Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 61 of 228
Found at i:18297047 original size:20 final size:19
Alignment explanation
Indices: 18297024--18297082 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
18297014 TTCTATTTTT
18297024 TTTCTTCTCTTTCTTTCTCC
1 TTTCTTCT-TTTCTTTCTCC
18297044 TTTC-TCTATTCTCTTTCTCTC
1 TTTCTTCT-TT-TCTTTCTC-C
18297065 TTT-TTCTTTTCTTT-TCC
1 TTTCTTCTTTTCTTTCTCC
18297082 T
1 T
18297083 GGCACTACCC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 2 0.06
18 2 0.06
19 10 0.29
20 14 0.40
21 7 0.20
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCTTCTTTTCTTTCTCC
Found at i:18297112 original size:19 final size:19
Alignment explanation
Indices: 18297074--18297120 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
18297064 CTTTTTCTTT
* *
18297074 TCTTTTCCTGGCACTACCC
1 TCTTTTTCTGGCACCACCC
*
18297093 TCTTTTTCTGGCACCGCCC
1 TCTTTTTCTGGCACCACCC
*
18297112 TCTTCTTCT
1 TCTTTTTCT
18297121 TCTTCTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.06, C:0.40, G:0.11, T:0.43
Consensus pattern (19 bp):
TCTTTTTCTGGCACCACCC
Found at i:18297120 original size:3 final size:3
Alignment explanation
Indices: 18297112--18297186 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
18297102 GGCACCGCCC
18297112 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
18297160 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
18297187 ACTACTACTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:18297191 original size:3 final size:3
Alignment explanation
Indices: 18297185--18297219 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18297175 TCTTCTTCTT
18297185 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CT
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CT
18297220 TTTCTTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
CTA
Found at i:18299519 original size:8 final size:8
Alignment explanation
Indices: 18299508--18299533 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18299498 AATTTCAAAA
18299508 TTTTAAAG
1 TTTTAAAG
18299516 TTTTAAAG
1 TTTTAAAG
18299524 TTTTAAAG
1 TTTTAAAG
18299532 TT
1 TT
18299534 GGTATCGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (8 bp):
TTTTAAAG
Found at i:18301756 original size:8 final size:8
Alignment explanation
Indices: 18301743--18301767 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18301733 TCGGCTCATT
18301743 TCATCACA
1 TCATCACA
18301751 TCATCACA
1 TCATCACA
18301759 TCATCACA
1 TCATCACA
18301767 T
1 T
18301768 AACATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (8 bp):
TCATCACA
Found at i:18302676 original size:15 final size:15
Alignment explanation
Indices: 18302629--18302677 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 15
18302619 TATGTTTCCT
*
18302629 TTATTTTAA-TGTTA
1 TTATTTTAATTTTTA
18302643 TTATTTTAACCTTTATTA
1 TTATTTTAA--TTT-TTA
18302661 TTATTTTAATTTTTA
1 TTATTTTAATTTTTA
18302676 TT
1 TT
18302678 TAATATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 9 0.30
15 5 0.17
16 3 0.10
17 1 0.03
18 12 0.40
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (15 bp):
TTATTTTAATTTTTA
Found at i:18303744 original size:19 final size:19
Alignment explanation
Indices: 18303703--18303744 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
18303693 ATTACTCCTA
18303703 AATTGGCTCAATTTTACCT
1 AATTGGCTCAATTTTACCT
18303722 -ATTGGTCTCAATTTTA-CT
1 AATTGG-CTCAATTTTACCT
18303740 AATTG
1 AATTG
18303745 AGACAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (19 bp):
AATTGGCTCAATTTTACCT
Found at i:18319934 original size:8 final size:8
Alignment explanation
Indices: 18319923--18319948 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18319913 CTTTTTTCTT
18319923 TTTCTCTC
1 TTTCTCTC
18319931 TTTCTCTC
1 TTTCTCTC
18319939 TTTCTCTC
1 TTTCTCTC
18319947 TT
1 TT
18319949 CCCCTCTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTCTCTC
Found at i:18325470 original size:13 final size:13
Alignment explanation
Indices: 18325452--18325476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18325442 ATAAATTTAA
18325452 GAAAATTTTCTTT
1 GAAAATTTTCTTT
18325465 GAAAATTTTCTT
1 GAAAATTTTCTT
18325477 CAAAAATCAC
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (13 bp):
GAAAATTTTCTTT
Found at i:18327416 original size:9 final size:9
Alignment explanation
Indices: 18327404--18327457 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
18327394 AAATAAAAAA
18327404 AATTCGGGT
1 AATTCGGGT
18327413 AATTCGGGT
1 AATTCGGGT
*
18327422 ATTTTTC-GGT
1 A--ATTCGGGT
* *
18327432 AATTCAGTT
1 AATTCGGGT
18327441 AATTCGGGT
1 AATTCGGGT
18327450 AATTCGGG
1 AATTCGGG
18327458 CAAATTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
8 3 0.08
9 27 0.73
10 4 0.11
11 3 0.08
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (9 bp):
AATTCGGGT
Found at i:18329272 original size:3 final size:3
Alignment explanation
Indices: 18329262--18329293 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
18329252 AAATTATTAG
18329262 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18329294 TATTAGCACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:18335262 original size:43 final size:43
Alignment explanation
Indices: 18335187--18335347 Score: 232
Period size: 43 Copynumber: 3.7 Consensus size: 43
18335177 GATATGATTT
* * **
18335187 CGTGTAAGACCACATCTGGGATGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGAGACATTGGCATCGACTTGTGTTTA
*
18335230 CGTGTAAGACCACGTCTGAGACATTGGTATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGAGACATTGGCATCGACTTGTGTTTA
* * *
18335273 CGTGTAAGACCGCGTATGAGACGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGAGACATTGGCATCGACTTGTGTTTA
* *
18335316 CGTGTAAGACCATGTCTGGGACATTGGCATCG
1 CGTGTAAGACCACGTCTGAGACATTGGCATCG
18335348 TATTTGATTC
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 104 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGAGACATTGGCATCGACTTGTGTTTA
Found at i:18359048 original size:25 final size:25
Alignment explanation
Indices: 18358990--18359049 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
18358980 AAAGAAAAAC
18358990 ATTTTAATTTTCCTATTATTATTATT
1 ATTTT-ATTTTCCTATTATTATTATT
18359016 A-TTTATTTTCACTATT-TTATT-TT
1 ATTTTATTTTC-CTATTATTATTATT
18359039 ATTTTCATTTT
1 ATTTT-ATTTT
18359050 TATGTTTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 3 0.10
24 14 0.45
25 13 0.42
26 1 0.03
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.68
Consensus pattern (25 bp):
ATTTTATTTTCCTATTATTATTATT
Found at i:18363334 original size:15 final size:16
Alignment explanation
Indices: 18363316--18363346 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
18363306 CTCCCAATCC
18363316 CTCTTCTCTTC-CTTT
1 CTCTTCTCTTCTCTTT
18363331 CTCTTCTCTTCTCTTT
1 CTCTTCTCTTCTCTTT
18363347 TTCATGGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (16 bp):
CTCTTCTCTTCTCTTT
Found at i:18368061 original size:25 final size:26
Alignment explanation
Indices: 18368005--18368066 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
18367995 GTTTTCATCT
* * *
18368005 CAATTTTACCCTAGTAAATTTTTTTA
1 CAATTTTACCCAAGTAAATATTTTGA
18368031 CAATTTTACCCAAGTAAA-ATTTTGA
1 CAATTTTACCCAAGTAAATATTTTGA
*
18368056 CGATTTTACCC
1 CAATTTTACCC
18368067 CCGATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 15 0.47
26 17 0.53
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (26 bp):
CAATTTTACCCAAGTAAATATTTTGA
Found at i:18368233 original size:6 final size:6
Alignment explanation
Indices: 18368222--18368272 Score: 93
Period size: 6 Copynumber: 8.5 Consensus size: 6
18368212 GTATTGCAAG
*
18368222 TTTCCA TTTCCA TTTTCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA
18368270 TTT
1 TTT
18368273 TTGGAAACCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.16, C:0.29, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTCCA
Found at i:18370526 original size:103 final size:103
Alignment explanation
Indices: 18370337--18370588 Score: 373
Period size: 103 Copynumber: 2.5 Consensus size: 103
18370327 AGGGGTTGTT
* * * *
18370337 GTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAG
1 GTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAG
* *
18370402 GGGGTTGCTAAGTGCTGATTCCCTCGAGGGGTTGCTAA
66 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAA
**
18370440 GTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTG-AA
1 GTGCTGATTCCCCGATTCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAA
**
18370504 GGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTGT
65 GGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAA
* *
18370543 GTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 GTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACC
18370589 AACAACGGTT
