Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 147 of 190
Found at i:23831822 original size:66 final size:66
Alignment explanation
Indices: 23831673--23831838 Score: 167
Period size: 66 Copynumber: 2.5 Consensus size: 66
23831663 AGTAGTGAAT
* * * * *
23831673 TAGTTAATCATTGATAACTTT-GTAGTAAATTATTGATAAATTAATAGTAAATCAATTATAACTT
1 TAGTAAATCATTGATAA-TTTAGTAATAAATCATTCATAAATTAATAGTAAATCAATTATAACAT
23831737 TA
65 TA
* * ** *
23831739 TAATAAATTATCAATAATTTAGTAATAAATCATTCATAATTTAATAGTAAAT-AATTAATAA-AT
1 TAGTAAATCATTGATAATTTAGTAATAAATCATTCATAAATTAATAGTAAATCAATT-ATAACAT
23831802 TA
65 TA
* * *
23831804 GTAGTAAATCGTTGATAATTTAGCAATATATCATT
1 -TAGTAAATCATTGATAATTTAGTAATAAATCATT
23831839 AATAGTTTTG
Statistics
Matches: 80, Mismatches: 17, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
65 10 0.12
66 70 0.88
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (66 bp):
TAGTAAATCATTGATAATTTAGTAATAAATCATTCATAAATTAATAGTAAATCAATTATAACATT
A
Found at i:23832295 original size:21 final size:21
Alignment explanation
Indices: 23832201--23832312 Score: 72
Period size: 21 Copynumber: 5.3 Consensus size: 21
23832191 GTTAGTTACT
*
23832201 AAAATT-TCATCAAGATATTATT
1 AAAATTAT-ATCAAG-TATTATC
* * *
23832223 AAAATTTTAT-AAATGATTACC
1 AAAATTATATCAAGT-ATTATC
23832244 AAAATTATAT-AA-TAAATTATC
1 AAAATTATATCAAGT--ATTATC
* * *
23832265 AAACTAATATCCAAG-GTTATC
1 AAAATTATAT-CAAGTATTATC
23832286 AAAATTATATCAAGTATTATC
1 AAAATTATATCAAGTATTATC
23832307 AAAATT
1 AAAATT
23832313 TTATAAAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
20 6 0.08
21 54 0.76
22 8 0.11
23 3 0.04
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAATTATATCAAGTATTATC
Found at i:23832325 original size:21 final size:21
Alignment explanation
Indices: 23832217--23832332 Score: 79
Period size: 21 Copynumber: 5.5 Consensus size: 21
23832207 TCATCAAGAT
* * **
23832217 ATTATTAAAATTTTATAAATG
1 ATTATCAAAATTATATAAAAA
* *
23832238 ATTACCAAAATTATATAATAA
1 ATTATCAAAATTATATAAAAA
* * ** *
23832259 ATTATCAAACTAATATCCAAG
1 ATTATCAAAATTATATAAAAA
* * **
23832280 GTTATCAAAATTATATCAAGT
1 ATTATCAAAATTATATAAAAA
*
23832301 ATTATCAAAATTTTATAAAAA
1 ATTATCAAAATTATATAAAAA
*
23832322 ATTATTAAAAT
1 ATTATCAAAAT
23832333 CAAAATTATA
Statistics
Matches: 70, Mismatches: 25, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 70 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (21 bp):
ATTATCAAAATTATATAAAAA
Found at i:23832335 original size:27 final size:27
Alignment explanation
Indices: 23832304--23832357 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
23832294 ATCAAGTATT
*
23832304 ATCAAAATTTTATAAAAAATTATTAAA
1 ATCAAAATTATATAAAAAATTATTAAA
*
23832331 ATCAAAATTATATAAAAAGTTATTAAA
1 ATCAAAATTATATAAAAAATTATTAAA
23832358 TTTGACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (27 bp):
ATCAAAATTATATAAAAAATTATTAAA
Found at i:23832501 original size:2 final size:2
Alignment explanation
Indices: 23832496--23832542 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
23832486 AAAAACTAAG
* * *
23832496 AT AT AT AT GT AT AT AC AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23832538 AT AT A
1 AT AT A
23832543 CGGACGCATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:23832572 original size:2 final size:2
Alignment explanation
Indices: 23832567--23832601 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
23832557 ACCCCCCCAC
23832567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23832602 ATGTGTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23855101 original size:20 final size:20
Alignment explanation
Indices: 23855078--23855115 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23855068 AAATAAACAC
23855078 AGTAAAAATAT-ATTAAAATA
1 AGTAAAAAT-TCATTAAAATA
23855098 AGTAAAAATTCATTAAAA
1 AGTAAAAATTCATTAAAA
23855116 ATAATATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
AGTAAAAATTCATTAAAATA
Found at i:23858030 original size:21 final size:21
Alignment explanation
Indices: 23858004--23858048 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
23857994 CTAACCATAT
23858004 TTTCAATGTCTTGCACAATAC
1 TTTCAATGTCTTGCACAATAC
23858025 TTTCAATGTCTTGCACAATAC
1 TTTCAATGTCTTGCACAATAC
23858046 TTT
1 TTT
23858049 TAGGTTGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (21 bp):
TTTCAATGTCTTGCACAATAC
Found at i:23858971 original size:24 final size:25
Alignment explanation
Indices: 23858938--23858995 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
23858928 CAATAAAACC
23858938 ATAATATTTTAAT-AATTAGT-AATAT
1 ATAA-ATTTTAATAAATTA-TAAATAT
*
23858963 ATAAATTTTACTAAATTATAAAATAT
1 ATAAATTTTAATAAATTAT-AAATAT
23858989 ATAAATT
1 ATAAATT
23858996 ACTTCAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 8 0.28
25 9 0.31
26 12 0.41
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
ATAAATTTTAATAAATTATAAATAT
Found at i:23859474 original size:59 final size:59
Alignment explanation
Indices: 23859408--23859531 Score: 144
Period size: 59 Copynumber: 2.1 Consensus size: 59
23859398 CCTAAATAAG
* * * *
23859408 TTTCAACAAATATAA-GACCAACGAAAACTCAATA-AATTGGTAACCAAAATCCAAACAAT
1 TTTCAACAAATA-AATAACCAACAAAAACTCAACACAA-TGGTAACCAAAATCCAAACAAA
* * * *
23859467 TTTCAACAAATAAATAACTAACAAAAACTTAACACAATGGTAACTAAAATCCAAATAAA
1 TTTCAACAAATAAATAACCAACAAAAACTCAACACAATGGTAACCAAAATCCAAACAAA
23859526 TTTCAA
1 TTTCAA
23859532 TAAGTTTATG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
58 2 0.04
59 51 0.93
60 2 0.04
ACGTcount: A:0.54, C:0.19, G:0.05, T:0.23
Consensus pattern (59 bp):
TTTCAACAAATAAATAACCAACAAAAACTCAACACAATGGTAACCAAAATCCAAACAAA
Found at i:23860432 original size:22 final size:21
Alignment explanation
Indices: 23860380--23860434 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
23860370 TCATGAAAAA
23860380 TATCATGT-AAATATATTAAT
1 TATCATGTCAAATATATTAAT
*
23860400 AATCATG-CAAATATATTAAT
1 TATCATGTCAAATATATTAAT
23860420 TATCATGTACAAATA
1 TATCATGT-CAAATA
23860435 AATATGCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 24 0.80
22 6 0.20
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.38
Consensus pattern (21 bp):
TATCATGTCAAATATATTAAT
Found at i:23860614 original size:20 final size:20
Alignment explanation
Indices: 23860556--23860647 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
23860546 TGCAAATGTT
23860556 TAATA-AATCATGCAAATAA
1 TAATATAATCATGCAAATAA
*
23860575 T-A-A-AATCATGC-AATTA
1 TAATATAATCATGCAAATAA
23860591 -AATATAATCATGCAAATAA
1 TAATATAATCATGCAAATAA
* *
23860610 TAATATATTCATGCAATTAA
1 TAATATAATCATGCAAATAA
**
23860630 TAAATATTGTCATGCAAA
1 T-AATATAATCATGCAAA
23860648 AAAAAAATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
16 5 0.08
17 10 0.17
18 9 0.15
19 5 0.08
20 18 0.30
21 13 0.22
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.32
Consensus pattern (20 bp):
TAATATAATCATGCAAATAA
Found at i:23860622 original size:38 final size:36
Alignment explanation
Indices: 23860537--23860634 Score: 121
Period size: 35 Copynumber: 2.7 Consensus size: 36
23860527 AATCATACCA
*
23860537 AAATATTCATGCAAATGTTTAATAAATCATGCAAATAAT
1 AAATATTCATGC-AA--TTAAATAAATCATGCAAATAAT
23860576 AAA-A-TCATGCAATTAAATATAATCATGCAAATAAT
1 AAATATTCATGCAATTAAATA-AATCATGCAAATAAT
23860611 AATATATTCATGCAATT-AATAAAT
1 AA-ATATTCATGCAATTAAATAAAT
23860635 ATTGTCATGC
Statistics
Matches: 54, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
34 6 0.11
35 17 0.31
36 6 0.11
37 11 0.20
38 11 0.20
39 3 0.06
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (36 bp):
AAATATTCATGCAATTAAATAAATCATGCAAATAAT
Found at i:23860642 original size:21 final size:20
Alignment explanation
Indices: 23860563--23860658 Score: 80
Period size: 21 Copynumber: 5.0 Consensus size: 20
23860553 GTTTAATAAA
23860563 TCATGCAAATAATAAA-A--
1 TCATGCAAATAATAAATATT
*
23860580 TCATGC-AAT--TAAATATAA
1 TCATGCAAATAATAAATAT-T
23860598 TCATGCAAATAAT-AATATAT
1 TCATGCAAATAATAAATAT-T
*
23860618 TCATGCAATTAATAAATATT
1 TCATGCAAATAATAAATATT
* *
23860638 GTCATGCAAAAAAAAAATATT
1 -TCATGCAAATAATAAATATT
23860659 ATGCAAAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.06
15 1 0.02
16 3 0.05
17 6 0.09
18 6 0.09
19 3 0.05
20 19 0.29
21 23 0.35
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (20 bp):
TCATGCAAATAATAAATATT
Found at i:23860701 original size:8 final size:8
Alignment explanation
Indices: 23860681--23860709 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23860671 TCATCCAATA
23860681 ATATAAA-
1 ATATAAAT
23860688 ATATAAAT
1 ATATAAAT
23860696 ATATAAAT
1 ATATAAAT
23860704 ATATAA
1 ATATAA
23860710 TCATGCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
ATATAAAT
Found at i:23870215 original size:13 final size:13
Alignment explanation
Indices: 23870197--23870258 Score: 61
Period size: 13 Copynumber: 4.3 Consensus size: 13
23870187 TTCATTTCTT
23870197 TTTTTTTTCTTTC
1 TTTTTTTTCTTTC
23870210 TTTTTTTTTTCATTTTC
1 --TTTTTTTTC--TTTC
*
23870227 TCTTTTCTTCTTTC
1 T-TTTTTTTCTTTC
23870241 TTTTTTTTCTTTCC
1 TTTTTTTTCTTT-C
23870255 TTTT
1 TTTT
23870259 CTTTATTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
13 10 0.24
14 10 0.24
15 10 0.24
16 7 0.17
17 4 0.10
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:23870219 original size:19 final size:19
Alignment explanation
Indices: 23870191--23870269 Score: 65
Period size: 19 Copynumber: 4.1 Consensus size: 19
23870181 TAATCATTCA
23870191 TTTCTTTTT-TTTTTCTTTC
1 TTTCTTTTTCTTTTT-TTTC
*
23870210 TTT-TTTTT-TTCATTTTCTC
1 TTTCTTTTTCTT--TTTTTTC
23870229 TTTTCTTCTTTCTTTTTTTTC
1 -TTTCTT-TTTCTTTTTTTTC
* *
23870250 TTTCCTTTTCTTTATTTTC
1 TTTCTTTTTCTTTTTTTTC
23870269 T
1 T
23870270 CATTCTAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
18 7 0.14
19 19 0.38
20 11 0.22
21 8 0.16
22 3 0.06
23 2 0.04
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTCTTTTTCTTTTTTTTC
Found at i:23870262 original size:31 final size:29
Alignment explanation
Indices: 23870194--23870262 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
23870184 TCATTCATTT
23870194 CTTTT-TTTTTTCTTTCTTTTTTTTTTCA
1 CTTTTCTTTTTTCTTTCTTTTTTTTTTCA
*
23870222 TTTTCTCTTTTCTTCTTTCTTTTTTTTCTTTC-
1 CTTT-TCTTTT-TTCTTTC-TTTTTTT-TTTCA
