Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 82 of 105
Found at i:14423042 original size:7 final size:7
Alignment explanation
Indices: 14423032--14423100 Score: 63
Period size: 7 Copynumber: 9.7 Consensus size: 7
14423022 TCTCTTTTTT
14423032 TTTTTCA
1 TTTTTCA
14423039 TTTTTCATA
1 TTTTTC--A
*
14423048 TTTTTTA
1 TTTTTCA
14423055 TTTTT-A
1 TTTTTCA
14423061 TTTTTCA
1 TTTTTCA
*
14423068 TATTTTTA
1 T-TTTTCA
14423076 TGTTTT--
1 T-TTTTCA
14423082 TTTTTCA
1 TTTTTCA
14423089 TTTTTCA
1 TTTTTCA
14423096 TTTTT
1 TTTTT
14423101 TTCCTTCATC
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
5 4 0.08
6 7 0.13
7 26 0.49
8 10 0.19
9 6 0.11
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:14423058 original size:22 final size:22
Alignment explanation
Indices: 14423026--14423074 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
14423016 TCCTTTTCTC
*
14423026 TTTTTTTTTTTCATTTTTCATA
1 TTTTTTATTTTCATTTTTCATA
*
14423048 TTTTTTATTTTTATTTTTCATA
1 TTTTTTATTTTCATTTTTCATA
14423070 TTTTT
1 TTTTT
14423075 ATGTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTATTTTCATTTTTCATA
Found at i:14423075 original size:21 final size:19
Alignment explanation
Indices: 14423047--14423102 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
14423037 CATTTTTCAT
14423047 ATTTTTTATTTTTATTTTTC
1 ATTTTTTATTTTT-TTTTTC
14423067 ATATTTTTATGTTTTTTTTTC
1 AT-TTTTTAT-TTTTTTTTTC
*
14423088 ATTTTTCATTTTTTT
1 ATTTTTTATTTTTTT
14423103 CCTTCATCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 6 0.18
20 8 0.24
21 15 0.45
22 4 0.12
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (19 bp):
ATTTTTTATTTTTTTTTTC
Found at i:14427395 original size:19 final size:19
Alignment explanation
Indices: 14427371--14427417 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
14427361 TCATGCAAAT
*
14427371 AATATCATGCATTAATACA
1 AATATCATGCAATAATACA
*
14427390 AATATCATGCAATAATATA
1 AATATCATGCAATAATACA
14427409 ATATATCAT
1 A-ATATCAT
14427418 AAAATAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (19 bp):
AATATCATGCAATAATACA
Found at i:14427446 original size:31 final size:31
Alignment explanation
Indices: 14427389--14427455 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
14427379 GCATTAATAC
*
14427389 AAAT-ATCATGCAATAATATAATATATCATA
1 AAATAATCATGCAATAATAAAATATATCATA
*
14427419 AAATAATCATGTAAT-ATAAAATCATATCATA
1 AAATAATCATGCAATAATAAAAT-ATATCATA
*
14427450 CAATAA
1 AAATAA
14427456 ATATATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 10 0.31
31 22 0.69
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.31
Consensus pattern (31 bp):
AAATAATCATGCAATAATAAAATATATCATA
Found at i:14427480 original size:24 final size:23
Alignment explanation
Indices: 14427444--14427519 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 23
14427434 ATAAAATCAT
14427444 ATCATACAATAAATATATTAATA
1 ATCATACAATAAATATATTAATA
* *
14427467 ATCATGCAAGTAAATGT-TCTAATA
1 ATCATACAA-TAAATATAT-TAATA
14427491 ATCATACAAATAAATATATTAATA
1 ATCATAC-AATAAATATATTAATA
14427515 ATCAT
1 ATCAT
14427520 GCATACATGC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
23 9 0.20
24 33 0.73
25 3 0.07
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (23 bp):
ATCATACAATAAATATATTAATA
Found at i:14427525 original size:28 final size:26
Alignment explanation
Indices: 14427493--14427550 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 26
14427483 TTCTAATAAT
14427493 CATACA-AATAAATATATTAATAATCATG
1 CATACACAA-AAATATATT-A-AATCATG
14427521 CATACATGCAAAAATATATTAAATCATG
1 CATACA--CAAAAATATATTAAATCATG
14427549 CA
1 CA
14427551 ATAAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
28 15 0.56
29 1 0.04
30 9 0.33
31 2 0.07
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (26 bp):
CATACACAAAAATATATTAAATCATG
Found at i:14427558 original size:17 final size:18
Alignment explanation
Indices: 14427533--14427568 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
14427523 TACATGCAAA
*
14427533 AATATATTAAA-TCATGC
1 AATAAATTAAATTCATGC
14427550 AATAAATTAAATTCATGC
1 AATAAATTAAATTCATGC
14427568 A
1 A
14427569 TAATAAGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
AATAAATTAAATTCATGC
Found at i:14432443 original size:21 final size:21
Alignment explanation
Indices: 14432419--14432461 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
14432409 CACTCCAACA
* *
14432419 AGTTGGTTGTAGGGAAAGGAT
1 AGTTGGTTGCAGGAAAAGGAT
14432440 AGTTGGTTGCAGGAAAAGGAT
1 AGTTGGTTGCAGGAAAAGGAT
14432461 A
1 A
14432462 ATGGTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.40, T:0.26
Consensus pattern (21 bp):
AGTTGGTTGCAGGAAAAGGAT
Found at i:14432466 original size:20 final size:21
Alignment explanation
Indices: 14432422--14432467 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14432412 TCCAACAAGT
* * *
14432422 TGGTTGTAGGGAAAGGATAGT
1 TGGTTGCAGGAAAAGGATAGA
14432443 TGGTTGCAGGAAAAGGATA-A
1 TGGTTGCAGGAAAAGGATAGA
14432463 TGGTT
1 TGGTT
14432468 TGATAAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.30, C:0.02, G:0.39, T:0.28
Consensus pattern (21 bp):
TGGTTGCAGGAAAAGGATAGA
Found at i:14436449 original size:7 final size:7
Alignment explanation
Indices: 14436430--14436476 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
14436420 AACATTTACT
14436430 AAATATAA
1 AAATA-AA
*
14436438 AAATAGA
1 AAATAAA
*
14436445 AAAT-AT
1 AAATAAA
14436451 AAATAAAA
1 AAAT-AAA
14436459 AAATAAA
1 AAATAAA
14436466 AAATAAA
1 AAATAAA
14436473 AAAT
1 AAAT
14436477 CAAATGATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
6 4 0.12
7 19 0.58
8 10 0.30
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (7 bp):
AAATAAA
Found at i:14436450 original size:15 final size:14
Alignment explanation
Indices: 14436430--14436474 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
14436420 AACATTTACT
14436430 AAATATAAAAATAGA
1 AAATATAAAAATA-A
14436445 AAATATAAATAA-AA
1 AAATATAAA-AATAA
14436459 AAATA-AAAAATAA
1 AAATATAAAAATAA
14436472 AAA
1 AAA
14436475 ATCAAATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.07
13 8 0.29
14 6 0.21
15 10 0.36
16 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (14 bp):
AAATATAAAAATAA
Found at i:14436453 original size:21 final size:21
Alignment explanation
Indices: 14436429--14436470 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14436419 AAACATTTAC
* *
14436429 TAAATATAAAAATAGAAAATA
1 TAAATAAAAAAATAAAAAATA
14436450 TAAATAAAAAAATAAAAAATA
1 TAAATAAAAAAATAAAAAATA
14436471 AAAAATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (21 bp):
TAAATAAAAAAATAAAAAATA
Found at i:14437933 original size:10 final size:10
Alignment explanation
Indices: 14437918--14437947 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14437908 ATCGAGTTTT
14437918 TATATTTTAA
1 TATATTTTAA
14437928 TATATTTTAA
1 TATATTTTAA
14437938 T-TATTTTAA
1 TATATTTTAA
14437947 T
1 T
14437948 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:14460705 original size:14 final size:14
Alignment explanation
Indices: 14460686--14460712 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14460676 GAAAATTCTC
14460686 TCACCTCAAGAGTG
1 TCACCTCAAGAGTG
14460700 TCACCTCAAGAGT
1 TCACCTCAAGAGT
14460713 ATGCAAGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (14 bp):
TCACCTCAAGAGTG
Found at i:14460798 original size:21 final size:21
Alignment explanation
Indices: 14460774--14460813 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14460764 AACATTAAAG
*
14460774 AAAATTAAAAAAAAAAGAAAT
1 AAAATGAAAAAAAAAAGAAAT
*
14460795 AAAATGGAAAAAAAAAGAA
1 AAAATGAAAAAAAAAAGAA
14460814 TAATGATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAATGAAAAAAAAAAGAAAT
Found at i:14461113 original size:58 final size:58
Alignment explanation
Indices: 14460876--14461148 Score: 295
Period size: 58 Copynumber: 4.7 Consensus size: 58
14460866 TTGTACAAGA
* * * * *
14460876 AAAATTGATACTTTCAACTTTTCC-CCAAAATATTTTTTTG-AAACTTTAATTTTGAGA-
1 AAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAAC-TT-ATTTTCAAAG
* *
14460933 AAAATTGATACTTTTAACTTTTCTTCATAAAA-ACCTTTTTTAGAAAA-TTATTTTCAGAG
1 AAAATTGATACTTTTAACTTTTCCTCA-AAAATA--TTTTTTAGAAAACTTATTTTCAAAG
* * * * *
14460992 AAAATTGATACTTTTAATTTTTTTTCTCGAAAATATTTTTTAAAAAACTTATTTTCAAGG
1 AAAATTGATACTTTTAA--CTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAAG
* * *
14461052 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTGTTAGAAAACTTATTTTTAAAG
1 AAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAAG
* *
14461110 AAAATTGATATTTTTAACTTTTCCTTAAAAATATTTTTT
1 AAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTT
14461149 TGGAATTTTA
Statistics
Matches: 182, Mismatches: 24, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
57 22 0.12
58 79 0.43
59 34 0.19
60 37 0.20
61 10 0.05
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAAG
Found at i:14461186 original size:6 final size:6
Alignment explanation
Indices: 14461171--14461223 Score: 90
Period size: 6 Copynumber: 9.0 Consensus size: 6
14461161 TAAAGAAAAT
*
14461171 AAAT-A AAATAA AAATAA AAATAA AAATAA AGATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
14461218 AAATAA
1 AAATAA
14461224 GATAAAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 4 0.09
6 41 0.91
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:14461269 original size:3 final size:3
Alignment explanation
Indices: 14461256--14461295 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
14461246 AATTCTAATC
14461256 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14461296 GTAAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14461965 original size:3 final size:3
Alignment explanation
Indices: 14461959--14462091 Score: 54
Period size: 3 Copynumber: 39.7 Consensus size: 3
14461949 AAAAAAGATA
* *
14461959 AAT AAT AA- ATAT ATAT ACT AAT AGAT AAAT AAT AGAT AAT AGTT AAT
1 AAT AAT AAT A-AT A-AT AAT AAT A-AT -AAT AAT A-AT AAT A-AT AAT
* * *
14462006 AAT AAA AAT -TT ATAT ACATT AAT AGAT AAAT AAT AAT ATAT ATT AAT
1 AAT AAT AAT AAT A-AT A-A-T AAT A-AT -AAT AAT AAT A-AT AAT AAT
*
14462053 AAAT AAT AAT AAT AAT AGT AAT AAAT AAAT AAAT AAT AA
1 -AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT AAT AA
14462092 ATAAGATACA
Statistics
Matches: 103, Mismatches: 13, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
2 2 0.02
3 58 0.56
4 39 0.38
5 4 0.04
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:14462029 original size:48 final size:46
Alignment explanation
Indices: 14461959--14462090 Score: 146
