Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 72 of 189
Found at i:20011480 original size:16 final size:17
Alignment explanation
Indices: 20011451--20011486 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
20011441 TTAATCAATT
20011451 AATTAAATTAATTTCTC
1 AATTAAATTAATTTCTC
*
20011468 AATTAAA-TAATTTTTC
1 AATTAAATTAATTTCTC
20011484 AAT
1 AAT
20011487 CCAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATTAATTTCTC
Found at i:20011631 original size:14 final size:15
Alignment explanation
Indices: 20011612--20011645 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
20011602 CTTTGAGCTT
*
20011612 TAATTATTTAATT-A
1 TAATTAATTAATTAA
20011626 TAATTAATTAATTAA
1 TAATTAATTAATTAA
20011641 TAATT
1 TAATT
20011646 TGAAGAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTAATTAATTAA
Found at i:20013634 original size:43 final size:43
Alignment explanation
Indices: 20013525--20013639 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
20013515 AGCTCGTACA
* * * *
20013525 ATGCCAACGTCTCAGACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAATCG
20013568 ATGCC-ACTGTCCCA-A-ATTGGGTCTTACACGTAAACACAAATCG
1 ATGCCAAC-GTCCCAGACA-T-GGTCTTACACGTAAACACAAATCG
* *
20013611 ATGCCAACATCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
20013640 AAAAAACACA
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
41 1 0.02
42 4 0.07
43 51 0.85
44 4 0.07
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAATCG
Found at i:20026221 original size:43 final size:43
Alignment explanation
Indices: 20026112--20026231 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
20026102 AGAAAAAGAC
* * * * *
20026112 CAAAAAAGGAAGCTATATGGAAGAAACCACA-ATTGCATCCAGA
1 CAAAAAAGGAAGCAACATGGAAGCAACCACATCTTG-ATCCAAA
* **
20026155 CAAAAAAAAGAAGCAACGGGGAAGCAACCACATCTATG-TCCAAA
1 C-AAAAAAGGAAGCAACATGGAAGCAACCACATCT-TGATCCAAA
20026199 CAAAAAAGGAAGCAACATGGAAGCAACCACATC
1 CAAAAAAGGAAGCAACATGGAAGCAACCACATC
20026232 AGGACAAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
43 30 0.48
44 30 0.48
45 1 0.02
46 2 0.03
ACGTcount: A:0.50, C:0.22, G:0.18, T:0.10
Consensus pattern (43 bp):
CAAAAAAGGAAGCAACATGGAAGCAACCACATCTTGATCCAAA
Found at i:20026583 original size:81 final size:83
Alignment explanation
Indices: 20026446--20026604 Score: 268
Period size: 81 Copynumber: 1.9 Consensus size: 83
20026436 TAAAGGAACG
20026446 GTTTTACAAAATAGGGAAGGATAGTGGATGAAAAGTAACTTGGAGAAAAAATTCAAACCCACTTG
1 GTTTTACAAAATAGGGAAGGATAGTGGATGAAAAGTAACTTGGAGAAAAAATTCAAACCCACTTG
20026511 AATGCCCCTCTTATACTA
66 AATGCCCCTCTTATACTA
* * * *
20026529 GTTTTAC-AAA-AGGGGAGGATGGTGGATGAGAAGTAACTTGGAGAAAAATTTCAAACCCACTTG
1 GTTTTACAAAATAGGGAAGGATAGTGGATGAAAAGTAACTTGGAGAAAAAATTCAAACCCACTTG
20026592 AATGCCCCTCTTA
66 AATGCCCCTCTTA
20026605 GGCTTCCTCC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
81 62 0.86
82 3 0.04
83 7 0.10
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (83 bp):
GTTTTACAAAATAGGGAAGGATAGTGGATGAAAAGTAACTTGGAGAAAAAATTCAAACCCACTTG
AATGCCCCTCTTATACTA
Found at i:20030849 original size:26 final size:26
Alignment explanation
Indices: 20030803--20030855 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 26
20030793 AAAAAAATTA
20030803 TTTTTTTATCTTTTCCTTCTTTCTTTT
1 TTTTTTTATCTTTTCCTTC-TTCTTTT
*
20030830 TTTTTTTCCTCTTTT-C-TCTTCTTTT
1 TTTTTTT-ATCTTTTCCTTCTTCTTTT
20030855 T
1 T
20030856 GCCATCCCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 8 0.33
26 2 0.08
27 8 0.33
28 6 0.25
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTTTTATCTTTTCCTTCTTCTTTT
Found at i:20030854 original size:20 final size:20
Alignment explanation
Indices: 20030813--20030855 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
20030803 TTTTTTTATC
* *
20030813 TTTTCCTTCTTTCTTTTTTT
1 TTTTCCTTCTTTCTCTTCTT
20030833 TTTTCC-TCTTTTCTCTTCTT
1 TTTTCCTTC-TTTCTCTTCTT
20030853 TTT
1 TTT
20030856 GCCATCCCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTCCTTCTTTCTCTTCTT
Found at i:20032380 original size:44 final size:44
Alignment explanation
Indices: 20032198--20032363 Score: 114
Period size: 44 Copynumber: 3.9 Consensus size: 44
20032188 AGCTCATTCA
* * * * *
20032198 ATGCCAACGTCCCAGACGTGGTCTTACATG-AAATCA-AATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACAA-ATGG
* * * *
20032241 ATGCCACTGTCCC-AACAGGGTTTTACACG-AACTC-CTATAA--G
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAC-A-AATGG
* * * * * *
20032282 ATGTCGATGTCCCAGATATGGTCTTACACGTAAATCGCAAATTG
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACAAATGG
20032326 ATGCCAATGTCCCAAACATGGTCTTACACGT-AATCACA
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACA
20032364 TATCGGAATC
Statistics
Matches: 94, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
41 11 0.12
42 29 0.31
43 24 0.26
44 30 0.32
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACAAATGG
Found at i:20036778 original size:6 final size:6
Alignment explanation
Indices: 20036734--20036782 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
20036724 CCAAACACAC
* * *
20036734 CAGTAAA CAGTAA TCAGTAA CGGTAG CAGTAA CAATAA CAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
20036783 TTCAACACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
CAGTAA
Found at i:20036818 original size:45 final size:45
Alignment explanation
Indices: 20036760--20036911 Score: 232
Period size: 45 Copynumber: 3.4 Consensus size: 45
20036750 GTAACGGTAG
* * **
20036760 CAGTAACAATAACAGTAACAGTATTCAACACACAAAGTGTTGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * *
20036805 CTGTAACAGTAACAGTAATAGTATTCGACACACAAAGTGCCGAGT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
*
20036850 CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
20036895 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
20036912 GTCGGCACAT
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 96 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:20037340 original size:26 final size:25
Alignment explanation
Indices: 20037311--20037360 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
20037301 CAATTCAATG
20037311 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
20037337 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
20037361 ACTTTCTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:20038369 original size:5 final size:5
Alignment explanation
Indices: 20038359--20038429 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
20038349 TTTGTTTATT
*
20038359 TATAA TAT-A -ATAA TATAA TA-ATA TAATAA TATAA TATAA TATAA TTTACAA
1 TATAA TATAA TATAA TATAA TATA-A T-ATAA TATAA TATAA TATAA --TATAA
*
20038410 TATAA TAAAA TAATAA TATA
1 TATAA TATAA T-ATAA TATA
20038430 CTTCGAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
3 2 0.04
4 3 0.06
5 37 0.69
6 7 0.13
7 5 0.09
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:20038373 original size:3 final size:3
Alignment explanation
Indices: 20038360--20038427 Score: 53
Period size: 3 Copynumber: 25.0 Consensus size: 3
20038350 TTGTTTATTT
20038360 ATA AT- ATA ATA AT- ATA ATA AT- ATA ATA AT- ATA AT- ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
20038402 ATTT ACA AT- ATA ATA A-A ATA ATA ATA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA
20038428 TACTTCGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
2 16 0.31
3 34 0.65
4 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:20038373 original size:8 final size:8
Alignment explanation
Indices: 20038360--20038429 Score: 83
Period size: 8 Copynumber: 9.0 Consensus size: 8
20038350 TTGTTTATTT
20038360 ATAATATA
1 ATAATATA
20038368 ATAATATA
1 ATAATATA
20038376 ATAATATA
1 ATAATATA
20038384 ATAATATA
1 ATAATATA
20038392 AT-ATA-A
1 ATAATATA
*
20038398 TATAAT-TT
1 -ATAATATA
*
20038406 ACAATATA
1 ATAATATA
*
20038414 ATAAAATA
1 ATAATATA
20038422 ATAATATA
1 ATAATATA
20038430 CTTCGAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
6 1 0.02
7 9 0.17
8 42 0.81
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:20039424 original size:18 final size:18