23870254 CTTTTCTTT
1 CTTTTCTTT
23870263 ATTTTCTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
28 3 0.09
29 1 0.03
30 4 0.12
31 12 0.35
32 10 0.29
33 4 0.12
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (29 bp):
CTTTTCTTTTTTCTTTCTTTTTTTTTTCA
Found at i:23871305 original size:25 final size:25
Alignment explanation
Indices: 23871277--23871386 Score: 98
Period size: 25 Copynumber: 4.2 Consensus size: 25
23871267 TTACCATACA
23871277 AATAAATCACACAAATAAATATATT
1 AATAAATCACACAAATAAATATATT
**
23871302 AAT-AATCATGCAAATAAATATATT
1 AATAAATCACACAAATAAATATATT
*
23871326 AATATCATGCAATCACACATATAAATATATT
1 -A-AT-A---AATCACACAAATAAATATATT
**
23871357 AA-ATAATCATGCAAATAAATATATT
1 AATA-AATCACACAAATAAATATATT
23871382 AATAA
1 AATAA
23871387 TCATGCAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
24 19 0.28
25 25 0.37
26 3 0.04
27 1 0.01
29 1 0.01
30 1 0.01
31 18 0.26
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (25 bp):
AATAAATCACACAAATAAATATATT
Found at i:23871326 original size:80 final size:78
Alignment explanation
Indices: 23871237--23871493 Score: 226
Period size: 77 Copynumber: 3.3 Consensus size: 78
23871227 AATATTATGC
*
23871237 AAATATATTAATTATCGA-GCAAT-A-ATATAATTACCATACAAATAAATCACACAAATAAATAT
1 AAATATATTAA-TATC-ATGCAATCACATATAAATA-CAT-CAAAT-AATCACACAAATAAATAT
23871299 ATTAATAATCATGCAAAT
61 ATTAATAATCATGCAAAT
* * **
23871317 AAATATATTAATATCATGCAATCACACATATAAATATATTAAATAATCATGCAAATAAATATATT
1 AAATATATTAATATCATGCAAT--CACATATAAATACATCAAATAATCACACAAATAAATATATT
*
23871382 AATAATCATGCAATT
64 AATAATCATGCAAAT
* * * * ** *
23871397 AAAT-TAAT-A-ATCATGCAATTACACATATTAATATATTAGGTAATCA-AGCAAATAAACATAT
1 AAATATATTAATATCATGCAA-T-CACATATAAATACATCAAATAATCACA-CAAATAAATATAT
*
23871458 TAATAATCATGCAATT
63 TAATAATCATGCAAAT
*
23871474 AAAT-TAATAA-ATCATGCAAT
1 AAATATATTAATATCATGCAAT
23871494 AAAAATAAAT
Statistics
Matches: 157, Mismatches: 12, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
77 69 0.44
78 13 0.08
79 12 0.08
80 48 0.31
81 4 0.03
82 3 0.02
83 8 0.05
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.32
Consensus pattern (78 bp):
AAATATATTAATATCATGCAATCACATATAAATACATCAAATAATCACACAAATAAATATATTAA
TAATCATGCAAAT
Found at i:23871340 original size:31 final size:31
Alignment explanation
Indices: 23871305--23871395 Score: 104
Period size: 25 Copynumber: 3.1 Consensus size: 31
23871295 ATATATTAAT
23871305 AATCATGCAAATAAATATATTAATATCATGC
1 AATCATGCAAATAAATATATTAATATCATGC
** *
23871336 AATCACACATATAAATATATT-A-A--AT--
1 AATCATGCAAATAAATATATTAATATCATGC
23871361 AATCATGCAAATAAATATATTAATAATCATGC
1 AATCATGCAAATAAATATATTAAT-ATCATGC
23871393 AAT
1 AAT
23871396 TAAATTAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
25 18 0.38
26 1 0.02
27 2 0.04
28 1 0.02
29 1 0.02
30 3 0.06
31 18 0.38
32 3 0.06
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.32
Consensus pattern (31 bp):
AATCATGCAAATAAATATATTAATATCATGC
Found at i:23871379 original size:56 final size:56
Alignment explanation
Indices: 23871281--23871395 Score: 205
Period size: 56 Copynumber: 2.1 Consensus size: 56
23871271 CATACAAATA
23871281 AATCACACAAATAAATATATTAATAATCATGCAAATAAATATATTAAT-ATCATGC
1 AATCACACAAATAAATATATTAATAATCATGCAAATAAATATATTAATAATCATGC
*
23871336 AATCACACATATAAATATATTAAATAATCATGCAAATAAATATATTAATAATCATGC
1 AATCACACAAATAAATATATT-AATAATCATGCAAATAAATATATTAATAATCATGC
23871393 AAT
1 AAT
23871396 TAAATTAATA
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
55 20 0.35
56 27 0.47
57 10 0.18
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.31
Consensus pattern (56 bp):
AATCACACAAATAAATATATTAATAATCATGCAAATAAATATATTAATAATCATGC
Found at i:23871404 original size:20 final size:20
Alignment explanation
Indices: 23871379--23871417 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
23871369 AAATAAATAT
23871379 ATTAATAATCATGCAATTAA
1 ATTAATAATCATGCAATTAA
23871399 ATTAATAATCATGCAATTA
1 ATTAATAATCATGCAATTA
23871418 CACATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTAATAATCATGCAATTAA
Found at i:23871430 original size:77 final size:78
Alignment explanation
Indices: 23871288--23871493 Score: 315
Period size: 77 Copynumber: 2.6 Consensus size: 78
23871278 ATAAATCACA
* *
23871288 CAAATAAATATATTAATAATCATGCAAATAAATATATTAATATCATGCAATCACACATATAAATA
1 CAAATAAATATATTAATAATCATGCAATTAAAT-TAATAA-ATCATGCAATCACACATATAAATA
*
23871353 TATTAAATAATCATG
64 TATTAAATAATCAAG
* *
23871368 CAAATAAATATATTAATAATCATGCAATTAAATTAAT-AATCATGCAATTACACATATTAATATA
1 CAAATAAATATATTAATAATCATGCAATTAAATTAATAAATCATGCAATCACACATATAAATATA
**
23871432 TTAGGTAATCAAG
66 TTAAATAATCAAG
*
23871445 CAAATAAACATATTAATAATCATGCAATTAAATTAATAAATCATGCAAT
1 CAAATAAATATATTAATAATCATGCAATTAAATTAATAAATCATGCAAT
23871494 AAAAATAAAT
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
77 70 0.60
78 12 0.10
79 3 0.03
80 32 0.27
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (78 bp):
CAAATAAATATATTAATAATCATGCAATTAAATTAATAAATCATGCAATCACACATATAAATATA
TTAAATAATCAAG
Found at i:23871471 original size:24 final size:24
Alignment explanation
Indices: 23871288--23871429 Score: 139
Period size: 24 Copynumber: 5.8 Consensus size: 24
23871278 ATAAATCACA
23871288 CAAATAAATATATTAATAATCATG
1 CAAATAAATATATTAATAATCATG
*
23871312 CAAATAAATATATTAATATCATGCAATCA
1 CAAATAAATATATTAATA--AT-C-AT-G
23871341 CACATATAAATATATTAAATAATCATG
1 CA-A-ATAAATATATT-AATAATCATG
23871368 CAAATAAATATATTAATAATCATG
1 CAAATAAATATATTAATAATCATG
*
23871392 C-AAT---TAAATTAATAATCATG
1 CAAATAAATATATTAATAATCATG
* * *
23871412 CAATTACACATATTAATA
1 CAAATAAATATATTAATA
23871430 TATTAGGTAA
Statistics
Matches: 100, Mismatches: 6, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
20 16 0.16
21 2 0.02
23 3 0.03
24 37 0.37
25 11 0.11
26 3 0.03
27 3 0.03
28 4 0.04
29 3 0.03
30 3 0.03
31 11 0.11
32 4 0.04
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (24 bp):
CAAATAAATATATTAATAATCATG
Found at i:23871539 original size:20 final size:21
Alignment explanation
Indices: 23871444--23871539 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 21
23871434 AGGTAATCAA
23871444 GCAAATAAACATATTAATAATCAT
1 GCAAATAAA-ATATTAAT--TCAT
* * * *
23871468 GCAATTAAATTAATAAATCAT
1 GCAAATAAAATATTAATTCAT
*
23871489 GC-AATAAAA-ATAAATTCAT
1 GCAAATAAAATATTAATTCAT
23871508 GCAAAT---ATATTAATT-AT
1 GCAAATAAAATATTAATTCAT
23871525 GCAAATAAAATATTA
1 GCAAATAAAATATTA
23871540 GGCAAATAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
17 9 0.16
18 6 0.11
19 9 0.16
20 14 0.25
21 6 0.11
23 5 0.09
24 8 0.14
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.31
Consensus pattern (21 bp):
GCAAATAAAATATTAATTCAT
Found at i:23871544 original size:16 final size:16
Alignment explanation
Indices: 23871520--23871572 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
23871510 AAATATATTA
*
23871520 ATTATGCAAATAAAAT
1 ATTAGGCAAATAAAAT
*
23871536 ATTAGGCAAATAAATT
1 ATTAGGCAAATAAAAT
* *
23871552 ATTATGCAAATATAAT
1 ATTAGGCAAATAAAAT
23871568 ATTAG
1 ATTAG
23871573 TCATGCAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (16 bp):
ATTAGGCAAATAAAAT
Found at i:23871561 original size:32 final size:33
Alignment explanation
Indices: 23871508--23871572 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
23871498 ATAAATTCAT
*
23871508 GCAAATATATTAATTATGCAAATAAAATATTAG
1 GCAAATAAATTAATTATGCAAATAAAATATTAG
*
23871541 GCAAATAAATT-ATTATGCAAATATAATATTAG
1 GCAAATAAATTAATTATGCAAATAAAATATTAG
23871573 TCATGCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (33 bp):
GCAAATAAATTAATTATGCAAATAAAATATTAG
Found at i:23886313 original size:358 final size:356
Alignment explanation
Indices: 23885574--23886775 Score: 1441
Period size: 358 Copynumber: 3.4 Consensus size: 356
23885564 AACATATCGT
* *** * * * *
23885574 CACACAAATTCTAACACTGTTATTGAAAATGTATA--TAAAAAAAATGCCTTTAATAATTTATAT
1 CACACAAATTTTAACACTGTTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTTCTAT
* * * * * * * *
23885637 CATAGTTTGCAGTTAATTACTGAAGGCGGTTGCAGAAAACAATGCCTTCAATAATTTTCCTCAAA
66 CACAGTTTGTAGATAATAACTGAAGGCGATTACAGAAAACAACGCCTTCAATAATTTCCCTCAAA
* * * *
23885702 AAATTTTCTCAAATTATTAAAGGCATTTTTTATTAT-GACATGCCTTCAATATACCACGATA-GT
131 AAATTTT-ACAAATTTTTAAAGGCATTTTTTATTATAAAC-TGCCTTCAATATACCAAGA-AGGT
* * * * * * *
23885765 AATGGAAGGCGTTTATTAGAAAAGGTGCCTTCAGTATACTTTTAAACTTAATAATCTATTAGTGA
193 AATGGAAGGCGTTTATTAGAAAAAGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTAA
* * * *
23885830 AGGCATTTGTTAATAATAGACACCTTCAAAATTTTCTTACTAAATATTTTAAGAATTATTAAAGG
258 AGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTAAGAATTATTAAAGG
* * *
23885895 CATCTTTTACTATCAAATACCTTCTATATACCGC
323 CATCTTCTACTGTAAAATACCTTCTATATACCGC
* * *
23885929 CACATAAATTTTAACACTGTTATTGAAGGCATATATTTAAGATAGATGCTTTTAATAATTTCTAT
1 CACACAAATTTTAACACTGTTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTTCTAT
* * *
23885994 CACAGTTTGTAGATAATAACCTGAAGGCGATTACAGAAAACAACACCTTCAATAATTTCTCTTAA
66 CACAGTTTGTAGATAATAA-CTGAAGGCGATTACAGAAAACAACGCCTTCAATAATTTCCCTCAA
*
23886059 AAAAGTTTTACAAATTTTTAAGGGCATTTTTTATTATAAACTGCCTTCAATATACCAAGAAGGTA
130 AAAA-TTTTACAAATTTTTAAAGGCATTTTTTATTATAAACTGCCTTCAATATACCAAGAAGGTA
* * *** *
23886124 ATGAAAGGTGTTTATTAGAAAAAACACCTTCAATATGCCTTTAAACTTAGTAATCCATTACTAAA
194 ATGGAAGGCGTTTATTAGAAAAAGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTAAA
* * *
23886189 GGTGTTTGCTAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTATGAATTATTAAAGGC
259 GGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTAAGAATTATTAAAGGC
* * *
23886254 ATCTTCTACTGTTAAATGCCTTCTATATACTGC
324 ATCTTCTACTGTAAAATACCTTCTATATACCGC
* * *
23886287 CATACAAATTTTAACACTATTATTGAAGGCGTATATTTAAGATAAATGCCTTTAATAA-TTCTTA
1 CACACAAATTTTAACACTGTTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTTC-TA
* ** * * * * *
23886351 TCACAGTTTGTAGA-AATAACTAAAGGTAATTACAAAAAATAACGCATTTAATAATTTCCCTAAA
65 TCACAGTTTGTAGATAATAACTGAAGGCGATTACAGAAAACAACGCCTTCAATAATTTCCCTCAA
** * *
23886415 AAAATTTTTACGGATTTTTAAAGGCATCTTTTATTATAAA-TCGCCTTCAATATACCATA-ATGG
130 AAAA-TTTTACAAATTTTTAAAGGCATTTTTTATTATAAACT-GCCTTCAATATACCA-AGAAGG
* *