Period size: 48 Copynumber: 2.8 Consensus size: 46
14461949 AAAAAAGATA
14461959 AATAATAAATATATATACTAATAGATAAATAATAGATA-ATAGTTAAT
1 AATAATAAATATATATACTAATAGATAAATAATA-ATATATA-TTAAT
*
14462006 AATAA-AAATTTATATACATTAATAGATAAATAATAATATATATTAAT
1 AATAATAAATATATATAC--TAATAGATAAATAATAATATATATTAAT
* *
14462053 AAATAAT-AATA-ATAATAGTAATAAATAAATAAATAATA
1 -AATAATAAATATAT-ATACTAATAGATAAAT-AATAATA
14462091 AATAAGATAC
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
46 22 0.30
47 22 0.30
48 30 0.41
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (46 bp):
AATAATAAATATATATACTAATAGATAAATAATAATATATATTAAT
Found at i:14462427 original size:41 final size:41
Alignment explanation
Indices: 14462291--14462628 Score: 238
Period size: 41 Copynumber: 8.0 Consensus size: 41
14462281 TTTTGATCAA
*
14462291 AGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAAAATAAACAA
1 AGCTCCTCTAAATAGAGGCTCAACGACTTTG--AAAAAT-AA-AT
* * * *
14462336 AGCTCTTCTAAACAGAGGCTCCACGACCTTG-AAAATAAAT
1 AGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAAT
* * * *
14462376 GGCTCATCTAATTAGAGGCTCAACGACTTTGGAAAATAAAT
1 AGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAAT
* *
14462417 GGCTCCTCTAATTAGAGGCTCAACGACTTCTGAAAAATAAACT
1 AGCTCCTCTAAATAGAGGCTCAACGACTT-TGAAAAATAAA-T
* * * *
14462460 AAGATCCTATAAACAGAGGCTCAACGAC-TT-AAACAATAAAAAA
1 -AGCTCCTCTAAATAGAGGCTCAACGACTTTGAAA-AAT--AAAT
* * * * *
14462503 AG-TTCTCCAAATAGAGGCTAAACAACTTTTGAAAAATAAAAAA
1 AGCTCCTCTAAATAGAGGCTCAACGAC-TTTGAAAAAT--AAAT
** * * *
14462546 AAATCCTCTAAACAGAGGCTCAATGACTTTGAAAAATAAACAA
1 AGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAAT-AA-AT
* * *
14462589 AGCTCCTCTAAACAGAGGCATC-ACAACTTT-AAAAGTAAAT
1 AGCTCCTCTAAATAGAGGC-TCAACGACTTTGAAAAATAAAT
14462629 GCTTTTTGAC
Statistics
Matches: 242, Mismatches: 38, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
40 27 0.11
41 62 0.26
42 29 0.12
43 49 0.20
44 48 0.20
45 27 0.11
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (41 bp):
AGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAAT
Found at i:14462478 original size:85 final size:84
Alignment explanation
Indices: 14462389--14462585 Score: 218
Period size: 85 Copynumber: 2.3 Consensus size: 84
14462379 TCATCTAATT
* ** * * * *
14462389 AGAGGCTCAACGACTTTGGAAAATAAATGGCTCCTCTAATTAGAGGCTCAACGACTTCTGAAAAA
1 AGAGGCTCAACGACTTTGAAAAATAAAAAG-TCCTCCAAATAGAGGCTAAACAACTTCTGAAAAA
** *
14462454 TAAACTAAGATCCTATAAAC
65 TAAAAAAAAATCCTATAAAC
* *
14462474 AGAGGCTCAACGAC-TT-AAACAATAAAAAAAGTTCTCCAAATAGAGGCTAAACAACTTTTGAAA
1 AGAGGCTCAACGACTTTGAAA-AAT--AAAAAGTCCTCCAAATAGAGGCTAAACAACTTCTGAAA
*
14462537 AATAAAAAAAAATCCTCTAAAC
63 AATAAAAAAAAATCCTATAAAC
*
14462559 AGAGGCTCAATGACTTTGAAAAATAAA
1 AGAGGCTCAACGACTTTGAAAAATAAA
14462586 CAAAGCTCCT
Statistics
Matches: 93, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
83 2 0.02
84 8 0.09
85 71 0.76
86 9 0.10
87 3 0.03
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.22
Consensus pattern (84 bp):
AGAGGCTCAACGACTTTGAAAAATAAAAAGTCCTCCAAATAGAGGCTAAACAACTTCTGAAAAAT
AAAAAAAAATCCTATAAAC
Found at i:14462543 original size:43 final size:42
Alignment explanation
Indices: 14462430--14462607 Score: 135
Period size: 44 Copynumber: 4.1 Consensus size: 42
14462420 TCCTCTAATT
* * ** **
14462430 AGAGGCTCAACGACTTCTGAAAAATAAACTAAGATCCTATAAAC
1 AGAGGCTAAACAACTT-TGAAAAATAAAAAAAG-TCCTCCAAAC
* * * *
14462474 AGAGGCTCAACGAC-TT-AAACAATAAAAAAAGTTCTCCAAAT
1 AGAGGCTAAACAACTTTGAAA-AATAAAAAAAGTCCTCCAAAC
* *
14462515 AGAGGCTAAACAACTTTTGAAAAATAAAAAAAAATCCTCTAAAC
1 AGAGGCTAAACAAC-TTTGAAAAAT-AAAAAAAGTCCTCCAAAC
* ** * *
14462559 AGAGGCTCAATGACTTTGAAAAATAAACAAAGCTCCTCTAAAC
1 AGAGGCTAAACAACTTTGAAAAATAAAAAAAG-TCCTCCAAAC
14462602 AGAGGC
1 AGAGGC
14462608 ATCACAACTT
Statistics
Matches: 111, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
41 21 0.19
42 16 0.14
43 32 0.29
44 42 0.38
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.20
Consensus pattern (42 bp):
AGAGGCTAAACAACTTTGAAAAATAAAAAAAGTCCTCCAAAC
Found at i:14463698 original size:12 final size:13
Alignment explanation
Indices: 14463660--14463693 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
14463650 CTTTTTTTTC
14463660 TTTTT-TTTCATT
1 TTTTTATTTCATT
14463672 TTTTTATTTCATT
1 TTTTTATTTCATT
*
14463685 TTTTCATTT
1 TTTTTATTT
14463694 TTTTTCAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTATTTCATT
Found at i:14474163 original size:59 final size:57
Alignment explanation
Indices: 14474097--14474315 Score: 289
Period size: 58 Copynumber: 3.8 Consensus size: 57
14474087 TGCTTTTGTA
* *
14474097 CAAAGAAAATTGATACTTTTAAC-TTTTCTTCAAAAAAACCTTTTTTAGAAAATTATTTT
1 CAAAGAAAATTGATACTTTCAACTTTTTC-TCAAAAATA--TTTTTTAGAAAATTATTTT
* *
14474156 CAAAGAAAATTGATACTTTTAACTTTTTCTCGAAAATATTTTTTAGAAAATT-TATTT
1 CAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAATTAT-TTT
* * *
14474213 CCAAGAAAAATTGATACTTTCAACTTTTTCTCAGAAATATTTGTTAGAAAACTTATTTT
1 CAAAG-AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAA-TTATTTT
* *
14474272 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 CAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
14474316 TGGAATTTTA
Statistics
Matches: 143, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
56 1 0.01
57 21 0.15
58 77 0.54
59 38 0.27
60 6 0.04
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (57 bp):
CAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAATTATTTT
Found at i:14474349 original size:6 final size:6
Alignment explanation
Indices: 14474340--14474392 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
14474330 AAGAAAATCA
* * *
14474340 AAAAAT -AAAAT -AAAAT -TAAAT AAAAAT AAAGAT AAAGAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
14474385 AAAAAT AA
1 AAAAAT AA
14474393 GATAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 14 0.33
6 28 0.67
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:14474351 original size:5 final size:5
Alignment explanation
Indices: 14474341--14474402 Score: 61
Period size: 5 Copynumber: 11.4 Consensus size: 5
14474331 AGAAAATCAA
*
14474341 AAAAT AAAAT AAAAT TAAAT AAAAAT AAAGAT AAAGAT AAAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAA-AT AAA-AT -AAAAT -AAAAT
*
14474391 AAGAT AAAAT AA
1 AAAAT AAAAT AA
14474403 GGAATACTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
5 27 0.54
6 20 0.40
7 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:14474380 original size:12 final size:12
Alignment explanation
Indices: 14474340--14474399 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
14474330 AAGAAAATCA
14474340 AAAAATAAA-AT
1 AAAAATAAAGAT
*
14474351 -AAAATTAA-AT
1 AAAAATAAAGAT
14474361 AAAAATAAAGAT
1 AAAAATAAAGAT
* *
14474373 AAAGATAAAAAT
1 AAAAATAAAGAT
14474385 AAAAAT-AAGAT
1 AAAAATAAAGAT
14474396 AAAA
1 AAAA
14474400 TAAGGAATAC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 9 0.22
11 15 0.37
12 17 0.41
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (12 bp):
AAAAATAAAGAT
Found at i:14474408 original size:17 final size:17
Alignment explanation
Indices: 14474346--14474399 Score: 74
Period size: 18 Copynumber: 3.2 Consensus size: 17
14474336 ATCAAAAAAT
*
14474346 AAAATAAAATTAA-ATA
1 AAAATAAAAATAAGATA
*
14474362 AAAATAAAGATAAAGATA
1 AAAATAAAAAT-AAGATA
14474380 AAAATAAAAATAAGATA
1 AAAATAAAAATAAGATA
14474397 AAA
1 AAA
14474400 TAAGGAATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.27
17 11 0.33
18 13 0.39
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATAAGATA
Found at i:14474438 original size:3 final size:3
Alignment explanation
Indices: 14474425--14474473 Score: 64
Period size: 3 Copynumber: 16.0 Consensus size: 3
14474415 AATTCTAATC
*
14474425 TAA TCAA TAA TAA TAA TAA TAA TAG TAA -AA TAAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
14474471 TAA
1 TAA
14474474 ATAAATAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:14474479 original size:24 final size:27
Alignment explanation
Indices: 14474430--14474485 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
14474420 TAATCTAATC
14474430 AATAATAATAATAATAATAGTAAAATA
1 AATAATAATAATAATAATAGTAAAATA
14474457 AATAATAATAATAATAA-A-T-AAATA
1 AATAATAATAATAATAATAGTAAAATA
14474481 AATAA
1 AATAA
14474486 ACCTTTGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 10 0.34
25 1 0.03
26 1 0.03
27 17 0.59
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (27 bp):
AATAATAATAATAATAATAGTAAAATA
Found at i:14474485 original size:21 final size:21
Alignment explanation
Indices: 14474436--14474481 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
14474426 AATCAATAAT
*
14474436 AATAATAATAATAGTAAAATA
1 AATAATAATAATAATAAAATA
14474457 AATAATAATAATAAT-AAATA
1 AATAATAATAATAATAAAATA
14474477 AATAA
1 AATAA
14474482 ATAAACCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATAATAATAAAATA
Found at i:14474967 original size:21 final size:21
Alignment explanation
Indices: 14474930--14474975 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
14474920 ATTTTTCAAA
14474930 AAAAAAACTTCAAAAATT-CT
1 AAAAAAACTTCAAAAATTCCT
* *
14474950 AAAAAAATTCTCACAAATTCCT
1 AAAAAAACT-TCAAAAATTCCT
14474972 AAAA
1 AAAA
14474976 CTGTATCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 8 0.36
22 6 0.27
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAAACTTCAAAAATTCCT
Found at i:14475336 original size:22 final size:22
Alignment explanation
Indices: 14475228--14475352 Score: 110
Period size: 24 Copynumber: 5.4 Consensus size: 22
14475218 TAATAGATAA
*
14475228 ATAATAAATATATATACTAATAG
1 ATAA-AAATATATATATTAATAG
* *
14475251 ACAAATAATAGATAATAGTT-AT-G
1 ATAAA-AATATAT-ATA-TTAATAG
*
14475274 ATAAAAATTTATATACATTAATAG
1 ATAAAAA--TATATATATTAATAG
14475298 ATAAATAATAATATATATTAATAG
1 ATAAA-AAT-ATATATATTAATAG
*
14475322 ATAAAAATATATATATTAATAA
1 ATAAAAATATATATATTAATAG
*
14475344 ATAATAATA
1 ATAAAAATA
14475353 ATAATAGCAA
Statistics
Matches: 84, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
22 26 0.31
23 22 0.26
24 33 0.39
25 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (22 bp):
ATAAAAATATATATATTAATAG
Found at i:14475337 original size:24 final size:25
Alignment explanation
Indices: 14475218--14475375 Score: 131
Period size: 22 Copynumber: 6.6 Consensus size: 25
14475208 AAAAAAAAAA
*
14475218 TAATAGATAAATAATAAATATATATAC
1 TAATAGATAAATAAT--ATATATATAT
* *
14475245 TAATAGACAAATAATAGATA-ATAGT
1 TAATAGATAAATAATATATATATA-T
* *
14475270 T-AT-GATAAA-AATTTATATACAT
1 TAATAGATAAATAATATATATATAT
14475292 TAATAGATAAATAATA-ATATATAT