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
101 18 0.13
102 7 0.05
103 70 0.52
104 39 0.29
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (103 bp):
GTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAG
GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAA
Found at i:18378022 original size:33 final size:32
Alignment explanation
Indices: 18377980--18378090 Score: 89
Period size: 33 Copynumber: 3.3 Consensus size: 32
18377970 ATGACCCAGT
*
18377980 TATGGTCTTATCATCAGAATGCCATGGCCCAAC
1 TATGGTCTTA-CATCAAAATGCCATGGCCCAAC
* *
18378013 TATGGTCTTACATATAAACACTGCCATGGTCCAAAC
1 TATGGTCTTACAT-CAAA-A-TGCCATGG-CCCAAC
* * ** *
18378049 -ATGGTCTTACGTTCATAATGCCATAACCCAAT
1 TATGGTCTTAC-ATCAAAATGCCATGGCCCAAC
18378081 TATGGTCTTA
1 TATGGTCTTA
18378091 TCCGTCAATT
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
32 7 0.11
33 27 0.44
34 2 0.03
35 20 0.32
36 6 0.10
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (32 bp):
TATGGTCTTACATCAAAATGCCATGGCCCAAC
Found at i:18381979 original size:27 final size:27
Alignment explanation
Indices: 18381898--18381979 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
18381888 TCGCGATTTA
* **
18381898 ACCCCATGTTTAATGTCCTGGCAAACT
1 ACCCCGTGTTTAATGTCCTAACAAACT
* * * * *
18381925 ATCTCGTATTTAATGTCCCAACAGACT
1 ACCCCGTGTTTAATGTCCTAACAAACT
* *
18381952 ACCCCGTGTTTACTGTCCTTACAAACT
1 ACCCCGTGTTTAATGTCCTAACAAACT
18381979 A
1 A
18381980 TACTGGTTTT
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (27 bp):
ACCCCGTGTTTAATGTCCTAACAAACT
Found at i:18384505 original size:24 final size:23
Alignment explanation
Indices: 18384462--18384506 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
18384452 CATTTATATT
*
18384462 TCATATTAAAGTTATAAAAAAAG
1 TCATATTAAAGTTACAAAAAAAG
*
18384485 TCATATTAATAGTTACCAAAAA
1 TCATATTAA-AGTTACAAAAAA
18384507 TCATAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (23 bp):
TCATATTAAAGTTACAAAAAAAG
Found at i:18384578 original size:13 final size:13
Alignment explanation
Indices: 18384560--18384586 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18384550 AAAGTCAACC
18384560 ATATAAGAAGTTA
1 ATATAAGAAGTTA
18384573 ATATAAGAAGTTA
1 ATATAAGAAGTTA
18384586 A
1 A
18384587 AAGTTGTCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (13 bp):
ATATAAGAAGTTA
Found at i:18392016 original size:18 final size:18
Alignment explanation
Indices: 18391993--18392029 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18391983 TAACAAAGTG
18391993 TGTATAATAAA-ATTAAAA
1 TGTATAA-AAATATTAAAA
18392011 TGTATAAAAATATTAAAA
1 TGTATAAAAATATTAAAA
18392029 T
1 T
18392030 AAAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
TGTATAAAAATATTAAAA
Found at i:18393326 original size:27 final size:27
Alignment explanation
Indices: 18393237--18393350 Score: 71
Period size: 25 Copynumber: 4.4 Consensus size: 27
18393227 GGTTATTATT
*
18393237 ATTTTTAAAAATATATTAAA---TATAA
1 ATTTATAAAAATATA-TAAAGCTTATAA
* *
18393262 ATTTATAAAAATATATAATGCTTGTAA
1 ATTTATAAAAATATATAAAGCTTATAA
* *
18393289 TATTT-TTAAAATATTTAAAAG-TTATAA
1 -ATTTATAAAAATATAT-AAAGCTTATAA
* **
18393316 ATTTATGAAAAT-TA-AAAATTTATAA
1 ATTTATAAAAATATATAAAGCTTATAA
*
18393341 ATATATAAAA
1 ATTTATAAAA
18393351 GAACTAAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
24 6 0.09
25 28 0.40
26 5 0.07
27 24 0.34
28 7 0.10
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.42
Consensus pattern (27 bp):
ATTTATAAAAATATATAAAGCTTATAA
Found at i:18399992 original size:16 final size:16
Alignment explanation
Indices: 18399968--18400013 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
18399958 CATTTGGTTC
*
18399968 ATTGGAATGGAATAGG
1 ATTGTAATGGAATAGG
18399984 ATTGTAATGGAATAGG
1 ATTGTAATGGAATAGG
**
18400000 GCTGTAATGGAATA
1 ATTGTAATGGAATA
18400014 AAACTGTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.33, T:0.28
Consensus pattern (16 bp):
ATTGTAATGGAATAGG
Found at i:18408045 original size:193 final size:192
Alignment explanation
Indices: 18407717--18408102 Score: 718
Period size: 193 Copynumber: 2.0 Consensus size: 192
18407707 CCTGCGTCAT
18407717 CAAATCCCACCGCTTCATGCCGCTCCTTTTTTGGGATAAAGACATCCACAATACTACTTGGAACA
1 CAAATCCCACCGCTTCATGCCGCTCCTTTTTTGGGATAAAGACATCCACAATACTACTTGGAACA
* *
18407782 ACTTCCTCTCTTTGCCATCTGTTCGTACTACTTTTTACATTATGTTCTACTCTAATAAAATATAT
66 ACTTCCTCTATTTGCCATCTGTTCGTACTACTTTTTACATTATATTCTACTCTAATAAAATATAT
*
18407847 ATATTTTTATATTTAAAAGTAAAACATTATTTTAATGGTAATATTCACGCTTTCATTTTTGG
131 ATATTTTTATATTTAAAAGTAAAACATTATTTTAATAGTAATATTCACGCTTTCATTTTTGG
*
18407909 CAAATCCCACTGCTTCATGCCGCTCCTTTTTTCGGGATAAAGACATCCACAATACTACTTGGAAC
1 CAAATCCCACCGCTTCATGCCGCTCCTTTTTT-GGGATAAAGACATCCACAATACTACTTGGAAC
*
18407974 AACTTCCTCTATTTGTCATCTGTTCGTACTACTTTTTACATTATATTCTACTCTAATAAAATATA
65 AACTTCCTCTATTTGCCATCTGTTCGTACTACTTTTTACATTATATTCTACTCTAATAAAATATA
18408039 TATATTTTTATATTTAAAAGTAAAACATTATTTTAATAGTAATATTCACGCTTTCATTTTTGG
130 TATATTTTTATATTTAAAAGTAAAACATTATTTTAATAGTAATATTCACGCTTTCATTTTTGG
18408102 C
1 C
18408103 CTCAAATTTT
Statistics
Matches: 188, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
192 31 0.16
193 157 0.84
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.40
Consensus pattern (192 bp):
CAAATCCCACCGCTTCATGCCGCTCCTTTTTTGGGATAAAGACATCCACAATACTACTTGGAACA
ACTTCCTCTATTTGCCATCTGTTCGTACTACTTTTTACATTATATTCTACTCTAATAAAATATAT
ATATTTTTATATTTAAAAGTAAAACATTATTTTAATAGTAATATTCACGCTTTCATTTTTGG
Found at i:18408888 original size:18 final size:18
Alignment explanation
Indices: 18408865--18408907 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18408855 CAAGGTCACG
* *
18408865 ATCAATAGCGTCACTATC
1 ATCAATAACGTCACTAGC
*
18408883 ATCAATAATGTCACTAGC
1 ATCAATAACGTCACTAGC
18408901 ATCAATA
1 ATCAATA
18408908 TCGATATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (18 bp):
ATCAATAACGTCACTAGC
Found at i:18411602 original size:20 final size:20
Alignment explanation
Indices: 18411579--18411632 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
18411569 AAGTGAGTTA
18411579 GACAAAAAAGAAACAACTTG
1 GACAAAAAAGAAACAACTTG
**
18411599 GACAAAAAGAGAAGTAACTTG
1 GACAAAAA-AGAAACAACTTG
18411620 GAC-AAAAAGAAAC
1 GACAAAAAAGAAAC
18411633 GAAGTAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 4 0.14
20 12 0.41
21 13 0.45
ACGTcount: A:0.59, C:0.13, G:0.19, T:0.09
Consensus pattern (20 bp):
GACAAAAAAGAAACAACTTG
Found at i:18411641 original size:24 final size:21
Alignment explanation
Indices: 18411562--18411649 Score: 81
Period size: 20 Copynumber: 4.1 Consensus size: 21
18411552 CTCACAAAGA
* * *
18411562 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
**
18411582 AAAAA-AGAAACAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
18411602 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
*
18411623 AAAAAGAAACGAAGTAACTTCGAC
1 AAAAAG--A-GAAGTAACTTGGAC
18411647 AAA
1 AAA
18411650 TCTTTTTTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
20 19 0.35
21 19 0.35
23 1 0.02
24 16 0.29
ACGTcount: A:0.56, C:0.11, G:0.20, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:18422350 original size:30 final size:30
Alignment explanation
Indices: 18422316--18422378 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
18422306 ACTTATTTTA
18422316 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
18422346 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
18422376 TTG
1 TTG
18422379 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:18429572 original size:22 final size:22
Alignment explanation
Indices: 18429547--18429591 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
18429537 AACCTAAAAA
*
18429547 TCGAAGACAATATGATTTAAAC
1 TCGAACACAATATGATTTAAAC
*
18429569 TCGAACCCAATATGATTTAAAC
1 TCGAACACAATATGATTTAAAC
18429591 T
1 T
18429592 TGAATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (22 bp):
TCGAACACAATATGATTTAAAC
Found at i:18431157 original size:14 final size:13
Alignment explanation
Indices: 18431140--18431187 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
18431130 TCTATTTTCC
18431140 TTTTCTATTT-TTAT
1 TTTTCT-TTTATT-T
18431154 TTTT-TTTTATTT
1 TTTTCTTTTATTT
18431166 TTTTCTCTTTATTT
1 TTTTCT-TTTATTT
18431180 TTTTCTTT
1 TTTTCTTT
18431188 CGAACTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 8 0.26
13 6 0.19
14 17 0.55
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTATTT
Found at i:18432182 original size:16 final size:15
Alignment explanation
Indices: 18432148--18432186 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
18432138 TTATATTTTT
* *
18432148 TATATATAAACTTTA
1 TATACATAAACTGTA
18432163 TATACATAAACGTGTA
1 TATACATAAAC-TGTA
18432179 TATACATA
1 TATACATA
18432187 CTTGCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (15 bp):