23886478 TAATGGAAGGCATTTATTAGAAAAAGGTGCCTTCAATATACCTATAAACTTAGTAATCCATTACT
192 TAATGGAAGGCGTTTATTAGAAAAA-GTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACT
* * * * *
23886543 AAAGGCGTTTGTTAATAACAAAAGCCTTCAAAATTTTCCCACTACATATTTTAGGAATTATTAAA
256 AAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTAAGAATTATTAAA
* * * *
23886608 GGCATCTTCTATTGTAAAATATCTTTTATATACCAC
321 GGCATCTTCTACTGTAAAATACCTTCTATATACCGC
* * * ** * *
23886644 CACACAAATTCTAACACTGTTATTGAAGGTGTACATCCAAAAAAGATG-CTTTAATAATTTCTAT
1 CACACAAATTTTAACACTGTTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTTCTAT
* * * *
23886708 CATAGTTTGTAGATAATAACTGAAGGCGGTTGCAGAAAACAATGCCTTCAATAATTTCCCTCAAA
66 CACAGTTTGTAGATAATAACTGAAGGCGATTACAGAAAACAACGCCTTCAATAATTTCCCTCAAA
23886773 AAA
131 AAA
23886776 CTTTCGTGGA
Statistics
Matches: 717, Mismatches: 118, Indels: 22
0.84 0.14 0.03
Matches are distributed among these distances:
355 30 0.04
356 134 0.19
357 253 0.35
358 294 0.41
359 6 0.01
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (356 bp):
CACACAAATTTTAACACTGTTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTTCTAT
CACAGTTTGTAGATAATAACTGAAGGCGATTACAGAAAACAACGCCTTCAATAATTTCCCTCAAA
AAATTTTACAAATTTTTAAAGGCATTTTTTATTATAAACTGCCTTCAATATACCAAGAAGGTAAT
GGAAGGCGTTTATTAGAAAAAGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTAAAGG
CGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTAAGAATTATTAAAGGCAT
CTTCTACTGTAAAATACCTTCTATATACCGC
Found at i:23886616 original size:357 final size:357
Alignment explanation
Indices: 23885574--23886823 Score: 1426
Period size: 357 Copynumber: 3.5 Consensus size: 357
23885564 AACATATCGT
* *** * * *
23885574 CACACAAATTCTAACACTGTTATTGAAAATGTATA--TAAAAAAAATGCCTTTAATAATTTATAT
1 CACACAAATTTTAACACTGTTATTGAAGGCGTATATTTAAGATAAATGCCTTTAATAATTTCTAT
* * * * * * * *
23885637 CATAGTTTGCAGTTAATTACTGAAGGCGGTTGCAGAAAACAATGCCTTCAATAATTTTCCTCAAA
66 CACAGTTTGTAGATAATAACTGAAGGCGATTACAGAAAACAACGCCTTCAATAATTTCCCTCAAA
* * * *
23885702 AAATTTTCT-CAAATTATTAAAGGCATTTTTTATTATGACAT-GCCTTCAATATACCACGATAGT
131 AAATTTT-TACAAATTATTAAAGGCATCTTTTATTAT-AAATCGCCTTCAATATACCA-AATGGT
* * * * * *
23885765 AATGGAAGGCGTTTATTAG-AAAAGGTGCCTTCAGTATACTTTTAAACTTAATAATCTATTAGTG
193 AATGGAAGGCGTTTATTAGAAAAAGGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTA
* * * *
23885829 AAGGCATTTGTTAATAATAGACA-CCTTCAAAATTTTCTTACTAAATATTTTAAGAATTATTAAA
258 AAGGCGTTTGTTAATAACA-AAAGCCTTCAAAATTTTCTCACTAAATATTTTAAGAATTATTAAA
* * *
23885893 GGCATCTTTTACTATCAAATACCTTCTATATACCGC
322 GGCATCTTCTACTGTAAAATACCTTCTATATACCGC
* * * *
23885929 CACATAAATTTTAACACTGTTATTGAAGGCATATATTTAAGATAGATGCTTTTAATAATTTCTAT
1 CACACAAATTTTAACACTGTTATTGAAGGCGTATATTTAAGATAAATGCCTTTAATAATTTCTAT
* * *
23885994 CACAGTTTGTAGATAATAACCTGAAGGCGATTACAGAAAACAACACCTTCAATAATTTCTCTTAA
66 CACAGTTTGTAGATAATAA-CTGAAGGCGATTACAGAAAACAACGCCTTCAATAATTTCCCTCAA
* * * * *
23886059 AAAAGTTTTACAAATTTTTAAGGGCATTTTTTATTATAAA-CTGCCTTCAATATACCAAGAAGGT
130 AAAATTTTTACAAATTATTAAAGGCATCTTTTATTATAAATC-GCCTTCAATATACCAA-ATGGT
* * *** *
23886123 AATGAAAGGTGTTTATTAGAAAAA-ACACCTTCAATATGCCTTTAAACTTAGTAATCCATTACTA
193 AATGGAAGGCGTTTATTAGAAAAAGGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTA
* * * * *
23886187 AAGGTGTTTGCTAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTATGAATTATTAAAG
258 AAGGCGTTTGTTAATAACAAAAGCCTTCAAAATTTTCTCACTAAATATTTTAAGAATTATTAAAG
* * *
23886252 GCATCTTCTACTGTTAAATGCCTTCTATATACTGC
323 GCATCTTCTACTGTAAAATACCTTCTATATACCGC
* *
23886287 CATACAAATTTTAACACTATTATTGAAGGCGTATATTTAAGATAAATGCCTTTAATAA-TTCTTA
1 CACACAAATTTTAACACTGTTATTGAAGGCGTATATTTAAGATAAATGCCTTTAATAATTTC-TA
* ** * * * * *
23886351 TCACAGTTTGTAGA-AATAACTAAAGGTAATTACAAAAAATAACGCATTTAATAATTTCCCTAAA
65 TCACAGTTTGTAGATAATAACTGAAGGCGATTACAGAAAACAACGCCTTCAATAATTTCCCTCAA
** *
23886415 AAAATTTTTACGGATTTTTAAAGGCATCTTTTATTATAAATCGCCTTCAATATACCATAATGGTA
130 AAAATTTTTACAAATTATTAAAGGCATCTTTTATTATAAATCGCCTTCAATATACCA-AATGGTA
* *
23886480 ATGGAAGGCATTTATTAGAAAAAGGTGCCTTCAATATACCTATAAACTTAGTAATCCATTACTAA
194 ATGGAAGGCGTTTATTAGAAAAAGGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTAA
* * *
23886545 AGGCGTTTGTTAATAACAAAAGCCTTCAAAATTTTCCCACTACATATTTTAGGAATTATTAAAGG
259 AGGCGTTTGTTAATAACAAAAGCCTTCAAAATTTTCTCACTAAATATTTTAAGAATTATTAAAGG
* * * *
23886610 CATCTTCTATTGTAAAATATCTTTTATATACCAC
324 CATCTTCTACTGTAAAATACCTTCTATATACCGC
* * * ** *
23886644 CACACAAATTCTAACACTGTTATTGAAGGTGTACATCCAA-AAAAGATG-CTTTAATAATTTCTA
1 CACACAAATTTTAACACTGTTATTGAAGGCGTATATTTAAGATAA-ATGCCTTTAATAATTTCTA
* * * *
23886707 TCATAGTTTGTAGATAATAACTGAAGGCGGTTGCAGAAAACAATGCCTTCAATAATTTCCCTCAA
65 TCACAGTTTGTAGATAATAACTGAAGGCGATTACAGAAAACAACGCCTTCAATAATTTCCCTCAA
* ***** ** **
23886772 AAAACTTTCGTGGATTATTAAAAACATCTTTTATTATAAATATCCTTCAATA
130 AAAATTTTTACAAATTATTAAAGGCATCTTTTATTATAAATCGCCTTCAATA
23886824 AATTGTTATA
Statistics
Matches: 751, Mismatches: 128, Indels: 30
0.83 0.14 0.03
Matches are distributed among these distances:
355 29 0.04
356 137 0.18
357 293 0.39
358 288 0.38
359 4 0.01
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (357 bp):
CACACAAATTTTAACACTGTTATTGAAGGCGTATATTTAAGATAAATGCCTTTAATAATTTCTAT
CACAGTTTGTAGATAATAACTGAAGGCGATTACAGAAAACAACGCCTTCAATAATTTCCCTCAAA
AAATTTTTACAAATTATTAAAGGCATCTTTTATTATAAATCGCCTTCAATATACCAAATGGTAAT
GGAAGGCGTTTATTAGAAAAAGGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTAAAG
GCGTTTGTTAATAACAAAAGCCTTCAAAATTTTCTCACTAAATATTTTAAGAATTATTAAAGGCA
TCTTCTACTGTAAAATACCTTCTATATACCGC
Found at i:23894242 original size:13 final size:13
Alignment explanation
Indices: 23894224--23894248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23894214 GCTAAATTAA
23894224 AAATTTTTTTTTT
1 AAATTTTTTTTTT
23894237 AAATTTTTTTTT
1 AAATTTTTTTTT
23894249 AATATTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
AAATTTTTTTTTT
Found at i:23895689 original size:49 final size:48
Alignment explanation
Indices: 23895609--23895703 Score: 111
Period size: 49 Copynumber: 2.0 Consensus size: 48
23895599 TGATAAGACC
* * *
23895609 AAAAACGCCTTCAATAATCTCCTCTAATTTTTTTAGAAGGGATTATTAA
1 AAAAACACCTTCAATAATCTCCTCCAATTTTTATA-AAGGGATTATTAA
* * *
23895658 AAAAACACCTTCAAT-ATTTCCTTCCATTTTTTATAAGGGGATTATT
1 AAAAACACCTTCAATAATCTCC-TCCAATTTTTATAAAGGGATTATT
23895704 GAAGACGTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
48 15 0.38
49 24 0.62
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (48 bp):
AAAAACACCTTCAATAATCTCCTCCAATTTTTATAAAGGGATTATTAA
Found at i:23895795 original size:63 final size:62
Alignment explanation
Indices: 23895697--23895863 Score: 144
Period size: 63 Copynumber: 2.7 Consensus size: 62
23895687 TTTATAAGGG
* * **
23895697 GATTATTGAAGACG-TTT-TAGGCAAAAACGTCTTCAATAATCTCAGCAAATTTTGAT-GAAGA
1 GATTATTGAAGGCGTTTTCTA-TCAAAAACACCTTCAATAATCTCAGCAAATTTT-ATAGAAGA
* * * ** * * * *
23895758 GATTATTGAA-GCGTTTTTTTTATCAAAAACACCTTCAACAATCCCCTCCAATTTTTTAGAGGG
1 GATTATTGAAGGCG--TTTTCTATCAAAAACACCTTCAATAATCTCAGCAAATTTTATAGAAGA
*
23895821 GATTATTGAAGGCGTTTTCTATCAAAATCACCTTCAATAATCT
1 GATTATTGAAGGCGTTTTCTATCAAAAACACCTTCAATAATCT
23895864 ATTTTTTATG
Statistics
Matches: 84, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
60 2 0.02
61 10 0.12
62 26 0.31
63 41 0.49
64 5 0.06
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (62 bp):
GATTATTGAAGGCGTTTTCTATCAAAAACACCTTCAATAATCTCAGCAAATTTTATAGAAGA
Found at i:23895981 original size:65 final size:65
Alignment explanation
Indices: 23895901--23896176 Score: 244
Period size: 65 Copynumber: 4.3 Consensus size: 65
23895891 GTTTCAAGCC
* *
23895901 AAAAATGACTTCAATAAT-CCTCTTAAATTTTGACAAGGAGATTATTGAAGGTGTTTTTGATAAA
1 AAAAATGCCTTCAATAATCCCT-TTAAATTTTGACAAGGAGATTATTGAAGGTATTTTTGATAAA
23895965 A
65 A
* * * * * *
23895966 AAAAATTCCTTCAATAATCCCTTCTAATTTTTTA-AAAGAGATTATTGAAAGCATTTTTTGCA-A
1 AAAAATGCCTTCAATAATCCCTT-TAAATTTTGACAAGGAGATTATTGAAGGTA-TTTTTG-ATA
23896029 AAA
63 AAA
* * * * * * * **
23896032 AAAAAAGCCTTCAATAATCCCTTTCATTTTTTACGA-GAGGATTATTAAAGGCATTTCAGACT--
1 AAAAATGCCTTCAATAATCCCTTTAAATTTTGACAAGGA-GATTATTGAAGGTATTTTTGA-TAA
23896094 --
64 AA
* * **
23896094 AAAAATGCTTTCAATAATCTCTTTAAATTTTGATGAGGAGATTATTGAAGGTATTTTTGATAAAA
1 AAAAATGCCTTCAATAATCCCTTTAAATTTTGACAAGGAGATTATTGAAGGTATTTTTGATAAAA
*
23896159 AAAAATACCTTCAATAAT
1 AAAAATGCCTTCAATAAT
23896177 TTCTTTTAAT
Statistics
Matches: 169, Mismatches: 29, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
61 1 0.01
62 46 0.27
63 2 0.01
64 1 0.01
65 63 0.37
66 55 0.33
67 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (65 bp):
AAAAATGCCTTCAATAATCCCTTTAAATTTTGACAAGGAGATTATTGAAGGTATTTTTGATAAAA
Found at i:23896216 original size:65 final size:65
Alignment explanation
Indices: 23895901--23896216 Score: 222
Period size: 65 Copynumber: 4.9 Consensus size: 65
23895891 GTTTCAAGCC
* * * * * **
23895901 AAAAATGA-CTTCAATAAT-CCTCTTAAATTTTGACAAGGAGATTATTGAAGGTGTTTTTGATAA
1 AAAAAT-ACCTTCAATAATCCCTTTTAATTTTTTA-AAAGAGATTATTAAAGGCATTTTTGATAA
23895964 AA
64 AA
* *
23895966 AAAAATTCCTTCAATAATCCCTTCTAATTTTTTAAAAGAGATTATTGAAA-GCATTTTTTGCA-A
1 AAAAATACCTTCAATAATCCCTTTTAATTTTTTAAAAGAGATTATT-AAAGGCA-TTTTTG-ATA
23896029 AAA
63 AAA
* ** **
23896032 AAAAA-AGCCTTCAATAATCCC-TTTCATTTTTTACGAGAGGATTATTAAAGGCATTTCAGACT-
1 AAAAATA-CCTTCAATAATCCCTTTTAATTTTTTAAAAGA-GATTATTAAAGGCATTTTTGA-TA
23896094 ---
63 AAA
* * * * * * * * *
23896094 AAAAATGCTTTCAATAATCTC-TTTAAATTTTGATGAGGAGATTATTGAAGGTATTTTTGATAAA
1 AAAAATACCTTCAATAATCCCTTTTAATTTTTTA-AAAGAGATTATTAAAGGCATTTTTGATAAA
23896158 A
65 A
** * * *
23896159 AAAAATACCTTCAATAATTTCTTTTAATTTTTTAAAAGAGATTGTTAAATGCGTTTTT
1 AAAAATACCTTCAATAATCCCTTTTAATTTTTTAAAAGAGATTATTAAAGGCATTTTT
23896217 TACCAAAAAT
Statistics
Matches: 193, Mismatches: 41, Indels: 34
0.72 0.15 0.13
Matches are distributed among these distances:
61 1 0.01
62 43 0.22
63 2 0.01
64 1 0.01
65 83 0.43
66 62 0.32
67 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (65 bp):
AAAAATACCTTCAATAATCCCTTTTAATTTTTTAAAAGAGATTATTAAAGGCATTTTTGATAAAA
Found at i:23896236 original size:127 final size:128
Alignment explanation
Indices: 23895966--23896237 Score: 284
Period size: 127 Copynumber: 2.1 Consensus size: 128
23895956 TTTGATAAAA