1 TAATAGATAAATAATATATATATAT
14475316 TAATAGAT-AA-AA-ATATATATAT
1 TAATAGATAAATAATATATATATAT
* *
14475338 TAATAAAT-AATAATA-ATA-ATAG
1 TAATAGATAAATAATATATATATAT
* *
14475360 CAATAAATAAATAATA
1 TAATAGATAAATAATA
14475376 AATAAATAAG
Statistics
Matches: 110, Mismatches: 12, Indels: 22
0.76 0.08 0.15
Matches are distributed among these distances:
21 1 0.01
22 37 0.34
23 23 0.21
24 27 0.25
25 8 0.07
27 14 0.13
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.34
Consensus pattern (25 bp):
TAATAGATAAATAATATATATATAT
Found at i:14475357 original size:16 final size:16
Alignment explanation
Indices: 14475301--14475401 Score: 66
Period size: 16 Copynumber: 6.1 Consensus size: 16
14475291 TTAATAGATA
* *
14475301 AATAATAATATATATT
1 AATAATAATAAATAAT
14475317 AATAGATAA-AAAT-AT
1 AATA-ATAATAAATAAT
*
14475332 ATATATTAATAAATAAT
1 A-ATAATAATAAATAAT
14475349 AATAATAATAGCAATAAAT
1 AATAATAATA--AAT-AAT
*
14475368 AAATAATAAATAAATAAG
1 -AATAAT-AATAAATAAT
14475386 ATATAA-AATAAA-AAT
1 A-ATAATAATAAATAAT
14475401 A
1 A
14475402 CAAAATTGAC
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
15 8 0.12
16 28 0.41
17 8 0.12
18 9 0.13
19 6 0.09
20 6 0.09
21 4 0.06
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:14476537 original size:9 final size:9
Alignment explanation
Indices: 14476508--14476548 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
14476498 TAAAAATTAT
14476508 TATATTAAA
1 TATATTAAA
*
14476517 TTTATGTAAA
1 TATAT-TAAA
14476527 TATATTAAA
1 TATATTAAA
14476536 TATA--AAA
1 TATATTAAA
14476543 TATATT
1 TATATT
14476549 TTTTAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
7 7 0.26
9 12 0.44
10 8 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (9 bp):
TATATTAAA
Found at i:14476610 original size:11 final size:11
Alignment explanation
Indices: 14476596--14476625 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
14476586 AAATTTTAAA
14476596 TTATATTATTT
1 TTATATTATTT
14476607 TTATATTA-TT
1 TTATATTATTT
14476617 TTATATTAT
1 TTATATTAT
14476626 ATCATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATATTATTT
Found at i:14476617 original size:26 final size:26
Alignment explanation
Indices: 14476548--14476641 Score: 73
Period size: 26 Copynumber: 3.5 Consensus size: 26
14476538 TAAAATATAT
*
14476548 TTTTTA-ATTTTTATTAAATTTATATATAA
1 TTTTTATATTATT-TTAAA-TTATAT-T-A
**
14476577 TTTTTATTAAAATTTTAAATTATATTA
1 TTTTTA-TATTATTTTAAATTATATTA
* *
14476604 TTTTTATATTATTTTATATTATATCA
1 TTTTTATATTATTTTAAATTATATTA
* *
14476630 TATTTAAATTAT
1 TTTTTATATTAT
14476642 CTTACCTATG
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
26 26 0.48
27 7 0.13
28 1 0.02
29 12 0.22
30 5 0.09
31 3 0.06
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTTATATTATTTTAAATTATATTA
Found at i:14502719 original size:23 final size:21
Alignment explanation
Indices: 14502693--14502739 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
14502683 ACAACTATAC
*
14502693 AAAAGTAATTAAAAACAGAAATA
1 AAAAGTAA-CAAAAACAGAAA-A
*
14502716 AAAATTAACAAAAACAGAAAA
1 AAAAGTAACAAAAACAGAAAA
14502737 AAA
1 AAA
14502740 TTTACCTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 11 0.50
23 7 0.32
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (21 bp):
AAAAGTAACAAAAACAGAAAA
Found at i:14506549 original size:81 final size:81
Alignment explanation
Indices: 14506456--14506614 Score: 318
Period size: 81 Copynumber: 2.0 Consensus size: 81
14506446 AGGTTTAACG
14506456 AGTAAATTTATATAGATTGCATGGGTAATTTGGAGATTTTAAAAACATAAATTGTTTTTTTAATT
1 AGTAAATTTATATAGATTGCATGGGTAATTTGGAGATTTTAAAAACATAAATTGTTTTTTTAATT
14506521 GGTAAATATTTATACA
66 GGTAAATATTTATACA
14506537 AGTAAATTTATATAGATTGCATGGGTAATTTGGAGATTTTAAAAACATAAATTGTTTTTTTAATT
1 AGTAAATTTATATAGATTGCATGGGTAATTTGGAGATTTTAAAAACATAAATTGTTTTTTTAATT
14506602 GGTAAATATTTAT
66 GGTAAATATTTAT
14506615 GGCTAGTGCT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (81 bp):
AGTAAATTTATATAGATTGCATGGGTAATTTGGAGATTTTAAAAACATAAATTGTTTTTTTAATT
GGTAAATATTTATACA
Found at i:14510446 original size:6 final size:6
Alignment explanation
Indices: 14510437--14510500 Score: 76
Period size: 6 Copynumber: 10.2 Consensus size: 6
14510427 TTTTTTTTCA
14510437 TTTTAT TTTTAT TTTTATTT TTTGTAT TTTATAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTA--T TTT-TAT TTT-TAT TTTTAT TTTTAT TTTTAT
*
14510488 TTTTAT TATTAT T
1 TTTTAT TTTTAT T
14510501 ATTTTATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
5 5 0.10
6 31 0.60
7 10 0.19
8 4 0.08
9 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:14510473 original size:27 final size:27
Alignment explanation
Indices: 14510426--14510485 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
14510416 TAAGTCTATA
*
14510426 ATTTTTTTTCATTTTA-TTTTTATTTTT
1 ATTTTTTGTCATTTTATTTTTTA-TTTT
14510453 ATTTTTTGT-ATTTTATATTTTTATTTT
1 ATTTTTTGTCATTTTAT-TTTTTATTTT
14510480 ATTTTT
1 ATTTTT
14510486 ATTTTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 6 0.20
27 18 0.60
28 6 0.20
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (27 bp):
ATTTTTTGTCATTTTATTTTTTATTTT
Found at i:14510480 original size:39 final size:40
Alignment explanation
Indices: 14510430--14510509 Score: 128
Period size: 39 Copynumber: 2.0 Consensus size: 40
14510420 TCTATAATTT
*
14510430 TTTTTCATTTTATTTTTATTTTTATT-TTTTGTATTTTATA
1 TTTTTCATTTTATTTTTATTTTTATTATTAT-TATTTTATA
14510470 TTTTT-ATTTTATTTTTATTTTTATTATTATTATTTTATA
1 TTTTTCATTTTATTTTTATTTTTATTATTATTATTTTATA
14510509 T
1 T
14510510 ATGTATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
39 30 0.79
40 8 0.21
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.78
Consensus pattern (40 bp):
TTTTTCATTTTATTTTTATTTTTATTATTATTATTTTATA
Found at i:14510497 original size:26 final size:27
Alignment explanation
Indices: 14510439--14510507 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
14510429 TTTTTTCATT
*
14510439 TTATTTTTATTTTTATTTTTTGTATTTTA
1 TTATTTTTA-TTTTA-TTTTTATATTTTA
14510468 -TATTTTTATTTTATTTTTAT-TTTTA
1 TTATTTTTATTTTATTTTTATATTTTA
*
14510493 TTATTATTATTTTAT
1 TTATTTTTATTTTAT
14510508 ATATGTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 5 0.14
26 19 0.51
27 5 0.14
28 8 0.22
ACGTcount: A:0.20, C:0.00, G:0.01, T:0.78
Consensus pattern (27 bp):
TTATTTTTATTTTATTTTTATATTTTA
Found at i:14510501 original size:6 final size:6
Alignment explanation
Indices: 14510439--14510611 Score: 50
Period size: 6 Copynumber: 29.3 Consensus size: 6
14510429 TTTTTTCATT
* * * * *
14510439 TTATTT TTATTT TTATT- TTTTGTA TT-TTA -TATTT TTATT- TTATTT
1 TTATTA TTATTA TTATTA TTAT-TA TTATTA TTATTA TTATTA TTATTA
* *
14510484 TTATTT TTATTA TTATTA TT-TTA TATATGTA -TATATA TT-TT- TTCTT-
1 TTATTA TTATTA TTATTA TTATTA T-TAT-TA TTAT-TA TTATTA TTATTA
* * * *
14510530 TTCTT- TTATTA TTATT- TT-TTA -TCTTA GGTATTTA TGTATTTA TTAATA
1 TTATTA TTATTA TTATTA TTATTA TTATTA -TTA-TTA T-TA-TTA TTATTA
14510578 TGTATATA TCT-TTA TTATTA TTATTA TTATTA TT
1 T-TAT-TA T-TATTA TTATTA TTATTA TTATTA TT
14510612 CTTTTTTTCC
Statistics
Matches: 137, Mismatches: 10, Indels: 40
0.73 0.05 0.21
Matches are distributed among these distances:
4 6 0.04
5 34 0.25
6 71 0.52
7 10 0.07
8 16 0.12
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.70
Consensus pattern (6 bp):
TTATTA
Found at i:14510523 original size:45 final size:40
Alignment explanation
Indices: 14510430--14510551 Score: 119
Period size: 45 Copynumber: 2.9 Consensus size: 40
14510420 TCTATAATTT
14510430 TTTTTCATTTTATTTTTATTTTTATT-TT-TTGTATTT-TATA
1 TTTTT-ATTTTATTTTTATTTTTATTATTATT-T-TTTATATA
14510470 TTTTTATTTTATTTTTATTTTTATTATTATTATTTTATATA
1 TTTTTATTTTATTTTTATTTTTATTATTATT-TTTTATATA
14510511 TGTATATATATTTT-TTCTTT-TCTTTTATTATTATTTTTTAT
1 T-T-T-T-TATTTTATT-TTTAT-TTTTATTATTATTTTTTAT
14510552 CTTAGGTATT
Statistics
Matches: 72, Mismatches: 1, Indels: 14
0.83 0.01 0.16
Matches are distributed among these distances:
39 20 0.28
40 10 0.14
41 8 0.11
42 1 0.01
43 1 0.01
44 10 0.14
45 22 0.31
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (40 bp):
TTTTTATTTTATTTTTATTTTTATTATTATTTTTTATATA
Found at i:14510539 original size:39 final size:39
Alignment explanation
Indices: 14510440--14510547 Score: 119
Period size: 39 Copynumber: 2.7 Consensus size: 39
14510430 TTTTTCATTT
* * * *
14510440 TATTTTTATTTTTATT-TTTTGTATTTTATATTTTTATTT
1 TATTTTTATTTTTATTATTAT-TATTTTATATATGTATTA
14510479 TATTTTTATTTTTATTATTATTATTTTATATATGTATATA
1 TATTTTTATTTTTATTATTATTATTTTATATATGTAT-TA
* *
14510519 TATTTTTTCTTTTCTTTTATTATTATTTT
1 TA-TTTTTATTTT-TATTATTATTATTTT
14510548 TTATCTTAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 30 0.51
40 6 0.10
41 9 0.15
42 14 0.24
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (39 bp):
TATTTTTATTTTTATTATTATTATTTTATATATGTATTA
Found at i:14510678 original size:21 final size:21
Alignment explanation
Indices: 14510621--14510698 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
14510611 TCTTTTTTTC
*
14510621 CTGTTAATATTTATGTAA-TTAT
1 CTGTTAAT-TTT-TTTAATTTAT
14510643 CTGTT-ATTTAATTTTAATTTAT
1 CTGTTAATTT--TTTTAATTTAT
*
14510665 CTGTTAATTTTTTTGATTTAT
1 CTGTTAATTTTTTTAATTTAT
*
14510686 CTGATTTATTTTT
1 CTG-TTAATTTTT
14510699 GTTTTATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.04
21 19 0.40
22 23 0.48
23 4 0.08
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (21 bp):
CTGTTAATTTTTTTAATTTAT
Found at i:14511597 original size:5 final size:5
Alignment explanation
Indices: 14511580--14511655 Score: 66
Period size: 5 Copynumber: 14.4 Consensus size: 5
14511570 TTAATATTCT
* *
14511580 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTT- TTTTA TTTT-
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
14511626 TATTTA TTTTCA CTTTTA TTTTA TTTTA TT
1 T-TTTA TTTT-A -TTTTA TTTTA TTTTA TT
14511656 ATTCTATTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.07
5 34 0.57
6 18 0.30
7 4 0.07
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:14511600 original size:6 final size:6
Alignment explanation
Indices: 14511579--14511665 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
14511569 TTTAATATTC
* * *
14511579 TTTTTA TCTTTA -TTTTA TTTTTA TTTTTG TTTTACTT TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT--TA TTTTTA TTTTTA
* *
14511628 --TTTA TTTTCA CTTTTA -TTTTA -TTTTA TTATTCTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT-TT-TA TTTT
14511666 CTTTAAATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
4 4 0.06
5 14 0.22
6 34 0.52
7 4 0.06
8 9 0.14