Alignment explanation
Indices: 20039403--20039440 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
20039393 TAAAGTTAGT
*
20039403 AATTATGGTTTTGTTAAC
1 AATTATGGTTTTATTAAC
20039421 AATTATGGTTTTATTAAC
1 AATTATGGTTTTATTAAC
20039439 AA
1 AA
20039441 ATTGTGAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (18 bp):
AATTATGGTTTTATTAAC
Found at i:20040325 original size:19 final size:20
Alignment explanation
Indices: 20040301--20040339 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20040291 TCCCTTTCCC
20040301 TCCTTT-TCTT-TCTTGCTTT
1 TCCTTTCTCTTAT-TTGCTTT
20040320 TCCTTTCTCTTATTTGCTTT
1 TCCTTTCTCTTATTTGCTTT
20040340 GAAACTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 11 0.61
21 1 0.06
ACGTcount: A:0.03, C:0.26, G:0.05, T:0.67
Consensus pattern (20 bp):
TCCTTTCTCTTATTTGCTTT
Found at i:20043033 original size:165 final size:160
Alignment explanation
Indices: 20042775--20043085 Score: 412
Period size: 165 Copynumber: 1.9 Consensus size: 160
20042765 CATATGATTG
* * *
20042775 TCAAATCTCAAAATCTAAAATATCTTCATTGCAAAACTCGCATAATTCTTATCTATAATTTTTAT
1 TCAAATCGCAAAATCTAAAATATCTTCATTGCAAAACTCACATAATTCATATCTATAATTTTTAT
* * * *
20042840 AGTCTTAGGAAATAAAGAGATTTGGCCTTTCAAATGAGTAGTGCAGAAAATTTACAGATTCAGAT
66 AGTCATAGGAAATAAAAAGAATTGGCCTTTCAAATGAGTAGTGCAGAAAATTTACACATTCA-AT
20042905 TTTG-AAGCGTTGAAATCAAACATACAATTT
130 TTTGTAAGCGTTGAAATCAAACATACAATTT
* * *
20042935 TCAAATCGCAAAGTCTAAGAATATTTTTCATTGCAAAAACTCACCTAATTCATA-CTTATAA-TT
1 TCAAATCGCAAAATCTAA-AATA-TCTTCATTGC-AAAACTCACATAATTCATATC-TATAATTT
* *
20042998 TTAGTGAAGTCATATGAAATAAAAAGAATTGGCCTTTCAAATGATTAGTGCAGAAAATTTACACA
62 TTA-T--AGTCATAGGAAATAAAAAGAATTGGCCTTTCAAATGAGTAGTGCAGAAAATTTACACA
*
20043063 TTCAATTTTGTAAGTGTTGAAAT
124 TTCAATTTTGTAAGCGTTGAAAT
20043086 TAAATGAATG
Statistics
Matches: 130, Mismatches: 13, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
160 16 0.12
161 4 0.03
162 15 0.12
163 22 0.17
164 6 0.05
165 67 0.52
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (160 bp):
TCAAATCGCAAAATCTAAAATATCTTCATTGCAAAACTCACATAATTCATATCTATAATTTTTAT
AGTCATAGGAAATAAAAAGAATTGGCCTTTCAAATGAGTAGTGCAGAAAATTTACACATTCAATT
TTGTAAGCGTTGAAATCAAACATACAATTT
Found at i:20045057 original size:2 final size:2
Alignment explanation
Indices: 20045052--20045080 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20045042 TATATATATT
20045052 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
20045081 AGAGAGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:20058480 original size:11 final size:10
Alignment explanation
Indices: 20058453--20058525 Score: 65
Period size: 11 Copynumber: 6.7 Consensus size: 10
20058443 ACTTAAATCC
20058453 TTTCTCTCAA
1 TTTCTCTCAA
*
20058463 ATTCTCTCATA
1 TTTCTCTCA-A
20058474 TTTCTCTCCAA
1 TTTCTCT-CAA
20058485 TATTCTCTCATA
1 T-TTCTCTCA-A
*
20058497 TTTCTCTTAAA
1 TTTCTC-TCAA
*
20058508 TTCCTCTCAAA
1 TTTCTCTC-AA
20058519 TTTCTCT
1 TTTCTCT
20058526 TAAAACTCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
10 9 0.18
11 30 0.59
12 12 0.24
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:20058529 original size:22 final size:21
Alignment explanation
Indices: 20058453--20058525 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 21
20058443 ACTTAAATCC
20058453 TTTCTCTCAAATTCTCTCATA
1 TTTCTCTCAAATTCTCTCATA
20058474 TTTCTCTCCAATATTCTCTCATA
1 TTTCTCT-CAA-ATTCTCTCATA
* *
20058497 TTTCTCTTAAATTCCTCTCAAA
1 TTTCTCTCAAATT-CTCTCATA
20058519 TTTCTCT
1 TTTCTCT
20058526 TAAAACTCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.21
22 19 0.40
23 18 0.38
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTCTCTCAAATTCTCTCATA
Found at i:20058536 original size:22 final size:22
Alignment explanation
Indices: 20058453--20058536 Score: 91
Period size: 23 Copynumber: 3.8 Consensus size: 22
20058443 ACTTAAATCC
*
20058453 TTTCTC-TCAAATTCTCTCATA
1 TTTCTCTTAAAATTCTCTCATA
* *
20058474 TTTCTCTCCAATATTCTCTCATA
1 TTTCTCT-TAAAATTCTCTCATA
*
20058497 TTTCTCTT-AAATTCCTCTCAAA
1 TTTCTCTTAAAATT-CTCTCATA
*
20058519 TTTCTCTTAAAACTCTCT
1 TTTCTCTTAAAATTCTCT
20058537 TTAATTATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
21 10 0.19
22 19 0.37
23 23 0.44
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTCTCTTAAAATTCTCTCATA
Found at i:20059654 original size:7 final size:7
Alignment explanation
Indices: 20059642--20059666 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20059632 AGCCGATTCA
20059642 TATTTAG
1 TATTTAG
20059649 TATTTAG
1 TATTTAG
20059656 TATTTAG
1 TATTTAG
20059663 TATT
1 TATT
20059667 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:20060218 original size:30 final size:30
Alignment explanation
Indices: 20060164--20060220 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
20060154 CGACGACGCA
* *
20060164 GGCCCATCAACAGCGCCTACACAATCATTC
1 GGCCCATCAACAGCACCCACACAATCATTC
*
20060194 GGCCCATCAACAGCACCCATACAATCA
1 GGCCCATCAACAGCACCCACACAATCA
20060221 CCAGGCTCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.40, G:0.12, T:0.14
Consensus pattern (30 bp):
GGCCCATCAACAGCACCCACACAATCATTC
Found at i:20060336 original size:18 final size:18
Alignment explanation
Indices: 20060313--20060355 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
20060303 TGCCAGGTGC
* *
20060313 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
20060331 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
20060349 GTTTCCT
1 GTATCCT
20060356 TTTTCTAGCC
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:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:20060816 original size:34 final size:34
Alignment explanation
Indices: 20060775--20060847 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
20060765 TTTTGAATAT
*
20060775 TTTTATATTATTTTATGTAATAAAATAGAAATTC
1 TTTTATATTATTTCATGTAATAAAATAGAAATTC
20060809 TTTTATATTATTTCATGTAATAAAATAGAAATTC
1 TTTTATATTATTTCATGTAATAAAATAGAAATTC
20060843 TTTTA
1 TTTTA
20060848 AATAAGGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (34 bp):
TTTTATATTATTTCATGTAATAAAATAGAAATTC
Found at i:20060857 original size:29 final size:32
Alignment explanation
Indices: 20060791--20060859 Score: 81
Period size: 34 Copynumber: 2.2 Consensus size: 32
20060781 ATTATTTTAT
* *
20060791 GTAATAAAATAGAAATTCTTTTATATTATTTCAT
1 GTAATAAAATAGAAATTCTTTTATA-TA-TTAAG
20060825 GTAATAAAATAGAAATTCTTTTA-A-A-TAAG
1 GTAATAAAATAGAAATTCTTTTATATATTAAG
20060854 GTAATA
1 GTAATA
20060860 TTTTGAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 8 0.24
31 1 0.03
33 1 0.03
34 23 0.70
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (32 bp):
GTAATAAAATAGAAATTCTTTTATATATTAAG
Found at i:20060881 original size:61 final size:61
Alignment explanation
Indices: 20060812--20061016 Score: 230
Period size: 61 Copynumber: 3.5 Consensus size: 61
20060802 GAAATTCTTT
* *
20060812 TATATTATTTCATGTAATAAAATAGAAATTCTTTTAAATAAGGTAATATTTTGAATATTTC
1 TATATTATTTCATTTAATAAAATATAAATTCTTTTAAATAAGGTAATATTTTGAATATTTC
* * * * *
20060873 TATATTATTTCATTTAATAAAATA-AAACGTTGTTTTGAATAAAGT-A-ATTGT-AAT-TTAC
1 TATATTATTTCATTTAATAAAATATAAA--TTCTTTTAAATAAGGTAATATTTTGAATATTTC
* * **
20060931 TTTAATA-TT--TTTAATAAAATATAAATTCTTTTAAATAAGACAATATTTTGAATATTTC
1 TATATTATTTCATTTAATAAAATATAAATTCTTTTAAATAAGGTAATATTTTGAATATTTC
20060989 TATATTATTTCATTTAA-AAAATATAAAT
1 TATATTATTTCATTTAATAAAATATAAAT
20061017 AATACAATAT
Statistics
Matches: 117, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
54 11 0.09
55 13 0.11
56 7 0.06
57 5 0.04
58 16 0.14
59 5 0.04
60 18 0.15
61 29 0.25
62 13 0.11
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (61 bp):
TATATTATTTCATTTAATAAAATATAAATTCTTTTAAATAAGGTAATATTTTGAATATTTC
Found at i:20063367 original size:124 final size:125
Alignment explanation
Indices: 20063147--20063436 Score: 465
Period size: 124 Copynumber: 2.3 Consensus size: 125
20063137 TCAGGCCAAA
* * * *
20063147 TAGGAACTACTGTAGCAAAAGAGCGTCCACGTGTGAGCTTCTTTTAGTACTTTTGCTGACAAAGC
1 TAGGAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTACTAACAAAGC
* *