* * *
23895966 AAAAATTCCTTCAATAATCCCTTCTAATTTTTTAAAAGAGATTATTGAAAGCATTTTTTGCAAAA
1 AAAAATGCCTTCAATAATCCCTTCTAAATTTTGAAAAGAGATTATTGAAAGCATTTTTTGCAAAA
* ** *
23896031 AAAAAAAGCCTTCAATAATCCCTTTCATTTTTTACGAGAGGATTATTAAAGGCATTTCAGACT
66 AAAAAAAGCCTTCAATAATCCCTTTAATTTTTTAAAAGAGGATTATTAAAGGCATTTCAGACC
* * * * * *
23896094 AAAAATGCTTTCAATAATCTCTT-TAAATTTTGATGAGGAGATTATTGAAGGTA-TTTTTG-ATA
1 AAAAATGCCTTCAATAATCCCTTCTAAATTTTGA-AAAGAGATTATTGAAAGCATTTTTTGCA-A
* * * * * ***
23896156 AAAAAAAATA-CCTTCAATAATTTCTTTTAATTTTTTAAAAGA-GATTGTTAAATGCGTTTTTTA
64 AAAAAAAA-AGCCTTCAATAA-TCCCTTTAATTTTTTAAAAGAGGATTATTAAAGGCATTTCAGA
23896219 CC
127 CC
23896221 AAAAATGCCTTCAATAA
1 AAAAATGCCTTCAATAA
23896238 GCCATTTTTA
Statistics
Matches: 118, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
126 1 0.01
127 65 0.55
128 52 0.44
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (128 bp):
AAAAATGCCTTCAATAATCCCTTCTAAATTTTGAAAAGAGATTATTGAAAGCATTTTTTGCAAAA
AAAAAAAGCCTTCAATAATCCCTTTAATTTTTTAAAAGAGGATTATTAAAGGCATTTCAGACC
Found at i:23896466 original size:62 final size:62
Alignment explanation
Indices: 23895909--23896703 Score: 221
Period size: 62 Copynumber: 12.8 Consensus size: 62
23895899 CCAAAAATGA
* * * ** **
23895909 CTTCAATAATC-CTCTTAAATTTTGACAAGGAGATTATTGAAGGTGTTTTTGATAAAAAAAAATT
1 CTTCAATAATCTC-CTTAAATTTTTATAAGGAGATTATTGAAGGTATTTTTG---GCAAAAAACG
23895973 C
62 C
* * * * *
23895974 CTTCAATAATC-CCTTCTAATTTTT-TAAAAGAGATTATTGAAAGCATTTTTTGCAAAAAAAAAA
1 CTTCAATAATCTCCTT-AAATTTTTAT-AAGGAGATTATTGAAGGTATTTTTGGC----AAAAAA
*
23896037 AGC
60 CGC
** * * * ** * * *
23896040 CTTCAATAATC-CCTTTCATTTTT-TACGAGAGGATTATTAAAGGCATTTCAGACTAAAAATGC
1 CTTCAATAATCTCCTTAAATTTTTATAAG-GA-GATTATTGAAGGTATTTTTGGCAAAAAACGC
* * * * ** **
23896102 TTTCAATAATCTCTTTAAATTTTGATGAGGAGATTATTGAAGGTATTTTTGATAAAAAAAAATAC
1 CTTCAATAATCTCCTTAAATTTTTATAAGGAGATTATTGAAGGTATTTTTG---GCAAAAAACGC
* * * * * * * * *
23896167 CTTCAATAATTTCTTTTAATTTTT-TAAAAGAGATTGTTAAATGCGT-TTTTT-ACCAAAAATGC
1 CTTCAATAATCTCCTTAAATTTTTAT-AAGGAGATTATTGAA-G-GTATTTTTGGCAAAAAACGC
* * * * * * ** * *
23896229 CTTCAATAA--GCC----ATTTTTATGAGAAAATTATTGAAAGCATTTCAGGTAAAAAACAC
1 CTTCAATAATCTCCTTAAATTTTTATAAGGAGATTATTGAAGGTATTTTTGGCAAAAAACGC
* * * * * ** *
23896285 CTTTAATAATC-CTTTTCAATTTTT-TAGAGGGGATTATTGAAAGTATTTTTTGTAAAAAAAAAT
1 CTTCAATAATCTC-CTTAAATTTTTATA-AGGAGATTATTGAAGGTA-TTTTTG--GCAAAAAAC
*
23896348 AC
61 GC
* ** ** ** * * *
23896350 CTTCACTAATCT-CTTTCATTTTTAATGAAGG-GATTATTGAAGGCGTTTCAGGCCAAATATGC
1 CTTCAATAATCTCCTTAAATTTTT-AT-AAGGAGATTATTGAAGGTATTTTTGGCAAAAAACGC
* * **
23896412 CTTCAATAATCTCCTTAAATTTTGATAAGGAGATTATTGAAGGTATTTTTGGCCAAAAACAT
1 CTTCAATAATCTCCTTAAATTTTTATAAGGAGATTATTGAAGGTATTTTTGGCAAAAAACGC
* * * * *
23896474 CTTCAATAATCCCCTCTAATTTTTTTATAA-AAAATTATTGAAGG------T-GCAAAAAATGC
1 CTTCAATAATCTCCT-TAA-ATTTTTATAAGGAGATTATTGAAGGTATTTTTGGCAAAAAACGC
* * * * * * * ***
23896530 ATTCAATAAT-TCTCTTAAATTTTGATGAGAAGATTATTAAAGGCATTTTTGACAAAAAAAAAT
1 CTTCAATAATCTC-CTTAAATTTTTATAAGGAGATTATTGAAGGTATTTTTGGC-AAAAAACGC
* * * *
23896593 CTTCAATAATC-CTCTCTAATTTTTTATCA-GAGATTATTGAAGGTATTTTCT-ACTAAAAACGC
1 CTTCAATAATCTC-CT-TAAATTTTTATAAGGAGATTATTGAAGGTATTTT-TGGCAAAAAACGC
* * *
23896655 CTTCAATAATCTTCTTAAATTTTTATAAGTG-GATTATTCAAGATATTTT
1 CTTCAATAATCTCCTTAAATTTTTATAAG-GAGATTATTGAAGGTATTTT
23896704 AGTGAAAAAT
Statistics
Matches: 536, Mismatches: 140, Indels: 111
0.68 0.18 0.14
Matches are distributed among these distances:
54 8 0.01
55 19 0.04
56 47 0.09
57 3 0.01
60 1 0.00
61 17 0.03
62 161 0.30
63 76 0.14
64 38 0.07
65 115 0.21
66 48 0.09
67 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (62 bp):
CTTCAATAATCTCCTTAAATTTTTATAAGGAGATTATTGAAGGTATTTTTGGCAAAAAACGC
Found at i:23896564 original size:118 final size:118
Alignment explanation
Indices: 23896408--23896636 Score: 318
Period size: 118 Copynumber: 1.9 Consensus size: 118
23896398 CAGGCCAAAT
* * * * * * *
23896408 ATGCCTTCAATAATCTCCTTAAATTTTGATAAGGAGATTATTGAAGGTATTTTTGGC-CAAAAAC
1 ATGCATTCAATAATCTCCTTAAATTTTGATAAGAAGATTATTAAAGGCATTTTTGACAAAAAAAA
23896472 ATCTTCAATAATCCCCTCTAATTTTTTTATAAAAAATTATTGAAGGTGCAAAAA
66 ATCTTCAATAATCCCCTCTAA-TTTTTTATAAAAAATTATTGAAGGTGCAAAAA
*
23896526 ATGCATTCAATAAT-TCTCTTAAATTTTGATGAGAAGATTATTAAAGGCATTTTTGACAAAAAAA
1 ATGCATTCAATAATCTC-CTTAAATTTTGATAAGAAGATTATTAAAGGCATTTTTGACAAAAAAA
* * * *
23896590 AATCTTCAATAATCCTCTCTAATTTTTTATCAGAGATTATTGAAGGT
65 AATCTTCAATAATCCCCTCTAATTTTTTATAAAAAATTATTGAAGGT
23896637 ATTTTCTACT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
117 2 0.02
118 70 0.72
119 25 0.26
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.38
Consensus pattern (118 bp):
ATGCATTCAATAATCTCCTTAAATTTTGATAAGAAGATTATTAAAGGCATTTTTGACAAAAAAAA
ATCTTCAATAATCCCCTCTAATTTTTTATAAAAAATTATTGAAGGTGCAAAAA
Found at i:23898162 original size:3 final size:3
Alignment explanation
Indices: 23898147--23898196 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
23898137 GTATTAAGTT
*
23898147 TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23898195 TA
1 TA
23898197 TATTATTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:23898203 original size:3 final size:3
Alignment explanation
Indices: 23898197--23898227 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23898187 AATAATAATA
23898197 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23898228 TGAACTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23899544 original size:22 final size:22
Alignment explanation
Indices: 23899516--23899559 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23899506 ATATTTTTTT
*
23899516 ATTATAA-ATAAATAATTATAAA
1 ATTATAATAAAAAT-ATTATAAA
23899538 ATTATAATAAAAATATTATAAA
1 ATTATAATAAAAATATTATAAA
23899560 TGGAATGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATTATAATAAAAATATTATAAA
Found at i:23899779 original size:14 final size:15
Alignment explanation
Indices: 23899744--23899781 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
23899734 ATTTTGAGTC
*
23899744 TATTATTAAAAATTAT
1 TATT-TTAAAAAATAT
23899760 TATTTTAAAAAATAT
1 TATTTTAAAAAATAT
23899775 T-TTTTAA
1 TATTTTAA
23899782 TATATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 11 0.52
16 4 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTTAAAAAATAT
Found at i:23900461 original size:20 final size:21
Alignment explanation
Indices: 23900391--23900463 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 21
23900381 TCATATATGA
*
23900391 TAATTAAATAATTAATTTTAATTT
1 TAATAAAATAATTAA--TT-ATTT
* *
23900415 TAATAAATTTATTAATTATTT
1 TAATAAAATAATTAATTATTT
23900436 AGTAATAAAATAATTAATT-TTT
1 --TAATAAAATAATTAATTATTT
23900458 TAATAA
1 TAATAA
23900464 TACATTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 6 0.14
21 4 0.10
22 5 0.12
23 15 0.36
24 12 0.29
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (21 bp):
TAATAAAATAATTAATTATTT
Found at i:23902788 original size:14 final size:14
Alignment explanation
Indices: 23902768--23902800 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
23902758 ACGGAGCTTT
*
23902768 GAAAAAAAATAAG-
1 GAAAAAAAAAAAGA
23902781 GAAAAAAAAAAAGA
1 GAAAAAAAAAAAGA
23902795 GAAAAA
1 GAAAAA
23902801 GCTGATGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (14 bp):
GAAAAAAAAAAAGA
Found at i:23917761 original size:2 final size:2
Alignment explanation
Indices: 23917754--23917796 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
23917744 CAATCCTTTA
23917754 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT -T AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23917792 AT AT A
1 AT AT A
23917797 AAAATTAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
1 4 0.11
2 33 0.89
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:23920295 original size:14 final size:14
Alignment explanation
Indices: 23920276--23920306 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23920266 TTATTCTTAA
23920276 TTTATTAGTTAATT
1 TTTATTAGTTAATT
*
23920290 TTTATTATTTAATT
1 TTTATTAGTTAATT
23920304 TTT
1 TTT
23920307 TAACAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TTTATTAGTTAATT
Found at i:23921597 original size:19 final size:17
Alignment explanation
Indices: 23921571--23921620 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
23921561 CCTCTACCTT
*
23921571 TTTATTTTTTTTCTTTTC
1 TTTATTTTTTTT-TTGTC
*
23921589 TTGTATTTTTCTATTTGTC
1 TT-TATTTTT-TTTTTGTC
23921608 TTTATTTTTTTTT
1 TTTATTTTTTTTT
23921621 CTATTTTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.11
18 9 0.33
19 13 0.48
20 2 0.07
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTATTTTTTTTTTGTC
Found at i:23921636 original size:22 final size:22
Alignment explanation
Indices: 23921594--23921636 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23921584 TTTTCTTGTA
*
23921594 TTTTTCTATTTGTCTTTATTTT
1 TTTTTCTATTTGTCTTAATTTT
23921616 TTTTTCTATTTTGT-TTAATTT
1 TTTTTCTA-TTTGTCTTAATTT
23921637 AACAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTTTCTATTTGTCTTAATTTT
Found at i:23922076 original size:24 final size:26
Alignment explanation
Indices: 23922030--23922093 Score: 87
Period size: 24 Copynumber: 2.5 Consensus size: 26
23922020 AATAAATTAG
*
23922030 ACCATCAAAAAATAACTTGGAATATC
1 ACCATCAAAAAATAACTTCGAATATC
*
23922056 ACCATCAAAAGA-AAC-TCGAATATC
1 ACCATCAAAAAATAACTTCGAATATC
23922080 ACCATCGAAAAAAT
1 ACCATC-AAAAAAT
23922094 GTAAATCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 14 0.42
25 8 0.24
26 11 0.33
ACGTcount: A:0.52, C:0.22, G:0.08, T:0.19
Consensus pattern (26 bp):
ACCATCAAAAAATAACTTCGAATATC
Found at i:23922121 original size:42 final size:41
Alignment explanation
Indices: 23922069--23922183 Score: 133
Period size: 42 Copynumber: 2.8 Consensus size: 41
23922059 ATCAAAAGAA
* *
23922069 ACTCGAATATCACCATCGAAAAAATGTAAATCAACCTTTGAC
1 ACTCGAATATCACCATCGAAAAAATGTAAATAAACC-TTAAC
* * *
23922111 ACTCGGATATCATCATCGAGAAAAA-GTAATTTAAACCTTAAC
1 ACTCGAATATCACCATCGA-AAAAATGTAA-ATAAACCTTAAC
* *
23922153 ATTCGAATATCACCATCGAAAAAATGCAAAT
1 ACTCGAATATCACCATCGAAAAAATGTAAAT
23922184 GATTTTTTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 6 0.10
42 44 0.73