TATACATAAACTGTA
Found at i:18435069 original size:49 final size:49
Alignment explanation
Indices: 18434962--18435154 Score: 277
Period size: 49 Copynumber: 4.0 Consensus size: 49
18434952 ATGATAGTAA
*
18434962 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGATAG
18435013 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
18435062 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* * * * *
18435109 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
18435155 AGTCCCGAAG
Statistics
Matches: 132, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
47 48 0.36
48 1 0.01
49 50 0.38
51 33 0.25
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (49 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:18435120 original size:47 final size:48
Alignment explanation
Indices: 18434962--18435154 Score: 264
Period size: 47 Copynumber: 4.0 Consensus size: 48
18434952 ATGATAGTAA
*
18434962 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG---ATATATATGTGATAG
18435013 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAG
*
18435062 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAG
* * * * * *
18435109 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTG-TATAAATGTGATA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATA
18435155 AGTCCCGAAG
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
47 52 0.39
49 48 0.36
51 33 0.25
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (48 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAG
Found at i:18435331 original size:37 final size:37
Alignment explanation
Indices: 18435275--18435353 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18435265 CCGAGCTCTA
* * *
18435275 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18435312 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18435349 AAGAC
1 AAGAC
18435354 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18436909 original size:111 final size:111
Alignment explanation
Indices: 18436715--18437068 Score: 502
Period size: 111 Copynumber: 3.2 Consensus size: 111
18436705 GGGTGTTACA
* *
18436715 CAACCAAATGGCTTAATATCCTTTTAAAATTTTTTTAAAA-AAGGCAATGTTTTGCGTTTGGGAA
1 CAACCAAATGGCTAAATATCCTTTTAAAATTTTTTCAAAATAAGGCAATGTTTTGCGTTT-GGAA
18436779 ATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATT
65 ATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATT
* **
18436826 CAACCAAATGGCTAAATGTCCTTTTAAAA-AATTTCAAAATAAGGCAATGTTTTGCGTTTGAGAA
1 CAACCAAATGGCTAAATATCCTTTTAAAATTTTTTCAAAATAAGGCAATGTTTTGCGTTTG-GAA
18436890 ATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATT
65 ATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATT
18436937 CAACCAAATGGCTAAATATCCTTTTAAAATTTTTTTTCAAAATAAGGCAATGTTTTGCGTTTGGA
1 CAACCAAATGGCTAAATATCCTTTTAAAA--TTTTTTCAAAATAAGGCAATGTTTTGCGTTTGGA
* * * * * * *
18437002 AATTTGAG-GAACGTACCCTAAGGTGCTGGGTTTC--TATTTCTCGTT
64 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATT
* * *
18437047 TAACCAAATAGCCAAATATCCT
1 CAACCAAATGGCTAAATATCCT
18437069 CTCGAATTTC
Statistics
Matches: 220, Mismatches: 18, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
110 36 0.16
111 124 0.56
112 22 0.10
113 9 0.04
114 29 0.13
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (111 bp):
CAACCAAATGGCTAAATATCCTTTTAAAATTTTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAA
TTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATT
Found at i:18457021 original size:16 final size:15
Alignment explanation
Indices: 18457000--18457037 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
18456990 AAAGTGCTGG
18457000 AAATAATAAAATAATA
1 AAATAATAAAATAA-A
18457016 AAATAA-AAAATAAA
1 AAATAATAAAATAAA
18457030 AAA-AATAA
1 AAATAATAA
18457038 GTAGGCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 6 0.29
15 7 0.33
16 6 0.29
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATAATAAAATAAA
Found at i:18457027 original size:7 final size:8
Alignment explanation
Indices: 18457000--18457037 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
18456990 AAAGTGCTGG
18457000 AAATAATA
1 AAATAATA
18457008 AAATAATA
1 AAATAATA
18457016 AAATAA-A
1 AAATAATA
18457023 AAATAA-A
1 AAATAATA
18457030 AAA-AATA
1 AAATAATA
18457037 A
1 A
18457038 GTAGGCAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 2 0.07
7 13 0.45
8 14 0.48
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
AAATAATA
Found at i:18457029 original size:12 final size:13
Alignment explanation
Indices: 18457004--18457037 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
18456994 TGCTGGAAAT
18457004 AATAAAATAATAA
1 AATAAAATAATAA
18457017 AATAAAA-AATAA
1 AATAAAATAATAA
18457029 AA-AAAATAA
1 AATAAAATAA
18457038 GTAGGCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AATAAAATAATAA
Found at i:18468577 original size:27 final size:27
Alignment explanation
Indices: 18468518--18468579 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
18468508 GGTGTAACAG
18468518 TCATTTTACCCTATGGGGGTATTTGGA
1 TCATTTTACCCTATGGGGGTATTTGGA
18468545 TCATTTTACCCTATGGGGGTACTTTGG-
1 TCATTTTACCCTATGGGGGTA-TTTGGA
*
18468572 TTATTTTA
1 TCATTTTA
18468580 ACAACCTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
27 28 0.85
28 5 0.15
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTGGA
Found at i:18469864 original size:47 final size:47
Alignment explanation
Indices: 18469812--18469902 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
18469802 CAAATCCCTC
18469812 CTTGATATCCTCCATAACAACTCCAAGACAAAATCAAACTTCACCTT
1 CTTGATATCCTCCATAACAACTCCAAGACAAAATCAAACTTCACCTT
*
18469859 CTTGATATCCTCCATAACAACTCCAAGACCAAATCAAACTTCAC
1 CTTGATATCCTCCATAACAACTCCAAGACAAAATCAAACTTCAC
18469903 ATTGTAGAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.38, C:0.33, G:0.04, T:0.24
Consensus pattern (47 bp):
CTTGATATCCTCCATAACAACTCCAAGACAAAATCAAACTTCACCTT
Found at i:18476557 original size:37 final size:37
Alignment explanation
Indices: 18476507--18476585 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
18476497 TTATTACGAA
* *
18476507 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
18476544 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
18476581 GTCTT
1 GTCTT
18476586 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:18476782 original size:47 final size:47
Alignment explanation
Indices: 18476704--18477038 Score: 535
Period size: 47 Copynumber: 7.1 Consensus size: 47
18476694 CCCTTCGGGA
* * * * * * *
18476704 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
18476751 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18476798 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18476845 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18476892 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18476939 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18476988 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18477035 CTTA
1 CTTA
18477039 CTATCATTTC
Statistics
Matches: 267, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 221 0.83
49 46 0.17
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18485283 original size:31 final size:31
Alignment explanation
Indices: 18485240--18485298 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
18485230 GATTAAACCA
* **
18485240 AGAATGTCTAATATTATTAAGGACTGAATTT
1 AGAAAGTCTAATAACATTAAGGACTGAATTT
*
18485271 AGAAAGTCTAATAACATTACGGACTGAA
1 AGAAAGTCTAATAACATTAAGGACTGAA
18485299 GTGATCCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (31 bp):
AGAAAGTCTAATAACATTAAGGACTGAATTT
Found at i:18486760 original size:17 final size:18
Alignment explanation
Indices: 18486728--18486761 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18486718 GGAAGTGTTG
18486728 TGCTTTGTTGGATGATGT
1 TGCTTTGTTGGATGATGT
*
18486746 TGCTTT-TTTGATGATG
1 TGCTTTGTTGGATGATG
18486762 AATATTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.06, G:0.29, T:0.53
Consensus pattern (18 bp):
TGCTTTGTTGGATGATGT
Found at i:18501186 original size:7 final size:7
Alignment explanation
Indices: 18501174--18501210 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
18501164 TGCTATGCTA
18501174 CTCTCTG
1 CTCTCTG
18501181 CTCTCTG
1 CTCTCTG
18501188 CTCTCTG
1 CTCTCTG
18501195 CTCTCTG
1 CTCTCTG
18501202 CTCTCTG
1 CTCTCTG
18501209 CT
1 CT
18501211 GCTACACTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.00, C:0.43, G:0.14, T:0.43
Consensus pattern (7 bp):
CTCTCTG
Found at i:18504667 original size:72 final size:72
Alignment explanation
Indices: 18504550--18504785 Score: 350
Period size: 72 Copynumber: 3.3 Consensus size: 72
18504540 TGAAGTATGT
* * * *
18504550 TTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTTTACTTATTTATGTGT
1 TTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTATTTATGTGT
18504615 AATCTAG
66 AATCTAG
*
18504622 TTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTATTTATGTGT
1 TTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTATTTATGTGT
18504687 AATCTAG
66 AATCTAG
* * * * *
18504694 TTTTATTAATAGTTGTTTGTGTTTAGTCTTTAGATATTGAATTTATGTTCTACTTATTT-TTTAC
1 TTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTATTTATGT-G
18504758 TAAAT-TAG
65 T-AATCTAG
18504766 TTTTATCAATAGTTGTTTAT
1 TTTTATCAATAGTTGTTTAT
18504786 ATGTGATTTT
Statistics
Matches: 151, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
71 2 0.01
72 146 0.97
73 3 0.02
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (72 bp):
TTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTATTTATGTGT
AATCTAG
Found at i:18511637 original size:29 final size:28
Alignment explanation
Indices: 18511605--18511665 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
18511595 GCTAGGCACG
* *
18511605 TTTTTATAAAA-TCGGCCCATTTTTGTTAA
1 TTTTAATAAAAGT-GGCACATTTTTGTT-A
*
18511634 TTTTAATAAAAGTGGCATATTTTTGTTA
1 TTTTAATAAAAGTGGCACATTTTTGTTA
18511662 TTTT
1 TTTT
18511666 GAAAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.18
29 22 0.79
30 1 0.04
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.52
Consensus pattern (28 bp):
TTTTAATAAAAGTGGCACATTTTTGTTA
Found at i:18518130 original size:130 final size:130
Alignment explanation
Indices: 18517979--18518221 Score: 396
Period size: 130 Copynumber: 1.9 Consensus size: 130
18517969 ATTTTTTGCG
* * *
18517979 TTGCTTATCTTTTGCGGCGTTTTTGTGAAAAACGCCGCAAAATATTATTTTATTTTGAACAAAAT
1 TTGCTTATCTTTTGCAGCGTTTTTATGAAAAACGCCGCAAAATATTATTTCATTTTGAACAAAAT
* * *
18518044 GATGCCGTTTTGCTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCATTTTTACGCCGCTA
66 GACGCCGTTTTGCTATTTTATTTTATATAAATTGATTTATTTCTTGCGGCATTTTTACGCCGCTA
* * *
18518109 TTGCTTATCTTTTGCAGCGTTTTTATGAGAAATGCCGCAAAATATTATTTCGTTTTGAACAAAAT
1 TTGCTTATCTTTTGCAGCGTTTTTATGAAAAACGCCGCAAAATATTATTTCATTTTGAACAAAAT
*
18518174 GACGCCGTTTTGCTATTTTGTTTTATATAAATTGATTTATTTCTTGCG
66 GACGCCGTTTTGCTATTTTATTTTATATAAATTGATTTATTTCTTGCG
18518222 TCGCCGCTAT
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 103 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.47
Consensus pattern (130 bp):
TTGCTTATCTTTTGCAGCGTTTTTATGAAAAACGCCGCAAAATATTATTTCATTTTGAACAAAAT
GACGCCGTTTTGCTATTTTATTTTATATAAATTGATTTATTTCTTGCGGCATTTTTACGCCGCTA
Found at i:18518233 original size:75 final size:75
Alignment explanation
Indices: 18518154--18518297 Score: 270
Period size: 75 Copynumber: 1.9 Consensus size: 75
18518144 CGCAAAATAT
18518154 TATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATTTTGTTTTATATAAATTGATTTATTTCTT
1 TATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATTTTGTTTTATATAAATTGATTTATTTCTT
18518219 GCGTCGCCGC
66 GCGTCGCCGC
* *
18518229 TATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATTTTGTTTTTTATAAATTGATTTATTTTTT
1 TATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATTTTGTTTTATATAAATTGATTTATTTCTT
18518294 GCGT
66 GCGT
18518298 ATAAAAACGC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.22, C:0.13, G:0.15, T:0.50
Consensus pattern (75 bp):
TATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATTTTGTTTTATATAAATTGATTTATTTCTT
GCGTCGCCGC
Found at i:18519098 original size:15 final size:15
Alignment explanation
Indices: 18519065--18519111 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
18519055 TCCCAACCCT
18519065 TAAAT-CATAATCCC
1 TAAATCCATAATCCC
18519079 T-AATCCATAATCCC
1 TAAATCCATAATCCC
*
18519093 TAAATCCATACTCCC
1 TAAATCCATAATCCC
18519108 TAAA
1 TAAA
18519112 CCTTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 3 0.10
14 11 0.37
15 16 0.53
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:18519434 original size:300 final size:297
Alignment explanation
Indices: 18518890--18519484 Score: 876
Period size: 300 Copynumber: 2.0 Consensus size: 297
18518880 AATATATTTG
18518890 ATTTATTATTATCTCTTTTACAATTATACAAGAACATATTTAAAATATAAATTAAAAAAATAATT
1 ATTTATTATTATCTCTTTTACAATTATACAAGAACATATTTAAAATATAAATTAAAAAAATAATT
* * * * *
18518955 AATCTAAACTCAAAACCTTAACTCGACCTCTGAATCTCTAAACCTTAAATCCCTAACTCTTAACC
66 AATCTAAACTCAAAACCCTAACTCGACCCCTAAATCCCTAAACCTTAAACCCCTAACTCTTAACC
** *
18519020 CCTAACGTCTAACCCCTTAACCCCTAAACCTTAAATCCCAACCCTTAAATCATAATCCCTAATCC
131 CCTAACCACTAACCCCTTAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCCCTAATCC
* *
18519085 ATAATCCCTAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATCTTA
196 ATAATCCCTAAACCCATACTCCATAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATCTTA
* * *
18519150 AATTAATCATATACCCTAAACTAAAAACCCTAAACAA
261 AATAAATCAAATACCCTAAACCAAAAACCCTAAACAA
* *
18519187 ATTTATTATTATCTCTTTTGCAATTATATAAGATTAACATATTTAAAATATAAATTAAAAAAATA
1 ATTTATTATTATCTCTTTTACAATTATACAAG---AACATATTTAAAATATAAATTAAAAAAATA
* * *
18519252 ATTAATCTAAACTCAAAACCCTAACTCGACCCCTAAATCCCT-AACTTTTAACCCCTAACGTGTC
63 ATTAATCTAAACTCAAAACCCTAACTCGACCCCTAAATCCCTAAACCTTAAACCCCTAAC-TCT-
*
18519316 TAACCCCTAAACCACTAA-CCCTCTAACCCCT-AACCTTAAATCTCAACCCTTAAACCATAATCC
126 TAACCCCT-AACCACTAACCCCT-TAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCC
* * * *
18519379 CTAATTCATAATCCCT-AACCCATACTCCATATACCTTAAAATA-GTAACTCCTAAACTGGTCTT
189 CTAATCCATAATCCCTAAACCCATACTCCATAAACCTTAAAATATG-AACTCCTAAACCGGCCTT
18519442 AAATCTTAAATAAATCAAATACCCTAAACCAAAAACCCTAAAC
253 AAATCTTAAATAAATCAAATACCCTAAACCAAAAACCCTAAAC
18519485 TATAATAATA
Statistics
Matches: 267, Mismatches: 23, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
297 30 0.11
299 15 0.06
300 150 0.56
301 57 0.21
302 15 0.06
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.29
Consensus pattern (297 bp):
ATTTATTATTATCTCTTTTACAATTATACAAGAACATATTTAAAATATAAATTAAAAAAATAATT
AATCTAAACTCAAAACCCTAACTCGACCCCTAAATCCCTAAACCTTAAACCCCTAACTCTTAACC
CCTAACCACTAACCCCTTAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCCCTAATCC
ATAATCCCTAAACCCATACTCCATAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATCTTA
AATAAATCAAATACCCTAAACCAAAAACCCTAAACAA
Found at i:18519766 original size:72 final size:72
Alignment explanation
Indices: 18519630--18519795 Score: 271
Period size: 72 Copynumber: 2.3 Consensus size: 72
18519620 AATACTATCT
* *
18519630 CTTTCTTAAAAACGCCGCTAAATACCAGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
1 CTTTCTCAAAAACGCCGCTAAATACCAGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTT
18519695 TGCGGCG
66 TGCGGCG
* * *
18519702 CTTTCTCAAAAACACCGCTAAATCCCCGAAAGCTCA-AAAACGACGTCGTTGGGCTTAGGTTTTT
1 CTTTCTCAAAAACGCCGCTAAATACCAGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGG-TTTT
18519766 TTGCGGCG
65 TTGCGGCG
18519774 CTTTCTCAAAAACGCCGCTAAA
1 CTTTCTCAAAAACGCCGCTAAA
18519796 GCCCTGAGCA
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
71 22 0.25
72 65 0.75
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (72 bp):
CTTTCTCAAAAACGCCGCTAAATACCAGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTT
TGCGGCG
Found at i:18519911 original size:115 final size:114
Alignment explanation
Indices: 18519696--18520024 Score: 536
Period size: 115 Copynumber: 2.9 Consensus size: 114
18519686 TAGGTTTTTT
* * * * * *
18519696 GCGGCGCTTTCTCAAAAACACCGCTAAATCCCCGAAAGCTCA-AAAACGACGTCGTTGGGCTTAG
1 GCGGTGCTTTCTTAAAAACGCCGCTAAATTCCCGGAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
*
18519760 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
18519809 GCGGTGCTTTCTTAAAAACGCCGCTAAATTCCCGGAAGCTCAGAAAACGGCATCGTTGGGCTTAG
1 GCGGTGCTTTCTTAAAAACGCCGCTAAATTCCCGGAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
18519874 GTTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 G-TTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
18519924 GCGGTGCTTTCTTAAAAACGCCGCTAAATTCCCGGAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
1 GCGGTGCTTTCTTAAAAACGCCGCTAAATTCCCGGAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
* *
18519989 GTTTTTTTGCGGCACTTTCCT-AAAAACGCTGCTAAA
66 GTTTTTTTGCGGCGC-TTCCTCAAAAACGCCGCTAAA
18520025 TCCCCGAAAG
Statistics
Matches: 202, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
113 37 0.18
114 48 0.24
115 117 0.58
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (114 bp):
GCGGTGCTTTCTTAAAAACGCCGCTAAATTCCCGGAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
GTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:18520023 original size:73 final size:73
Alignment explanation
Indices: 18519930--18520097 Score: 257
Period size: 73 Copynumber: 2.3 Consensus size: 73
18519920 ATTAGCGGTG
* * * *
18519930 CTTTCTTAAAAACGCCGCTAAATTCCCGGAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
1 CTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTT
18519995 TTGCGGCA