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:14511601 original size:17 final size:17
Alignment explanation
Indices: 14511579--14511652 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
14511569 TTTAATATTC
14511579 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
14511596 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
*
14511613 CTTTTTTTATTTTTA-TTTA
1 ---TTTTTATCTTTATTTTA
*
14511632 TTTTCA-CTTTTATTTTA
1 TTTTTATC-TTTATTTTA
14511649 TTTT
1 TTTT
14511653 ATTATTCTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
16 9 0.19
17 23 0.49
19 4 0.09
20 11 0.23
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:14511655 original size:26 final size:27
Alignment explanation
Indices: 14511586--14511652 Score: 93
Period size: 26 Copynumber: 2.5 Consensus size: 27
14511576 TTCTTTTTAT
* *
14511586 CTTTATTTTATTTTTATTTTTGTTTTA
1 CTTTATTTTATTTTTATTTATGTTTCA
14511613 CTTT-TTTTATTTTTATTTAT-TTTCA
1 CTTTATTTTATTTTTATTTATGTTTCA
14511638 CTTTTATTTTATTTT
1 C-TTTATTTTATTTT
14511653 ATTATTCTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 5 0.14
26 18 0.50
27 13 0.36
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (27 bp):
CTTTATTTTATTTTTATTTATGTTTCA
Found at i:14511664 original size:30 final size:28
Alignment explanation
Indices: 14511586--14511666 Score: 91
Period size: 24 Copynumber: 3.0 Consensus size: 28
14511576 TTCTTTTTAT
*
14511586 CTTTATTTTATTTTTATT-TTTGTTTT-A
1 CTTTATTTTA-TTTTATTATTTATTTTCA
14511613 CTTT-TTTTA-TTT-TTATTTATTTTCA
1 CTTTATTTTATTTTATTATTTATTTTCA
14511638 CTTTTATTTTATTTTATTATTCTATTTTC
1 C-TTTATTTTATTTTATTATT-TATTTTC
14511667 TTTAAATAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.22
25 2 0.04
26 8 0.17
27 9 0.20
28 3 0.07
29 5 0.11
30 7 0.15
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.75
Consensus pattern (28 bp):
CTTTATTTTATTTTATTATTTATTTTCA
Found at i:14511829 original size:59 final size:58
Alignment explanation
Indices: 14511676--14511834 Score: 180
Period size: 60 Copynumber: 2.7 Consensus size: 58
14511666 CTTTAAATAA
*
14511676 AAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTTAAAATAAAACTTT
1 AAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAACTTT
* * *
14511734 AAAAAAAAAGGTTTTT-GAGGAAAAGTTGAAAGTATCAACTTTT-CTTGAAAATCAAAGTTT
1 AAAAAAATA--TTTTTGGA-GAAAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAAACTTT
* * *
14511794 CCAAAAAATATTTTTGGAAAAAAGTTAAAAGTATCAATTTT
1 -AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTT
14511835 TTCTGCACAA
Statistics
Matches: 86, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
58 13 0.15
59 22 0.26
60 40 0.47
61 11 0.13
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAACTTT
Found at i:14515396 original size:15 final size:16
Alignment explanation
Indices: 14515371--14515400 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14515361 AAAGGTCTCA
14515371 AAAATGAAAAAAAAAG
1 AAAATGAAAAAAAAAG
14515387 AAAA-GAAAAAAAAA
1 AAAATGAAAAAAAAA
14515401 ATAAATGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAATGAAAAAAAAAG
Found at i:14515766 original size:28 final size:27
Alignment explanation
Indices: 14515731--14515814 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 27
14515721 ATCAATAATG
14515731 GATGAAAAATGAGAAAAAAGAAAAAAAT
1 GATGAAAAATGAGAAAAAA-AAAAAAAT
**
14515759 GATGAAAAAAAAGAAAAAAAAAGAAAGAAT
1 GATGAAAAATGAG-AAAAAAAA-AAA-AAT
14515789 GAATGAAAAAATGA-AAAAAAAAAAAA
1 G-ATG-AAAAATGAGAAAAAAAAAAAA
14515815 GAAAACCTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
28 14 0.30
29 12 0.26
30 12 0.26
31 3 0.06
32 6 0.13
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.08
Consensus pattern (27 bp):
GATGAAAAATGAGAAAAAAAAAAAAAT
Found at i:14515768 original size:21 final size:21
Alignment explanation
Indices: 14515739--14515778 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14515729 TGGATGAAAA
*
14515739 ATGAGAAAAAAGAAAAAAATG
1 ATGAAAAAAAAGAAAAAAATG
14515760 ATGAAAAAAAAGAAAAAAA
1 ATGAAAAAAAAGAAAAAAA
14515779 AAGAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (21 bp):
ATGAAAAAAAAGAAAAAAATG
Found at i:14515816 original size:30 final size:29
Alignment explanation
Indices: 14515731--14515817 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
14515721 ATCAATAATG
*
14515731 GATG-AAAAATGAGAAAAAAGAAAAA-AAT
1 GATGAAAAAATGA-AAAAAAAAAAAAGAAT
* *
14515759 GATGAAAAAAAAGAAAAAAAAAGAAAGAAT
1 GATG-AAAAAATGAAAAAAAAAAAAAGAAT
14515789 GAATGAAAAAATGAAAAAAAAAAAAAGAA
1 G-ATGAAAAAATGAAAAAAAAAAAAAGAA
14515818 AACCTGAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 4 0.08
29 10 0.20
30 33 0.66
31 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (29 bp):
GATGAAAAAATGAAAAAAAAAAAAAGAAT
Found at i:14517268 original size:84 final size:83
Alignment explanation
Indices: 14517051--14517421 Score: 505
Period size: 84 Copynumber: 4.4 Consensus size: 83
14517041 ATGATTGTCA
* * *
14517051 AGGAGTAATTTATTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAACAATTTAC-TTTCCAAAAG
1 AGGAGCAATTTATTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTC-AAAG
14517115 TCGTGGTGCCTCTGTTTAG
65 TCGTGGTGCCTCTGTTTAG
* *
14517134 AGGAG-AATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGGAATTTACTTTTTCAAAGT
1 AGGAGCAATTTATTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGT
14517198 CGTGGTGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTTAG
*
14517216 AAGAGCAATTTATTTTCCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG
1 AGGAGCAATTTATTTT-CCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG
14517281 TCGTGGTGCCTCTGTTTAG
65 TCGTGGTGCCTCTGTTTAG
* *
14517300 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTTCAAA
1 AGGAGCAATTTA-TTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTTTCAAA
* *** * *
14517364 GTTGTTAAGCTTCTGATTAG
64 GTCGTGGTGCCTCTGTTTAG
* * * *
14517384 AGAAGCCATTTATGTTTCTCAAAGTCATTGAGCCTCTG
1 AGGAGCAATTTAT-TTTC-CAAAGTCATGGTGCCTCTG
14517422 CCTAAAGGAG
Statistics
Matches: 259, Mismatches: 21, Indels: 13
0.88 0.07 0.04
Matches are distributed among these distances:
82 72 0.28
83 55 0.21
84 112 0.43
85 4 0.02
86 16 0.06
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (83 bp):
AGGAGCAATTTATTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGT
CGTGGTGCCTCTGTTTAG
Found at i:14517385 original size:43 final size:41
Alignment explanation
Indices: 14517051--14517357 Score: 463
Period size: 42 Copynumber: 7.4 Consensus size: 41
14517041 ATGATTGTCA
* * *
14517051 AGGAGTAATTTATTTTCCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
14517092 AGGAACAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
14517134 AGGAG-AATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
14517174 AGGAGGAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
14517216 AAGAGCAATTTATTTTCCCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
14517258 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
14517300 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
14517341 AGGAGCAATTTATTTTT
1 AGGAGCAATTTATTTTT
14517358 TTCAAAGTTG
Statistics
Matches: 245, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
40 28 0.11
41 80 0.33
42 133 0.54
43 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:14517636 original size:6 final size:6
Alignment explanation
Indices: 14517625--14517688 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
14517615 TTTTTCTTCA
* *
14517625 TTTTAT TTTTAT TTTTATTT TTTGTAT TTTACAT TTGTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTA--T TTT-TAT TTT-TAT TTTTAT TTTTAT TTTTAT
*
14517676 TTTTAT TATTAT T
1 TTTTAT TTTTAT T
14517689 ATTTTATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 4 0.08
6 30 0.62
7 8 0.17
8 4 0.08
9 2 0.04
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:14517692 original size:39 final size:39
Alignment explanation
Indices: 14517624--14517737 Score: 124
Period size: 39 Copynumber: 2.8 Consensus size: 39
14517614 TTTTTTCTTC
* *
14517624 ATTTTATTTTTATTTTTATT-TTTTGTATTTTACATTTGT
1 ATTTTATTTTTATTTTTATTATTAT-TATTTTACATATGT
*
14517663 ATTTTATTTTTATTTTTATTATTATTATTTTATATATGT
1 ATTTTATTTTTATTTTTATTATTATTATTTTACATATGT
*
14517702 ATATATATATATTTTTTCTTTTATTATTATT-TTTTA
1 AT-T-T-TAT-TTTTAT-TTTTATTATTATTATTTTA
14517738 TCTTAGGTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
39 34 0.52
40 4 0.06
41 1 0.02
42 3 0.05
43 10 0.15
44 13 0.20
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.72
Consensus pattern (39 bp):
ATTTTATTTTTATTTTTATTATTATTATTTTACATATGT
Found at i:14517862 original size:19 final size:21
Alignment explanation
Indices: 14517820--14517867 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
14517810 TATTTATGTA
*
14517820 TTATCTGTTATTTAATTTTAAT
1 TTATCTGTTAATT-ATTTTAAT
14517842 TTATCTGTTAATT-TTTT-AT
1 TTATCTGTTAATTATTTTAAT
14517861 TTATCTG
1 TTATCTG
14517868 ATTTATTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 4 0.16
22 12 0.48
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (21 bp):
TTATCTGTTAATTATTTTAAT
Found at i:14517875 original size:20 final size:20
Alignment explanation
Indices: 14517829--14517876 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
14517819 ATTATCTGTT
*
14517829 ATTTAATTTTAATTTATCTG
1 ATTTATTTTTAATTTATCTG
* *
14517849 -TTAATTTTTTATTTATCTG
1 ATTTATTTTTAATTTATCTG
14517868 ATTTATTTT
1 ATTTATTTT
14517877 CGTTTGATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (20 bp):
ATTTATTTTTAATTTATCTG
Found at i:14518766 original size:18 final size:18
Alignment explanation
Indices: 14518743--14518857 Score: 66
Period size: 18 Copynumber: 6.6 Consensus size: 18
14518733 TTTTTTTTAA
14518743 TTTATTTATTTATTTATT
1 TTTATTTATTTATTTATT
* **
14518761 TTTATTTA-TTAGATTAAG
1 TTTATTTATTTA-TTTATT
* *
14518779 TTTATTTA-ATA-TTCTT
1 TTTATTTATTTATTTATT
*
14518795 TTTA--TCTTTATTTTATT
1 TTTATTTATTTA-TTTATT
*
14518812 TTTATTT-TTGT-TTTACT
1 TTTATTTATT-TATTTATT
*
14518829 TTTATTT-TTATTTTTATT
1 TTTATTTATT-TATTTATT
14518847 TTTATTTATTT
1 TTTATTTATTT
14518858 TCACTTTTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
14 1 0.01
15 2 0.03
16 6 0.08
17 26 0.35
18 36 0.48
19 4 0.05
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTATTTATTTATT
Found at i:14518767 original size:22 final size:23
Alignment explanation
Indices: 14518732--14518888 Score: 92
Period size: 23 Copynumber: 6.7 Consensus size: 23
14518722 CCGCTCCAGG
14518732 TTTT-TTTTTAATTTATT-TATTTA
1 TTTTATTTTT-ATTT-TTATATTTA
* *
14518755 -TTTATTTTTATTTATTAGATTAA
1 TTTTATTTTTATTT-TTATATTTA
* * *
14518778 GTTTATTTAATATTCTTTTTATCTTTA