43 10 0.17
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.24
Consensus pattern (41 bp):
ACTCGAATATCACCATCGAAAAAATGTAAATAAACCTTAAC
Found at i:23922644 original size:35 final size:35
Alignment explanation
Indices: 23922550--23922706 Score: 181
Period size: 35 Copynumber: 4.4 Consensus size: 35
23922540 CATTATGATA
* * *
23922550 CAAATGACTTTTCTCAAAATGATGATGCAAATGAGATG
1 CAAATGTCTTTTCTTAAAATGATG-T--ACATGAGATG
* * *
23922588 CAAAATATCTTTTTTTTAAATGATGCT-CATGAGATG
1 C-AAATGTCTTTTCTTAAAATGATG-TACATGAGATG
23922624 CAAATGTCTTTTCTTAAAATGATGTACATGAGATG
1 CAAATGTCTTTTCTTAAAATGATGTACATGAGATG
* *
23922659 CAAATGTCTTTTCTTAAAAAGATGTACATGAAATG
1 CAAATGTCTTTTCTTAAAATGATGTACATGAGATG
*
23922694 AAAATGTCTTTTC
1 CAAATGTCTTTTC
23922707 CAAAAATACT
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
34 1 0.01
35 74 0.71
36 9 0.09
38 1 0.01
39 19 0.18
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (35 bp):
CAAATGTCTTTTCTTAAAATGATGTACATGAGATG
Found at i:23923650 original size:18 final size:19
Alignment explanation
Indices: 23923607--23923652 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
23923597 CTCTAGAGCT
23923607 TTATTTTTTCATTTTTCTC
1 TTATTTTTTCATTTTTCTC
*
23923626 TTATTTTTTCTTTCTTTC-C
1 TTATTTTTTCATT-TTTCTC
23923645 TT-TTTTTT
1 TTATTTTTT
23923653 TGTTTAACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 6 0.24
19 15 0.60
20 4 0.16
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (19 bp):
TTATTTTTTCATTTTTCTC
Found at i:23927746 original size:18 final size:17
Alignment explanation
Indices: 23927710--23927755 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
23927700 AAAATTTTTC
*
23927710 TTTTCATTTTTTGGTTT
1 TTTTCATTTTTTGGCTT
23927727 TTTTCATTTGTTTGGCTT
1 TTTTCATTT-TTTGGCTT
23927745 TTTT-ATTTTTT
1 TTTTCATTTTTT
23927756 TATTGAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 3 0.11
17 13 0.48
18 11 0.41
ACGTcount: A:0.07, C:0.07, G:0.11, T:0.76
Consensus pattern (17 bp):
TTTTCATTTTTTGGCTT
Found at i:23928754 original size:14 final size:14
Alignment explanation
Indices: 23928735--23928765 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23928725 TTATTCTTAA
23928735 TTTATTAGTTAATT
1 TTTATTAGTTAATT
*
23928749 TTTATTATTTAATT
1 TTTATTAGTTAATT
23928763 TTT
1 TTT
23928766 TAACAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TTTATTAGTTAATT
Found at i:23930094 original size:5 final size:5
Alignment explanation
Indices: 23930084--23930118 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
23930074 ATTTTACAAA
*
23930084 AAAAT AAAAT AAACT AAAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAA
23930119 GTAGGCTGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:23930104 original size:16 final size:16
Alignment explanation
Indices: 23930083--23930118 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
23930073 AATTTTACAA
*
23930083 AAAAATAAAATAAACT
1 AAAAATAAAATAAAAT
23930099 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
23930115 AAAA
1 AAAA
23930119 GTAGGCTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:23930396 original size:7 final size:7
Alignment explanation
Indices: 23930384--23930427 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
23930374 TTTCAAATAA
23930384 AAAAATT
1 AAAAATT
23930391 AAAAATAT
1 AAAAAT-T
23930399 AAAAATAT
1 AAAAAT-T
*
23930407 AAAAAAT
1 AAAAATT
*
23930414 AAAACTT
1 AAAAATT
23930421 AAAAATT
1 AAAAATT
23930428 TAGGTGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 18 0.56
8 14 0.44
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:23930402 original size:15 final size:15
Alignment explanation
Indices: 23930378--23930426 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
23930368 TATTTTTTTC
*
23930378 AAATAAAAAAATTAA
1 AAATATAAAAATTAA
23930393 AAATATAAAAATATAA
1 AAATATAAAAAT-TAA
*
23930409 AAA-ATAAAACTTAA
1 AAATATAAAAATTAA
23930423 AAAT
1 AAAT
23930427 TTAGGTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.20
15 18 0.60
16 6 0.20
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (15 bp):
AAATATAAAAATTAA
Found at i:23930402 original size:17 final size:15
Alignment explanation
Indices: 23930378--23930417 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
23930368 TATTTTTTTC
23930378 AAATAAAAAAATTAAA
1 AAATAAAAAAA-TAAA
*
23930394 AATATAAAAATATAAA
1 AA-ATAAAAAAATAAA
23930410 AAATAAAA
1 AAATAAAA
23930418 CTTAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 8 0.36
17 8 0.36
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAAAAAAATAAA
Found at i:23932079 original size:53 final size:53
Alignment explanation
Indices: 23931969--23932079 Score: 118
Period size: 53 Copynumber: 2.1 Consensus size: 53
23931959 CATGCATTCA
* * *** *
23931969 TCATTCATGCATCATTATAAGGCAAACATTAGCTTATTCATGCAGTCATTTAT
1 TCATTCATGCATCATTATAAGGCAAACATTAACTTATTCATCCAGTCAAGCAG
* *
23932022 TCATTCATGCATCATTATGAGGCAAACATTAACTCT-TGT-ATCCATTCAAGCAG
1 TCATTCATGCATCATTATAAGGCAAACATTAACT-TAT-TCATCCAGTCAAGCAG
23932075 TCATT
1 TCATT
23932080 TGTCAATCCA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 46 0.96
54 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.36
Consensus pattern (53 bp):
TCATTCATGCATCATTATAAGGCAAACATTAACTTATTCATCCAGTCAAGCAG
Found at i:23934964 original size:7 final size:6
Alignment explanation
Indices: 23934952--23935007 Score: 51
Period size: 6 Copynumber: 8.7 Consensus size: 6
23934942 ATGAAGGAAA
*
23934952 AAAAAGG AAAAAG AAATTAAA AAAAAG AAAAAGG AAAAAAG AAAAA- AAAAAG
1 AAAAA-G AAAAAG AAA--AAG AAAAAG AAAAA-G -AAAAAG AAAAAG AAAAAG
23935004 AAAA
1 AAAA
23935008 TGCACGTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
5 5 0.12
6 20 0.48
7 7 0.17
8 10 0.24
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:23934977 original size:25 final size:25
Alignment explanation
Indices: 23934949--23935007 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
23934939 AAAATGAAGG
23934949 AAAAAAAAGG-AAAAAGAAATTAAAAA
1 AAAAAAAAGGAAAAAAGAAA--AAAAA
23934975 AAAGAAAAAGGAAAAAAGAAAAAAAA
1 AAA-AAAAAGGAAAAAAGAAAAAAAA
*
23935001 AAGAAAA
1 AAAAAAA
23935008 TGCACGTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.13
26 10 0.33
27 7 0.23
28 9 0.30
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (25 bp):
AAAAAAAAGGAAAAAAGAAAAAAAA
Found at i:23934982 original size:27 final size:25
Alignment explanation
Indices: 23934952--23935007 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
23934942 ATGAAGGAAA
23934952 AAAAAGG-AAAAAGAAATTAAAAAAAAG
1 AAAAAGGAAAAAAG-AA--AAAAAAAAG
23934979 AAAAAGGAAAAAAGAAAAAAAAAAG
1 AAAAAGGAAAAAAGAAAAAAAAAAG
23935004 AAAA
1 AAAA
23935008 TGCACGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 13 0.46
27 9 0.32
28 6 0.21
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (25 bp):
AAAAAGGAAAAAAGAAAAAAAAAAG
Found at i:23934989 original size:14 final size:14
Alignment explanation
Indices: 23934952--23934997 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
23934942 ATGAAGGAAA
23934952 AAAAAGG-AAAAAG
1 AAAAAGGAAAAAAG
23934965 AAATTAA--AAAAAAG
1 AAA--AAGGAAAAAAG
23934979 AAAAAGGAAAAAAG
1 AAAAAGGAAAAAAG
23934993 AAAAA
1 AAAAA
23934998 AAAAAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 2 0.07
13 3 0.11
14 21 0.75
15 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.04
Consensus pattern (14 bp):
AAAAAGGAAAAAAG
Found at i:23936586 original size:22 final size:22
Alignment explanation
Indices: 23936462--23936609 Score: 124
Period size: 22 Copynumber: 6.7 Consensus size: 22
23936452 ATGACCTTCG
*
23936462 GGCATAATTTGTAA-AGCCTCTA
1 GGCATAATTTGTAAGA-CCTCCA
*
23936484 GGCATAATTCT-TAAAACCTCCA
1 GGCATAATT-TGTAAGACCTCCA
* *
23936506 AGCATGATTTGTAAGACCTCCA
1 GGCATAATTTGTAAGACCTCCA
** * *
23936528 AACATAATTT-TCAAGGCCTTCA
1 GGCATAATTTGT-AAGACCTCCA
* *
23936550 GGCATAATTTGTAAGGCCTCTA
1 GGCATAATTTGTAAGACCTCCA
23936572 GGCATAATTCT-TAAGACCTCCA
1 GGCATAATT-TGTAAGACCTCCA
* *
23936594 GACATAATTTATAAGA
1 GGCATAATTTGTAAGA
23936610 TCTTTGAACA
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.03
22 97 0.93
23 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (22 bp):
GGCATAATTTGTAAGACCTCCA
Found at i:23936609 original size:88 final size:88
Alignment explanation
Indices: 23936456--23936636 Score: 247
Period size: 88 Copynumber: 2.1 Consensus size: 88
23936446 ATTTATATGA
* * *
23936456 CCTTCGGGCATAATTTGTAAAGCCTCTAGGCATAATTCTTAAAACCTCCAAGCATGATTTGTAAG
1 CCTTCAGGCATAATTTGTAAAGCCTCTAGGCATAATTCTTAAAACCTCCAAGCATAATTTATAAG
*
23936521 ACCTCCAAACATAATTTTCAAGG
66 ACCTCCAAACATAATTTGCAAGG
* *
23936544 CCTTCAGGCATAATTTGTAAGGCCTCTAGGCATAATTCTTAAGACCTCC-AGACATAATTTATAA
1 CCTTCAGGCATAATTTGTAAAGCCTCTAGGCATAATTCTTAAAACCTCCAAG-CATAATTTATAA
* *** *
23936608 GATCTTTGAACATAATTTGGAAGG
65 GACCTCCAAACATAATTTGCAAGG
23936632 CCTTC
1 CCTTC
23936637 GAACGTAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
87 2 0.02
88 79 0.98
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (88 bp):
CCTTCAGGCATAATTTGTAAAGCCTCTAGGCATAATTCTTAAAACCTCCAAGCATAATTTATAAG
ACCTCCAAACATAATTTGCAAGG
Found at i:23936620 original size:22 final size:22
Alignment explanation
Indices: 23936595--23936713 Score: 91
Period size: 22 Copynumber: 5.4 Consensus size: 22
23936585 AGACCTCCAG
*
23936595 ACATAATTTATAAGATCTTTGA
1 ACATAATTTGTAAGATCTTTGA
* ** *
23936617 ACATAATTTGGAAGGCCTTCGA
1 ACATAATTTGTAAGATCTTTGA
* *
23936639 ACGTAATTT-TCAAGATC-TTCA
1 ACATAATTTGT-AAGATCTTTGA
* *
23936660 AGCATAATTTGTAAGGTCTCTGA
1 A-CATAATTTGTAAGATCTTTGA
* *
23936683 GCATAATTTGTAAGA-CTTTTGG
1 ACATAATTTGTAAGATC-TTTGA
23936705 ACATAATTT
1 ACATAATTT
23936714 CAGAAAAACT
Statistics
Matches: 72, Mismatches: 20, Indels: 10
0.71 0.20 0.10
Matches are distributed among these distances:
21 4 0.06
22 65 0.90
23 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (22 bp):
ACATAATTTGTAAGATCTTTGA
Found at i:23937182 original size:39 final size:38
Alignment explanation
Indices: 23937121--23937293 Score: 136
Period size: 38 Copynumber: 4.4 Consensus size: 38
23937111 ATAAGAAACC
* * *
23937121 TTTTA-TTTTAAAATTGTGTGCCTCTATTTATGAGGAGT
1 TTTTATTTTTAAAGTTGTATGCCTCT-GTTATGAGGAGT