66 TTGCGGCA
* *
18520003 CTTTCCTAAAAACGCTGCTAAATCCCCGAAAGCTCAGAAAACAGTGTCGTTGGGCTTAGGTTTTT
1 CTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTT
*
18520068 TTGCGGCG
66 TTGCGGCA
18520076 C-TTCCTCAAAAACGCCGCTAAA
1 CTTTCCT-AAAAACGCCGCTAAA
18520098 GCCCTAAGCA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
72 5 0.06
73 81 0.94
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (73 bp):
CTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTT
TTGCGGCA
Found at i:18520137 original size:187 final size:188
Alignment explanation
Indices: 18519815--18520211 Score: 654
Period size: 187 Copynumber: 2.1 Consensus size: 188
18519805 ATTAGCGGTG
* * * *
18519815 CTTTCTTAAAAACGCCGCTAAATTCCCGGAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTT
1 CTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTT
* *
18519880 TTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTTCTTAAAAACGC
66 TTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAACGC
* *
18519945 CGCTAAATTCCCGGAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCA
131 CGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCA
* **
18520003 CTTTCCTAAAAACGCTGCTAAATCCCCGAAAGCTCAGAAAACAGTGTCGTTGGGCTTAGG-TTTT
1 CTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTT
18520067 TTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAACGC
66 TTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAACGC
*
18520132 CGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCG
131 CGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCA
*
18520190 C-TTCCTCAAAAACGCCGTTAAA
1 CTTTCCT-AAAAACGCCGCTAAA
18520212 GAAAGCGCCG
Statistics
Matches: 194, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
186 5 0.03
187 136 0.70
188 53 0.27
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (188 bp):
CTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTT
TTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAACGC
CGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCA
Found at i:18520197 original size:114 final size:114
Alignment explanation
Indices: 18519997--18520212 Score: 378
Period size: 114 Copynumber: 1.9 Consensus size: 114
18519987 AGGTTTTTTT
* *
18519997 GCGGCACTTTCCTAAAAACGCTGCTAAATCCCCGAAAGCTCAGAAAACAGTGTCGTTGGGCTTAG
1 GCGGCACTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAG
18520062 GTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCATTA
66 GTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCATTA
* * *
18520111 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
1 GCGGCACTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAG
*
18520176 GTTTTTTTGCGGCGCTTCCTCAAAAACGCCGTTAAAG
66 GTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAG
18520213 AAAGCGCCGC
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (114 bp):
GCGGCACTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAG
GTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCATTA
Found at i:18521139 original size:31 final size:31
Alignment explanation
Indices: 18521095--18521155 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
18521085 CAATCTAATG
*
18521095 ACTTCAATAAAAACTTTTGAATAGTTCAATA
1 ACTTAAATAAAAACTTTTGAATAGTTCAATA
*
18521126 ACTTAAATGAAAACTTTTGAATAGTTCAAT
1 ACTTAAATAAAAACTTTTGAATAGTTCAAT
18521156 GACCAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTTGAATAGTTCAATA
Found at i:18521613 original size:16 final size:16
Alignment explanation
Indices: 18521594--18521625 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
18521584 TTTTAAAGTA
18521594 TTTTTAAAATA-ATTT
1 TTTTTAAAATACATTT
18521609 TTTTTAAAATACATTT
1 TTTTTAAAATACATTT
18521625 T
1 T
18521626 CGAATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTTAAAATACATTT
Found at i:18522976 original size:25 final size:28
Alignment explanation
Indices: 18522948--18523005 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
18522938 AATTTATACT
*
18522948 AATATTTA-A-TAATATTTAACT-TTAA
1 AATATTTAGATTAATATTAAACTCTTAA
18522973 AATA-TTAGATTAATATTAAACTCTTAA
1 AATATTTAGATTAATATTAAACTCTTAA
18523000 AATATT
1 AATATT
18523006 AAACATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 3 0.11
25 5 0.18
26 11 0.39
27 8 0.29
28 1 0.04
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (28 bp):
AATATTTAGATTAATATTAAACTCTTAA
Found at i:18525832 original size:26 final size:26
Alignment explanation
Indices: 18525796--18525856 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
18525786 TTCTCACCCC
*
18525796 AATTTTACCCCCAGTAAAATTTTTAT
1 AATTTTACCCCCAGTAAAATTTTGAT
*
18525822 AATTTTACCCCTAGTAAAATTTTGAT
1 AATTTTACCCCCAGTAAAATTTTGAT
*
18525848 GATTTTACC
1 AATTTTACC
18525857 ATCGATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.43
Consensus pattern (26 bp):
AATTTTACCCCCAGTAAAATTTTGAT
Found at i:18525865 original size:26 final size:26
Alignment explanation
Indices: 18525796--18525869 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
18525786 TTCTCACCCC
* *
18525796 AATTTTACCCCCAGTAAAATTTTTAT
1 AATTTTACCCCGAGTAAAATTTTGAT
*
18525822 AATTTTACCCCTAGTAAAATTTTGAT
1 AATTTTACCCCGAGTAAAATTTTGAT
* *
18525848 GATTTTACCATCGA-TAAAATTT
1 AATTTTACC-CCGAGTAAAATTT
18525870 ATAGAAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 40 0.95
27 2 0.05
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (26 bp):
AATTTTACCCCGAGTAAAATTTTGAT
Found at i:18533533 original size:30 final size:30
Alignment explanation
Indices: 18533492--18533566 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
18533482 GATAAAATAA
18533492 GTGACCAAAATGAAAATTTACTAAAGTTAG
1 GTGACCAAAATGAAAATTTACTAAAGTTAG
* *
18533522 GTGACCGAAATGAAAATTTACTAAAGTTGG
1 GTGACCAAAATGAAAATTTACTAAAGTTAG
*
18533552 GTGACTAAAATGAAA
1 GTGACCAAAATGAAA
18533567 GTACAATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.25
Consensus pattern (30 bp):
GTGACCAAAATGAAAATTTACTAAAGTTAG
Found at i:18535488 original size:26 final size:26
Alignment explanation
Indices: 18535467--18535562 Score: 90
Period size: 25 Copynumber: 3.7 Consensus size: 26
18535457 CATATATATG
18535467 TATATA-TTCTT-TATTTATTATAAA
1 TATATATTTCTTATATTTATTATAAA
* **
18535491 TATATATTTCTTATATTTCATATTTTCTA
1 TATATATTTCTTATA-TT--TATTATAAA
* * *
18535520 CATACATAT-TTATATTTATTATAAA
1 TATATATTTCTTATATTTATTATAAA
18535545 TATATATTTCTTATATTT
1 TATATATTTCTTATATTT
18535563 CATATTTTCT
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
24 6 0.11
25 17 0.31
26 10 0.19
27 4 0.07
28 5 0.09
29 12 0.22
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.58
Consensus pattern (26 bp):
TATATATTTCTTATATTTATTATAAA
Found at i:18535504 original size:17 final size:17
Alignment explanation
Indices: 18535478--18535559 Score: 67
Period size: 17 Copynumber: 4.6 Consensus size: 17
18535468 ATATATTCTT
*
18535478 TATTTATTATAAATATA
1 TATTTCTTATAAATATA
**
18535495 TATTTCTTATATTTCATA
1 TATTTCTTATAAAT-ATA
* *
18535513 T-TTTCTACATACATATTTA
1 TATTTCT-TATA-A-ATATA
*
18535532 TATTTATTATAAATATA
1 TATTTCTTATAAATATA
18535549 TATTTCTTATA
1 TATTTCTTATA
18535560 TTTCATATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
17 30 0.61
18 8 0.16
19 6 0.12
20 5 0.10
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTCTTATAAATATA
Found at i:18535523 original size:63 final size:57
Alignment explanation
Indices: 18535478--18535587 Score: 192
Period size: 54 Copynumber: 2.0 Consensus size: 57
18535468 ATATATTCTT
18535478 TATTTATTATAAATATATATTTCTTATATTTCATATTTTCTACATACATA-T-T-TA
1 TATTTATTATAAATATATATTTCTTATATTTCATATTTTCTACATACATATTATATA
18535532 TATTTATTATAAATATATATTTCTTATATTTCATATTTTCTACATACATATT-TATA
1 TATTTATTATAAATATATATTTCTTATATTTCATATTTTCTACATACATATTATATA
18535588 CTTATATATT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
54 50 0.93
55 2 0.04
56 2 0.04
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.55
Consensus pattern (57 bp):
TATTTATTATAAATATATATTTCTTATATTTCATATTTTCTACATACATATTATATA
Found at i:18535695 original size:19 final size:21
Alignment explanation
Indices: 18535673--18535728 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
18535663 ATCTCGTATA
18535673 TTTTTACATTTTTA-TAATTT
1 TTTTTACATTTTTATTAATTT
* *
18535693 TTTTTA-AATTTTATTTA-TT
1 TTTTTACATTTTTATTAATTT
* *
18535712 TATTTACATTTTCATTA
1 TTTTTACATTTTTATTA
18535729 TTATCTTGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTACATTTTTATTAATTT
Found at i:18543527 original size:27 final size:27
Alignment explanation
Indices: 18543497--18543551 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
18543487 ATTATCAAAA
*
18543497 TTAATTAAAATTCAA-TATTTTAATAAT
1 TTAAGTAAAATTCAATTATTTT-ATAAT
* *
18543524 TTAAGTACAATTTAATTATTTTATAAT
1 TTAAGTAAAATTCAATTATTTTATAAT
18543551 T
1 T
