131 AGTCAAAGGTCGATTAATAAATTTTAAAAGTCTGGTTAACGGTTAATTCAGTTCAAAATCAATTA
* *
25096569 ATTAACTGAATTAACCAAAATTTTATATTTTTATATAAAAAAATTTATATGTTTTACACTTGTTT
196 ATTAACTAAATTAACCAAAATTTTATATTTTTATATAAAAAAAATTATATGTTTTACACTTGTTT
*
25096634 TTACC-AAAAAAACAAAAAAACATATAAATTTCAGTTATTTCGGTTAATCGACCAAATTAACTGA
261 TTACCAAAAAAAACAAAAAAA-ATATAAATTTCAATTATTTCGGTTAATCGACCAAATTAACTGA
*
25096698 AAAAGTTCGGTTCGGTTA
325 AAAAGTTCGATTCGGTTA
25096716 ATGGT
1 ATGGT
25096721 TAAGGGTTTA
Statistics
Matches: 334, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
341 15 0.04
342 319 0.96
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (342 bp):
ATGGTGCTAAAAGAATACGGAATTGCACTGAGACAGCTTACGAGTATGGGTGTGCAAATTTTGGG
TAAAATCGAATTAATTCGGTTAATTGACTGAATTCAGTTAATCAGTCAGTTAACTGAATTAATTC
AGTCAAAGGTCGATTAATAAATTTTAAAAGTCTGGTTAACGGTTAATTCAGTTCAAAATCAATTA
ATTAACTAAATTAACCAAAATTTTATATTTTTATATAAAAAAAATTATATGTTTTACACTTGTTT
TTACCAAAAAAAACAAAAAAAATATAAATTTCAATTATTTCGGTTAATCGACCAAATTAACTGAA
AAAGTTCGATTCGGTTA
Found at i:25104308 original size:22 final size:23
Alignment explanation
Indices: 25104283--25104367 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
25104273 TTGATGAATG
* * *
25104283 GTAAGCTCTATCGAGTTGAAAC-
1 GTAAGCTCCATAGAGCTGAAACA
*
25104305 GTAAGCTCCGTAGAGCTGAAACA
1 GTAAGCTCCATAGAGCTGAAACA
**
25104328 GTAAGCT-CATAAGAGCTGAAATG
1 GTAAGCTCCAT-AGAGCTGAAACA
25104351 GTAAGCT-CATACGAGCT
1 GTAAGCTCCATA-GAGCT
25104368 ATGGTGAGTC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
22 21 0.40
23 32 0.60
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (23 bp):
GTAAGCTCCATAGAGCTGAAACA
Found at i:25109402 original size:26 final size:26
Alignment explanation
Indices: 25109371--25109467 Score: 113
Period size: 26 Copynumber: 3.7 Consensus size: 26
25109361 CGCATTTCAA
*
25109371 ATAGTCCTAACAGACTTCCACAAAAG
1 ATAGTCCTAACGGACTTCCACAAAAG
* *
25109397 ATAGTCTTGACGGACTTCCACAAAAG
1 ATAGTCCTAACGGACTTCCACAAAAG
* * * *
25109423 ATAGCCCTAGCGGACTTTCACATAAG
1 ATAGTCCTAACGGACTTCCACAAAAG
* *
25109449 ATAGTCCTGATGGACTTCC
1 ATAGTCCTAACGGACTTCC
25109468 CACATTTCAA
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (26 bp):
ATAGTCCTAACGGACTTCCACAAAAG
Found at i:25109496 original size:107 final size:108
Alignment explanation
Indices: 25109287--25109499 Score: 268
Period size: 107 Copynumber: 2.0 Consensus size: 108
25109277 TCCCCATATT
* * ** * * *
25109287 AGATAGTCTTCATGGTCTTCCACAAAAGATAGTTCTGGTAGACTTTCCACATAAGATAGTCTTGA
1 AGATAGTCTTCACGGACTTCCACAAAAGATAGCCCTAGCAGACTTTCCACATAAGATAGTCCTGA
* *
25109352 TTAACCTTCCGCATTTCAAATAGTCCTAACAGACTTCCACAAA
66 TGAACCTTCCACATTTCAAATAGTCCTAACAGACTTCCACAAA
* *
25109395 AGATAGTCTTGACGGACTTCCACAAAAGATAGCCCTAGCGGACTTT-CACATAAGATAGTCCTGA
1 AGATAGTCTTCACGGACTTCCACAAAAGATAGCCCTAGCAGACTTTCCACATAAGATAGTCCTGA
* * * *
25109459 TGGA-CTTCCCACATTTCAAATAGTCCTTACGGGCTTCCACA
66 TGAACCTT-CCACATTTCAAATAGTCCTAACAGACTTCCACA
25109500 TATACGGTAT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
106 3 0.03
107 48 0.54
108 38 0.43
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (108 bp):
AGATAGTCTTCACGGACTTCCACAAAAGATAGCCCTAGCAGACTTTCCACATAAGATAGTCCTGA
TGAACCTTCCACATTTCAAATAGTCCTAACAGACTTCCACAAA
Found at i:25112976 original size:23 final size:25
Alignment explanation
Indices: 25112948--25113011 Score: 96
Period size: 23 Copynumber: 2.6 Consensus size: 25
25112938 TTTGCCCTCA
25112948 TCTCTGCCCTCTGCCAGTTCTTTG-
1 TCTCTGCCCTCTGCCAGTTCTTTGT
*
25112972 T-TCTGCCCTCTGCCGGTTCTTTGT
1 TCTCTGCCCTCTGCCAGTTCTTTGT
25112996 TCCTCTGCCCTCTGCC
1 T-CTCTGCCCTCTGCC
25113012 GGTGAGTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
23 21 0.58
24 2 0.06
26 13 0.36
ACGTcount: A:0.02, C:0.41, G:0.17, T:0.41
Consensus pattern (25 bp):