23937159 TTTTATTTTTAAAGTTGTATGCCTCTGTTATGAGGA-T
1 TTTTATTTTTAAAGTTGTATGCCTCTGTTATGAGGAGT
* * * * *
23937196 CCTTTATTTTTAATGTTGCATGCCTCTGTTAGGAGGAGC
1 -TTTTATTTTTAAAGTTGTATGCCTCTGTTATGAGGAGT
** * * *
23937235 CCTTATTTATAAAGTTATTAAGCCTCTGTT-TAGAGGAGCCT
1 TTTTATTTTTAAAGTT-GTATGCCTCTGTTAT-GAGGAG--T
23937276 TTTATATTTTTTAAAGTT
1 TTT-TA-TTTTTAAAGTT
23937294 ATTGAGTCTC
Statistics
Matches: 107, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
37 1 0.01
38 59 0.55
39 34 0.32
41 1 0.01
42 2 0.02
43 10 0.09
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (38 bp):
TTTTATTTTTAAAGTTGTATGCCTCTGTTATGAGGAGT
Found at i:23937296 original size:43 final size:43
Alignment explanation
Indices: 23937244--23937382 Score: 145
Period size: 43 Copynumber: 3.2 Consensus size: 43
23937234 CCCTTATTTA
* *
23937244 TAAAGTTATTAAGCCTCTGTTTAGAGGAGCCTTTTATATTTTT
1 TAAAGTTATTAAGTCTCTGTTTAGAAGAGCCTTTTATATTTTT
* * * *
23937287 TAAAGTTATTGAGTCTCTATTTAGAATAGCCTTTTATATTTTC
1 TAAAGTTATTAAGTCTCTGTTTAGAAGAGCCTTTTATATTTTT
* * * * *
23937330 AAAAGTTGTTAAGTCTATGTTAAGATGAG-CTTTATATATTTTT
1 TAAAGTTATTAAGTCTCTGTTTAGAAGAGCCTTT-TATATTTTT
* *
23937373 CAAAATTATT
1 TAAAGTTATT
23937383 GGGTTTTTGA
Statistics
Matches: 77, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 4 0.05
43 73 0.95
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (43 bp):
TAAAGTTATTAAGTCTCTGTTTAGAAGAGCCTTTTATATTTTT
Found at i:23937672 original size:18 final size:19
Alignment explanation
Indices: 23937620--23937718 Score: 87
Period size: 18 Copynumber: 5.4 Consensus size: 19
23937610 TTTCAATTTC
* **
23937620 GAATCTTTGAATCACTTGT
1 GAATCTTTAAATCTTTTGT
*
23937639 GAATC-TTGAATCTTTTGT
1 GAATCTTTAAATCTTTTGT
*
23937657 GAATCTTTAAAT-TTTTTT
1 GAATCTTTAAATCTTTTGT
* * *
23937675 GAATTTTTAAATCTCTTGC
1 GAATCTTTAAATCTTTTGT
* *
23937694 GAATCTTTGAA-CTTTTAT
1 GAATCTTTAAATCTTTTGT
23937712 GAATCTT
1 GAATCTT
23937719 GAATAATTTG
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
18 43 0.66
19 22 0.34
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.49
Consensus pattern (19 bp):
GAATCTTTAAATCTTTTGT
Found at i:23946972 original size:13 final size:14
Alignment explanation
Indices: 23946954--23946983 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
23946944 TATAATAGGG
23946954 ATTTTCTATCC-TA
1 ATTTTCTATCCTTA
23946967 ATTTTCTATCCTTA
1 ATTTTCTATCCTTA
23946981 ATT
1 ATT
23946984 CTAGATATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTCTATCCTTA
Found at i:23947003 original size:22 final size:22
Alignment explanation
Indices: 23946977--23947019 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23946967 ATTTTCTATC
*
23946977 CTTAATTCTAGATATACAAATG
1 CTTAATTCTAAATATACAAATG
23946999 CTTAATTCTAAATATACAAAT
1 CTTAATTCTAAATATACAAAT
23947020 ATAAATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (22 bp):
CTTAATTCTAAATATACAAATG
Found at i:23947024 original size:14 final size:15
Alignment explanation
Indices: 23947002--23947038 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
23946992 ACAAATGCTT
*
23947002 AATTCTAAATATACA
1 AATTATAAATATACA
23947017 AA-TATAAATATACA
1 AATTATAAATATACA
23947031 AATTATAA
1 AATTATAA
23947039 TATTACAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (15 bp):
AATTATAAATATACA
Found at i:23960093 original size:27 final size:26
Alignment explanation
Indices: 23960063--23960117 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
23960053 AGATAAGATG
*
23960063 ATATTATTTAATTTAATCTTATTCATA
1 ATATTATTTAATCTAATCTTA-TCATA
* *
23960090 ATATTATTTTATCTCATCTTATCATA
1 ATATTATTTAATCTAATCTTATCATA
23960116 AT
1 AT
23960118 CTTGTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.55
Consensus pattern (26 bp):
ATATTATTTAATCTAATCTTATCATA
Found at i:23960470 original size:23 final size:23
Alignment explanation
Indices: 23960425--23960484 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
23960415 GTAAAATAAG
* *
23960425 ATAATATTATTTAATTTAA-TTTT
1 ATAATAATA-TTATTTTAATTTTT
*
23960448 ATTAATAATATTATTTTATTTTTT
1 A-TAATAATATTATTTTAATTTTT
*
23960472 ATCATAATATTAT
1 ATAATAATATTAT
23960485 ATATCAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
ATAATAATATTATTTTAATTTTT
Found at i:23961507 original size:30 final size:32
Alignment explanation
Indices: 23961471--23961555 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 32
23961461 CGAAATTAAT
* *
23961471 AAAATATTATTTTTTAAATATA-A-ATATTTA
1 AAAATATAATTTTTTAAATATATATATAATTA
* * *
23961501 AAAATATCATTATATAAATATATATATAATTA
1 AAAATATAATTTTTTAAATATATATATAATTA
*
23961533 AAAA-ATAATTTTTTATATA-ATAT
1 AAAATATAATTTTTTAAATATATAT
23961556 CAGGTCGGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 23 0.51
31 12 0.27
32 10 0.22
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (32 bp):
AAAATATAATTTTTTAAATATATATATAATTA
Found at i:23963058 original size:2 final size:2
Alignment explanation
Indices: 23963051--23963081 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23963041 CTTCGAATGA
23963051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23963082 ATACCTACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23963742 original size:22 final size:23
Alignment explanation
Indices: 23963688--23963734 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
23963678 ATTAAATTAT
23963688 TTTCA-ATAAAAAATTTTACAAA
1 TTTCATATAAAAAATTTTACAAA
23963710 TTTCATATAAAAAATTTTA-AAA
1 TTTCATATAAAAAATTTTACAAA
23963732 TTT
1 TTT
23963735 TTATTAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTCATATAAAAAATTTTACAAA
Found at i:23963950 original size:58 final size:58
Alignment explanation
Indices: 23963859--23963968 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
23963849 ATTTATTTAA
*
23963859 AAAATATTAAAATTTTCATTAAATCATTGTTAATAAAAA-AGACTTCAAAAATGTCACG
1 AAAATATTAAAATTTTCATTAAATCATTGTTAATAAAAATA-ACTTAAAAAATGTCACG
* * *
23963917 AAAATATTAACATTTTCATTAATTCATTTTTAATAAAAATAACTTAAAAAAT
1 AAAATATTAAAATTTTCATTAAATCATTGTTAATAAAAATAACTTAAAAAAT
23963969 TTTACAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
58 46 0.98
59 1 0.02
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (58 bp):
AAAATATTAAAATTTTCATTAAATCATTGTTAATAAAAATAACTTAAAAAATGTCACG
Found at i:23969479 original size:21 final size:21
Alignment explanation
Indices: 23969449--23969497 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
23969439 AGAGTTTAAT
*
23969449 TTTTGGATTTGAAGATTTGGAG
1 TTTT-GATTTGAAGATTTAGAG
* *
23969471 TTTTGATTTTAAGGTTTAGAG
1 TTTTGATTTGAAGATTTAGAG
23969492 TATTTG
1 T-TTTG
23969498 GGGTTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (21 bp):
TTTTGATTTGAAGATTTAGAG
Found at i:23969764 original size:12 final size:12
Alignment explanation
Indices: 23969747--23969772 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23969737 AATTAATAAT
23969747 TTATTACTATTA
1 TTATTACTATTA
23969759 TTATTACTATTA
1 TTATTACTATTA
23969771 TT
1 TT
23969773 GTTATGCTTT
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:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTACTATTA
Found at i:23969974 original size:18 final size:17
Alignment explanation
Indices: 23969942--23970003 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 17
23969932 AATTTAATTT
*
23969942 TTATTATTAATTTTTATA
1 TTATTATTATTTTTTA-A
23969960 TTATTATTATTTTTTTAGCA
1 TTATTATTA-TTTTTTA--A
* *
23969980 TTTTTAATATTTTTTAA
1 TTATTATTATTTTTTAA
23969997 TTATTAT
1 TTATTAT
23970004 CCTACTTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
17 6 0.17
18 9 0.25
19 13 0.36
20 8 0.22
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TTATTATTATTTTTTAA
Found at i:23970057 original size:23 final size:23
Alignment explanation
Indices: 23970031--23970074 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
23970021 TTATTATTAT
*
23970031 TAAAAATAA-TTAAATATTTATTC
1 TAAAAA-AATTTAAAAATTTATTC
23970054 TAAAAAAATTTAAAAATTTAT
1 TAAAAAAATTTAAAAATTTAT
23970075 CATGCATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAAAAAATTTAAAAATTTATTC
Found at i:23971367 original size:3 final size:3
Alignment explanation
Indices: 23971359--23971391 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
23971349 AATTATATAT
*
23971359 TTA TTA TTA CTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23971392 CATAAAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23971672 original size:37 final size:37
Alignment explanation
Indices: 23971569--23971684 Score: 126
Period size: 37 Copynumber: 3.1 Consensus size: 37
23971559 TATCAGGATG
* * * *
23971569 ACACCACGAGTCGAAAAATAAAGAATCGA-CCAGGATA
1 ACACCATGAGTAGAAAAATAAAGAATCGATCGA-GACA
** * * *
23971606 ACACTGTAAGTAGAGAAATAGAGAATCGATCGAGACA
1 ACACCATGAGTAGAAAAATAAAGAATCGATCGAGACA
*
23971643 ACACCATGAGTAGAAAAATAAAGAATCGATCGGGACA
1 ACACCATGAGTAGAAAAATAAAGAATCGATCGAGACA
23971680 ACACC
1 ACACC
23971685 GTGAATCAAA
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
37 61 0.97
38 2 0.03
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (37 bp):
ACACCATGAGTAGAAAAATAAAGAATCGATCGAGACA
Found at i:23971797 original size:37 final size:38
Alignment explanation
Indices: 23971751--23971839 Score: 117
Period size: 38 Copynumber: 2.4 Consensus size: 38
23971741 ACAGGATAAT
* * *
23971751 ACCGTGAGTCAAAAAATAAAG-AGTTGATCAGGACAAC
1 ACCGCGAGTCAAAAAATAAAGAAATTGATCAAGACAAC
* *
23971788 ACTGCGAGTCAAAAAATAAAGAAATTGATCAAGATAAC
1 ACCGCGAGTCAAAAAATAAAGAAATTGATCAAGACAAC
*
23971826 ACCGCGAATCAAAA
1 ACCGCGAGTCAAAA
23971840 TTATGCCCGA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 19 0.43
38 25 0.57
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.16
Consensus pattern (38 bp):
ACCGCGAGTCAAAAAATAAAGAAATTGATCAAGACAAC
Found at i:23971948 original size:148 final size:143
Alignment explanation
Indices: 23971621--23971949 Score: 356
Period size: 148 Copynumber: 2.3 Consensus size: 143
23971611 GTAAGTAGAG
* * ** **
23971621 AAATAGAGAATCGATCGAGACAACACCATGAGT-AGAAAAATAAAGAATCGATCGGGACAACACC
1 AAATAAAGAATCGATCGGGACAACACCGCGAGTCA-AAAAATAAAGAATCGATCAAGACAACACC
* * ** * * *
23971685 GTGAATCAAAATTATACCCGATCTTAAAAATTTTGTCCGACAGTCTTACAGAATCGACAGGATAA
65 GCGAATCAAAATTATACCCGACCTTAAAAATCATATCCGACAGTCTTACAAAATCAACAGGATAA