18543552 ATATTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (27 bp):
TTAAGTAAAATTCAATTATTTTATAAT
Found at i:18546632 original size:22 final size:24
Alignment explanation
Indices: 18546589--18546632 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
18546579 TGATAATATG
18546589 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
18546613 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
18546633 TGAGCATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:18548126 original size:9 final size:9
Alignment explanation
Indices: 18548107--18548143 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
18548097 TGAGTTTTCG
18548107 AATTCGAAT
1 AATTCGAAT
18548116 AACTT-GAAT
1 AA-TTCGAAT
18548125 AATTCGAAT
1 AATTCGAAT
18548134 AATTCGAAT
1 AATTCGAAT
18548143 A
1 A
18548144 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:18549023 original size:5 final size:5
Alignment explanation
Indices: 18549013--18549039 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18549003 AAATATATTT
18549013 GATTC GATTC GATTC GATTC GATTC GA
1 GATTC GATTC GATTC GATTC GATTC GA
18549040 ATTCCATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (5 bp):
GATTC
Found at i:18549994 original size:24 final size:24
Alignment explanation
Indices: 18549950--18549995 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
18549940 TTTAATAATT
* *
18549950 AGATACAGATGCGTACTCAGATTC
1 AGATACAAATGCGTACACAGATTC
18549974 AGATACAAATGCAG-ACACAGAT
1 AGATACAAATGC-GTACACAGAT
18549996 CCTACCTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (24 bp):
AGATACAAATGCGTACACAGATTC
Found at i:18553780 original size:9 final size:9
Alignment explanation
Indices: 18553766--18553838 Score: 51
Period size: 9 Copynumber: 8.3 Consensus size: 9
18553756 TTCCATGCAA
18553766 TTTTTTCTT
1 TTTTTTCTT
18553775 TTTTTTC-T
1 TTTTTTCTT
*
18553783 TTCTTTCTT
1 TTTTTTCTT
*
18553792 TTTGTT-TT
1 TTTTTTCTT
* * *
18553800 TCTCTTCTC
1 TTTTTTCTT
*
18553809 TTATTTCTT
1 TTTTTTCTT
*
18553818 TTCTTTCTT
1 TTTTTTCTT
**
18553827 TCCTTTCTT
1 TTTTTTCTT
18553836 TTT
1 TTT
18553839 CAGCTGCTTC
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
8 13 0.27
9 35 0.73
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:18555138 original size:22 final size:21
Alignment explanation
Indices: 18555089--18555159 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 21
18555079 AGTTCTAAAA
*
18555089 TATATTTAAAATTTAAAATATTTT
1 TATATTT-ATATTTAAAA-A-TTT
*
18555113 TATATTTACTTTTTAAAAATTT
1 TATATTTA-TATTTAAAAATTT
*
18555135 TATAATTTATATTT-AAATTTT
1 TAT-ATTTATATTTAAAAATTT
18555156 TATA
1 TATA
18555160 ATTTTCTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.02
21 9 0.22
22 10 0.24
23 7 0.17
24 14 0.34
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATTTATATTTAAAAATTT
Found at i:18555142 original size:23 final size:22
Alignment explanation
Indices: 18555099--18555163 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 22
18555089 TATATTTAAA
18555099 ATTTAAAATATTTT-TATATTTACT
1 ATTTAAAA-ATTTTATA-ATTTA-T
*
18555123 TTTTAAAAATTTTATAATTTAT
1 ATTTAAAAATTTTATAATTTAT
*
18555145 ATTT-AAATTTTTATAATTT
1 ATTTAAAAATTTTATAATTT
18555164 TCTATTTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 14 0.38
22 4 0.11
23 10 0.27
24 9 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTAAAAATTTTATAATTTAT
Found at i:18555169 original size:22 final size:22
Alignment explanation
Indices: 18555108--18555171 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
18555098 AATTTAAAAT
* *
18555108 ATTTTTAT-ATTTACTTTTTAAA
1 ATTTTTATAATTTTCTATTT-AA
* *
18555130 AATTTTATAA-TTTATATTTAA
1 ATTTTTATAATTTTCTATTTAA
18555151 ATTTTTATAATTTTCTATTTA
1 ATTTTTATAATTTTCTATTTA
18555172 CTTTTTTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 11 0.32
22 22 0.65
23 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTTATAATTTTCTATTTAA
Found at i:18556654 original size:15 final size:15
Alignment explanation
Indices: 18556635--18556664 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
18556625 TATACTTAAA
18556635 AAAAACAAAAACCTGC
1 AAAAA-AAAAACCTGC
18556651 AAAAAAAAAACCTG
1 AAAAAAAAAACCTG
18556665 TGGCGGCACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.20, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAACCTGC
Found at i:18556695 original size:27 final size:27
Alignment explanation
Indices: 18556665--18556727 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
18556655 AAAAAACCTG
* *
18556665 TGGCGGCACCAAAGGTGTCAAAGTGAT
1 TGGCGGCACCAAAGGTGCCAAAGAGAT
*
18556692 TGGCAGCACCAAAGGTGCCAAAGAGAT
1 TGGCGGCACCAAAGGTGCCAAAGAGAT
18556719 TGGCGGCAC
1 TGGCGGCAC
18556728 AGGACTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.30, C:0.22, G:0.33, T:0.14
Consensus pattern (27 bp):
TGGCGGCACCAAAGGTGCCAAAGAGAT
Found at i:18557219 original size:19 final size:19
Alignment explanation
Indices: 18557195--18557257 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
18557185 TCTAATTAAG
18557195 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
* * ** ***
18557214 TAATAAGTTTATTAAAAAG
1 TAATAACTCTATTTTACTT
18557233 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
18557252 TAATAA
1 TAATAA
18557258 ACTATTGCTT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATAACTCTATTTTACTT
Found at i:18557321 original size:18 final size:17
Alignment explanation
Indices: 18557292--18557326 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18557282 GTAATGTTTC
*
18557292 AAAAAATGTTTTTAGGA
1 AAAAAATGTTTTAAGGA
18557309 AAAAAATGTTTTTAAGGA
1 AAAAAATG-TTTTAAGGA
18557327 GAAGTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
AAAAAATGTTTTAAGGA
Found at i:18558695 original size:27 final size:27
Alignment explanation
Indices: 18558657--18558718 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
18558647 TTTTAGTCCT
*
18558657 GTGCCGCCAATCTCTTTGACACCTTTG
1 GTGCCGCCAATCACTTTGACACCTTTG
*
18558684 GTGCCGCCAATCACTTTGGCACCTTTG
1 GTGCCGCCAATCACTTTGACACCTTTG
18558711 GTGCCGCC
1 GTGCCGCC
18558719 GCAGGTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.13, C:0.35, G:0.23, T:0.29
Consensus pattern (27 bp):
GTGCCGCCAATCACTTTGACACCTTTG
Found at i:18560861 original size:20 final size:20
Alignment explanation
Indices: 18560823--18560860 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18560813 TTGAAATATA
*
18560823 TATATAATATTCATAAAAAT
1 TATAAAATATTCATAAAAAT
18560843 TATAAAATATTC-TAAAAA
1 TATAAAATATTCATAAAAA
18560861 AATCAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
TATAAAATATTCATAAAAAT
Found at i:18560869 original size:20 final size:20
Alignment explanation
Indices: 18560828--18560870 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
18560818 ATATATATAT
* *
18560828 AATATTCATAAAAATTATAA
1 AATATTCAAAAAAATCATAA
18560848 AATATTCTAAAAAAATCA-AA
1 AATATTC-AAAAAAATCATAA
18560868 AAT
1 AAT
18560871 TTAAAATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
AATATTCAAAAAAATCATAA
Found at i:18566474 original size:20 final size:20
Alignment explanation
Indices: 18566449--18566490 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
18566439 GTTTGCACAC
*
18566449 GGGCGTGTAGAATTCCATAT
1 GGGCGTGTAGAACTCCATAT
* *
18566469 GGGCGTGTTGAGCTCCATAT
1 GGGCGTGTAGAACTCCATAT
18566489 GG
1 GG
18566491 CCGGGGCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.29
Consensus pattern (20 bp):
GGGCGTGTAGAACTCCATAT
Found at i:18578346 original size:3 final size:3
Alignment explanation
Indices: 18578338--18578378 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
18578328 ACATGTTTCC
18578338 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18578379 ATACATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18585587 original size:25 final size:26
Alignment explanation
Indices: 18585559--18585607 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
18585549 TAAATGTCAA
18585559 AAAAGTA-GA-AAGGCCGAAATTTGGG
1 AAAAGTATGAGAA-GCCGAAATTTGGG
18585584 AAAAGTATGAGAAGCCGAAATTTG
1 AAAAGTATGAGAAGCCGAAATTTG
18585608 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.32
26 13 0.59
27 2 0.09
ACGTcount: A:0.45, C:0.08, G:0.29, T:0.18
Consensus pattern (26 bp):
AAAAGTATGAGAAGCCGAAATTTGGG
Found at i:18585613 original size:26 final size:25
Alignment explanation
Indices: 18585557--18585613 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
18585547 TCTAAATGTC
18585557 AAAAAAGTAGAAAGGCCGAAATTTG
1 AAAAAAGTAGAAAGGCCGAAATTTG
**
18585582 GGAAAAGTATGAGAA-GCCGAAATTTG
1 AAAAAAGTA-GA-AAGGCCGAAATTTG
18585608 AAAAAA
1 AAAAAA
18585614 AAAAGATAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 7 0.27
26 17 0.65
27 2 0.08
ACGTcount: A:0.53, C:0.07, G:0.25, T:0.16
Consensus pattern (25 bp):
AAAAAAGTAGAAAGGCCGAAATTTG