TCTCTGCCCTCTGCCAGTTCTTTGT
Found at i:25112983 original size:30 final size:30
Alignment explanation
Indices: 25112903--25112985 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
25112893 ACGAACGTCC
**
25112903 TTCTTTGCTCTCTGCTCTCTGCCCTCTGCTGG
1 TTCTTTG-T-TCTGCTCTCTGCCCTCTGCCAG
**
25112935 TTCTTTGCCCT-CATCTCTGCCCTCTGCCAG
1 TTCTTTGTTCTGC-TCTCTGCCCTCTGCCAG
*
25112965 TTCTTTGTTCTGCCCTCTGCC
1 TTCTTTGTTCTGCTCTCTGCC
25112986 GGTTCTTTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 1 0.02
30 33 0.79
31 1 0.02
32 7 0.17
ACGTcount: A:0.02, C:0.40, G:0.16, T:0.42
Consensus pattern (30 bp):
TTCTTTGTTCTGCTCTCTGCCCTCTGCCAG
Found at i:25120432 original size:31 final size:30
Alignment explanation
Indices: 25120397--25120460 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
25120387 CACAAACTCT
** *
25120397 TCAAAATAATCGTTTTATCATAAATTTCAAG
1 TCAAAATAATC-TAATATCATAAATGTCAAG
*
25120428 TCAAAATCATCTAATATCATAAATGTCAAG
1 TCAAAATAATCTAATATCATAAATGTCAAG
25120458 TCA
1 TCA
25120461 CGATCATCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (30 bp):
TCAAAATAATCTAATATCATAAATGTCAAG
Found at i:25120448 original size:30 final size:30
Alignment explanation
Indices: 25120412--25120471 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25120402 ATAATCGTTT
*
25120412 TATCATAAATTTCAAGTCAAAATCATCTAA
1 TATCATAAATGTCAAGTCAAAATCATCTAA
**
25120442 TATCATAAATGTCAAGTCACGATCATCTAA
1 TATCATAAATGTCAAGTCAAAATCATCTAA
25120472 ACTTTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (30 bp):
TATCATAAATGTCAAGTCAAAATCATCTAA
Found at i:25125767 original size:18 final size:18
Alignment explanation
Indices: 25125746--25125789 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
25125736 CATTCTTCTC
** *
25125746 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCAACCCCTT
25125764 CCCTTTCCCCAACCCCTT
1 CCCTTTCCCCAACCCCTT
25125782 CCCTTTCC
1 CCCTTTCC
25125790 TGTTTCGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.05, C:0.59, G:0.00, T:0.36
Consensus pattern (18 bp):
CCCTTTCCCCAACCCCTT
Found at i:25128623 original size:98 final size:98
Alignment explanation
Indices: 25128451--25128645 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
25128441 GCAATAAAAC
* *
25128451 TTTAAAAGAACATCCACTTATCTAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
25128516 TTTAGAATCCCAAACTCGGAATATTTCCTTTAA
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTAA
*
25128549 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
25128614 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
25128646 TGATTTTTAA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TTTAAAATCCCAAACTCGGAATATTTCCTTTAA
Found at i:25129059 original size:45 final size:44
Alignment explanation
Indices: 25129008--25129099 Score: 130
Period size: 45 Copynumber: 2.1 Consensus size: 44
25128998 TGACATGCAA
* *
25129008 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAATGT
* **
25129053 AATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAATGT
25129097 AAT
1 AAT
25129100 AGAGGTGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.43
45 24 0.57
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAATGT
Found at i:25129278 original size:18 final size:17
Alignment explanation
Indices: 25129257--25129291 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25129247 TTATTATTAA
*
25129257 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25129275 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25129292 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25129407 original size:18 final size:17
Alignment explanation
Indices: 25129386--25129420 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25129376 TTATTATTAA