1 TTTTA-TT--T-TTATTTTTATATTTA
*
14518805 TTTTATTTTTATTTTTGT-TTTA
1 TTTTATTTTTATTTTTATATTTA
*
14518827 CTTTTATTTTTATTTTTATTTTTA
1 -TTTTATTTTTATTTTTATATTTA
* * *
14518851 -TTTATTTTCACTTTTAT-TTTG
1 TTTTATTTTTATTTTTATATTTA
14518872 TTTTATTATTCTATTTT
1 TTTTATT-TT-TATTTT
14518889 CTTTAAATAA
Statistics
Matches: 107, Mismatches: 15, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
21 3 0.03
22 35 0.33
23 36 0.34
24 13 0.12
25 2 0.02
26 2 0.02
27 11 0.10
28 5 0.05
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.74
Consensus pattern (23 bp):
TTTTATTTTTATTTTTATATTTA
Found at i:14518810 original size:11 final size:11
Alignment explanation
Indices: 14518794--14518888 Score: 88
Period size: 12 Copynumber: 8.4 Consensus size: 11
14518784 TTAATATTCT
*
14518794 TTTTATCTTTA
1 TTTTATTTTTA
14518805 TTTTATTTTTA
1 TTTTATTTTTA
14518816 TTTT-TGTTTTA
1 TTTTAT-TTTTA
14518827 CTTTTATTTTTA
1 -TTTTATTTTTA
14518839 TTTTTATTTTTA
1 -TTTTATTTTTA
*
14518851 -TTTATTTTCA
1 TTTTATTTTTA
*
14518861 CTTTTA-TTTTG
1 -TTTTATTTTTA
14518872 TTTTATTATTCTA
1 TTTTATT-TT-TA
14518885 TTTT
1 TTTT
14518889 CTTTAAATAA
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
10 15 0.21
11 23 0.33
12 26 0.37
13 6 0.09
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:14518814 original size:6 final size:6
Alignment explanation
Indices: 14518793--14518870 Score: 83
Period size: 6 Copynumber: 13.7 Consensus size: 6
14518783 TTTAATATTC
* * *
14518793 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
14518839 TTTTTA TTTTTA --TTTA TTTTCA CTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
14518871 GTTTTATTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
4 4 0.07
5 8 0.14
6 47 0.80
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:14518815 original size:17 final size:16
Alignment explanation
Indices: 14518779--14518888 Score: 87
Period size: 17 Copynumber: 6.5 Consensus size: 16
14518769 TTAGATTAAG
* * *
14518779 TTTATTTAATATTCTT
1 TTTATTTTATTTTATT
14518795 TTTATCTTTATTTTATT
1 TTTAT-TTTATTTTATT
* *
14518812 TTTATTTTTGTTTTACT
1 TTTA-TTTTATTTTATT
14518829 TTTATTTTTATTTTTATT
1 TTTA-TTTTA-TTTTATT
*
14518847 TTTA-TTTATTTTCACT
1 TTTATTTTATTTT-ATT
*
14518863 TTTATTTTGTTTTATT
1 TTTATTTTATTTTATT
14518879 ATTCTATTTT
1 -TT-TATTTT
14518889 CTTTAAATAA
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
15 4 0.05
16 17 0.22
17 39 0.51
18 17 0.22
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTATTTTATTTTATT
Found at i:14518832 original size:34 final size:32
Alignment explanation
Indices: 14518794--14518888 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 32
14518784 TTAATATTCT
*
14518794 TTTTATCTTTATTTTATTTTTATTTTTGTTTTAC
1 TTTTAT-TTTATTTTATTTTTATTTTT-TTTCAC
*
14518828 TTTTATTTTTATTTTTATTTTTATTTATTTTCAC
1 TTTTA-TTTTA-TTTTATTTTTATTTTTTTTCAC
*
14518862 TTTTATTTTGTTTTATTATTCTATTTT
1 TTTTATTTTATTTTATT-TT-TATTTT
14518889 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
32 7 0.13
33 6 0.11
34 24 0.45
35 16 0.30
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (32 bp):
TTTTATTTTATTTTATTTTTATTTTTTTTCAC
Found at i:14518956 original size:59 final size:58
Alignment explanation
Indices: 14518893--14519291 Score: 417
Period size: 59 Copynumber: 6.9 Consensus size: 58
14518883 TATTTTCTTT
* * ** * * * *
14518893 AAATAAAAATAAAAAAAAATATTTGTGGGGAAAAGTTGAAAGTATTAGTTTTTCCTTAA
1 AAATAAAATTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCA-ATTTTCCTTAA
*
14518952 AAATAAATTTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAATAAA-ATTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
14519011 AAATCAAAGTTTTCAAAAAATA--TTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAAT-AAA--ATTCAAAAAAAAGGTTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
14519070 AAATAAATTTC-AAAAAAA-G-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTTA
1 AAATAAAATTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
14519125 AAATAAAACTTCAAAAAAAAGGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTTA
1 AAATAAAA-TTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
** * * *
14519184 AAATAAAATT---TTAAAAGGTTTTTGAGGAAAAGTTGAAATTATCAACTTTCCTTGA
1 AAATAAAATTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
14519239 AAATCAAAGTTTCCAAAAAATA--TTTTTG-GGAAAAAGTTGAAAGTATCAATTTT
1 AAAT-AAA-ATT-CAAAAAAAAGGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
14519292 TCCTGTACAA
Statistics
Matches: 297, Mismatches: 26, Indels: 34
0.83 0.07 0.10
Matches are distributed among these distances:
55 89 0.30
56 11 0.04
57 9 0.03
58 9 0.03
59 129 0.43
60 35 0.12
61 15 0.05
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (58 bp):
AAATAAAATTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:14519115 original size:114 final size:115
Alignment explanation
Indices: 14518906--14519291 Score: 498
Period size: 114 Copynumber: 3.3 Consensus size: 115
14518896 TAAAAATAAA
* * * *
14518906 AAAAAATATTTGTGGGGAAAAGTTGAAAGTATTAGTTTTTCCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCA-ATTTTCCTTAAAAATAAA-TTTC-AAAAAA
14518971 AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
63 A-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
14519025 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAAG-
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAAGT
* **
14519089 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAAT-AAA-ACTTC
66 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
* * * *
14519137 AAAAAAAAGGTTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAATAAAATTT--TAAA
1 AAAAAATA--TTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTCAAAAA
* * * * *
14519199 AGGTTTTTGAGGAAAAGTTGAAATTATCAACTTTCCTTGAAAATCAAAGTTTCC
62 AAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
14519253 AAAAAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTT
14519292 TCCTGTACAA
Statistics
Matches: 238, Mismatches: 20, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
112 10 0.04
113 10 0.04
114 140 0.59
115 10 0.04
116 16 0.07
117 4 0.02
118 17 0.07
119 31 0.13
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (115 bp):
AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAAGT
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
Found at i:14519276 original size:173 final size:171
Alignment explanation
Indices: 14518906--14519291 Score: 519
Period size: 173 Copynumber: 2.2 Consensus size: 171
14518896 TAAAAATAAA
* * * **
14518906 AAAAAATATTTGTGGGGAAAAGTTGAAAGTATTAGTTTTTCCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAATATTT-TTGGGAAAAGTTGAAAGTATCA-ATTTTCCTTAAAAATAAAACTTCAAAAAAA
* * *
14518971 AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTCAAAAAATATTT
64 AGGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTT--AAAAAGATTT
*
14519036 TTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
127 TTGGAGAAAAGTTGAAAGTATCAACTTTCCTTAAAAATAAATTTC
* *
14519081 AAAAAA-AGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAATAAAACTTCAAAAAAAA
1 AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAACTTCAAAAAAAA
* *
14519145 GGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAAT-AAAATTTT-AAAAGGTTTTT-
65 GGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTAAAAAGATTTTTG
* *
14519207 GAGGAAAAGTTGAAATTATCAACTTTCCTTGAAAATCAAAGTTTCC
130 GA-GAAAAGTTGAAAGTATCAACTTTCCTTAAAAAT-AAA-TTT-C
14519253 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTT
14519292 TCCTGTACAA
Statistics
Matches: 188, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
168 2 0.01
169 39 0.21
170 3 0.02
171 3 0.02
172 16 0.09
173 98 0.52
174 21 0.11
175 6 0.03
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (171 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAACTTCAAAAAAAAG
GTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTTAAAAAGATTTTTGG
AGAAAAGTTGAAAGTATCAACTTTCCTTAAAAATAAATTTC
Found at i:14524007 original size:15 final size:14
Alignment explanation
Indices: 14523987--14524016 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
14523977 CAAAAGTATC
14523987 TTATTTATTGTTTAT
1 TTATTTATT-TTTAT
14524002 TTATTTATTTTTAT
1 TTATTTATTTTTAT
14524016 T
1 T
14524017 GTTTAGTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
TTATTTATTTTTAT
Found at i:14524053 original size:15 final size:15
Alignment explanation
Indices: 14524035--14524070 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
14524025 AGTAAAAGTC
*
14524035 AAAAAGTAAAAAGAA
1 AAAAAGAAAAAAGAA
14524050 AAAAAGAAAAAAGAA
1 AAAAAGAAAAAAGAA
14524065 AGAAAA
1 A-AAAA
14524071 TCAAGAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAAAAGAA
Found at i:14526946 original size:30 final size:29
Alignment explanation
Indices: 14526908--14526970 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
14526898 CGATTTGGCC
* *
14526908 GTTCGATCATGTTCAACAATTCGGTTGTG
1 GTTCGATCAGGTTCAACAATTCGGTTCTG
* **
14526937 GTTCGGATCAGGTTCAGCGGTTCGGTTCTG
1 GTTC-GATCAGGTTCAACAATTCGGTTCTG
14526967 GTTC
1 GTTC
14526971 AGTTAGACCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.14, C:0.19, G:0.30, T:0.37
Consensus pattern (29 bp):
GTTCGATCAGGTTCAACAATTCGGTTCTG
Found at i:14526958 original size:19 final size:19
Alignment explanation
Indices: 14526936--14526972 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14526926 ATTCGGTTGT
14526936 GGTTCGGATCAGGTTCAGC
1 GGTTCGGATCAGGTTCAGC
* *
14526955 GGTTCGGTTCTGGTTCAG
1 GGTTCGGATCAGGTTCAG
14526973 TTAGACCGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.19, G:0.38, T:0.32
Consensus pattern (19 bp):
GGTTCGGATCAGGTTCAGC
Found at i:14527115 original size:27 final size:27
Alignment explanation
Indices: 14527069--14527136 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
14527059 TGGGTGCTTA
* *
14527069 AAACGACATCGTTTAGGGCCTTTATTG
1 AAACGACCTCGTTTAGGGCCTCTATTG
*
14527096 AAATGACCTCGTTTAGGGCCTCTATTG
1 AAACGACCTCGTTTAGGGCCTCTATTG
*
14527123 AAACGACGTCGTTT
1 AAACGACCTCGTTT
14527137 TGGTTTTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (27 bp):
AAACGACCTCGTTTAGGGCCTCTATTG
Found at i:14527784 original size:17 final size:17
Alignment explanation
Indices: 14527762--14527834 Score: 67
Period size: 17 Copynumber: 4.3 Consensus size: 17
14527752 CTCTTTTATG
* * *
14527762 TTTTTTTTTATTATCTT
1 TTTTTTTGTATTATATA
14527779 TTTTTTTGTATTATATA
1 TTTTTTTGTATTATATA
* *
14527796 TTTTTTTGGTATTTTGTA
1 TTTTTTT-GTATTATATA
* *
14527814 -TTTTTTGTATTCTGTA
1 TTTTTTTGTATTATATA
14527830 TTTTT
1 TTTTT
14527835 GTTTAATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