Found at i:18590170 original size:24 final size:24
Alignment explanation
Indices: 18590136--18590192 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
18590126 GATATATCGA
18590136 CTTTTCATTGAGT-TCCTTTTAGAC
1 CTTTTCATTGA-TATCCTTTTAGAC
* * *
18590160 TTTTTCGTTGATATCCTTTTCGAC
1 CTTTTCATTGATATCCTTTTAGAC
18590184 CTTTTCATT
1 CTTTTCATT
18590193 TGTTATCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.14, C:0.21, G:0.11, T:0.54
Consensus pattern (24 bp):
CTTTTCATTGATATCCTTTTAGAC
Found at i:18590199 original size:25 final size:24
Alignment explanation
Indices: 18590132--18590206 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
18590122 GGATGATATA
*
18590132 TCGA-CTTTTCATTGAGT-TCCTTT
1 TCGACCTTTTCGTTGA-TATCCTTT
* *
18590155 TAGACTTTTTCGTTGATATCCTTT
1 TCGACCTTTTCGTTGATATCCTTT
* *
18590179 TCGACCTTTTCATTTGTTAT-CTTT
1 TCGACCTTTTC-GTTGATATCCTTT
18590203 TCGA
1 TCGA
18590207 ATGACATCCT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
23 4 0.10
24 32 0.76
25 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.12, T:0.53
Consensus pattern (24 bp):
TCGACCTTTTCGTTGATATCCTTT
Found at i:18590216 original size:40 final size:36
Alignment explanation
Indices: 18590172--18590268 Score: 113
Period size: 36 Copynumber: 2.6 Consensus size: 36
18590162 TTTCGTTGAT
* **
18590172 ATCCTTTTCGACCTTTTCATTTGTTATCTTTTCGAATGAC
1 ATCCTTTTCAACCTTTTCATTTGTTATC----CGAAAAAC
* *
18590212 ATCCTGTTCAACCTTTTCACTTGTTATCCGAAAAAC
1 ATCCTTTTCAACCTTTTCATTTGTTATCCGAAAAAC
18590248 ATCCTTTTCAACCTTTTCATT
1 ATCCTTTTCAACCTTTTCATT
18590269 GATTCAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
36 25 0.50
40 25 0.50
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.45
Consensus pattern (36 bp):
ATCCTTTTCAACCTTTTCATTTGTTATCCGAAAAAC
Found at i:18590258 original size:36 final size:37
Alignment explanation
Indices: 18590172--18590266 Score: 111
Period size: 40 Copynumber: 2.5 Consensus size: 37
18590162 TTTCGTTGAT
* * **
18590172 ATCCTTTTCGACCTTTTCATTTGTTATCTTTTCGAATGAC
1 ATCCTTTTCAACCTTTTCACTTGTTATC---TCGAAAAAC
*
18590212 ATCCTGTTCAACCTTTTCACTTGTTATC-CGAAAAAC
1 ATCCTTTTCAACCTTTTCACTTGTTATCTCGAAAAAC
18590248 ATCCTTTTCAACCTTTTCA
1 ATCCTTTTCAACCTTTTCA
18590267 TTGATTCAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
36 24 0.49
40 25 0.51
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.44
Consensus pattern (37 bp):
ATCCTTTTCAACCTTTTCACTTGTTATCTCGAAAAAC
Found at i:18599243 original size:3 final size:3
Alignment explanation
Indices: 18599235--18599290 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
18599225 GTAGAAATAT
*
18599235 ATG ATG ATG ATG GTG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
18599283 ATG ATG AT
1 ATG ATG AT
18599291 AAACAATCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:18602815 original size:11 final size:11
Alignment explanation
Indices: 18602796--18602828 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
18602786 AGAACACTAC
*
18602796 AAAATATCTAT
1 AAAAGATCTAT
18602807 AAAAGATCTAT
1 AAAAGATCTAT
18602818 AAAAGATCTAT
1 AAAAGATCTAT
18602829 CGGGAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (11 bp):
AAAAGATCTAT
Found at i:18605254 original size:6 final size:6
Alignment explanation
Indices: 18605243--18605272 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
18605233 CCACTCAGAT
18605243 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
18605273 AATATTGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:18609319 original size:66 final size:66
Alignment explanation
Indices: 18609197--18609320 Score: 144
Period size: 66 Copynumber: 1.9 Consensus size: 66
18609187 GTGATTTATG
* **
18609197 TATTGAATTTTCATTATTGTATTAACTTAAATTATTTACATATATTTGCATTATATTTCTATTTT
1 TATTGAATTTTCATTATTGTATTAACTTAAATTATTTACATATACTTGCAAAATATTTCTATTTT
18609262 T
66 T
* * * * *
18609263 TATTGAATTTTCATTCTTGT-TTCAATTTCAATTATTTAGATGA-ACTTGTAAAATATTT
1 TATTGAATTTTCATTATTGTATT-AACTTAAATTATTTACAT-ATACTTGCAAAATATTT
18609321 GAATGAACTT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
65 2 0.04
66 45 0.94
67 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (66 bp):
TATTGAATTTTCATTATTGTATTAACTTAAATTATTTACATATACTTGCAAAATATTTCTATTTT
T
Found at i:18609958 original size:30 final size:30
Alignment explanation
Indices: 18609924--18609986 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
18609914 ACTTATTTTA
*
18609924 TTGTTAATTTTGTTATTATTTTAAAGACGT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
18609954 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
18609984 TTG
1 TTG
18609987 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:18616595 original size:18 final size:18
Alignment explanation
Indices: 18616564--18616601 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18616554 TAAAAATCAC
*
18616564 ATTTTTTACATTTAATAT
1 ATTTTTTACATTTAAAAT
18616582 ATTTTTTA-ATTTTAAAAT
1 ATTTTTTACA-TTTAAAAT
18616600 AT
1 AT
18616602 ATAGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTACATTTAAAAT
Found at i:18620715 original size:25 final size:25
Alignment explanation
Indices: 18620652--18620766 Score: 115
Period size: 25 Copynumber: 4.6 Consensus size: 25
18620642 ATTCATGTAT
* * * *
18620652 GCTCATACGAGCTATGAATCAGTAT
1 GCTCATACGAGCTGTGAATCGGGAA
*
18620677 GCTCTTACGAGCTGTGAATCGGGAA
1 GCTCATACGAGCTGTGAATCGGGAA
* * * * *
18620702 GCTCATATGAGCTG-CAGTTGAGAA
1 GCTCATACGAGCTGTGAATCGGGAA
* *
18620726 GCTCATACGAGCTATAAATCGGGAA
1 GCTCATACGAGCTGTGAATCGGGAA
18620751 GCTCATACGAGCTGTG
1 GCTCATACGAGCTGTG
18620767 GTGTGTTCGC
Statistics
Matches: 70, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
24 18 0.26
25 52 0.74
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGTGAATCGGGAA
Found at i:18628283 original size:21 final size:21
Alignment explanation
Indices: 18628257--18628315 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
18628247 CATGGTTTGC
*
18628257 CCACACGACTGTGTATCTCAG
1 CCACACGACTGTGTACCTCAG
* * *
18628278 CCACACGGCCGTGTCCCTCAG
1 CCACACGACTGTGTACCTCAG
*
18628299 CCATACGACTGTGTACC
1 CCACACGACTGTGTACC
18628316 CTTATCACAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.39, G:0.20, T:0.20
Consensus pattern (21 bp):
CCACACGACTGTGTACCTCAG
Found at i:18635681 original size:20 final size:20
Alignment explanation
Indices: 18635635--18635682 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
18635625 TGAACTAAAC
*
18635635 TTTAATTTAATTTTTGAGTAT
1 TTTAA-TTAATTTTGGAGTAT
*
18635656 TATAATTAATTTTGGA-TAAT
1 TTTAATTAATTTTGGAGT-AT
18635676 TTTAATT
1 TTTAATT
18635683 TTTATCGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 18 0.78
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTAATTAATTTTGGAGTAT
Found at i:18637224 original size:7 final size:7
Alignment explanation
Indices: 18637193--18637218 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18637183 TCAAGGGATG
18637193 TTTTTTA
1 TTTTTTA
18637200 TTTTTTA
1 TTTTTTA
18637207 TTTTTTA
1 TTTTTTA
18637214 TTTTT
1 TTTTT
18637219 GTTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:18641334 original size:26 final size:26
Alignment explanation
Indices: 18641305--18641364 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
18641295 GCCATATAAT
*
18641305 AAGAAGCTCACGAAGAGCCTTTAAAC
1 AAGAAGCTCACGAAGAGCCATTAAAC
*
18641331 AAGAAGCTCACGAAGAGCCATTAATC
1 AAGAAGCTCACGAAGAGCCATTAAAC
18641357 -AGAAGCTC
1 AAGAAGCTC
18641365 TAGACAACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 8 0.25
26 24 0.75
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (26 bp):
AAGAAGCTCACGAAGAGCCATTAAAC
Found at i:18644294 original size:20 final size:20
Alignment explanation
Indices: 18644269--18644306 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18644259 GACAAAATTG
18644269 TTATTCCCAGAAAATAAAAT
1 TTATTCCCAGAAAATAAAAT
**
18644289 TTATTCTTAGAAAATAAA
1 TTATTCCCAGAAAATAAA
18644307 TTTCCACTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (20 bp):
TTATTCCCAGAAAATAAAAT
Found at i:18648578 original size:23 final size:23
Alignment explanation
Indices: 18648552--18648739 Score: 272
Period size: 23 Copynumber: 8.2 Consensus size: 23
18648542 ATAAGTGCCA
*
18648552 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
18648575 CACTAATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
18648598 CACTAAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
18648621 CACTGATATGTAGCTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
18648644 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18648667 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18648690 CACTGATATGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
18648713 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
18648736 CACT
1 CACT
18648740 AATCAATAAC