25129386 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
25129404 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
25129421 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:25129539 original size:129 final size:128
Alignment explanation
Indices: 25129240--25129477 Score: 395
Period size: 129 Copynumber: 1.8 Consensus size: 128
25129230 ATCATATTTA
* *
25129240 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
25129305 TATTCTTATATGAATTTACTCAAACCATAATTATTATTAAATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATTATGATTAAATA-GATAATGTAAAATATAAAAT
25129369 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
25129434 TATTCTTATATGAATTTACTCCAATCATAATATATGATTTAATA
66 TATTCTTATATGAATTTACTCAAACCATAAT-TATGATTAAATA
25129478 AAATTTAAAA
Statistics
Matches: 102, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
129 92 0.90
130 10 0.10
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (128 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATTATGATTAAATAGATAATGTAAAATATAAAAT
Found at i:25129665 original size:92 final size:92
Alignment explanation
Indices: 25129514--25129707 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
25129504 GATTATAGTT
* *
25129514 TATGAATTTGTATAATTTAAAATAATAATTATTACATATAATTTAATAATAATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATAATTATTACATATAATTTAATAATAATATATAATTTCAT
* *
25129579 AAAATTCTTGATAATAAAAATTTTCTTA
66 AAAATTCTTAATAAT-AAAATGTTCTTA
* *
25129607 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAA-TTATATAGTGATATATAATTTC
1 TATGAATTTATACAATTTAAAATAA-TAATTATTACATATAATTTA-ATAATAATATATAATTTC
25129669 ATAAAATTCTTAATAATAAAATGTTCTTA
64 ATAAAATTCTTAATAATAAAATGTTCTTA
25129698 TATGAATTTA
1 TATGAATTTA
25129708 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 24 0.26
92 38 0.41
93 28 0.30
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATAATTATTACATATAATTTAATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:25133324 original size:15 final size:15
Alignment explanation
Indices: 25133304--25133334 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25133294 ATATTATGTA
25133304 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
25133319 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
25133334 T
1 T
25133335 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:25138385 original size:14 final size:14
Alignment explanation
Indices: 25138362--25138401 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25138352 ACAAAAAAGT
*
25138362 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
25138376 AAATCATTTTACGG
1 AAAACATTTTACAG
25138390 AAAACATTTTAC
1 AAAACATTTTAC
25138402 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:25138613 original size:252 final size:252
Alignment explanation
Indices: 25138168--25138678 Score: 941
Period size: 252 Copynumber: 2.0 Consensus size: 252
25138158 TTTGATTTAT
25138168 TTAATTATAAATAAATCATTGCAATATATGTAAAAACAATTTAAAATATAAAAATTTATTAATAT
1 TTAATTATAAATAAATCATTGCAATATATGTAAAAACAATTTAAAATATAAAAATTTATTAATAT
*
25138233 ATTAATATATGTAAAAACAACTTTTCCGAAAAATATTTTCAGAAAATCTGCCAAACAGCAGAAAA
66 ATTAATATATGTAAAAACAAATTTTCCGAAAAATATTTTCAGAAAATCTGCCAAACAGCAGAAAA
25138298 TATTTTACACAGATTCAATCAAACACCAGAAAATATTTACAAGTAAATCATTTTACAAAAAAGTA
131 TATTTTACACAGATTCAATCAAACACCAGAAAATATTTACAAGTAAATCATTTTACAAAAAAGTA
25138363 AAACATTTTCCAGAAATCATTTTACGGAAAACATTTTACTGGCAATCAAACAGACCC
196 AAACATTTTCCAGAAATCATTTTACGGAAAACATTTTACTGGCAATCAAACAGACCC
25138420 TTAATTATAAATAAATCATTGCAATATATGTAAAAACAATTTAAAATATAAAAATTTATTAATAT
1 TTAATTATAAATAAATCATTGCAATATATGTAAAAACAATTTAAAATATAAAAATTTATTAATAT
* * *
25138485 ATTAATATATGTAAAAACAAATTTTCCGGAAAATATTTTCCGAAAATCTGCCAAACAGTAGAAAA