* *
23971750 TACCGTGAGTCAAA
130 CACCGCGAGTCAAA
* * * * * *
23971764 AAATAAAGAGTTGATCAGGACAACACTGCGAGTCAAAAAATAAAGAAATTGATCAAGATAACACC
1 AAATAAAGAATCGATCGGGACAACACCGCGAGTCAAAAAATAAAG-AATCGATCAAGACAACACC
* *
23971829 GCGAATCAAAATTATGCCCGAAGGCCTTAAAAATCATATCCGA-AGGTCTTACAAAATCAACCGG
65 GCGAATCAAAATTATACCCG-A--CCTTAAAAATCATATCCGACA-GTCTTACAAAATCAA-CAG
23971893 GATAACACCGCGAGTCAAA
125 GATAACACCGCGAGTCAAA
* *
23971912 AAATAAAGAATCGATCGGGACAACACCGCAAATCAAAA
1 AAATAAAGAATCGATCGGGACAACACCGCGAGTCAAAA
23971950 TTATGCCCGG
Statistics
Matches: 150, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
143 35 0.23
144 34 0.23
145 1 0.01
146 1 0.01
147 28 0.19
148 51 0.34
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.18
Consensus pattern (143 bp):
AAATAAAGAATCGATCGGGACAACACCGCGAGTCAAAAAATAAAGAATCGATCAAGACAACACCG
CGAATCAAAATTATACCCGACCTTAAAAATCATATCCGACAGTCTTACAAAATCAACAGGATAAC
ACCGCGAGTCAAA
Found at i:23971982 original size:88 final size:88
Alignment explanation
Indices: 23971872--23972055 Score: 260
Period size: 88 Copynumber: 2.1 Consensus size: 88
23971862 TCATATCCGA
* *
23971872 AGGTCTTACAAAATCAACCGGGATAACACCGCGAGTCAAAAAATAAAGAATCGATCGGGACAACA
1 AGGTCTTACAAAATCAACCGGGATAACACCGCGAGTCAAAAAATAAAAAATCGATCGGGACAAAA
* *
23971937 CCGCAAATCAAAATTATGCCCGG
66 CCGCAAATCAAAATTATACCCAG
* * * * *
23971960 AGGTCTTACAAAATCGATCGGGATAACACCGTGAGTCAAAAAATAAAAAATCGATTGGGATAAAA
1 AGGTCTTACAAAATCAACCGGGATAACACCGCGAGTCAAAAAATAAAAAATCGATCGGGACAAAA
* * *
23972025 TCGCTAATCGAAATTATACCCAG
66 CCGCAAATCAAAATTATACCCAG
23972048 AGGTCTTA
1 AGGTCTTA
23972056 AAGATTATGC
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (88 bp):
AGGTCTTACAAAATCAACCGGGATAACACCGCGAGTCAAAAAATAAAAAATCGATCGGGACAAAA
CCGCAAATCAAAATTATACCCAG
Found at i:23972135 original size:37 final size:38
Alignment explanation
Indices: 23972094--23972172 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
23972084 CGACTGGGAT
*
23972094 AACATCGTGAGTCAAAAAAT-AAGAAAATGACCAGGAC
1 AACATCGTGAGTCAAAAAATAAAAAAAATGACCAGGAC
* * * *
23972131 AACATCGTGAGTCGAGAAGTAAAAAAAATGATCAGGAC
1 AACATCGTGAGTCAAAAAATAAAAAAAATGACCAGGAC
23972169 AACA
1 AACA
23972173 CCACAAGTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 17 0.47
38 19 0.53
ACGTcount: A:0.51, C:0.15, G:0.20, T:0.14
Consensus pattern (38 bp):
AACATCGTGAGTCAAAAAATAAAAAAAATGACCAGGAC
Found at i:23972189 original size:38 final size:38
Alignment explanation
Indices: 23972103--23972191 Score: 90
Period size: 38 Copynumber: 2.4 Consensus size: 38
23972093 TAACATCGTG
* * * ***
23972103 AGTCAAAAAAT-AAGAAAATGACCAGGACAACATCGTG
1 AGTCAAAAAGTAAAAAAAATGACCAGGACAACACCACA
* * *
23972140 AGTCGAGAAGTAAAAAAAATGATCAGGACAACACCACA
1 AGTCAAAAAGTAAAAAAAATGACCAGGACAACACCACA
23972178 AGTCAAAAAGTAAA
1 AGTCAAAAAGTAAA
23972192 GAATCGATCG
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
37 8 0.20
38 32 0.80
ACGTcount: A:0.54, C:0.16, G:0.18, T:0.12
Consensus pattern (38 bp):
AGTCAAAAAGTAAAAAAAATGACCAGGACAACACCACA
Found at i:23972246 original size:22 final size:22
Alignment explanation
Indices: 23972219--23972272 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
23972209 ATTGTGAATC
23972219 AAAATTATGCCCAAAGATCTTA
1 AAAATTATGCCCAAAGATCTTA
*
23972241 AAAATTATGCCCGAAGATCTTA
1 AAAATTATGCCCAAAGATCTTA
*
23972263 AAAATCATGC
1 AAAATTATGC
23972273 TCAGAGGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (22 bp):
AAAATTATGCCCAAAGATCTTA
Found at i:23972737 original size:11 final size:11
Alignment explanation
Indices: 23972721--23972745 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23972711 ACTTTGAATA
23972721 TTTCTTTTTTG
1 TTTCTTTTTTG
23972732 TTTCTTTTTTG
1 TTTCTTTTTTG
23972743 TTT
1 TTT
23972746 ACAGATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTTG
Found at i:23972909 original size:32 final size:31
Alignment explanation
Indices: 23972865--23973314 Score: 271
Period size: 33 Copynumber: 13.9 Consensus size: 31
23972855 AACTCTTTTG
23972865 AGGCCAGATAAACTGGGCTTAAATTTTATTA
1 AGGCCAGATAAACTGGGCTTAAATTTTATTA
* *
23972896 AGAGCCAGCTAAACTGGGCTTAAGATTTTTTTA
1 AG-GCCAGATAAACTGGGCTTAA-ATTTTATTA
* * * * *
23972929 AGGGCTAGTTAAACTAAGG-TTAAAACTTCATTGA
1 A-GGCCAGATAAACT-GGGCTT-AAATTTTATT-A
*
23972963 TGGCCAGATAAACTGGGCTTAAAATTTCT-TTA
1 AGGCCAGATAAACTGGGCTT-AAATTT-TATTA
* * * *
23972995 AGGGCCAGCTAGACTGGGCTTAAAACTTCATTA
1 A-GGCCAGATAAACTGGGCTT-AAATTTTATTA
* * *
23973028 ATGGCCACATAAATTGGGCTTAAATTTTTTTTAA
1 A-GGCCAGATAAACTGGGCTTAAA-TTTTATT-A
* * *
23973062 AGGCCAGTTAAACTGGGCTTAAAACTTCATTGA
1 AGGCCAGATAAACTGGGCTT-AAATTTTATT-A
* * * * * * *
23973095 TGGTCAAATAAATTAGG-TTAAAACTTCATTGA
1 AGGCCAGATAAACTGGGCTT-AAATTTTATT-A
* * *
23973127 TGGCCAAATAAACTGGGCTTAAATTTTCTTTGA
1 AGGCCAGATAAACTGGGCTTAAATTTT-ATT-A
* ** *
23973160 AGACCAGATAAACTGGGCTTAAA-GAT-TTG
1 AGGCCAGATAAACTGGGCTTAAATTTTATTA
* * * *
23973189 AGGCCAAATAAAATGGGCTTAAGATTTTCTTG
1 AGGCCAGATAAACTGGGCTTAA-ATTTTATTA
* *
23973221 AGGCCAGCTAAACTGGGCTTAAATCTTCATTGA
1 AGGCCAGATAAACTGGGCTTAAAT-TTTATT-A
* *
23973254 TGGCCAGATAAACTAGGCTTAAATTTTATTA
1 AGGCCAGATAAACTGGGCTTAAATTTTATTA
* * *
23973285 AGGGCTAGATAAACTAGGCTTAAATCTTAT
1 A-GGCCAGATAAACTGGGCTTAAATTTTAT
23973315 GTGGATTTGA
Statistics
Matches: 328, Mismatches: 70, Indels: 41
0.75 0.16 0.09
Matches are distributed among these distances:
29 19 0.06
30 3 0.01
31 6 0.02
32 117 0.36
33 172 0.52
34 11 0.03
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (31 bp):
AGGCCAGATAAACTGGGCTTAAATTTTATTA
Found at i:23973210 original size:62 final size:62
Alignment explanation
Indices: 23973123--23973243 Score: 183
Period size: 62 Copynumber: 2.0 Consensus size: 62
23973113 TAAAACTTCA
*
23973123 TTGATGGCCAAATAAACTGGGCTTAA-ATTTTCTTTGAAGACCAGATAAACTGGGCTTAAAGAT
1 TTGATGGCCAAATAAAATGGGCTTAAGATTTTC-TTG-AGACCAGATAAACTGGGCTTAAAGAT
* *
23973186 TTGA-GGCCAAATAAAATGGGCTTAAGATTTTCTTGAGGCCAGCTAAACTGGGCTTAAA
1 TTGATGGCCAAATAAAATGGGCTTAAGATTTTCTTGAGACCAGATAAACTGGGCTTAAA
23973244 TCTTCATTGA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
61 21 0.39
62 23 0.43
63 10 0.19
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (62 bp):
TTGATGGCCAAATAAAATGGGCTTAAGATTTTCTTGAGACCAGATAAACTGGGCTTAAAGAT
Found at i:23973244 original size:94 final size:96
Alignment explanation
Indices: 23973014--23973276 Score: 284
Period size: 98 Copynumber: 2.7 Consensus size: 96
23973004 TAGACTGGGC
* * * * * *
23973014 TTAAAACTTCATTAATGGCCACATAAATTGGGCTTAAATTTTTTTTAAAGGCCAGTTAAACTGGG
1 TTAAAACTTCATTGATGGCCAAATAAACTGGGCTTAAATTTTCTTTGAAGGCCAGATAAACTGGG
* *
23973079 CTTAAAACTTCATTGATGGTCAAATAAATTAGG
66 CTTAAAAC-T-ATTGATGGCCAAATAAAATAGG
*
23973112 TTAAAACTTCATTGATGGCCAAATAAACTGGGCTTAAATTTTCTTTGAAGACCAGATAAACTGGG
1 TTAAAACTTCATTGATGGCCAAATAAACTGGGCTTAAATTTTCTTTGAAGGCCAGATAAACTGGG
*
23973177 CTTAAAGA-T-TTGA-GGCCAAATAAAATGGG
66 CTTAAA-ACTATTGATGGCCAAATAAAATAGG
** ** * * * *
23973206 CTTAAGATTTTC-TTGA-GGCCAGCTAAACTGGGCTTAAATCTTCATTGATGGCCAGATAAACTA
1 -TTAA-AACTTCATTGATGGCCAAATAAACTGGGCTTAAATTTTCTTTGAAGGCCAGATAAACTG
23973269 GGCTTAAA
64 GGCTTAAA
23973277 TTTTATTAAG
Statistics
Matches: 143, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
94 61 0.43
95 12 0.08
96 4 0.03
97 1 0.01
98 64 0.45
99 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (96 bp):
TTAAAACTTCATTGATGGCCAAATAAACTGGGCTTAAATTTTCTTTGAAGGCCAGATAAACTGGG
CTTAAAACTATTGATGGCCAAATAAAATAGG
Found at i:23973506 original size:22 final size:23
Alignment explanation
Indices: 23973478--23973557 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 23
23973468 ACTTTTTCAC
*
23973478 CTAATCTGGGCTT-CTATGCTAG
1 CTAATCTGGGCTTACTATGCCAG
* *
23973500 CTAATCTGGGCTTATTGTGCCAG
1 CTAATCTGGGCTTACTATGCCAG
* *
23973523 TTAAAT-TGGGCTTA-TATGCCAT
1 CT-AATCTGGGCTTACTATGCCAG
*
23973545 CTAATTTGGGCTT
1 CTAATCTGGGCTT
23973558 GCATGCTAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
21 3 0.06
22 27 0.56
23 15 0.31
24 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.39
Consensus pattern (23 bp):
CTAATCTGGGCTTACTATGCCAG
Found at i:23975116 original size:12 final size:12
Alignment explanation
Indices: 23975082--23975116 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
23975072 TCATAACCAT
23975082 TTTCTTTTTTTC
1 TTTCTTTTTTTC
23975094 TTTGC-TTTTTTC
1 TTT-CTTTTTTTC
23975106 TTTCTTTTTTT
1 TTTCTTTTTTT
23975117 TTTAACATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.05
12 19 0.90
13 1 0.05
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:23975793 original size:8 final size:8
Alignment explanation
Indices: 23975773--23975820 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
23975763 AGACTCAAAA
23975773 CTTTTCTTT
1 CTTTT-TTT
23975782 -TTTTTTT
1 CTTTTTTT
23975789 CTTTTTTT
1 CTTTTTTT
23975797 -TTTTTTT
1 CTTTTTTT
*
23975804 ACTTTTTTA
1 -CTTTTTTT
23975813 CTTTTTTT
1 CTTTTTTT
23975821 GTGTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 10 0.29
8 18 0.53
9 6 0.18
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.85
Consensus pattern (8 bp):
CTTTTTTT
Found at i:23977545 original size:16 final size:16
Alignment explanation
Indices: 23977489--23977566 Score: 68
Period size: 16 Copynumber: 4.9 Consensus size: 16
23977479 GCATTATATC
* *
23977489 GAATGAATACATAAAT
1 GAATGAATGCACAAAT
* * *
23977505 GGATGAATGAATAAAT
1 GAATGAATGCACAAAT
*
23977521 AAATGAATGCACAAAT
1 GAATGAATGCACAAAT
*
23977537 GAATGAATGAATC-AAT
1 GAATGAATGCA-CAAAT
*
23977553 GAGTGAATGCACAA
1 GAATGAATGCACAA
23977567 CTAACAAAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
15 1 0.02
16 47 0.96
17 1 0.02
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (16 bp):
GAATGAATGCACAAAT
Found at i:23977560 original size:32 final size:32
Alignment explanation
Indices: 23977490--23977566 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
23977480 CATTATATCG
* * *
23977490 AATGAATACATAAATGGATGAATGAATAAATA
1 AATGAATGCACAAATGAATGAATGAATAAATA
* *
23977522 AATGAATGCACAAATGAATGAATGAATCAATG
1 AATGAATGCACAAATGAATGAATGAATAAATA
*
23977554 AGTGAATGCACAA
1 AATGAATGCACAA
23977567 CTAACAAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.22
Consensus pattern (32 bp):