16 9 0.19
17 31 0.65
18 8 0.17
ACGTcount: A:0.14, C:0.03, G:0.08, T:0.75
Consensus pattern (17 bp):
TTTTTTTGTATTATATA
Found at i:14527799 original size:18 final size:18
Alignment explanation
Indices: 14527762--14527819 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
14527752 CTCTTTTATG
*
14527762 TTTTTTTT-TATTATCT-
1 TTTTTTTTGTATTATATA
14527778 TTTTTTTTGTATTATATA
1 TTTTTTTTGTATTATATA
* * *
14527796 TTTTTTTGGTATTTTGTA
1 TTTTTTTTGTATTATATA
14527814 TTTTTT
1 TTTTTT
14527820 GTATTCTGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
16 8 0.22
17 7 0.19
18 21 0.58
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.78
Consensus pattern (18 bp):
TTTTTTTTGTATTATATA
Found at i:14527817 original size:16 final size:16
Alignment explanation
Indices: 14527798--14527835 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
14527788 ATTATATATT
*
14527798 TTTTTGGTATTTTGTA
1 TTTTTGGTATTCTGTA
*
14527814 TTTTTTGTATTCTGTA
1 TTTTTGGTATTCTGTA
14527830 TTTTTG
1 TTTTTG
14527836 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.03, G:0.16, T:0.71
Consensus pattern (16 bp):
TTTTTGGTATTCTGTA
Found at i:14527844 original size:34 final size:32
Alignment explanation
Indices: 14527762--14527848 Score: 77
Period size: 34 Copynumber: 2.6 Consensus size: 32
14527752 CTCTTTTATG
* *
14527762 TTTTTTTTTATTATCTTTTTTTTTGTATTATATA
1 TTTTTTTGTATT-T-TTATTTTTTGTATTATATA
* *
14527796 TTTTTTTGGTATTTTGTATTTTTTGTATTCTGTA
1 TTTTTTT-GTATTTT-TATTTTTTGTATTATATA
14527830 TTTTTGTT-TAATTTTTATT
1 TTTTT-TTGT-ATTTTTATT
14527849 ATTATATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
33 6 0.13
34 33 0.73
35 6 0.13
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (32 bp):
TTTTTTTGTATTTTTATTTTTTGTATTATATA
Found at i:14528192 original size:50 final size:50
Alignment explanation
Indices: 14528123--14528621 Score: 450
Period size: 50 Copynumber: 10.1 Consensus size: 50
14528113 TTTAAAATCT
* * * * *
14528123 AAAAAAGACTCCTCTCAGCAGAGGTTCAATAACTTTAAAAATTTTATCTTG
1 AAAAAAG-CTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
14528174 AAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
1 AAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * ** * *
14528224 -GAGAGGGATCATTTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTTG
1 AAAAAAGCTTC-TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
** * *
14528274 AAAATGGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATCTCA-CTTG
1 AAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
14528323 -GAAAAGTTTCTCTCAACAGAGGCTCAACAACTTTAAAAA--TCATCTTG
1 AAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * * * * *
14528370 -AAAAAGACTCCTCTTAACAGAGGTTTAACAA-TTTTAAAATCTCATTTTG
1 AAAAAAG-CTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
** * * *
14528419 AAAAGGGC-TCATGTTAGCAGAGGCTCAACAACTTTAAAAATCTAATCTTG
1 AAAAAAGCTTC-TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * * *
14528469 -AAAAAGC-TCATTTTAGTAAAGGTTCAACAACTTTAAAAATTCTCATCTTG
1 AAAAAAGCTTC-TCTCAGCAGAGGCTCAACAACTTTAAAAA-TCTCATCTTG
* * * *
14528519 AAAAAGGTTTCTCTCAGCAGAGGCTCAACAACTTT-AAAATTTTAT-TTG
1 AAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* *
14528567 AAAAAAGC-TCATCTCAGC-GAAGGCTCAACAACTTTAAAAATTTTATCTTG
1 AAAAAAGCTTC-TCTCAGCAG-AGGCTCAACAACTTTAAAAATCTCATCTTG
14528617 AAAAA
1 AAAAA
14528622 GCTCTAAATC
Statistics
Matches: 368, Mismatches: 64, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
46 3 0.01
47 19 0.05
48 83 0.23
49 80 0.22
50 146 0.40
51 35 0.10
52 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (50 bp):
AAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
Found at i:14532900 original size:14 final size:14
Alignment explanation
Indices: 14532881--14532919 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
14532871 ATGGAATGAT
14532881 AAGAAAATGATAGA
1 AAGAAAATGATAGA
14532895 AAGAAAA-GAATAGA
1 AAGAAAATG-ATAGA
14532909 AAGCAAAATGA
1 AAG-AAAATGA
14532920 AGATGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.05
14 15 0.68
15 5 0.23
16 1 0.05
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (14 bp):
AAGAAAATGATAGA
Found at i:14540652 original size:18 final size:18
Alignment explanation
Indices: 14540629--14540663 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14540619 TTTCTCATTT
14540629 TTTATTACCTAATTTTAA
1 TTTATTACCTAATTTTAA
**
14540647 TTTATTAGTTAATTTTA
1 TTTATTACCTAATTTTA
14540664 TTATTATTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTATTACCTAATTTTAA
Found at i:14540672 original size:19 final size:18
Alignment explanation
Indices: 14540638--14540675 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14540628 TTTTATTACC
14540638 TAATTTTAATTTATTAGT
1 TAATTTTAATTTATTAGT
*
14540656 TAATTTTATTATTATTAGT
1 TAATTTTAAT-TTATTAGT
14540675 T
1 T
14540676 TATAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TAATTTTAATTTATTAGT
Found at i:14540844 original size:18 final size:18
Alignment explanation
Indices: 14540823--14540859 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14540813 AAAATTTTCT
14540823 TTTTTTCTTATTTTTTTA
1 TTTTTTCTTATTTTTTTA
*
14540841 TTTTTTTTTATTTTTTTA
1 TTTTTTCTTATTTTTTTA
14540859 T
1 T
14540860 AAGATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTCTTATTTTTTTA
Found at i:14541978 original size:29 final size:29
Alignment explanation
Indices: 14541926--14541987 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
14541916 CAATGAGATG
** *
14541926 GGTGATCAGAGTTGTGAGGGGTAGGGTAT
1 GGTGATCAGAGGGGTGAGGGGTAGGGCAT
14541955 GGTGATCAGAGGGGTG-GGGAGTAGGGCAT
1 GGTGATCAGAGGGGTGAGGG-GTAGGGCAT
14541984 GGTG
1 GGTG
14541988 GTAGTGGTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.19, C:0.05, G:0.53, T:0.23
Consensus pattern (29 bp):
GGTGATCAGAGGGGTGAGGGGTAGGGCAT
Found at i:14542045 original size:17 final size:17
Alignment explanation
Indices: 14542023--14542087 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
14542013 TGTTATCCCC
* *
14542023 TATTTTTTATTTTTTTT
1 TATTTTGTATTTTTTTG
14542040 TATTTTGTATTTTTTTGG
1 TATTTTGTATTTTTTT-G
*
14542058 TATTTTATA-TTTTTTG
1 TATTTTGTATTTTTTTG
*
14542074 TATTCTGTATTTTT
1 TATTTTGTATTTTT
14542088 GTTTAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 8 0.20
17 25 0.61
18 8 0.20
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.77
Consensus pattern (17 bp):
TATTTTGTATTTTTTTG
Found at i:14542101 original size:17 final size:15
Alignment explanation
Indices: 14542026--14542101 Score: 62
Period size: 16 Copynumber: 4.5 Consensus size: 15
14542016 TATCCCCTAT
14542026 TTTTTATTTTTTTTTA
1 TTTTTA-TTTTTTTTA
14542042 TTTTGTATTTTTTTGGTA
1 TTTT-TATTTTTTT--TA
*
14542060 TTTTATATTTTTTGTA
1 TTTT-TATTTTTTTTA
*
14542076 TTCTGTATTTTTGTTTAA
1 TT-TTTATTTTT-TTT-A
14542094 TTTTTATT
1 TTTTTATT
14542102 ATTGTATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
16 22 0.45
17 10 0.20
18 17 0.35
ACGTcount: A:0.14, C:0.01, G:0.08, T:0.76
Consensus pattern (15 bp):
TTTTTATTTTTTTTA
Found at i:14544287 original size:37 final size:36
Alignment explanation
Indices: 14544230--14544300 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
14544220 GTTGCTTTCA
*
14544230 AATTATGATATTTTACTTTGTAACATTTTAAATGCC
1 AATTATGATATTTTACTTTGTAACAATTTAAATGCC
* *
14544266 AATT-TGATACTTTGTATTTTGTAATAATTTAAATG
1 AATTATGATA-TTT-TACTTTGTAACAATTTAAATG
14544301 TTGACTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 5 0.17
36 7 0.23
37 18 0.60
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (36 bp):
AATTATGATATTTTACTTTGTAACAATTTAAATGCC
Found at i:14546795 original size:34 final size:34
Alignment explanation
Indices: 14546757--14546832 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
14546747 TTATAAACTT
* * *
14546757 TCAAAAATCTATCTTTGAAAAGTTATAACACATC
1 TCAAAAATCTATCTTTAAAAAATCATAACACATC
* * *
14546791 TCAAAAATGTATTTTTAAAAAATCATAACACTTC
1 TCAAAAATCTATCTTTAAAAAATCATAACACATC
*
14546825 TCGAAAAT
1 TCAAAAAT
14546833 GTATTTTCGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.33
Consensus pattern (34 bp):
TCAAAAATCTATCTTTAAAAAATCATAACACATC
Found at i:14549884 original size:18 final size:17
Alignment explanation
Indices: 14549839--14549886 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
14549829 AATTTCATCT
*
14549839 TATGATTTAAAATATAA
1 TATGATATAAAATATAA
*
14549856 TATAATAATAAAATATGAA
1 TATGAT-ATAAAATAT-AA
*
14549875 TGTGATATAAAA
1 TATGATATAAAA
14549887 AATTATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
19 6 0.24
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (17 bp):
TATGATATAAAATATAA
Found at i:14549951 original size:21 final size:20
Alignment explanation
Indices: 14549885--14549952 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 20
14549875 TGTGATATAA
*
14549885 AAAATTATATAAAA-GTAAT
1 AAAATTATATAAAATTTAAT
*
14549904 AAAATT-T-TAAATTTTAAT
1 AAAATTATATAAAATTTAAT
14549922 AATAATTATATATAAATTTAAT
1 AA-AATTATATA-AAATTTAAT
14549944 AAAATTATA
1 AAAATTATA
14549953 AAATATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 4 0.10
18 7 0.17
19 10 0.24
20 1 0.02
21 9 0.22
22 10 0.24
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (20 bp):
AAAATTATATAAAATTTAAT
Found at i:14553573 original size:3 final size:3
Alignment explanation
Indices: 14553565--14553696 Score: 91
Period size: 3 Copynumber: 45.7 Consensus size: 3
14553555 ATTTATTTAT
* * *
14553565 TTA TTA TTA TTA TTA TTA TT- TTA TTA TTT TTA TTA TCA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
14553612 TT- TTT TTA TT- TTT TTA TTA TTG TT- TT- TTC GT- TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
14553653 TTT TTA TTA TTTA CTA TTA -TA TTA TTA TT- TATA TTA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
14553697 TTTTTTTGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
2 14 0.13
3 83 0.80
4 7 0.07
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:14554474 original size:15 final size:16
Alignment explanation
Indices: 14554454--14554561 Score: 71
Period size: 18 Copynumber: 6.6 Consensus size: 16
14554444 ACCTTAAGGT
14554454 TTTTATTTTATT-TTA
1 TTTTATTTTATTATTA
14554469 TTTTATTTT-TTATTA
1 TTTTATTTTATTATTA
14554484 TTATTATTGTTATTATTA
1 TT-TTATT-TTATTATTA
** **
14554502 TTTCTAAATTAGAATTA
1 TTT-TATTTTATTATTA
* *
14554519 TTTGGTATTTCT-TAATTT
1 TTT--TATTT-TATTATTA
14554537 TTTTATTTTTATT-TTA
1 TTTTA-TTTTATTATTA
14554553 TTTTATTTT
1 TTTTATTTT
14554562 TTAATAATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
14 2 0.03
15 18 0.25
16 15 0.21
17 17 0.23