66 ATTAATATATGTAAAAACAAATTTTCCGAAAAATATTTTCAGAAAATCTGCCAAACAGCAGAAAA
* * *
25138550 TATTTTACATAGATTTAATCAAACACCAGATAATATTTACAAGTAAATCATTTTACAAAAAAGTA
131 TATTTTACACAGATTCAATCAAACACCAGAAAATATTTACAAGTAAATCATTTTACAAAAAAGTA
*
25138615 AAACATTTTCCAGAAATCATTTTACGGAAAATATTTTACTGGCAATCAAACAGACCC
196 AAACATTTTCCAGAAATCATTTTACGGAAAACATTTTACTGGCAATCAAACAGACCC
*
25138672 TGAATTA
1 TTAATTA
25138679 GTTTCTCACT
Statistics
Matches: 250, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
252 250 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (252 bp):
TTAATTATAAATAAATCATTGCAATATATGTAAAAACAATTTAAAATATAAAAATTTATTAATAT
ATTAATATATGTAAAAACAAATTTTCCGAAAAATATTTTCAGAAAATCTGCCAAACAGCAGAAAA
TATTTTACACAGATTCAATCAAACACCAGAAAATATTTACAAGTAAATCATTTTACAAAAAAGTA
AAACATTTTCCAGAAATCATTTTACGGAAAACATTTTACTGGCAATCAAACAGACCC
Found at i:25140498 original size:16 final size:16
Alignment explanation
Indices: 25140477--25140507 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25140467 GGTCAATTTT
25140477 TTCCTTTTATTCTTGC
1 TTCCTTTTATTCTTGC
25140493 TTCCTTTTATTCTTG
1 TTCCTTTTATTCTTG
25140508 GTCAAAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.23, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCCTTTTATTCTTGC
Found at i:25143989 original size:23 final size:24
Alignment explanation
Indices: 25143963--25144008 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
25143953 GGTAAACGTG
25143963 TAGAATAACGATTA-TGGGTCAAA
1 TAGAATAACGATTACTGGGTCAAA
25143986 TAGAATAACGATTACTGGGTCAA
1 TAGAATAACGATTACTGGGTCAA
25144009 TTATTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (24 bp):
TAGAATAACGATTACTGGGTCAAA
Found at i:25159398 original size:40 final size:40
Alignment explanation
Indices: 25159353--25159487 Score: 116
Period size: 40 Copynumber: 3.4 Consensus size: 40
25159343 GTTTGGAACA
*
25159353 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTATCC
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCC
* * **
25159393 AAAGCGCCGCTAAAGGTAGAGC-TTCAGCGGCGA-TTATCC
1 AAAGCGCCACAAAAAATAGAGCATT-AGCGGCGATTTATCC
* * * * * *
25159432 AGAAGCGCCGCTAAAAATAG-GAATTAGTGGCGTTTTA-CAT
1 A-AAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATC-C
25159472 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
25159488 CCTAAGACCA
Statistics
Matches: 77, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
39 30 0.39
40 47 0.61
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (40 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCC
Found at i:25159583 original size:41 final size:40
Alignment explanation
Indices: 25159526--25159950 Score: 451
Period size: 41 Copynumber: 10.4 Consensus size: 40
25159516 TTTTTTAAAC
* *
25159526 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATTCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GAT
*
25159567 CTTTAGCGGCGTTTTTGTCTAGGCGCCGCTAATGCTCGAGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGA-T
** * *
25159608 CTTTAGCGGCGTTTTCATGTAGGCGCCGCTAATGCTCGAGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGA-T
* ** * *
25159649 ATTTAGCGGCGTTTTCATGTAGGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GAT
* *
25159690 CTTTAGCGGCATTTTTGTCTAGGCGCCGCTAATGCTCGAGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGA-T
* * *
25159731 CTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GAT
25159772 CTTTAGCGGCGTTTTTGTCTATA-CGCCGCTAATGCTCGAT
1 CTTTAGCGGCGTTTTTGTCTA-AGCGCCGCTAATGCTCGAT
* *
25159812 CTTTAGCGGCGTTTTTAGAC-AAGCGCCGCTAATACTCGGAT
1 CTTTAGCGGCGTTTTT-GTCTAAGCGCCGCTAATGCTC-GAT
** * * *
25159853 CTTTAGCGGCGTTTTTAACTGAGCGCCACTAATTCTCTTG-T
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC--GAT
* * * * * *
25159894 CTTCAGCGGCGTTTGTATCTAAGCGCCGCTAATGTATTGAC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATG-CTCGAT