20063212 ATCCTGCTTAAAGTGTTTTTGACACTATTTGCTCAGAAACATCTTCTCGAAATTA-TTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTT
*
20063271 TAGGAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTACTAACAATGC
1 TAGGAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTACTAACAAAGC
*
20063336 ATCCTGCTTAAAGCGTTTTTGCCACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTT
* * *
20063396 TCAGGAACTCCTGTAGCAAAAGAGCGTCCACATGGGAGCTT
1 T-AGGAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTT
20063437 TTTTAAATTA
Statistics
Matches: 153, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
124 112 0.73
125 5 0.03
126 36 0.24
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (125 bp):
TAGGAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTACTAACAAAGC
ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTT
Found at i:20063620 original size:97 final size:97
Alignment explanation
Indices: 20063478--20063778 Score: 392
Period size: 96 Copynumber: 3.1 Consensus size: 97
20063468 CCCTAAATCT
* *
20063478 TAAACCTTAATTTATTTAAGTTTTTCCTTAAAAAC-CTTAAACACTAAACCCTAATCAAAATTTT
1 TAAACCCTAATTTATTTAAGTTTTTCCTTAAAAACTCTT-AACACTAAACCCTAATC-TAATTTT
* * * *
20063542 TTTAAAACTTATAATTAATTTACTTAGGTAATCC
64 TTAAAAATTTATAATTAATTTACTTAAGTAACCC
* * * *
20063576 TAAACCCTAATTTATTTGA-TTTTTCTTTAAAAACTCTTAACACTAAACCTTAATCTGATTTTTT
1 TAAACCCTAATTTATTTAAGTTTTTCCTTAAAAACTCTTAACACTAAACCCTAATCTAATTTTTT
*
20063640 AAAAATTTATAATTAATTTACTCAAGTAACCC
66 AAAAATTTATAATTAATTTACTTAAGTAACCC
* * * * * *
20063672 TAAACCCTAATTTAATTAATTTTTTCCTTAAAAACTATAAACACAAAACCCTAATCTAA-TTTTG
1 TAAACCCTAATTTATTTAAGTTTTTCCTTAAAAACTCTTAACACTAAACCCTAATCTAATTTTTT
* *
20063736 AAAAATTTATAATTAATTTAATTAAGAAACCC
66 AAAAATTTATAATTAATTTACTTAAGTAACCC
20063768 TAAACCCTAAT
1 TAAACCCTAAT
20063779 CCCTTATTTA
Statistics
Matches: 178, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
96 95 0.53
97 63 0.35
98 20 0.11
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.40
Consensus pattern (97 bp):
TAAACCCTAATTTATTTAAGTTTTTCCTTAAAAACTCTTAACACTAAACCCTAATCTAATTTTTT
AAAAATTTATAATTAATTTACTTAAGTAACCC
Found at i:20067944 original size:20 final size:20
Alignment explanation
Indices: 20067919--20067967 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
20067909 ATTTATTCAA
20067919 CACACCATCAGAATCTTCTT
1 CACACCATCAGAATCTTCTT
20067939 CACACCATCAGAATCTTCTT
1 CACACCATCAGAATCTTCTT
*
20067959 CCCACCATC
1 CACACCATC
20067968 TTCTAACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.41, G:0.04, T:0.27
Consensus pattern (20 bp):
CACACCATCAGAATCTTCTT
Found at i:20069976 original size:25 final size:26
Alignment explanation
Indices: 20069925--20069978 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 26
20069915 AACCAGAAAA
20069925 ACAAAGAAACGTGCCAAAATACGGCAG
1 ACAAAGAAACGTGCC-AAATACGGCAG
20069952 ACAAAGAAACGTGCC-AATACGGCAG
1 ACAAAGAAACGTGCCAAATACGGCAG
20069977 AC
1 AC
20069979 TTTTTTATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 12 0.44
27 15 0.56
ACGTcount: A:0.46, C:0.24, G:0.22, T:0.07
Consensus pattern (26 bp):
ACAAAGAAACGTGCCAAATACGGCAG
Found at i:20090549 original size:18 final size:18
Alignment explanation
Indices: 20090522--20090563 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
20090512 AAGAGAGATT
*
20090522 ATCAAAGCAAAAATTTTA
1 ATCAATGCAAAAATTTTA
20090540 ATCAATGCAAAAATTTTA
1 ATCAATGCAAAAATTTTA
20090558 ATCAAT
1 ATCAAT
20090564 CAATCTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (18 bp):
ATCAATGCAAAAATTTTA
Found at i:20092621 original size:43 final size:43
Alignment explanation
Indices: 20092560--20092759 Score: 319
Period size: 43 Copynumber: 4.7 Consensus size: 43
20092550 GACAATGCCG
* *
20092560 CAAACGCCGTTATAGAACAAGACCTTTAGCGGCGCTTTTCCCA
1 CAAACGCCGCTATAGAACAAGACCTTTAGCCGCGCTTTTCCCA
*
20092603 CAAACGCCGCTATAGAACAAGACCTTTAGCCGCGCTTTTTCCA
1 CAAACGCCGCTATAGAACAAGACCTTTAGCCGCGCTTTTCCCA
* * *
20092646 AAAACGCCGCTAAAGAACAAGACCTTTAGCAGCGCTTTTCCCA
1 CAAACGCCGCTATAGAACAAGACCTTTAGCCGCGCTTTTCCCA
*
20092689 CAAACGCCGCTATAGAACAAGACCTTTAGCCGCGCTTTTTCCA
1 CAAACGCCGCTATAGAACAAGACCTTTAGCCGCGCTTTTCCCA
* *
20092732 CAAACGCCGCTAAAGAACATGACCTTTA
1 CAAACGCCGCTATAGAACAAGACCTTTA
20092760 AAAAAATATT
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (43 bp):
CAAACGCCGCTATAGAACAAGACCTTTAGCCGCGCTTTTCCCA
Found at i:20092706 original size:86 final size:86
Alignment explanation
Indices: 20092561--20092759 Score: 353
Period size: 86 Copynumber: 2.3 Consensus size: 86
20092551 ACAATGCCGC
* * *
20092561 AAACGCCGTTATAGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACAAGAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAGAACAAGAC
20092626 CTTTAGCCGCGCTTTTTCCAA
66 CTTTAGCCGCGCTTTTTCCAA
20092647 AAACGCCGCTAAAGAACAAGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAGAACAAGAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAGAACAAGAC
*
20092712 CTTTAGCCGCGCTTTTTCCAC
66 CTTTAGCCGCGCTTTTTCCAA
*
20092733 AAACGCCGCTAAAGAACATGACCTTTA
1 AAACGCCGCTAAAGAACAAGACCTTTA
20092760 AAAAAATATT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 108 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAGAACAAGAC
CTTTAGCCGCGCTTTTTCCAA
Found at i:20093459 original size:4 final size:4
Alignment explanation
Indices: 20093450--20093480 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
20093440 GGTATATTAG
20093450 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
20093481 TATCTATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:20096715 original size:14 final size:15
Alignment explanation
Indices: 20096696--20096776 Score: 55
Period size: 14 Copynumber: 5.7 Consensus size: 15
20096686 ACCCTTGAAT
20096696 CCCTAAAT-CCTAAC
1 CCCTAAATCCCTAAC
20096710 CCCTAAATCCCTAA-
1 CCCTAAATCCCTAAC
* * *
20096724 CTCTTAA-CCCTTAAA
1 CCCTAAATCCC-TAAC
*
20096739 CCTTAAATCCC-AAC
1 CCCTAAATCCCTAAC
* * *
20096753 CCTTAAA-CCATAAT
1 CCCTAAATCCCTAAC
20096767 CCCTAAATCC
1 CCCTAAATCC
20096777 ATATATAATT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
13 5 0.10
14 33 0.63
15 11 0.21
16 3 0.06
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.25
Consensus pattern (15 bp):
CCCTAAATCCCTAAC
Found at i:20096753 original size:21 final size:20
Alignment explanation
Indices: 20096729--20096769 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
20096719 CCTAACTCTT
*
20096729 AACCCTTAAACCTTAAATCCC
1 AACCCTTAAACCAT-AATCCC
20096750 AACCCTTAAACCATAATCCC
1 AACCCTTAAACCATAATCCC
20096770 TAAATCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCCTTAAACCATAATCCC
Found at i:20096773 original size:28 final size:29
Alignment explanation
Indices: 20096710--20096776 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
20096700 AAATCCTAAC
* * *
20096710 CCCTAAATCCCTAACTCTTAACCCTTAAA
1 CCCTAAATCCCTAACCCTTAAACCATAAA
* *
20096739 CCTTAAATCCC-AACCCTTAAACCATAAT
1 CCCTAAATCCCTAACCCTTAAACCATAAA
20096767 CCCTAAATCC
1 CCCTAAATCC
20096777 ATATATAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (29 bp):
CCCTAAATCCCTAACCCTTAAACCATAAA
Found at i:20096862 original size:21 final size:20
Alignment explanation
Indices: 20096820--20096872 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
20096810 CAAAACACGT
*
20096820 AAAAAACTGAA-C-AGGATA
1 AAAAAACTGAACCGAGCATA
20096838 AAAAAACTGAACCGAGCACTA
1 AAAAAACTGAACCGAGCA-TA
*
20096859 AAAATACTGAACCG
1 AAAAAACTGAACCG
20096873 GGATGGGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 11 0.37
19 1 0.03
20 3 0.10
21 15 0.50
ACGTcount: A:0.55, C:0.19, G:0.15, T:0.11
Consensus pattern (20 bp):
AAAAAACTGAACCGAGCATA
Found at i:20097455 original size:102 final size:102
Alignment explanation
Indices: 20097279--20097470 Score: 321
Period size: 102 Copynumber: 1.9 Consensus size: 102
20097269 AAAAACGCCA
* * *
20097279 CTAAAGCCCTGAACATTAGCGGCCCTTTCTCAAAAACGCTGTTAAATCCCCGAAAGCTTAGAAAA
1 CTAAAGCCCTGAACATTAGCGGCCCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
20097344 CGGCGTCGTTGGGCTTAGGTTTTTTTTGCGGCGTTCG
66 CGGCGTCGTTGGGCTTAGGTTTTTTTTGCGGCGTTCG
* * * *
20097381 CTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAA
1 CTAAAGCCCTGAACATTAGCGGCCCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
20097446 CGGCGTCGTTGGGCTTAGGTTTTTT
66 CGGCGTCGTTGGGCTTAGGTTTTTT
20097471 GTGGCACTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 83 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (102 bp):
CTAAAGCCCTGAACATTAGCGGCCCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
CGGCGTCGTTGGGCTTAGGTTTTTTTTGCGGCGTTCG
Found at i:20097489 original size:72 final size:72
Alignment explanation
Indices: 20097399--20097570 Score: 281
Period size: 72 Copynumber: 2.4 Consensus size: 72
20097389 CTGAGCATTA
* *
20097399 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
1 GCGGCACTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGCTGGGCTTAG
20097464 GTTTTTT
66 GTTTTTT
* *
20097471 GTGGCACTTTCTTAAAAACGCTGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGCTGGGCTTAG
1 GCGGCACTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGCTGGGCTTAG
20097536 GTTTTTT
66 GTTTTTT
* * *
20097543 GCGGCGCTTTCTCAAAAACACCGCTAAA
1 GCGGCACTTTCTTAAAAACGCCGCTAAA
20097571 GCCCAAGCAT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 91 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (72 bp):
GCGGCACTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGCTGGGCTTAG
GTTTTTT
Found at i:20097852 original size:113 final size:113
Alignment explanation
Indices: 20097477--20098144 Score: 917
Period size: 114 Copynumber: 5.9 Consensus size: 113
20097467 TTTTGTGGCA
* * * * *
20097477 CTTTCTTAAAAACGCTGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGCTGGGCTTAGG-TTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCAGAATGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTT
* *
20097541 TTGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCAAGCATTAGCAGCG
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCAAGCATTAGCGGCG
* * *
20097589 CTTTCTTAAAAACGCCGCTAAATCCGAAAATGCTCAAAAAACGGCATCGTTGGGCTTAGGTTTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCAGAATGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTT
* * *
20097654 TTGCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCG
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCC-AAGCATTAGCGGCG
* * * * ** * *
20097703 ATTTCTTAAAAACGCCGCTAAATCCCCGACTACTCAGAAAACAACGTCGCTGGGCTTAGGTTTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCAGAATGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTT
* *
20097768 TTGCAGCGCTTTCTCAAAAACGCTGCTAAAGCCCAAGCATTAGCGGCG
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCAAGCATTAGCGGCG
*
20097816 CTTTTTTAAAAACGCCGCTAAATCCCAGAATGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCAGAATGCTCAGAAAACGGCATCGTTGGGCTTAGG-TTTT
* * * *
20097881 TTTACGGCGCTTTCTCAAAAATGCCGCTAAAGCCCTGAGCATTTGCGGCG
65 TTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCC-AAGCATTAGCGGCG
* * **
20097931 CTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAACATCGTTGGGCTTAGGTTTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCAGAATGCTCAGAAAACGGCATCGTTGGGCTTAGG-TTTT
**
20097996 TTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATT-GCGGCG
65 TTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC-CAAGCATTAGCGGCG
* * *
20098045 CTTTCTTAAAAACACCGCTAAATCCCTGAATGCTCAGAAAACGGCATCGTTGGGATTAGGTTTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCAGAATGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTT
* * *
20098110 TTGCAGCGCTTTCTCAAAATCGCCTCTAAAGCCCA
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCA
20098145 GAATGCTCAG
Statistics
Matches: 488, Mismatches: 63, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
112 52 0.11
113 134 0.27
114 191 0.39
115 111 0.23
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (113 bp):
CTTTCTTAAAAACGCCGCTAAATCCCAGAATGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTT
TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCAAGCATTAGCGGCG
Found at i:20098149 original size:73 final size:72
Alignment explanation
Indices: 20098037--20098193 Score: 215
Period size: 73 Copynumber: 2.2 Consensus size: 72
20098027 GCCTTGAGCA
* * * *
20098037 TTGCGGCGCTTTCTTAAAAACACCGCTAAATCCCTGAATGCTCAGAAAACGGCATCGTTGGGATT
1 TTGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCAGAATGCTCAGAAAACGACATCGTTGGGATT
20098102 AGGTTTTT
66 AGG-TTTT
* * * * * *
20098110 TTGCAGCGCTTTCTCAAAATCGCCTCTAAAGCCCAGAATGCTCAGAAAACGACGTCGTTGGGCTT
1 TTGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCAGAATGCTCAGAAAACGACATCGTTGGGATT
20098175 AGGTTTT
66 AGGTTTT
20098182 TTGCGGCGCTTT
1 TTGCGGCGCTTT
20098194 TTGGAAAACG
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 15 0.21
73 58 0.79
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (72 bp):
TTGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCAGAATGCTCAGAAAACGACATCGTTGGGATT
AGGTTTT
Found at i:20099522 original size:7 final size:7
Alignment explanation
Indices: 20099507--20099536 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
20099497 TGAGTACTTT
*
20099507 TGATTAG
1 TGATAAG
20099514 TGATAAG
1 TGATAAG
20099521 TGATAAG
1 TGATAAG
20099528 TGATAAG
1 TGATAAG
20099535 TG
1 TG
20099537 GTAGCTTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (7 bp):
TGATAAG
Found at i:20099617 original size:51 final size:50
Alignment explanation
Indices: 20099507--20099784 Score: 412
Period size: 51 Copynumber: 5.5 Consensus size: 50
20099497 TGAGTACTTT
* *
20099507 TGATTAGTGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATC
** *
20099557 TGATCAGTGACAAGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTT-AGCTACACTTATC
* *
20099608 TGATCAGTGACAAGTGGTAAGTGATAAGTGATAGCTTCAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTT-AGCTACACTTATC
* * *
20099659 TGATCAGTGACAAGTGACAAGTGATAAGCGGTAGTTGTAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCT-TAGCTACACTTATC
*
20099710 TGATCAGTGACAAGTGGTAAGTGATAAGTGGTAGCTTAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATC
* *
20099760 TGATCTGGGACAAGTGATAAGTGAT
1 TGATCAGTGACAAGTGATAAGTGAT
20099785 CATACGTAAG
Statistics
Matches: 208, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
50 68 0.33
51 139 0.67
52 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (50 bp):
TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATC
Found at i:20104924 original size:33 final size:33
Alignment explanation
Indices: 20104882--20104947 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
20104872 AGCTCCAAGG
20104882 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
1 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
20104915 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
1 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
20104948 TCTTGAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.42
Consensus pattern (33 bp):
CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
Found at i:20106390 original size:18 final size:18
Alignment explanation
Indices: 20106367--20106426 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
20106357 ATGTAATTCT
20106367 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
20106385 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
20106402 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
20106420 AATGTAA
1 AATGTAA
20106427 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:20106951 original size:120 final size:120
Alignment explanation
Indices: 20106754--20107136 Score: 739
Period size: 120 Copynumber: 3.2 Consensus size: 120
20106744 TTTTCAAGTT
*
20106754 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
20106819 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
20106874 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
20106939 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
20106994 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
20107059 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
20107114 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
20107137 TAAATATGAT
Statistics