AATGAATGCACAAATGAATGAATGAATAAATA
Found at i:23981067 original size:52 final size:52
Alignment explanation
Indices: 23981010--23981118 Score: 200
Period size: 52 Copynumber: 2.1 Consensus size: 52
23981000 GATTTAAGGT
* *
23981010 TTTAGTTCTAGGATTTGGAGGATTTAGGGTTTTGATTTTAGCGTTTAGGGGG
1 TTTAGTTCTAGGATTTGGAGGATTTAGGGTTTTAATTTTAACGTTTAGGGGG
23981062 TTTAGTTCTAGGATTTGGAGGATTTAGGGTTTTAATTTTAACGTTTAGGGGG
1 TTTAGTTCTAGGATTTGGAGGATTTAGGGTTTTAATTTTAACGTTTAGGGGG
23981114 TTTAG
1 TTTAG
23981119 GGTTTAATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.45
Consensus pattern (52 bp):
TTTAGTTCTAGGATTTGGAGGATTTAGGGTTTTAATTTTAACGTTTAGGGGG
Found at i:23981165 original size:14 final size:14
Alignment explanation
Indices: 23981142--23981211 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
23981132 GATTTGAACG
*
23981142 TTTAGAGTTTTGAT
1 TTTAGGGTTTTGAT
*
23981156 TTTAAGG-TTTGAAGT
1 TTTAGGGTTTTG-A-T
*
23981171 GTTT-GGGGTTTGAT
1 -TTTAGGGTTTTGAT
*
23981185 TTTAGGGTTTTAAT
1 TTTAGGGTTTTGAT
*
23981199 TTTTGGGTTTTGA
1 TTTAGGGTTTTGA
23981212 AATTTAAGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
13 7 0.16
14 26 0.59
15 4 0.09
16 7 0.16
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:23981180 original size:58 final size:59
Alignment explanation
Indices: 23981058--23981190 Score: 144
Period size: 58 Copynumber: 2.3 Consensus size: 59
23981048 TAGCGTTTAG
* * * * * *
23981058 GGGGTTTAGTTCTAGGATTTGGAGGATTTAGGGTTTTAATTTTAACGTTTAGGGGGTTT
1 GGGGTTTAATTTTAGGATTTGAACGATTTAGAGTTTTAATTTTAACGTTTAGAGGGTTT
* * * *
23981117 AGGGTTTAATTTTAGGATTTGAACG-TTTAGAGTTTTGATTTTAAGGTTT-GAAGTGTTT
1 GGGGTTTAATTTTAGGATTTGAACGATTTAGAGTTTTAATTTTAACGTTTAG-AGGGTTT
*
23981175 GGGGTTTGATTTTAGG
1 GGGGTTTAATTTTAGG
23981191 GTTTTAATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
57 1 0.02
58 40 0.66
59 20 0.33
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (59 bp):
GGGGTTTAATTTTAGGATTTGAACGATTTAGAGTTTTAATTTTAACGTTTAGAGGGTTT
Found at i:23981193 original size:29 final size:29
Alignment explanation
Indices: 23981113--23981253 Score: 88
Period size: 29 Copynumber: 4.8 Consensus size: 29
23981103 CGTTTAGGGG
* * *
23981113 GTTTAGGGTTTAATTTTAGGATTTGAACGT
1 GTTTGGGGTTTGATTTTAGGGTTTGAA-GT
* * * *
23981143 -TTAGAGTTTTGATTTTAAGGTTTGAAGT
1 GTTTGGGGTTTGATTTTAGGGTTTGAAGT
*
23981171 GTTTGGGGTTTGATTTTAGGGTTTTAA-T
1 GTTTGGGGTTTGATTTTAGGGTTTGAAGT
* * * * * *
23981199 TTTTGGGTTTTGAAATTTAAGGTTTAAAGG
1 GTTTGGGGTTTG-ATTTTAGGGTTTGAAGT
** *
23981229 GTTTAAGGTTTTAGTTTTAGGGTTT
1 GTTTGGGGTTTGA-TTTTAGGGTTT
23981254 TGAGGATTTG
Statistics
Matches: 82, Mismatches: 25, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
28 13 0.16
29 53 0.65
30 16 0.20
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (29 bp):
GTTTGGGGTTTGATTTTAGGGTTTGAAGT
Found at i:23981472 original size:32 final size:33
Alignment explanation
Indices: 23981429--23981503 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
23981419 TTAATAATAA
* * *
23981429 TAATTTTATTATTATTATTATTAT-GCTTTTTT
1 TAATTTAATTATTATTATTATTATACCCTTTTT
* *
23981461 TAATTTAATTATTATTCTTTTTATACCCTTTTT
1 TAATTTAATTATTATTATTATTATACCCTTTTT
*
23981494 TAAATTAATT
1 TAATTTAATT
23981504 TTTACATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 21 0.58
33 15 0.42
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (33 bp):
TAATTTAATTATTATTATTATTATACCCTTTTT
Found at i:23981631 original size:13 final size:14
Alignment explanation
Indices: 23981605--23981633 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23981595 AATAAAATAA
23981605 TATTATTCAATTTT
1 TATTATTCAATTTT
23981619 TATTATT-AATTTT
1 TATTATTCAATTTT
23981632 TA
1 TA
23981634 GATTATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTCAATTTT
Found at i:23981735 original size:23 final size:23
Alignment explanation
Indices: 23981709--23981752 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
23981699 TTATTATTAT
*
23981709 TAAAAATAA-TTAAATATTTATTC
1 TAAAAA-AACTTAAAAATTTATTC
23981732 TAAAAAAACTTAAAAATTTAT
1 TAAAAAAACTTAAAAATTTAT
23981753 CATGCGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAAAAACTTAAAAATTTATTC
Found at i:23982489 original size:17 final size:17
Alignment explanation
Indices: 23982460--23982492 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23982450 TTGCTTTTTT
23982460 TTTTTATGTTTCTGGTA
1 TTTTTATGTTTCTGGTA
23982477 TTTTT-TGTCTTCTGGT
1 TTTTTATGT-TTCTGGT
23982493 TAGTGAGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.06, C:0.09, G:0.18, T:0.67
Consensus pattern (17 bp):
TTTTTATGTTTCTGGTA
Found at i:23983055 original size:13 final size:15
Alignment explanation
Indices: 23983033--23983064 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
23983023 CTACTTTCTG
23983033 TTTTCTTTCTT-TTT
1 TTTTCTTTCTTCTTT
23983047 TTTTC-TTCTTCTTT
1 TTTTCTTTCTTCTTT
23983061 TTTT
1 TTTT
23983065 TTTAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTTCTTCTTT
Found at i:23983104 original size:3 final size:3
Alignment explanation
Indices: 23983096--23983126 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
23983086 AAATATATAT
23983096 TTA TTA TTA TT- TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23983127 TTAACATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:23986911 original size:3 final size:3
Alignment explanation
Indices: 23986903--23986927 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23986893 ACGCTTCACA
23986903 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
23986928 TAGAGAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23990107 original size:2 final size:2
Alignment explanation
Indices: 23990102--23990134 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23990092 TGCTTTTGTG
23990102 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23990135 TTAACTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23991313 original size:13 final size:13
Alignment explanation
Indices: 23991263--23991320 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 13
23991253 TATTCGATAA
23991263 TAAAAATTCTAT-
1 TAAAAATTCTATC
* *
23991275 TAAAATTTTTA-C
1 TAAAAATTCTATC
23991287 TAAAAATTCCTATC
1 TAAAAATT-CTATC
*
23991301 TAAAAATTATATC
1 TAAAAATTCTATC
*
23991314 AAAAAAT
1 TAAAAAT
23991321 ATTTTTTTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
12 16 0.43
13 12 0.32
14 9 0.24
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAAATTCTATC
Found at i:23994879 original size:3 final size:3
Alignment explanation
Indices: 23994873--23994904 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
23994863 GTTTATTGTT
23994873 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
23994905 ATAATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:23999781 original size:114 final size:114
Alignment explanation
Indices: 23999547--23999757 Score: 350
Period size: 114 Copynumber: 1.9 Consensus size: 114
23999537 TAATAACCTA
23999547 AAACTGAATATTAAAAGTATATAGACCAATCTACAATAAAATTTCAATATCACCAATCACTTCCC
1 AAACTGAATATTAAAAGTATATAGACCAATCTACAATAAAATTTCAATATCACCAATCACTTCCC
* *
23999612 TTCGTGCCCCATTAAAAGCCTTAACTATCATAACAATGTTGATAACTTG
66 TTCATGCCCCATTAAAAACCTTAACTATCATAACAATGTTGATAACTTG
** * * *
23999661 AAACTGAATATTAAAAGTATATAGACCAATCTGTAATAGAATTTCAATATCACTAATCACTTTCC
1 AAACTGAATATTAAAAGTATATAGACCAATCTACAATAAAATTTCAATATCACCAATCACTTCCC
*
23999726 TTTATGCCCCATTAAAAACCTTAACTATCATA
66 TTCATGCCCCATTAAAAACCTTAACTATCATA
23999758 TGGCTATTTC
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 89 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (114 bp):
AAACTGAATATTAAAAGTATATAGACCAATCTACAATAAAATTTCAATATCACCAATCACTTCCC
TTCATGCCCCATTAAAAACCTTAACTATCATAACAATGTTGATAACTTG
Found at i:24002653 original size:3 final size:3
Alignment explanation
Indices: 24002645--24002692 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
24002635 ACATGGTATA
* * * *
24002645 ATT ATT ATT GTT ATT ATT ATT AAT ATT TTT GTT ATT ATT AATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
24002691 AT
1 AT
24002693 CATAATTGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:24006361 original size:12 final size:12
Alignment explanation
Indices: 24006344--24006369 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24006334 TCTTTTTTTA
24006344 TATTATTTATAT
1 TATTATTTATAT
24006356 TATTATTTATAT
1 TATTATTTATAT
24006368 TA
1 TA
24006370 CTTTTATTTT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTATTTATAT
Found at i:24008549 original size:51 final size:52
Alignment explanation
Indices: 24008412--24008551 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 52
24008402 GCAGAAAAAT
* * *
24008412 AATTCTAAGAGAAAATAGATTCTTAATAGGTAAGTTTGATTTATAAAAGAAG
1 AATTCTAAGAGAAAAGAGATTCTTAATAGGCAAGTTTGACTTATAAAAGAAG
* *
24008464 AATTCTAAGAGAAAAGATATTCTTAATAGCCAAGTTTGACTTATAAAAGAA-
1 AATTCTAAGAGAAAAGAGATTCTTAATAGGCAAGTTTGACTTATAAAAGAAG
*
24008515 AATTTTAAGA-AGAAAGAGATTCTTAATAGGCAAGTTT
1 AATTCTAAGAGA-AAAGAGATTCTTAATAGGCAAGTTT
24008552 ATATACTTAT
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
50 1 0.01
51 32 0.41
52 46 0.58
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.31
Consensus pattern (52 bp):
AATTCTAAGAGAAAAGAGATTCTTAATAGGCAAGTTTGACTTATAAAAGAAG
Found at i:24009190 original size:25 final size:26
Alignment explanation
Indices: 24009154--24009202 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
24009144 CTGCTTAATT
*
24009154 TTTTTTTTATTTTTT-GTTTTTTACC
1 TTTTTTTAATTTTTTGGTTTTTTACC
24009179 TTTTTTTAATTTTTTGGTTTTTTA
1 TTTTTTTAATTTTTTGGTTTTTTA
24009203 GTTTTTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.10, C:0.04, G:0.06, T:0.80
Consensus pattern (26 bp):
TTTTTTTAATTTTTTGGTTTTTTACC
Found at i:24010077 original size:24 final size:25
Alignment explanation
Indices: 24010019--24010082 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 25
24010009 AGGTTTTCTA
24010019 TTTA-TTTATTTTTTATGTTATTAG
1 TTTATTTTATTTTTTATGTTATTAG
***
24010043 TTT-TAAAATTTTTTATGTTATT-G
1 TTTATTTTATTTTTTATGTTATTAG
24010066 TTTATTTTATTTTTTAT
1 TTTATTTTATTTTTTAT
24010083 ATGTTTTATG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (25 bp):
TTTATTTTATTTTTTATGTTATTAG
Done.