25159935 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
25159951 ACCGAAACGC
Statistics
Matches: 336, Mismatches: 36, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.00
40 40 0.12
41 289 0.86
42 6 0.02
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGAT
Found at i:25159746 original size:123 final size:123
Alignment explanation
Indices: 25159527--25159867 Score: 512
Period size: 123 Copynumber: 2.8 Consensus size: 123
25159517 TTTTTAAACC
*
25159527 TTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATTCTCGGATCTTTAGCGGCGTTTTTGTCTAGGCG
1 TTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGCG
25159592 CCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCATGTAGGCGCCGCTAATGCTC-GAGTA
66 CCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCATGTAGGCGCCGCTAATGCTCGGA-TA
** * *
25159650 TTTAGCGGCGTTTTCATGTAGGCGCCGCTAATGCTCGGATCTTTAGCGGCATTTTTGTCTAGGCG
1 TTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGCG
* *
25159715 CCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCGGATC
66 CCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCATGTAGGCGCCGCTAATGCTCGGATA
* * *
25159773 TTTAGCGGCGTTTTTGTCTATA-CGCCGCTAATGCTC-GATCTTTAGCGGCGTTTTTAGAC-AAG
1 TTTAGCGGCGTTTTTGTGTA-AGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTT-GTCTAGG
*
25159835 CGCCGCTAATACTCG-GATCTTTAGCGGCGTTTT
64 CGCCGCTAATGCTCGAG-TCTTTAGCGGCGTTTT
25159868 TAACTGAGCG
Statistics
Matches: 199, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
121 1 0.01
122 50 0.25
123 146 0.73
124 2 0.01
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.34
Consensus pattern (123 bp):
TTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAGGCG
CCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCATGTAGGCGCCGCTAATGCTCGGATA
Found at i:25161843 original size:9 final size:8
Alignment explanation
Indices: 25161782--25161880 Score: 52
Period size: 7 Copynumber: 13.0 Consensus size: 8
25161772 AAAATTTGAT
25161782 GTTTAGGG
1 GTTTAGGG
25161790 G-TTAGGGG
1 GTTTA-GGG
25161798 GATTTA-GG
1 G-TTTAGGG
*
25161806 GTTTAAGG
1 GTTTAGGG
*
25161814 G-TTA-TG
1 GTTTAGGG
*
25161820 CTTTAGGG
1 GTTTAGGG
25161828 G-TTAGGG
1 GTTTAGGG
25161835 GATTTAGGG
1 G-TTTAGGG
*
25161844 G-TAAGGG
1 GTTTAGGG
25161851 G-TTAGGG
1 GTTTAGGG
* *
25161858 GGTTATGG
1 GTTTAGGG
*
25161866 ATTT-GGG
1 GTTTAGGG
25161873 GTTTAGGG
1 GTTTAGGG
25161881 TTTCAACGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
6 1 0.01
7 37 0.53
8 22 0.31
9 7 0.10
10 3 0.04
ACGTcount: A:0.17, C:0.01, G:0.47, T:0.34
Consensus pattern (8 bp):
GTTTAGGG
Found at i:25164762 original size:23 final size:23
Alignment explanation
Indices: 25164731--25164777 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
25164721 TATTATACAT
25164731 AACTGACAACTTACATAACTTAC
1 AACTGACAACTTACATAACTTAC
*
25164754 AACTTACAACTTACATAACTTAC
1 AACTGACAACTTACATAACTTAC
25164777 A
1 A
25164778 TTTTTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.28
Consensus pattern (23 bp):
AACTGACAACTTACATAACTTAC
Found at i:25164773 original size:16 final size:16
Alignment explanation
Indices: 25164726--25164778 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
25164716 ATTAATATTA
*
25164726 TACATAACTGACAACT
1 TACATAACTTACAACT
25164742 TACATAACTTACAACT
1 TACATAACTTACAACT
25164758 TAC--AACTTACATAACT
1 TACATAACTTAC--AACT
25164774 TACAT
1 TACAT
25164779 TTTTTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 7 0.22
16 25 0.78
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.30
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:25164806 original size:34 final size:33
Alignment explanation
Indices: 25164764--25165095 Score: 152