18 20 0.27
19 1 0.01
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (16 bp):
TTTTATTTTATTATTA
Found at i:14554486 original size:3 final size:3
Alignment explanation
Indices: 14554456--14554503 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
14554446 CTTAAGGTTT
*
14554456 TTA TT- TTA TT- TTA TT- TTA TT- TT- TTA TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14554499 TTA TT
1 TTA TT
14554504 TCTAAATTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 10 0.26
3 29 0.74
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (3 bp):
TTA
Found at i:14554489 original size:6 final size:5
Alignment explanation
Indices: 14554454--14554504 Score: 59
Period size: 5 Copynumber: 9.6 Consensus size: 5
14554444 ACCTTAAGGT
14554454 TTTTA TTTTA TTTTA TTTTA TTTT- TTATTA TTATTA TTGTTA TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TT-TTA TT-TTA TT-TTA
14554502 TTT
1 TTT
14554505 CTAAATTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 2 0.05
5 22 0.52
6 18 0.43
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:14554740 original size:58 final size:58
Alignment explanation
Indices: 14554567--14554959 Score: 226
Period size: 58 Copynumber: 6.3 Consensus size: 58
14554557 ATTTTTTAAT
*
14554567 AATTTT-CTTAAAAT-AAAAA-TTTCAAAAAAAATATTTTTTTGAGAAAAAGTTGAAAGTATC
1 AATTTTCCTTAAAATAAAAAAGTTT---AAAAAATA--TTTTTGAAAAAAAGTTGAAAGTATC
** * **
14554627 AATTTTCCTTGAAAATAAAAATTTTTTAAACAAAAATATTTTTTTAGGAAAAGTTGAAAGTATC
1 AATTTTCCTT-AAAATAAAAA-AGTTT--A-AAAAATA-TTTTTGAAAAAAAGTTGAAAGTATC
14554691 AA-TTTCCTTGAAAATAAAAAAGTTTAAAAAATATTTTTGAAAAAAAGTTGAAAGTATC
1 AATTTTCCTT-AAAATAAAAAAGTTTAAAAAATATTTTTGAAAAAAAGTTGAAAGTATC
* * * *
14554749 AATTTTTCTTAAAAT---AAAGTTTCTAAAATAAAAATTTTCAAAAAAAGCATTTTGGGGAAAGT
1 AATTTTCCTTAAAATAAAAAAG-TT-TAAAA-AATATTTTTGAAAAAAAG----TT---------
14554811 TGAAAGTATC
50 -GAAAGTATC
* * * * *
14554821 AATTTCCCTTAAAGATAAAAAAATTAAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATC
1 AATTTTCCTTAAA-ATAAAAAAGTTTAAAAAATAT-TTTTGA-AAAAAAGTTGAAAGTATC
* * * **
14554882 AATTTTCCTTAAAAT-TAAAATTTTAAAAAAAAAATTTGAGAAAAAAGTTGAAAGTATC
1 AATTTTCCTTAAAATAAAAAAGTTTAAAAAATATTTTTGA-AAAAAAGTTGAAAGTATC
* *
14554940 AATTTTTCTTGAAAGTAAAA
1 AATTTTCCTT-AAAATAAAA
14554960 TTCCTAAAAT
Statistics
Matches: 269, Mismatches: 32, Indels: 64
0.74 0.09 0.18
Matches are distributed among these distances:
55 4 0.01
56 2 0.01
57 5 0.02
58 75 0.28
59 30 0.11
60 11 0.04
61 24 0.09
62 10 0.04
63 22 0.08
64 29 0.11
65 10 0.04
71 2 0.01
72 20 0.07
73 5 0.02
74 9 0.03
75 8 0.03
76 3 0.01
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (58 bp):
AATTTTCCTTAAAATAAAAAAGTTTAAAAAATATTTTTGAAAAAAAGTTGAAAGTATC
Found at i:14554893 original size:133 final size:130
Alignment explanation
Indices: 14554676--14554918 Score: 364
Period size: 133 Copynumber: 1.8 Consensus size: 130
14554666 TTTTTTAGGA
* *
14554676 AAAGTTGAAAGTATCAATTTCCTTGAAAATAAAAAAGTTTAAAAAATATTTTTGAAAAAAAGTTG
1 AAAGTTGAAAGTATCAATTTCCTTGAAAATAAAAAAATTAAAAAAATATTTTTGAAAAAAAGTTG
* * *
14554741 AAAGTATCAATTTTTCTTAAAA-TAAAGTTTCTAAAATAAAAATTTTCAAAAAAAGCATTTTGGG
66 AAAGTATCAATTTTCCTTAAAATTAAAATTT-TAAAAAAAAAATTTTCAAAAAAAGCATTTTGGG
14554805 G
130 G
* *
14554806 AAAGTTGAAAGTATCAATTTCCCTT-AAAGATAAAAAAATTAAAAAAATATATTTTTAGGAAAAA
1 AAAGTTGAAAGTATCAATTT-CCTTGAAA-ATAAAAAAATTAAAAAAATAT-TTTTGA-AAAAAA
14554870 GTTGAAAGTATCAATTTTCCTTAAAATTAAAATTTTAAAAAAAAAATTT
62 GTTGAAAGTATCAATTTTCCTTAAAATTAAAATTTTAAAAAAAAAATTT
14554919 GAGAAAAAAG
Statistics
Matches: 101, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
130 23 0.23
131 23 0.23
132 5 0.05
133 43 0.43
134 7 0.07
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (130 bp):
AAAGTTGAAAGTATCAATTTCCTTGAAAATAAAAAAATTAAAAAAATATTTTTGAAAAAAAGTTG
AAAGTATCAATTTTCCTTAAAATTAAAATTTTAAAAAAAAAATTTTCAAAAAAAGCATTTTGGGG
Found at i:14554903 original size:119 final size:115
Alignment explanation
Indices: 14554772--14555136 Score: 336
Period size: 119 Copynumber: 3.0 Consensus size: 115
14554762 ATAAAGTTTC
* **
14554772 TAAAATAAAAATTTTCAAAAAAAGCATTTTGGGGAAAGTTGAAAGTATCAATTTCCCTTAAAGAT
1 TAAAATTAAAATTTT-AAAAAAA-CATTTTGGGGAAAGTTGAAAGTATCAATTTTTCTTAAAGAT
*
14554837 AAAAAAATTAAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCT
64 AAAAAAATTAAAAAAA-ATATTTTAAGG-AAAAGTTGAAAGTATCAATTTTCCT
* * **
14554891 TAAAATTAAAATTTTAAAAAAAAAATTTGAGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAG-
1 TAAAATTAAAATTTTAAAAAAACATTTTG-G-GGAAAGTTGAAAGTATCAATTTTTCTT-AAAGA
* * *
14554955 TAAAATTCCTAAAATAAATTTTTTCAAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
63 TAAAA-----AAATTAAA-------AAAAA-TATTTTAAGGAAAAGTTGAAAGTATCAATTTTCC
14555020 T
115 T
* * * * *
14555021 TGAAATTAAAATTTAAAAAAAAAACATTTTGAGGAAACGTTGGAAGTATCAATTTTTCTTAAAAA
1 TAAAATTAAAATTT--TAAAAAAACATTTTGGGGAAA-GTTGAAAGTATCAATTTTTCTTAAAGA
* * *
14555086 TAAAAATTATCAAGAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTT
63 TAAAAA-AATTAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTT
14555137 TCTTGTACAA
Statistics
Matches: 201, Mismatches: 24, Indels: 42
0.75 0.09 0.16
Matches are distributed among these distances:
117 5 0.02
118 8 0.04
119 73 0.36
120 9 0.04
124 7 0.03
126 1 0.00
127 3 0.01
130 44 0.22
131 39 0.19
132 12 0.06
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.34
Consensus pattern (115 bp):
TAAAATTAAAATTTTAAAAAAACATTTTGGGGAAAGTTGAAAGTATCAATTTTTCTTAAAGATAA
AAAAATTAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:14554934 original size:191 final size:190
Alignment explanation
Indices: 14554603--14555141 Score: 649
Period size: 191 Copynumber: 2.8 Consensus size: 190
14554593 AAAAATATTT
* * *
14554603 TTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTTTTAAACAAAAATATTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAAAA--ATTTAAA-AAAAATATAT
* * * *
14554668 TTTTAGGAAAAGTTGAAAGTATCAA-TTTCCTTGAAAATAAAAAAGTTTAAAAAATATTTTTGAA
62 TTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAAATTTTAAAAAAAATATTTGAA
* *
14554732 AAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAGTTTCTAAAATAAAAATTTTCAAAAAAAG
126 AAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTCCTAAAATAAAAATTTTC--AAAAAG
14554796 CA
189 CA
* * *
14554798 TTTTG-GGGAAAGTTGAAAGTATCAATTTCCCTTAAAGATAAAAAAATT-AAAAAAATATATTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA-ATAAAAAATTTAAAAAAAATATATTTT
* *
14554861 TAGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAATTAAAATTTTAAAAAAAAAATTTGAGAAA
65 TAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAATTTTAAAAAAAATATTTGA-AAA
* ** *
14554925 AAAGTTGAAAGTATCAATTTTTCTTGAAAGTAAAATTCCTAAAATAAATTTTTTCAAAAAGTA
128 AAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTCCTAAAATAAAAATTTTCAAAAAGCA
* * * * * *
14554988 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAT-TAAAATTTAAAAAAAAAACATTTTG
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAAAATTTAAAAAAAATATATTTTT
* * * * * * *
14555052 AGGAAACGTTGGAAGTATCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAATATTTTAAGGAA
66 AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAATT-TTAAAAAAAATATTTGAA-AAA
14555117 AAGTTGAAAGTATCAATTTTTCTTG
129 AAGTTGAAAGTATCAATTTTTCTTG
14555142 TACAAAAGCA
Statistics
Matches: 299, Mismatches: 35, Indels: 24
0.84 0.10 0.07
Matches are distributed among these distances:
189 29 0.10
190 77 0.26
191 120 0.40
192 33 0.11
193 3 0.01
194 32 0.11
195 5 0.02
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (190 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAAAATTTAAAAAAAATATATTTTT
AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAATTTTAAAAAAAATATTTGAAAAAAA
GTTGAAAGTATCAATTTTTCTTGAAAATAAAATTCCTAAAATAAAAATTTTCAAAAAGCA
Found at i:14555137 original size:60 final size:59
Alignment explanation
Indices: 14554980--14555140 Score: 223
Period size: 59 Copynumber: 2.7 Consensus size: 59
14554970 AAATTTTTTC
* * * *
14554980 AAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTAAAA
1 AAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTAAAA
* * * *
14555039 AAAAAACATTTTGAGGAAACGTTGGAAGTATCAATTTTTCTTAAAAATAAAAATTATCAA
1 AAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTA-AAA
* *
14555099 GAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
14555141 GTACAAAAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 49 0.56
60 39 0.44
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTAAAA
Found at i:14565622 original size:10 final size:10
Alignment explanation
Indices: 14565607--14565645 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
14565597 TACTATACTT
14565607 GAAAAAAAGA
1 GAAAAAAAGA
*
14565617 GAAAAAATGAA
1 GAAAAAAAG-A
*
14565628 AAAAAAAAGA
1 GAAAAAAAGA
14565638 GAAAAAAA
1 GAAAAAAA
14565646 AAATAAAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
GAAAAAAAGA
Found at i:14565632 original size:11 final size:12
Alignment explanation
Indices: 14565608--14565647 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
14565598 ACTATACTTG
14565608 AAAAAAAGAG--
1 AAAAAAAGAGAA
*
14565618 AAAAAATGA-AA
1 AAAAAAAGAGAA
14565629 AAAAAAAGAGAA
1 AAAAAAAGAGAA
14565641 AAAAAAA
1 AAAAAAA
14565648 ATAAAGACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 8 0.32
11 8 0.32
12 9 0.36
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (12 bp):
AAAAAAAGAGAA
Found at i:14566373 original size:16 final size:16
Alignment explanation
Indices: 14566352--14566392 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
14566342 AGCCAGCATA
*
14566352 GCATGCATTGAATTTT
1 GCATGCATTGAATTTC
*
14566368 GCATGCATTGCATTTC
1 GCATGCATTGAATTTC
14566384 GCATAGCAT
1 GCAT-GCAT
14566393 ATATTGCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (16 bp):
GCATGCATTGAATTTC
Found at i:14566737 original size:42 final size:42
Alignment explanation
Indices: 14566676--14566822 Score: 177
Period size: 42 Copynumber: 3.4 Consensus size: 42
14566666 AGTTGTGGTT
* *
14566676 GCCTTTGTTTAGAGGAGCATTTATTTCTTTAACAGTTGTAGA
1 GCCTCTGTTTAGAGGAGCATTTATTTCTTTAAAAGTTGTAGA
* * * *
14566718 GCCTCTATTTATAGGAGCATTTATTTCTTCAAAAGTTGTTGA
1 GCCTCTGTTTAGAGGAGCATTTATTTCTTTAAAAGTTGTAGA
* * *
14566760 GCCTCTGCTTAGAGGAGCTTTGTTTATTTCTTTAAAAGTTGTGGA
1 GCCTCTGTTTAGAGGAGC---ATTTATTTCTTTAAAAGTTGTAGA
*
14566805 GCCTCTGTTTAGAAGAGC
1 GCCTCTGTTTAGAGGAGC
14566823 TTTGTTTATT
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 51 0.58
45 37 0.42
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (42 bp):
GCCTCTGTTTAGAGGAGCATTTATTTCTTTAAAAGTTGTAGA