Statistics
Matches: 149, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
22 2 0.01
23 146 0.98
24 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:18658503 original size:3 final size:3
Alignment explanation
Indices: 18658495--18658534 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18658485 AACGAAAATA
18658495 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18658535 TCCAGATCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18660633 original size:19 final size:19
Alignment explanation
Indices: 18660591--18660634 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
18660581 ATATTTTAAC
18660591 TTTATTTAGGTAGATAAAT
1 TTTATTTAGGTAGATAAAT
* *
18660610 CTTATTTAGGTAGATAAGT
1 TTTATTTAGGTAGATAAAT
18660629 TTTATT
1 TTTATT
18660635 CATATTATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (19 bp):
TTTATTTAGGTAGATAAAT
Found at i:18664532 original size:19 final size:19
Alignment explanation
Indices: 18664466--18664524 Score: 111
Period size: 19 Copynumber: 3.2 Consensus size: 19
18664456 GTATATATTT
18664466 TAAAT-TTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
18664484 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
18664503 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
18664522 TAA
1 TAA
18664525 GTTTTATTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 5 0.12
19 35 0.88
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (19 bp):
TAAATCTTATTTAGGTAGA
Found at i:18672013 original size:31 final size:31
Alignment explanation
Indices: 18671975--18672035 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
18671965 TGGGCATTGC
* *
18671975 CATTACATATTTTTATCATTGTAGTCACTTT
1 CATTACATACTTTTATCATTGTAGCCACTTT
*
18672006 CATTACATACTTTTATCATTTTAGCCACTT
1 CATTACATACTTTTATCATTGTAGCCACTT
18672036 GCCATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.49
Consensus pattern (31 bp):
CATTACATACTTTTATCATTGTAGCCACTTT
Found at i:18682514 original size:18 final size:17
Alignment explanation
Indices: 18682474--18682515 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
18682464 TTCCTGGTCA
18682474 AGAGGAATCTACTGTTG
1 AGAGGAATCTACTGTTG
18682491 AGGAGGAATCTACTGTTAG
1 A-GAGGAATCTACTGTT-G
18682510 AGAGGA
1 AGAGGA
18682516 GGAAGTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.04
18 20 0.87
19 2 0.09
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.24
Consensus pattern (17 bp):
AGAGGAATCTACTGTTG
Found at i:18683689 original size:9 final size:9
Alignment explanation
Indices: 18683660--18683704 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
18683650 TTAAGATATA
*
18683660 TATAAATAT
1 TATAATTAT
18683669 TAT-ATGTA-
1 TATAAT-TAT
18683677 TATAATTAT
1 TATAATTAT
18683686 TATAATTAT
1 TATAATTAT
18683695 TATAATTAT
1 TATAATTAT
18683704 T
1 T
18683705 TATTTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATAATTAT
Found at i:18683868 original size:4 final size:4
Alignment explanation
Indices: 18683859--18683898 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
18683849 AGTAAAAGAT
* *
18683859 ATTA ATTA ATTA ATCA ATTA ATTA ATTA ATTG ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
18683899 TATCATGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:18701184 original size:2 final size:2
Alignment explanation
Indices: 18701177--18701236 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
18701167 ACTTGGAGAT
18701177 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18701219 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
18701237 CCCTTTCTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:18702189 original size:17 final size:16
Alignment explanation
Indices: 18702162--18702206 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
18702152 ATATAAAATG
18702162 TTAAA-ATTATTTATT
1 TTAAATATTATTTATT
18702177 TTCAAATATTA-TT-TT
1 TT-AAATATTATTTATT
*
18702192 TTACATATTATTTAT
1 TTAAATATTATTTAT
18702207 AAAGTTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
14 7 0.28
15 8 0.32
16 6 0.24
17 4 0.16
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
TTAAATATTATTTATT
Found at i:18702917 original size:5 final size:5
Alignment explanation
Indices: 18702907--18702934 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
18702897 TTTATAACAA
18702907 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
18702935 GTTAATGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:18706173 original size:97 final size:97
Alignment explanation
Indices: 18706057--18706274 Score: 314
Period size: 97 Copynumber: 2.2 Consensus size: 97
18706047 AAAATTTTTC
*
18706057 TGGGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAATTTT-GGTGCTGACTTGT
1 TGGGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAATTTTAGGTGCTGACCTGT
18706121 CAATGGCCGACACCAACACGAAAAAAAAAATTT
66 CAATGGCCGACACCAACA-GAAAAAAAAAATTT
*
18706154 TGGGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAATTTTAGGTGCTGGCCTGT
1 TGGGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAATTTTAGGTGCTGACCTGT
* * ** * *
18706219 CAATGGCTGGCACCAGTATACAAAAAAAATTT
66 CAATGGCCGACACCAACAGAAAAAAAAAATTT
* *
18706251 TAGATGCTGGCCT-TCTAATGGCCG
1 TGGGTGCTGGCCTGTC-AATGGCCG
18706275 ACATCAAACT
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
96 2 0.02
97 82 0.75
98 25 0.23
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (97 bp):
TGGGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAATTTTAGGTGCTGACCTGT
CAATGGCCGACACCAACAGAAAAAAAAAATTT
Found at i:18706216 original size:50 final size:50
Alignment explanation
Indices: 18706004--18706274 Score: 288
Period size: 47 Copynumber: 5.3 Consensus size: 50
18705994 TTTTTGGTTT
* *
18706004 TGGCCTGTCAATGGCCGGCACCACCTAGGAAAACGAAAAAAATAAAATTTTTCTGGGTGC
1 TGGCCTGTCAATGGCCGGCACCACCT----ATACG--AAAAA-AAAA--TTT-TAGGTGC
18706064 TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAATTTT-GGTGC
1 TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAATTTTAGGTGC
* * * * *
18706113 TGACTTGTCAATGGCC-G-A-CACCAACACGAAAAAAAAAATTTTGGGTGC
1 TGGCCTGTCAATGGCCGGCACCACCTATACG-AAAAAAAAATTTTAGGTGC
18706161 TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAATTTTAGGTGC
1 TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAATTTTAGGTGC
* * *
18706211 TGGCCTGTCAATGGCTGGCACCA-GTATAC--AAAAAAAATTTTAGATGC
1 TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAATTTTAGGTGC
18706258 TGGCCT-TCTAATGGCCG
1 TGGCCTGTC-AATGGCCG
18706275 ACATCAAACT
Statistics
Matches: 191, Mismatches: 14, Indels: 25
0.83 0.06 0.11
Matches are distributed among these distances:
46 10 0.05
47 44 0.23
48 20 0.10
49 25 0.13
50 42 0.22
51 11 0.06
53 4 0.02
54 5 0.03
56 4 0.02
60 26 0.14
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (50 bp):
TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAATTTTAGGTGC
Found at i:18707239 original size:31 final size:31
Alignment explanation
Indices: 18707203--18707274 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
18707193 AATACTAAAA
*
18707203 AACAGAAAAATTTAAAAATAAAAG-AAATATT
1 AACAGAAAAATTTAAAAAT-AAAGTAAAAATT
* * *
18707234 TACAGAACAATTTTAAAATAAAGTAAAAATT
1 AACAGAAAAATTTAAAAATAAAGTAAAAATT
18707265 AACAGAAAAA
1 AACAGAAAAA
18707275 AATTAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.65, C:0.06, G:0.07, T:0.22
Consensus pattern (31 bp):
AACAGAAAAATTTAAAAATAAAGTAAAAATT
Found at i:18707281 original size:31 final size:31
Alignment explanation
Indices: 18707203--18707283 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
18707193 AATACTAAAA
*
18707203 AACAG-AAAAATTTAAAAATAAAAGAAATATT
1 AACAGAAAAAATTT-AAAATAAAAGAAAAATT
* * *
18707234 TACAGAACAATTTTAAAAT-AAAGTAAAAATT
1 AACAGAAAAAATTTAAAATAAAAG-AAAAATT
*
18707265 AACAGAAAAAAATTAAAAT
1 AACAGAAAAAATTTAAAAT
18707284 TGTCGCGATC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 4 0.10
31 30 0.75
32 6 0.15
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.23
Consensus pattern (31 bp):
AACAGAAAAAATTTAAAATAAAAGAAAAATT
Found at i:18709524 original size:40 final size:39
Alignment explanation
Indices: 18709454--18709581 Score: 204
Period size: 40 Copynumber: 3.2 Consensus size: 39
18709444 ATTTATTTCA
18709454 ATTTCATTTAAAAGG-CTGACACCTTTTTTTTTTCCATTT
1 ATTTCATTTAAAAGGCCTGACACCTTTTTTTTTT-CATTT
18709493 ATTTCATTTAAAAGGCCTGACACCTTTTTTTTTTTCATTT
1 ATTTCATTTAAAAGGCCTGACACC-TTTTTTTTTTCATTT
* *
18709533 ATTTTATTTAAAAGGCCTGGCACCTTTTTTTTTTCATTT
1 ATTTCATTTAAAAGGCCTGACACCTTTTTTTTTTCATTT
18709572 CATTTCATTT
1 -ATTTCATTT
18709582 TTTTATTTCA
Statistics
Matches: 83, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
39 30 0.36
40 43 0.52
41 10 0.12
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.53
Consensus pattern (39 bp):
ATTTCATTTAAAAGGCCTGACACCTTTTTTTTTTCATTT
Done.