Period size: 31 Copynumber: 10.4 Consensus size: 33
25164754 AACTTACAAC
*
25164764 TTACATAACTTACATTTTTTTAATTATTCATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* **
25164798 TTACATAACATACA--TTAAT-ATTATACATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* ** *
25164829 TTACATAACTTAGTTAATTAATATTATACATAAA
1 TTACATAACTTAATTTTTTTA-ATTATACATAAA
* *
25164863 TTACATAACTTAATTTTATGTT-CTTATACATAAC
1 TTACATAACTTAATTTT-T-TTAATTATACATAAA
25164897 TTAC---A-TTAA------T-ATTATACATAAA
1 TTACATAACTTAATTTTTTTAATTATACATAAA
*
25164919 TTACATAACTTAATTAATTAATTAATATTATACATAAA
1 TTACATAACTTAATT--TT--TTTA-ATTATACATAAA
** *
25164957 TTACATAACTTAA-TTAATTAA-TATACATAAC
1 TTACATAACTTAATTTTTTTAATTATACATAAA
** *
25164988 TTACATAACTTACA--TTAAT-ATGATACATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* ** * **
25165019 TTACATAACTTAGTTAATTAATATTATACATATG
1 TTACATAACTTAATTTTTTTA-ATTATACATAAA
** *
25165053 TTACATAACTTACA--TTAAT-ATGATACATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
25165084 TTACATAACTTA
1 TTACATAACTTA
25165096 GTTAATTCAT
Statistics
Matches: 223, Mismatches: 46, Indels: 61
0.68 0.14 0.18
Matches are distributed among these distances:
22 15 0.07
25 1 0.00
26 4 0.02
30 5 0.02
31 88 0.39
32 5 0.02
33 2 0.01
34 74 0.33
35 2 0.01
36 1 0.00
37 1 0.00
38 25 0.11
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (33 bp):
TTACATAACTTAATTTTTTTAATTATACATAAA
Found at i:25164839 original size:65 final size:64
Alignment explanation
Indices: 25164764--25165273 Score: 309
Period size: 65 Copynumber: 8.0 Consensus size: 64
25164754 AACTTACAAC
* * *
25164764 TTACATAACTTACATTTTTTTAATTATTCATAAATTACATAACATACATTAATATTATACATAAA
1 TTACATAACTTA-ATTTATTTAATTATACATAAATTACATAACTTACATTAATATTATACATAAA
* * * * *
25164829 TTACATAACTTAGTTAATTAATATTATACATAAATTACATAACTTA-ATTTTATGTTCTTATACA
1 TTACATAACTTAATTTATTTA-ATTATACATAAATTACATAACTTACA--TTA--ATATTATACA
*
25164893 TAAC
61 TAAA
** * *
25164897 TTACATTAA--T-ATTATACATAAAT-TACATAACTTA-ATTAA-TTA-ATTAATATTATACATA
1 TTACA-TAACTTAATT-TATTTAATTATACATAAATTACA-TAACTTACATTAATATTATACATA
25164955 AA
63 AA
* * *
25164957 TTACATAACTTAA-TTAATTAA-TATACATAACTTACATAACTTACATTAATATGATACATAAA
1 TTACATAACTTAATTTATTTAATTATACATAAATTACATAACTTACATTAATATTATACATAAA
* * * ** *
25165019 TTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTACATTAATATGATACATAAA
1 TTACATAACTTAATTTATTTA-ATTATACATAAATTACATAACTTACATTAATATTATACATAAA
* * * * * * *
25165084 TTACATAACTTAGTTAATTCATATTATACGTAACTTAC--AACTTACA-T-A-ACT-TACATAAC
1 TTACATAACTTAATTTATTTA-ATTATACATAAATTACATAACTTACATTAATATTATACATAAA
* *
25165143 TTAC---A--T--TTT-TTTAATTATTCATAAATTACATAACTTAGTTAATTAATATTATACATA
1 TTACATAACTTAATTTATTTAATTATACATAAATTACATAACTTA---CATTAATATTATAC---
25165200 ACTTACAA
60 A--TA-AA
* * *
25165208 CTTACATAACTTACAATTT-TTTAATTATTCGTAAATTACATAACTTAC-TTAATTTTCATA-AT
1 -TTACATAACTT--AATTTATTTAATTATACATAAATTACATAACTTACATTAATATT-ATACAT
25165270 AAA
62 AAA
25165273 T
1 T
25165274 AACTTACATA
Statistics
Matches: 355, Mismatches: 46, Indels: 89
0.72 0.09 0.18
Matches are distributed among these distances:
50 13 0.04
51 3 0.01
52 8 0.02
54 1 0.00
55 1 0.00
56 2 0.01
57 1 0.00
58 2 0.01
59 18 0.05
60 36 0.10
61 7 0.02
62 35 0.10
63 12 0.03
64 15 0.04
65 123 0.35
66 13 0.04
67 3 0.01
68 17 0.05
69 4 0.01
71 8 0.02
72 3 0.01
75 30 0.08
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (64 bp):
TTACATAACTTAATTTATTTAATTATACATAAATTACATAACTTACATTAATATTATACATAAA
Found at i:25164914 original size:22 final size:22
Alignment explanation
Indices: 25164886--25165089 Score: 88
Period size: 22 Copynumber: 9.8 Consensus size: 22
25164876 TTTTATGTTC
*
25164886 TTATACATAACTTACATTAATA
1 TTATACATAAATTACATTAATA
25164908 TTATACATAAATTACA-T-A-A