Found at i:14566798 original size:45 final size:45
Alignment explanation
Indices: 14566695--14566916 Score: 213
Period size: 45 Copynumber: 5.0 Consensus size: 45
14566685 TAGAGGAGCA
* * * * *
14566695 TTTATTTCTTTAACAGTTGTAGAGCCTCTATTTATAGGAGC---A
1 TTTATTTCTTTAAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTG
* *
14566737 TTTATTTCTTCAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTG
1 TTTATTTCTTTAAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTG
* *
14566782 TTTATTTCTTTAAAAGTTGTGGAGCCTCTGTTTAGAAGAGCTTTG
1 TTTATTTCTTTAAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTG
*** * *
14566827 TTTATTT-TTCTCAAAAGTCACTGAGCCTCTGATTAGAGGAGCTTTA
1 TTTATTTCTT-T-AAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * * *
14566873 TTTATTT-TTTCAAAGTCGTCGAGTCTCTGTTTA-AGGGAGCTTTG
1 TTTATTTCTTTAAAAGTTGTTGAGCCTCTGTTTAGA-GGAGCTTTG
14566917 ATCAAAATCT
Statistics
Matches: 149, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
42 35 0.23
43 1 0.01
44 27 0.18
45 50 0.34
46 36 0.24
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (45 bp):
TTTATTTCTTTAAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTG
Found at i:14566867 original size:91 final size:87
Alignment explanation
Indices: 14566694--14566905 Score: 237
Period size: 91 Copynumber: 2.4 Consensus size: 87
14566684 TTAGAGGAGC
* * * * ***
14566694 ATTTATTTCTTTAACAGTTGTAGAGCCTCTATTTATAGGAGCATTTATTTCTTCAAAAGTTGTTG
1 ATTTATTTCTTTAAAAGTTGTAGAGCCTCTGTTTAGAAGAGCATTTATTTCTTCAAAAGTCACTG
*
14566759 AGCCTCTGCTTAGAGGAGCTTT
66 AGCCTCTGATTAGAGGAGCTTT
* * * *
14566781 GTTTATTTCTTTAAAAGTTGTGGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTCTCAAAAGTC
1 ATTTATTTCTTTAAAAGTTGTAGAGCCTCTGTTTAGAAGAGC---ATTTATTTCT-TCAAAAGTC
14566846 ACTGAGCCTCTGATTAGAGGAGCTTT
62 ACTGAGCCTCTGATTAGAGGAGCTTT
* * * *
14566872 ATTTATTT-TTTCAAAGTCGTCGAGTCTCTGTTTA
1 ATTTATTTCTTTAAAAGTTGTAGAGCCTCTGTTTA
14566906 AGGGAGCTTT
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
87 36 0.35
90 30 0.29
91 38 0.37
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (87 bp):
ATTTATTTCTTTAAAAGTTGTAGAGCCTCTGTTTAGAAGAGCATTTATTTCTTCAAAAGTCACTG
AGCCTCTGATTAGAGGAGCTTT
Found at i:14567134 original size:3 final size:3
Alignment explanation
Indices: 14567126--14567250 Score: 66
Period size: 3 Copynumber: 42.3 Consensus size: 3
14567116 ATTTATTTAT
* * * *
14567126 TTA TTA TTA TT- TTG TTT TTA TT- TTA TTT TTA TTA TCA TTA TT- TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
14567170 TTA TTT TTT TTA TTA TTG TT- TTT TTCA TTTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA -TTA TTA TTA TTA
* *
14567217 TTTA CTC TTA -TA TTA TTA TT- TATA TTA TTA TTA T
1 -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
14567251 GTTTTGATTG
Statistics
Matches: 97, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
2 13 0.13
3 74 0.76
4 8 0.08
5 2 0.02
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:14567146 original size:11 final size:11
Alignment explanation
Indices: 14567121--14567215 Score: 63
Period size: 11 Copynumber: 8.5 Consensus size: 11
14567111 CATTTATTTA
14567121 TTTA-TTTATT
1 TTTATTTTATT
* *
14567131 ATTATTTTGTT
1 TTTATTTTATT
14567142 TTTATTTTATT
1 TTTATTTTATT
*
14567153 TTTATTATCATT
1 TTTATT-TTATT
*
14567165 ATT-TTTTATT
1 TTTATTTTATT
*
14567175 TTTTTTATTATT
1 TTTATT-TTATT
14567187 GTTT-TTTTCATT
1 -TTTATTTT-ATT
14567199 TATTA-TTTATT
1 T-TTATTTTATT
*
14567210 ATTATT
1 TTTATT
14567216 ATTTACTCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
10 12 0.18
11 31 0.46
12 21 0.31
13 3 0.04
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:14567169 original size:31 final size:30
Alignment explanation
Indices: 14567112--14567245 Score: 89
Period size: 31 Copynumber: 4.4 Consensus size: 30
14567102 AGATGGGCCC
*
14567112 ATTTA-TTTATTTATTTATTATTATTTTGTT
1 ATTTATTTTATTTATTTATCATTATTTT-TT
*
14567142 -TTTATTTTATTTTTATTATCATTATTTTTT
1 ATTTATTTTATTTAT-TTATCATTATTTTTT
* * ** *
14567172 ATTTTTTTTA-TTATTGTTTTTTTCATTTATT
1 ATTTATTTTATTTATT-TATCATT-ATTTTTT
*
14567203 ATTTATTATTA-TTATTTACTC-TTATATTATT
1 ATTTATT-TTATTTATTTA-TCATTAT-TTTTT
*
14567234 ATTTATATTATT
1 ATTTATTTTATT
14567246 ATTATGTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
29 5 0.06
30 22 0.27
31 47 0.57
32 9 0.11
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.72
Consensus pattern (30 bp):
ATTTATTTTATTTATTTATCATTATTTTTT
Found at i:14567171 original size:28 final size:27
Alignment explanation
Indices: 14567113--14567248 Score: 113
Period size: 30 Copynumber: 4.9 Consensus size: 27
14567103 GATGGGCCCA
14567113 TTTATTTATTTATTTATTATTATT-TTGTT
1 TTTATTTA-TT-TTTATTATTATTATT-TT
*
14567142 TTTATTTTATTTTTATTATCATTA-TTT
1 TTTA-TTTATTTTTATTATTATTATTTT
*
14567169 TTTATTT-TTTTTATTATT-GT-TTTT
1 TTTATTTATTTTTATTATTATTATTTT
*
14567193 TTCATTTATTATTTATTATTATTATTTACT
1 TTTATTTATT-TTTATTATTATTATTT--T
*
14567223 CTTATATTATTATTTA-TATTATTATT
1 TTTAT-TTATT-TTTATTATTATTATT
14567249 ATGTTTTGAT
Statistics
Matches: 90, Mismatches: 7, Indels: 19
0.78 0.06 0.16
Matches are distributed among these distances:
24 10 0.11
25 12 0.13
26 12 0.13
27 7 0.08
28 15 0.17
29 6 0.07
30 18 0.20
31 10 0.11
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (27 bp):
TTTATTTATTTTTATTATTATTATTTT
Found at i:14567232 original size:15 final size:13
Alignment explanation
Indices: 14567112--14567245 Score: 59
Period size: 14 Copynumber: 9.9 Consensus size: 13
14567102 AGATGGGCCC
14567112 ATTTAT-TTATTT
1 ATTTATATTATTT
14567124 ATTTATTATTATTT
1 ATTTA-TATTATTT
14567138 -TGTT-T-TTATTTT
1 AT-TTATATTA-TTT
*
14567150 ATTTTTATTATCATT
1 ATTTATATTAT--TT
14567165 ATTT-T-TTATTTT
1 ATTTATATTA-TTT
* *
14567177 TTTTATTATTGTTT
1 ATTTA-TATTATTT
*
14567191 TTTTCATTTATTATTT
1 ATTT-A--TATTATTT
14567207 A-TTATTATTATTT
1 ATTTA-TATTATTT
14567220 ACTCTTATATTA-TT
1 A-T-TTATATTATTT
14567234 ATTTATATTATT
1 ATTTATATTATT
14567246 ATTATGTTTT
Statistics
Matches: 99, Mismatches: 4, Indels: 37
0.71 0.03 0.26
Matches are distributed among these distances:
11 3 0.03
12 24 0.24
13 20 0.20
14 25 0.25
15 16 0.16
16 11 0.11
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.72
Consensus pattern (13 bp):
ATTTATATTATTT
Found at i:14568387 original size:74 final size:75
Alignment explanation
Indices: 14568304--14568451 Score: 180
Period size: 74 Copynumber: 2.0 Consensus size: 75
14568294 AGTATCAATT
* *
14568304 TTTCTTAAAA-ATAAAA-TTCTAAAAAATA-TATTTTTAGGAAAAAGTTGAAAGTATCAATTTTC
1 TTTCTTAAAATA-AAAATTTCCAAAAAAAAGTA-TTTT-GGAAAAAGTTGAAAGTATCAA-TTTC
14568366 C-TTAAAAATAAAG
62 CTTTAAAAATAAAG
**
14568379 TTTC-TAAAATAAAAATTTCCAAAAAAAAGTATTTTGGGGAAAGTTGAAAGTATCAATTTCCTTT
1 TTTCTTAAAATAAAAATTTCCAAAAAAAAGTATTTTGGAAAAAGTTGAAAGTATCAATTTCCTTT
*
14568443 GAAAATAAA
66 AAAAATAAA
14568452 AAGATTTAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
73 5 0.08
74 38 0.59
75 19 0.30
76 2 0.03
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (75 bp):
TTTCTTAAAATAAAAATTTCCAAAAAAAAGTATTTTGGAAAAAGTTGAAAGTATCAATTTCCTTT
AAAAATAAAG
Found at i:14568490 original size:61 final size:61
Alignment explanation
Indices: 14568418--14568691 Score: 391
Period size: 61 Copynumber: 4.6 Consensus size: 61
14568408 TATTTTGGGG
* *
14568418 AAAGTTGAAAGTATCAATTTCCTTTGAAAATAAAAAGATTTAAAAAATATATTTTTAGGAA
1 AAAGTTGAAAGTATCAATTTTCGTTGAAAATAAAAAGATTTAAAAAATATATTTTTAGGAA
*
14568479 AAAGTTGAAAGTATCAATTTTCGTTGAAGATAAAAAGATTTAAAAAATATATTTTTAGGAA
1 AAAGTTGAAAGTATCAATTTTCGTTGAAAATAAAAAGATTTAAAAAATATATTTTTAGGAA
*
14568540 AAAGTTGAAAGTATCAATTTTCGTTGAAGATAAAAAGATTTAAAAAATATATTTTTAGGAA
1 AAAGTTGAAAGTATCAATTTTCGTTGAAAATAAAAAGATTTAAAAAATATATTTTTAGGAA
* * *
14568601 AAAGTTGAAAGTATCAATTTTTC-TT-AAAAT-TAAA-ATTTCAAAAAA-AAATTTTGA-GAA
1 AAAGTTGAAAGTATCAA-TTTTCGTTGAAAATAAAAAGATTT-AAAAAATATATTTTTAGGAA
* *
14568658 AAAGTTAAAAGTATCAATTTTTC-TTGAAAGTAAA
1 AAAGTTGAAAGTATCAA-TTTTCGTTGAAAATAAA
14568692 CTTTCTAAAA
Statistics
Matches: 199, Mismatches: 10, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
57 27 0.14
58 15 0.08
59 10 0.05
60 4 0.02
61 138 0.69
62 5 0.03
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (61 bp):
AAAGTTGAAAGTATCAATTTTCGTTGAAAATAAAAAGATTTAAAAAATATATTTTTAGGAA
Found at i:14568551 original size:122 final size:118
Alignment explanation
Indices: 14568379--14568677 Score: 399
Period size: 122 Copynumber: 2.5 Consensus size: 118
14568369 AAAAATAAAG
** *
14568379 TTTC-TAAAATAAAAATTTCCAAAAAAAAGTATTTTG-GGGAAAGTTGAAAGTATCAATTTCCTT
1 TTTCTTAAAATAAAAATTT-CAAAAAAAA--ATTTTGAGAAAAAGTTGAAAGTATCAATTTCCGT
14568442 TGAAAATAAAAAGATTTAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAA-T
63 TGAAAATAAAAAGATTTAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATT
* * * *
14568497 TTTCGTTGAAGATAAAAAGATTT-AAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTT
1 TTTC-TT-AAAAT-AAAA-ATTTCAAAAAA-AAATTTTGA-GAAAAAGTTGAAAGTATCAATTTC
*
14568561 CGTTGAAGATAAAAAGATTTAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATT
60 CGTTGAAAATAAAAAGATTTAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATT
* *
14568620 TTTCTTAAAATTAAAATTTCAAAAAAAAATTTTGAGAAAAAGTTAAAAGTATCAATTT
1 TTTCTTAAAATAAAAATTTCAAAAAAAAATTTTGAGAAAAAGTTGAAAGTATCAATTT
14568678 TTCTTGAAAG
Statistics
Matches: 158, Mismatches: 13, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
118 26 0.16
119 11 0.07
120 15 0.09
121 14 0.09
122 83 0.53
123 9 0.06
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.34
Consensus pattern (118 bp):
TTTCTTAAAATAAAAATTTCAAAAAAAAATTTTGAGAAAAAGTTGAAAGTATCAATTTCCGTTGA
AAATAAAAAGATTTAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATT
Found at i:14568701 original size:72 final size:73
Alignment explanation
Indices: 14568620--14568763 Score: 213
Period size: 72 Copynumber: 2.0 Consensus size: 73
14568610 AGTATCAATT
14568620 TTTCTTAAAATTAAA-A-TTTCAAAAAAAAATTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTT
1 TTTCTTAAAA-TAAATATTTTC-AAAAAAAATTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTT
14568683 GAAAGTAAAC
64 GAAAGTAAAC
** *
14568693 TTTC-TAAAATAAATATTTTCAAAAAGTATTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGA
1 TTTCTTAAAATAAATATTTTCAAAAAAAATTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGA
*
14568757 AATTAAA
66 AAGTAAA
14568764 ATTTTTAGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
71 4 0.06
72 53 0.82
73 8 0.12
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (73 bp):
TTTCTTAAAATAAATATTTTCAAAAAAAATTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGA
AAGTAAAC
Done.