Matches: 259, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 259 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:20107113 original size:18 final size:17
Alignment explanation
Indices: 20107085--20107119 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20107075 ATTATTAAGA
*
20107085 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
20107102 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
20107120 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:20107349 original size:44 final size:45
Alignment explanation
Indices: 20107284--20107374 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
20107274 ACCTCTATTC
* * *
20107284 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
20107328 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
20107373 CA
1 CA
20107375 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:20107376 original size:16 final size:16
Alignment explanation
Indices: 20107355--20107423 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
20107345 GATTAGCTAT
20107355 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20107371 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
20107388 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
20107404 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
20107420 TACA
1 TACA
20107424 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:20107397 original size:33 final size:32
Alignment explanation
Indices: 20107355--20107423 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
20107345 GATTAGCTAT
20107355 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
20107388 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
20107420 TACA
1 TACA
20107424 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:20107681 original size:6 final size:6
Alignment explanation
Indices: 20107670--20107704 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
20107660 CTCTACCCCA
20107670 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
20107705 CCAACATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:20110284 original size:15 final size:15
Alignment explanation
Indices: 20110249--20110300 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
20110239 TTAAGAATTT
*
20110249 TATTAAATTAT-ATA
1 TATTTAATTATAATA
20110263 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
20110277 TATTTAATAATAAT-
1 TATTTAATTATAATA
20110291 TATGTTAATT
1 TAT-TTAATT
20110301 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:20110390 original size:18 final size:17
Alignment explanation
Indices: 20110364--20110398 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20110354 AATTATAAGA
*
20110364 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
20110381 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
20110399 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:20110402 original size:119 final size:120
Alignment explanation
Indices: 20110124--20110420 Score: 501
Period size: 120 Copynumber: 2.5 Consensus size: 120
20110114 AATTATTTTA
* * *
20110124 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTTTATTT
*
20110188 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
20110244 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTT-TATTT
20110308 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
20110363 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
20110421 ATGATTAAAT
Statistics
Matches: 167, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
119 59 0.35
120 103 0.62
121 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTTTATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:20110626 original size:44 final size:45
Alignment explanation
Indices: 20110561--20110651 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
20110551 ACCTCTATTC
* * *
20110561 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
20110605 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
20110650 CA
1 CA
20110652 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:20110653 original size:16 final size:16
Alignment explanation
Indices: 20110632--20110683 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
20110622 GATTAGCTAT
20110632 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20110648 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20110664 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20110680 TACA
1 TACA
20110684 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.37, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:20113921 original size:31 final size:31
Alignment explanation
Indices: 20113842--20113922 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
20113832 TATTTGAGAA
* *
20113842 GCTCTTATTTGAACACTTTTAAAAAGGTTTG
1 GCTCTTATTTGAACACTTTCAAAAACGTTTG
* * *
20113873 GCTCTTACTAGAACACTTTCAAAAACTTTTG
1 GCTCTTATTTGAACACTTTCAAAAACGTTTG
* *
20113904 GCTCGTATTTGAGCACTTT
1 GCTCTTATTTGAACACTTT
20113923 GAAAGTTTTG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.40
Consensus pattern (31 bp):
GCTCTTATTTGAACACTTTCAAAAACGTTTG
Found at i:20116003 original size:15 final size:15
Alignment explanation
Indices: 20115983--20116011 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20115973 AAGAGAAAAT
20115983 GATGATGAAGATGAA
1 GATGATGAAGATGAA
20115998 GATGATGAAGATGA
1 GATGATGAAGATGA
20116012 CGAGGGGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (15 bp):
GATGATGAAGATGAA
Found at i:20126977 original size:16 final size:17
Alignment explanation
Indices: 20126959--20126999 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
20126949 AAAATTTTAA
20126959 TTTAAATCTTTTATAATT
1 TTTAAATCTTTTATAA-T
*
20126977 TTTAAATTTTTTA-AAT
1 TTTAAATCTTTTATAAT
20126993 TTTAAAT
1 TTTAAAT
20127000 TAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 12 0.55
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAAATCTTTTATAAT
Found at i:20126979 original size:9 final size:8
Alignment explanation
Indices: 20126959--20127000 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
20126949 AAAATTTTAA
20126959 TTTAAATCT
1 TTTAAAT-T
20126968 TTTATAATT
1 TTTA-AATT
20126977 TTTAAATTT
1 TTTAAA-TT
20126986 TTTAAA-T
1 TTTAAATT
20126993 TTTAAATT
1 TTTAAATT
20127001 AATAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.23
8 3 0.10
9 17 0.57
10 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTAAATT
Found at i:20127000 original size:16 final size:17
Alignment explanation
Indices: 20126959--20127000 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
20126949 AAAATTTTAA
*
20126959 TTTAAATCTTTTATAATT
1 TTTAAAT-TTTTATAAAT
20126977 TTTAAATTTTT-TAAAT
1 TTTAAATTTTTATAAAT
20126993 TTTAAATT
1 TTTAAATT
20127001 AATAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.52
17 4 0.17
18 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAAATTTTTATAAAT
Found at i:20129793 original size:3 final size:3
Alignment explanation
Indices: 20129779--20129810 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
20129769 AACATGTTGC
*
20129779 AAT AAG AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20129811 AGGTCAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:20131748 original size:19 final size:19
Alignment explanation
Indices: 20131726--20131789 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
20131716 TAATTATTTT
20131726 TTAAAAAAATTATAAAAAA
1 TTAAAAAAATTATAAAAAA
**
20131745 TTAAAATTATT-TAAAAATA
1 TTAAAAAAATTATAAAAA-A
*
20131764 TAAAAAAAATTTAATAAAAAAA
1 TTAAAAAAA-TT-AT-AAAAAA
20131786 TTAA
1 TTAA
20131790 TTAATTGCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.18
19 16 0.47
20 2 0.06
22 5 0.15
23 5 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TTAAAAAAATTATAAAAAA
Found at i:20131750 original size:16 final size:18
Alignment explanation
Indices: 20131731--20131768 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
20131721 ATTTTTTAAA
20131731 AAAATTA-TAAAAAAT-T
1 AAAATTATTAAAAAATAT
*
20131747 AAAATTATTTAAAAATAT
1 AAAATTATTAAAAAATAT
20131765 AAAA
1 AAAA
20131769 AAAATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATTATTAAAAAATAT
Found at i:20131757 original size:29 final size:29
Alignment explanation
Indices: 20131710--20131780 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
20131700 ATGTTTCATC
* * *
20131710 AAAAATTAATTATTTTTTAAAAAAATTATA
1 AAAAATTAATAATTATTTAAAAAAA-TAAA
*
20131740 AAAAATTAA-AATTATTTAAAAATATAAA
1 AAAAATTAATAATTATTTAAAAAAATAAA
20131768 AAAAATTTAATAA
1 AAAAA-TTAATAA
20131781 AAAAATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 8 0.23
29 16 0.46
30 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAAATTAATAATTATTTAAAAAAATAAA
Found at i:20153121 original size:39 final size:37
Alignment explanation
Indices: 20153054--20153146 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
20153044 ACCAGAATGG
* *
20153054 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
20153093 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
20153130 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
20153147 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:20153509 original size:3 final size:3
Alignment explanation
Indices: 20153501--20153527 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20153491 ATTCCCACTC
20153501 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
20153528 CTTACCTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20154254 original size:16 final size:16
Alignment explanation
Indices: 20154235--20154269 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
20154225 TTCTTTGTTC
20154235 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
20154251 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
20154267 TTT
1 TTT
20154270 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:20154343 original size:28 final size:29
Alignment explanation
Indices: 20154272--20154335 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
20154262 TTTCTTTTAT
*
20154272 ATATAATAATATAATATTTATAATGTAATTA
1 ATATAATAATAT-A-CTTTATAATGTAATTA
* *
20154303 ATTTAATAATATACTTTATAAT-TAATTT
1 ATATAATAATATACTTTATAATGTAATTA
20154331 ATATA
1 ATATA
20154336 TTTATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 9 0.31
29 8 0.28
30 1 0.03
31 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATAATAATATACTTTATAATGTAATTA
Found at i:20159295 original size:21 final size:21
Alignment explanation
Indices: 20159253--20159295 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
20159243 TTCACTATAC
*
20159253 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
20159274 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
20159295 A
1 A
20159296 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:20160407 original size:39 final size:37
Alignment explanation
Indices: 20160340--20160432 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
20160330 ACCAGAATGG
* *
20160340 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
20160379 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
20160416 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
20160433 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:20160794 original size:3 final size:3
Alignment explanation
Indices: 20160786--20160819 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
20160776 ATTCCCACTC
*
20160786 ATA ATA ATAA ATA ATA ATA ATA ATA ATA CTA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
20160820 CCTCACATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20161524 original size:15 final size:15
Alignment explanation
Indices: 20161504--20161539 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
20161494 TGTTTCTTTG
20161504 TTCTTTCTATTCTGT
1 TTCTTTCTATTCTGT
* *
20161519 TTCTTTCTGTTTTGT
1 TTCTTTCTATTCTGT
20161534 TTCTTT
1 TTCTTT
20161540 ATATAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.03, C:0.17, G:0.08, T:0.72
Consensus pattern (15 bp):
TTCTTTCTATTCTGT
Found at i:20161591 original size:21 final size:22
Alignment explanation
Indices: 20161539--20161614 Score: 77
Period size: 21 Copynumber: 3.5 Consensus size: 22
20161529 TTTGTTTCTT
* *
20161539 TATATAA-TAATATAATATTTA
1 TATATAATTAATTTAATATATA
*
20161560 TAATGTAATTAATTTAATA-ATA
1 T-ATATAATTAATTTAATATATA
*
20161582 TATATAATTAATTT-ATATATT
1 TATATAATTAATTTAATATATA
*
20161603 TATATAAATAAT
1 TATATAATTAAT
20161615 AATATAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
20 3 0.07
21 26 0.57
22 8 0.17
23 9 0.20
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (22 bp):
TATATAATTAATTTAATATATA
Found at i:20163093 original size:42 final size:40
Alignment explanation
Indices: 20163046--20163148 Score: 143
Period size: 42 Copynumber: 2.5 Consensus size: 40
20163036 CGGGTCACAC
*
20163046 CACAACACCACCTACCAATCTTCCTACTCCTATGGACCCCA
1 CACAACACCACC-ACCAATCTTCCCACTCCTATGGACCCCA
*
20163087 TCACAACACCACCCACCAATCTTCCCACTCCTATGGATCCCA
1 -CACAACACCA-CCACCAATCTTCCCACTCCTATGGACCCCA
20163129 CTACAACACCATCCACCAAT
1 C-ACAACACCA-CCACCAAT
20163149 TTAACGTCTC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
41 1 0.02
42 53 0.95
43 2 0.04
ACGTcount: A:0.31, C:0.47, G:0.04, T:0.18
Consensus pattern (40 bp):
CACAACACCACCACCAATCTTCCCACTCCTATGGACCCCA
Found at i:20165977 original size:16 final size:16
Alignment explanation
Indices: 20165956--20165996 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
20165946 ATAATTTGAA
*
20165956 AATTTTACTAACAATT
1 AATTTTAATAACAATT
20165972 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
20165988 AGTTTTAAT
1 AATTTTAAT
20165997 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:20165997 original size:22 final size:23
Alignment explanation
Indices: 20165970--20166031 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
20165960 TTACTAACAA
* * *
20165970 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
20165992 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
20166015 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
20166032 CGGGCTGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:20178160 original size:19 final size:17
Alignment explanation
Indices: 20178127--20178179 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
20178117 TGGTAAAAAA
*
20178127 ATAAAAATCAATAAAAGTT
1 ATAAAAATTAAT-AAA-TT
*
20178146 ATAAAAATTATTAAATT
1 ATAAAAATTAATAAATT
*
20178163 AAAAAAATTAA-AAATT
1 ATAAAAATTAATAAATT
20178179 A
1 A
20178180 GAATTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 6 0.20
17 11 0.37
18 3 0.10
19 10 0.33
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
ATAAAAATTAATAAATT
Found at i:20178431 original size:21 final size:22
Alignment explanation
Indices: 20178405--20178448 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20178395 TTTTATGAAA
20178405 TTTAT-ATTGCTTTAC-ATTTTT
1 TTTATAATTGC-TTACTATTTTT
*
20178426 TTTATAATTTCTTACTATTTTT
1 TTTATAATTGCTTACTATTTTT
20178448 T
1 T
20178449 AAAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTATAATTGCTTACTATTTTT
Found at i:20178519 original size:29 final size:29
Alignment explanation
Indices: 20178487--20178542 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
20178477 TTCAATATAT
*
20178487 TTTATAATTCTTTTACGATTTTTATAAAA
1 TTTACAATTCTTTTACGATTTTTATAAAA
* * *
20178516 TTTACAATTTTTTTATGTTTTTTATAA
1 TTTACAATTCTTTTACGATTTTTATAA
20178543 TTTTTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (29 bp):
TTTACAATTCTTTTACGATTTTTATAAAA
Found at i:20190135 original size:113 final size:111
Alignment explanation
Indices: 20189990--20190277 Score: 407
Period size: 113 Copynumber: 2.6 Consensus size: 111
20189980 TTATTAATTA
* *
20189990 TTATAAATTGTTTGTGTTTAGTTTAGTATTTTGTAATTTTTTATGAATGTAAATTTTTTGTTTTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATGTAAATTTTTT-TTTTT
** * * * *
20190055 TGTTTTTAAATTATTTTATAGTTATTTTGTTAGTAATTTATTATTAGG
65 T-TTTAAAAATTATTTTAAAGTCATTTTGTCAGTAATTTATGATTAGG
* * * *
20190103 TTATAAATTATTTGTGTTTAGTTTAGTGTTTTGTGAGTTTTTGTGAATGTAAATTTTTTTGTTTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATGTAAATTTTTTTTTTTT
*
20190168 TTTAAAAATTATTTTAAAGTCATTTTGTCAGTAATTTATGGTTAGG