1 TTATACATAAATTACATTAATA
* *
25164927 CT-TA-ATTAATTA-ATTAATA
1 TTATACATAAATTACATTAATA
25164946 TTATACATAAATTACA-T-A-A
1 TTATACATAAATTACATTAATA
* *
25164965 CT-TA-ATTAATTA-ATATACATAA
1 TTATACATAAATTACAT-TA-AT-A
* *
25164987 CT-TACATAACTTACATTAATA
1 TTATACATAAATTACATTAATA
*
25165008 TGATACATAAATTACA-TAACTTA
1 TTATACATAAATTACATTAA--TA
*
25165031 GTTA-A-TTAATATT--A-TACATA
1 -TTATACATAA-ATTACATTA-ATA
*
25165051 TGT-TACATAACTTACATTAATA
1 T-TATACATAAATTACATTAATA
*
25165073 TGATACATAAATTACAT
1 TTATACATAAATTACAT
25165090 AACTTAGTTA
Statistics
Matches: 137, Mismatches: 18, Indels: 54
0.66 0.09 0.26
Matches are distributed among these distances:
16 2 0.01
17 15 0.11
18 6 0.04
19 7 0.05
20 11 0.08
21 19 0.14
22 57 0.42
23 16 0.12
24 4 0.03
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (22 bp):
TTATACATAAATTACATTAATA
Found at i:25164925 original size:9 final size:9
Alignment explanation
Indices: 25164911--25165091 Score: 58
Period size: 9 Copynumber: 19.8 Consensus size: 9
25164901 ATTAATATTA
25164911 TACATAAAT
1 TACATAAAT
*
25164920 TACATAACT
1 TACATAAAT
*
25164929 TA-ATTAAT
1 TACATAAAT
25164937 TA-ATTAATATT
1 TACA-TAA-A-T
25164948 ATACATAAAT
1 -TACATAAAT
*
25164958 TACATAACT
1 TACATAAAT
*
25164967 TA-ATTAAT
1 TACATAAAT
25164975 TA-AT--A-
1 TACATAAAT
*
25164980 TACATAACT
1 TACATAAAT
*
25164989 TACATAACT
1 TACATAAAT
25164998 TACATTAATAT
1 TACA-TAA-AT
25165009 GATACATAAAT
1 --TACATAAAT
*
25165020 TACATAACT
1 TACATAAAT
* *
25165029 TA-GTTAAT
1 TACATAAAT
*
25165037 TA-AT-ATT
1 TACATAAAT
**
25165044 ATACATATGT
1 -TACATAAAT
*
25165054 TACATAACT
1 TACATAAAT
25165063 TACATTAATAT
1 TACA-TAA-AT
25165074 GATACATAAAT
1 --TACATAAAT
25165085 TACATAA
1 TACATAA
25165092 CTTAGTTAAT
Statistics
Matches: 132, Mismatches: 20, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
5 2 0.02
6 3 0.02
7 2 0.02
8 23 0.17
9 65 0.49
10 9 0.07
11 8 0.06
12 11 0.08
13 9 0.07
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (9 bp):
TACATAAAT
Found at i:25164937 original size:17 final size:17
Alignment explanation
Indices: 25164917--25164976 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 17
25164907 ATTATACATA
25164917 AATTACATAACTTAATT
1 AATTACATAACTTAATT
* *
25164934 AATTA-ATTAATATTATACATA
1 AATTACA-T-A-ACT-TA-ATT
25164955 AATTACATAACTTAATT
1 AATTACATAACTTAATT
25164972 AATTA
1 AATTA
25164977 ATATACATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
16 1 0.03
17 13 0.39
18 3 0.09
19 4 0.12
20 3 0.09
21 8 0.24
22 1 0.03
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACATAACTTAATT
Found at i:25164948 original size:38 final size:38
Alignment explanation
Indices: 25164901--25164978 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
25164891 CATAACTTAC
25164901 ATTAATATTATACATAAATTACATAACTTAATTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTAATTA
25164939 ATTAATATTATACATAAATTACATAACTTAATTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTAATTA
25164977 AT
1 AT
25164979 ATACATAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (38 bp):
ATTAATATTATACATAAATTACATAACTTAATTAATTA
Found at i:25165136 original size:9 final size:9
Alignment explanation
Indices: 25164949--25165394 Score: 114
Period size: 9 Copynumber: 51.3 Consensus size: 9
25164939 ATTAATATTA
*
25164949 TACATAAAT
1 TACATAACT
25164958 TACATAACT
1 TACATAACT
25164967 TA-ATTAA-T
1 TACA-TAACT
25164975 TA-AT-A--
1 TACATAACT
25164980 TACATAACT
1 TACATAACT
25164989 TACATAACT
1 TACATAACT
*
25164998 TACATTAATAT
1 TACA-TAA-CT
*
25165009 GATACATAAAT
1 --TACATAACT
25165020 TACATAACT
1 TACATAACT
**
25165029 TAGTTAA-T
1 TACATAACT
*
25165037 TA-AT-ATT
1 TACATAACT
**
25165044 ATACATATGT
1 -TACATAACT
25165054 TACATAACT