66 TTTAAAAATTATTTTAAAGTCATTTTGTCAGTAATTTATGATTAGG
*
20190214 TTATAAATTGTTTATGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGT-AATTTTTTTTTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTG-TT-TTGTGATTTTTTATGAATGTAAATTTTTTTTTT
20190278 CTAAGGGTAA
Statistics
Matches: 155, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
111 65 0.42
112 18 0.12
113 72 0.46
ACGTcount: A:0.24, C:0.01, G:0.15, T:0.60
Consensus pattern (111 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATGTAAATTTTTTTTTTTT
TTTAAAAATTATTTTAAAGTCATTTTGTCAGTAATTTATGATTAGG
Found at i:20190362 original size:29 final size:29
Alignment explanation
Indices: 20190298--20190371 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
20190288 ACTACCAAAA
*
20190298 TAGTCACTTTTGTTTGACTCAAGTTACATTT
1 TAGTCACTTATGTTTGA--CAAGTTACATTT
*
20190329 TAGTCACTTATGTTTGA-AATGTTACGTTT
1 TAGTCACTTATGTTTGACAA-GTTACATTT
20190358 TAGTCACTTATGTT
1 TAGTCACTTATGTT
20190372 ATCATGTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 22 0.55
31 16 0.40
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.49
Consensus pattern (29 bp):
TAGTCACTTATGTTTGACAAGTTACATTT
Found at i:20190393 original size:31 final size:29
Alignment explanation
Indices: 20190323--20190396 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
20190313 GACTCAAGTT
* *
20190323 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
20190352 ACGTTTTAGTCACTTATGTTATCATGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
20190383 ACATTTTAGTCACT
1 ACATTTTAGTCACT
20190397 AAGCCGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:20191250 original size:112 final size:107
Alignment explanation
Indices: 20191092--20191359 Score: 369
Period size: 112 Copynumber: 2.4 Consensus size: 107
20191082 ATTATAAATT
* * *
20191092 GTTT-GTGTTTATTGTGATTTTTTATGAATGTAAATTTTCTTTTGTTTTTTTAATTAATTTAAAG
1 GTTTAGTGTTTATTGTGATTTGTTAT-AATGT-AATTTT-ATTTGTTTTTTAAATTAATTTAAAG
*
20191156 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTA
63 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-ATT-TGTTTA
* *
20191203 GTTTAGTGTTTATTGTGACTTGTTATAAATGTATATATTT-TTGTGTTTTTTAAATTATTTTAAA
1 GTTTAGTGTTTATTGTGATTTGTTAT-AATGTA-AT-TTTATT-TGTTTTTTAAATTAATTTAAA
20191267 GTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTTTA
62 GTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTTTA
* *
20191313 GTTTAATGTGTATTGTGATTTGTTATAATGTAATTTTATTTGTTTTT
1 GTTTAGTGTTTATTGTGATTTGTTATAATGTAATTTTATTTGTTTTT
20191360 GATTTATTTG
Statistics
Matches: 143, Mismatches: 9, Indels: 14
0.86 0.05 0.08
Matches are distributed among these distances:
107 10 0.07
108 4 0.03
109 6 0.04
110 29 0.20
111 9 0.06
112 82 0.57
113 3 0.02
ACGTcount: A:0.25, C:0.01, G:0.15, T:0.59
Consensus pattern (107 bp):
GTTTAGTGTTTATTGTGATTTGTTATAATGTAATTTTATTTGTTTTTTAAATTAATTTAAAGTTA
TTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTTTA
Found at i:20191649 original size:21 final size:22
Alignment explanation
Indices: 20191598--20191650 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
20191588 TTTTTGTAAT
* *
20191598 TATATTATTATTGTACTATATT
1 TATAATATTATTGTACTATATG
** *
20191620 TATCGTATTATT-TACTGTATG
1 TATAATATTATTGTACTATATG
20191641 TATAATATTA
1 TATAATATTA
20191651 ATGTGTTTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.55
Consensus pattern (22 bp):
TATAATATTATTGTACTATATG
Found at i:20193162 original size:46 final size:46
Alignment explanation
Indices: 20193095--20193186 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
20193085 AAACATTCAA
20193095 TGATTGGGCGGAAGTGCATGAAGAATATATTGCAATGTGGAACAAC
1 TGATTGGGCGGAAGTGCATGAAGAATATATTGCAATGTGGAACAAC
20193141 TGATTGGGCGGAAGTGCATGAAGAATATATTGCAATGTGGAACAAC
1 TGATTGGGCGGAAGTGCATGAAGAATATATTGCAATGTGGAACAAC
20193187 CGGTTGGGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.24
Consensus pattern (46 bp):
TGATTGGGCGGAAGTGCATGAAGAATATATTGCAATGTGGAACAAC
Found at i:20195725 original size:26 final size:25
Alignment explanation
Indices: 20195682--20195730 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
20195672 ATAAACATTA
*
20195682 AACTAAAAAATTAATTTATAATAGT
1 AACTAAAAAATTAATTTAAAATAGT
20195707 AACTAACAAAA-TAACTTTAAAATA
1 AACTAA-AAAATTAA-TTTAAAATA
20195731 AATTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (25 bp):
AACTAAAAAATTAATTTAAAATAGT
Found at i:20195733 original size:106 final size:103
Alignment explanation
Indices: 20195477--20195739 Score: 341
Period size: 106 Copynumber: 2.5 Consensus size: 103
20195467 ACTAACTAAT
* * *
20195477 AATTAATTTATAATAGTTACTAAAAAAATAACTTTCAAATAAATTAAAAATATTAAAAGATTACA
1 AATTAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAATAATAAAAGATTACA
*
20195542 TTCATAACCTAACAAATCACAATAAAACCTAAACAAAC
66 TTCATAACCTAACAAATCACAATAAAACCTAAACAAAA
** * *
20195580 AATTAACCTAATTGCAAAATTTACTAACAAAATAACTTTAAAATAAATTAAAAATTAATAAAA-A
1 AATTAA--T--TTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAA-TAATAAAAGA
*
20195644 TTTACATTCATAACCTAACAAAATCACAAT-AAACATTAAACTAAAA
61 -TTACATTCATAACCTAAC-AAATCACAATAAAAC-CTAAAC-AAAA
*
20195690 AATTAATTTATAATAGTAACTAACAAAATAACTTTAAAATAAATTAAAAA
1 AATTAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAA
20195740 AACAACATAA
Statistics
Matches: 137, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
103 6 0.04
105 1 0.01
106 38 0.28
107 38 0.28
108 30 0.22
109 15 0.11
110 9 0.07
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (103 bp):
AATTAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAATAATAAAAGATTACA
TTCATAACCTAACAAATCACAATAAAACCTAAACAAAA
Found at i:20195852 original size:16 final size:18
Alignment explanation
Indices: 20195831--20195867 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
20195821 AATAAAAATA
20195831 TCTTATAC-TTCTTT-TT
1 TCTTATACTTTCTTTCTT
*
20195847 TCTTATCCTTTCTTTCTT
1 TCTTATACTTTCTTTCTT
20195865 TCT
1 TCT
20195868 CCTTCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (18 bp):
TCTTATACTTTCTTTCTT
Found at i:20210594 original size:4 final size:4
Alignment explanation
Indices: 20210576--20210615 Score: 62
Period size: 4 Copynumber: 9.5 Consensus size: 4
20210566 ATAAAAAATT
20210576 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TA
20210616 TAAAACTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 26 0.76
5 8 0.24
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:20214507 original size:22 final size:22
Alignment explanation
Indices: 20214466--20214508 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
20214456 ATATCAAATC
*
20214466 TAAATCTATTATTCATAACAAT
1 TAAATCTATTATCCATAACAAT
20214488 TAAAGTCTATTATCCA-AACAA
1 TAAA-TCTATTATCCATAACAA
20214509 CCATTACCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAATCTATTATCCATAACAAT
Found at i:20247339 original size:20 final size:20
Alignment explanation
Indices: 20247297--20247340 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
20247287 GGGGTAGGAC
* *
20247297 ATGATATGATACGTTGTGAT
1 ATGATAAGATACGTTCTGAT
* *
20247317 ATGATAAGATATGTTCTGGT
1 ATGATAAGATACGTTCTGAT
20247337 ATGA
1 ATGA
20247341 AATATTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.39
Consensus pattern (20 bp):
ATGATAAGATACGTTCTGAT
Found at i:20248380 original size:21 final size:21
Alignment explanation
Indices: 20248355--20248396 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20248345 GGCATGTACA
20248355 TAGGCTTAGAATCATGTGTAT
1 TAGGCTTAGAATCATGTGTAT
20248376 TAGGCTTAGAATCATGTGTAT
1 TAGGCTTAGAATCATGTGTAT
20248397 CGTTGTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (21 bp):
TAGGCTTAGAATCATGTGTAT
Found at i:20258301 original size:705 final size:705
Alignment explanation
Indices: 20256952--20258349 Score: 2706
Period size: 705 Copynumber: 2.0 Consensus size: 705
20256942 GTTACGGCAA
20256952 GTTTTTGAAGAGGGCTGCTAATTGCCAGTCAAAAGTGGCCATTTCCATCGTTTATGCAATAGTAT
1 GTTTTTGAAGAGGGCTGCTAATTGCCAGTCAAAAGTGGCCATTTCCATCGTTTATGCAATAGTAT
20257017 GCTAACTTGCCATATTTGGAGTTGGCAATGCATTAAAACAAAATCTTTAGGCATTGAATTGTGTT
66 GCTAACTTGCCATATTTGGAGTTGGCAATGCATTAAAACAAAATCTTTAGGCATTGAATTGTGTT