1 TACATAACT
*
25165063 TACATTAATAT
1 TACA-TAA-CT
*
25165074 GATACATAAAT
1 --TACATAACT
25165085 TACATAACT
1 TACATAACT
**
25165094 TAGTTAA-T
1 TACATAACT
*
25165102 T-CAT-ATT
1 TACATAACT
*
25165109 ATACGTAACT
1 -TACATAACT
25165119 TAC--AACT
1 TACATAACT
25165126 TACATAACT
1 TACATAACT
25165135 TACATAACT
1 TACATAACT
***
25165144 TACATTTTTT
1 TACA-TAACT
*
25165154 TA-ATTA-T
1 TACATAACT
*
25165161 T-CATAAAT
1 TACATAACT
25165169 TACATAACT
1 TACATAACT
**
25165178 TAGTTAA-T
1 TACATAACT
*
25165186 TA-AT-ATT
1 TACATAACT
25165193 ATACATAACT
1 -TACATAACT
25165203 TAC--AACT
1 TACATAACT
25165210 TACATAACT
1 TACATAACT
***
25165219 TACAATTTTT
1 TAC-ATAACT
*
25165229 TA-ATTA-T
1 TACATAACT
* *
25165236 T-CGTAAAT
1 TACATAACT
25165244 TACATAACT
1 TACATAACT
* *
25165253 TACTTAATT
1 TACATAACT
*
25165262 TTCATAA--
1 TACATAACT
*
25165269 TAAATAACT
1 TACATAACT
25165278 TACATAACT
1 TACATAACT
25165287 TAC--AACT
1 TACATAACT
25165294 TACATAACT
1 TACATAACT
* * *
25165303 TATACAACA
1 TACATAACT
25165312 TACATAACT
1 TACATAACT
* *
25165321 TACATAGCA
1 TACATAACT
*
25165330 TA-ATTTGACT
1 TACA--TAACT
*
25165340 AATACACAACT
1 --TACATAACT
*
25165351 TACATAATT
1 TACATAACT
*
25165360 TTCATAA--
1 TACATAACT
*
25165367 TAAATAACT
1 TACATAACT
25165376 TACATAA--
1 TACATAACT
25165383 TACATAACT
1 TACATAACT
25165392 TAC
1 TAC
25165395 GTAGTTTAGT
Statistics
Matches: 325, Mismatches: 62, Indels: 100
0.67 0.13 0.21
Matches are distributed among these distances:
5 2 0.01
6 6 0.02
7 55 0.17
8 28 0.09
9 186 0.57
10 22 0.07
11 9 0.03
12 8 0.02
13 9 0.03
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:25165172 original size:34 final size:35
Alignment explanation
Indices: 25165128--25165290 Score: 118
Period size: 34 Copynumber: 4.6 Consensus size: 35
25165118 TTACAACTTA
*
25165128 CATAACTTACATAACTTACATT-TTTTTAATTATT
1 CATAACTTACATAACTTACATTATTTTTAATAATT
* * *
25165162 CATAAATTACATAACTTAGTTAATTAATATTATACATAACTT
1 CATAACTTACATAACTTA---CATT-AT-TTTTA-ATAA-TT
* * *
25165204 -ACAACTTACATAACTTACAAT-TTTTTAATTATT
1 CATAACTTACATAACTTACATTATTTTTAATAATT
* * * * *
25165237 CGTAAATTACATAACTTAC-TTAATTTTCATAATA
1 CATAACTTACATAACTTACATTATTTTTAATAATT
*
25165271 AATAACTTACATAACTTACA
1 CATAACTTACATAACTTACA
25165291 ACTTACATAA
Statistics
Matches: 97, Mismatches: 21, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
33 3 0.03
34 59 0.61
35 4 0.04
36 1 0.01
37 3 0.03
38 2 0.02
39 1 0.01
40 4 0.04
41 18 0.19
42 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.01, T:0.42
Consensus pattern (35 bp):
CATAACTTACATAACTTACATTATTTTTAATAATT
Found at i:25165183 original size:84 final size:81
Alignment explanation
Indices: 25165078--25165304 Score: 288
Period size: 84 Copynumber: 2.8 Consensus size: 81
25165068 TAATATGATA
25165078 CATAAATTACATAACTTAGTTAATTCATATTATACGTAACTTACAACTTACATAACTTACATAAC
1 CATAAATTACATAACTTAGTTAATTCATATTATAC-TAACTTACAACTTAC--AACTTACATAAC
*
25165143 TTACATTTTTTTAATTATT
63 TTACAATTTTTTAATTATT
*
25165162 CATAAATTACATAACTTAGTTAATTAATATTATAC--A--T--AACTTACAACTTACATAACTTA
1 CATAAATTACATAACTTAGTTAATTCATATTATACTAACTTACAACTTACAACTTACATAACTTA
25165221 CAATTTTTTAATTATT
66 CAATTTTTTAATTATT
* * * *
25165237 CGTAAATTACATAACTTACTTAATTTTCATAATA-AATAACTTACATAACTTACAACTTACATAA
1 CATAAATTACATAACTTAGTTAA--TTCATATTATACTAACTTAC--AACTTACAACTTACATAA
25165301 CTTA
62 CTTA
25165305 TACAACATAC
Statistics
Matches: 126, Mismatches: 7, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
75 51 0.40
76 1 0.01
77 14 0.11
78 1 0.01
79 1 0.01
80 1 0.01
81 1 0.01
84 56 0.44
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.41
Consensus pattern (81 bp):
CATAAATTACATAACTTAGTTAATTCATATTATACTAACTTACAACTTACAACTTACATAACTTA
CAATTTTTTAATTATT
Done.