20257082 AATATTGTGGATGTGTGGAAGCCTGACTTTGAAAACCAACCATTTAAAGTAACTATCCTTGAAAA
131 AATATTGTGGATGTGTGGAAGCCTGACTTTGAAAACCAACCATTTAAAGTAACTATCCTTGAAAA
20257147 GCCCAACTATTTTTGTAAAAGCCTTAAGTTGCGAAGAACTAGGTTAATGTTCCACCAAACATGTG
196 GCCCAACTATTTTTGTAAAAGCCTTAAGTTGCGAAGAACTAGGTTAATGTTCCACCAAACATGTG
20257212 TTGATAAAGTCAGATAAGAAGTTAACAACTCACCACGATGTTTTTTTCCATTACTATAGTAAACT
261 TTGATAAAGTCAGATAAGAAGTTAACAACTCACCACGATGTTTTTTTCCATTACTATAGTAAACT
* *
20257277 TGGACACATAATACCATAGTGTACCAAAATACTACATGATCTGAGATAGTGATGCATGGTGCCAG
326 TGGACACATAATACCATAGTGTACCAAAATACTACATGATCTGAGATAGTGACGCATGGTGCCAA
* *
20257342 TTGAAGTGCCCACTTTACGTGGCTCATTGTCTGTGAAGAAGCAAAAGATTGTTTGGAAGAAGAAT
391 TTGAAGTGCCCACTTTACGTGGCTCATTGTCTATGAAGAAGCAAAAGATTGTTTAGAAGAAGAAT
*
20257407 GAGCCAAAGTGTTTGCTTGTATCTAATTAATATTTGAAGAATTCGTTAGATAATGTGTGGTACTT
456 GAGCCAAAGTGTTTGCTTGCATCTAATTAATATTTGAAGAATTCGTTAGATAATGTGTGGTACTT
20257472 CAATAGTGGATCCTCTAGACACATGACAGATAATCAAAACTACTTATCTAACTTTGAACATTGCC
521 CAATAGTGGATCCTCTAGACACATGACAGATAATCAAAACTACTTATCTAACTTTGAACATTGCC
20257537 ATGTTAGACGAGTCACCTTTGGAGATGGCAAAAAGGGGCACATACTTTGGAAAGGCAAACTTGAT
586 ATGTTAGACGAGTCACCTTTGGAGATGGCAAAAAGGGGCACATACTTTGGAAAGGCAAACTTGAT
20257602 GTCCTAGGATGCTAGAACAAAATAATGTGCTTTTTATGGATGCACAAAATAATGT
651 GTCCTAGGATGCTAGAACAAAATAATGTGCTTTTTATGGATGCACAAAATAATGT
20257657 GTTTTTGAAGAGGGCTGCTAATTGCCAGTCAAAAGTGGCCATTTCCATCGTTTATGCAATAGTAT
1 GTTTTTGAAGAGGGCTGCTAATTGCCAGTCAAAAGTGGCCATTTCCATCGTTTATGCAATAGTAT
20257722 GCTAACTTGCCATATTTGGAGTTGGCAATGCATTAAAACAAAATCTTTAGGCATTGAATTGTGTT
66 GCTAACTTGCCATATTTGGAGTTGGCAATGCATTAAAACAAAATCTTTAGGCATTGAATTGTGTT
* *
20257787 AATATTGTGGATGTGTGGAAGCCTGACTTTGAAAACCAATCATTTAAAGTAACTATCCTTGAAGA
131 AATATTGTGGATGTGTGGAAGCCTGACTTTGAAAACCAACCATTTAAAGTAACTATCCTTGAAAA
20257852 GCCCAACTATTTTTGTAAAAGCCTTAAGTTGCGAAGAACTAGGTTAATGTTCCACCAAACATGTG
196 GCCCAACTATTTTTGTAAAAGCCTTAAGTTGCGAAGAACTAGGTTAATGTTCCACCAAACATGTG
* *
20257917 TTGATAAAGTCAGATAAGAAGTTAACAACTCACCACGATGTTTTTTTCCATTACTATAGTACATT
261 TTGATAAAGTCAGATAAGAAGTTAACAACTCACCACGATGTTTTTTTCCATTACTATAGTAAACT
20257982 TGGACACATAATACCATAGTGTACCAAAATACTACATGATCTGAGATAGTGACGCATGGTGCCAA
326 TGGACACATAATACCATAGTGTACCAAAATACTACATGATCTGAGATAGTGACGCATGGTGCCAA
20258047 TTGAAGTGCCCACTTTACGTGGCTCATTGTCTATGAAGAAGCAAAAGATTGTTTAGAAGAAGAAT
391 TTGAAGTGCCCACTTTACGTGGCTCATTGTCTATGAAGAAGCAAAAGATTGTTTAGAAGAAGAAT
*
20258112 GAGCCAAAGTGTTTGCTTGCATCTAATTAATATTTGAAGAATTCTTTAGATAATGTGTGGTACTT
456 GAGCCAAAGTGTTTGCTTGCATCTAATTAATATTTGAAGAATTCGTTAGATAATGTGTGGTACTT
20258177 CAATAGTGGATCCTCTAGACACATGACAGATAATCAAAACTACTTATCTAACTTTGAACATTGCC
521 CAATAGTGGATCCTCTAGACACATGACAGATAATCAAAACTACTTATCTAACTTTGAACATTGCC
20258242 ATGTTAGACGAGTCACCTTTGGAGATGGCAAAAAGGGGCACATACTTTGGAAAGGCAAACTTGAT
586 ATGTTAGACGAGTCACCTTTGGAGATGGCAAAAAGGGGCACATACTTTGGAAAGGCAAACTTGAT
20258307 GTCCTAGGATGCTAGAACAAAATAATGTGCTTTTTATGGATGC
651 GTCCTAGGATGCTAGAACAAAATAATGTGCTTTTTATGGATGC
20258350 CCTGAAGTCT
Statistics
Matches: 683, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
705 683 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (705 bp):
GTTTTTGAAGAGGGCTGCTAATTGCCAGTCAAAAGTGGCCATTTCCATCGTTTATGCAATAGTAT
GCTAACTTGCCATATTTGGAGTTGGCAATGCATTAAAACAAAATCTTTAGGCATTGAATTGTGTT
AATATTGTGGATGTGTGGAAGCCTGACTTTGAAAACCAACCATTTAAAGTAACTATCCTTGAAAA
GCCCAACTATTTTTGTAAAAGCCTTAAGTTGCGAAGAACTAGGTTAATGTTCCACCAAACATGTG
TTGATAAAGTCAGATAAGAAGTTAACAACTCACCACGATGTTTTTTTCCATTACTATAGTAAACT
TGGACACATAATACCATAGTGTACCAAAATACTACATGATCTGAGATAGTGACGCATGGTGCCAA
TTGAAGTGCCCACTTTACGTGGCTCATTGTCTATGAAGAAGCAAAAGATTGTTTAGAAGAAGAAT
GAGCCAAAGTGTTTGCTTGCATCTAATTAATATTTGAAGAATTCGTTAGATAATGTGTGGTACTT
CAATAGTGGATCCTCTAGACACATGACAGATAATCAAAACTACTTATCTAACTTTGAACATTGCC
ATGTTAGACGAGTCACCTTTGGAGATGGCAAAAAGGGGCACATACTTTGGAAAGGCAAACTTGAT
GTCCTAGGATGCTAGAACAAAATAATGTGCTTTTTATGGATGCACAAAATAATGT
Found at i:20258806 original size:20 final size:20
Alignment explanation
Indices: 20258781--20258821 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20258771 AATGTTTCTG
20258781 TGTATGCTAATTTTATAAAC
1 TGTATGCTAATTTTATAAAC
20258801 TGTATGCTAATTTTATAAAC
1 TGTATGCTAATTTTATAAAC
20258821 T
1 T
20258822 ATTTTGTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
TGTATGCTAATTTTATAAAC
Found at i:20260954 original size:46 final size:48
Alignment explanation
Indices: 20260883--20261017 Score: 166
Period size: 53 Copynumber: 2.8 Consensus size: 48
20260873 TGGTCCTTCC
*
20260883 CATATGATGTCATAACCCACCAGTTACGGTCTTACAC-A-CTTCTTTT
1 CATATGATGTCATAACCCACTAGTTACGGTCTTACACAAGCTTCTTTT
* * *
20260929 TATATGGTGTCATAACTCACTAGTTACGGTCTTACACGATATGGTCTTCTTTT
1 CATATGATGTCATAACCCACTAGTTACGGTCTTACAC-A-A--G-CTTCTTTT
*
20260982 CATATGATGTCATAACCCACTAGTTATGGTCTTACA
1 CATATGATGTCATAACCCACTAGTTACGGTCTTACA
20261018 TGATATGATC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
46 33 0.45
49 1 0.01
53 40 0.54
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (48 bp):
CATATGATGTCATAACCCACTAGTTACGGTCTTACACAAGCTTCTTTT
Found at i:20260981 original size:53 final size:53
Alignment explanation
Indices: 20260921--20261033 Score: 172
Period size: 53 Copynumber: 2.1 Consensus size: 53
20260911 GTCTTACACA
* * * *
20260921 CTTCTTTTTATATGGTGTCATAACTCACTAGTTACGGTCTTACACGATATGGT
1 CTTCTTTTCATATGATGTCATAACCCACTAGTTACGGTCTTACACGATATGAT
* *
20260974 CTTCTTTTCATATGATGTCATAACCCACTAGTTATGGTCTTACATGATATGAT
1 CTTCTTTTCATATGATGTCATAACCCACTAGTTACGGTCTTACACGATATGAT
20261027 CTTCTTT
1 CTTCTTT
20261034 AGTGACATTG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.43
Consensus pattern (53 bp):
CTTCTTTTCATATGATGTCATAACCCACTAGTTACGGTCTTACACGATATGAT
Found at i:20274451 original size:29 final size:31
Alignment explanation
Indices: 20274409--20274478 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 31
20274399 TAGTAAAGGT
* *
20274409 AAAATTATACTTTAGTCCCCT-AAAATTATA
1 AAAATTATAATTTAATCCCCTAAAAATTATA
**
20274439 AAAATT-TAATTTAATCCTTTAAAAATTATA
1 AAAATTATAATTTAATCCCCTAAAAATTATA
*
20274469 AAGA-TATAAT
1 AAAATTATAAT
20274479 CTATTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
29 11 0.33
30 22 0.67
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.39
Consensus pattern (31 bp):
AAAATTATAATTTAATCCCCTAAAAATTATA
Found at i:20276853 original size:21 final size:21
Alignment explanation
Indices: 20276837--20276890 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
20276827 GGGTACATGG
20276837 CCGTGTGACTGACGTACACGC
1 CCGTGTGACTGACGTACACGC
* *
20276858 CCGTGTGACCGATGTACACGC
1 CCGTGTGACTGACGTACACGC
20276879 CCGTGTGACTGA
1 CCGTGTGACTGA
20276891 GAGACATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.20
Consensus pattern (21 bp):
CCGTGTGACTGACGTACACGC
Found at i:20280758 original size:16 final size:16
Alignment explanation
Indices: 20280737--20280768 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20280727 TACAAGAATT
20280737 TACAACGAAATTGAAA
1 TACAACGAAATTGAAA
*
20280753 TACAACGAGATTGAAA
1 TACAACGAAATTGAAA
20280769 ATGGAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (16 bp):
TACAACGAAATTGAAA
Found at i:20280960 original size:22 final size:22
Alignment explanation
Indices: 20280917--20280961 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20280907 GCAATTTGAA
* *
20280917 TATTTGATATTTTTTCTTTTGG
1 TATTTGAGATTTTTTCTATTGG
20280939 TATTTGAGATTGTTTT-TATTGG
1 TATTTGAGATT-TTTTCTATTGG
20280961 T
1 T
20280962 TGACGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.16, C:0.02, G:0.18, T:0.64
Consensus pattern (22 bp):
TATTTGAGATTTTTTCTATTGG
Found at i:20282996 original size:16 final size:16
Alignment explanation
Indices: 20282977--20283018 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
20282967 TTTTTAAAAA
20282977 TATAATTTTGGAATTT
1 TATAATTTTGGAATTT
*
20282993 TATAAATATTTTGAATTT
1 TAT-AAT-TTTGGAATTT
20283011 TA-AATTTT
1 TATAATTTT
20283019 TTTTTGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 3 0.13
16 6 0.26
17 3 0.13
18 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (16 bp):
TATAATTTTGGAATTT
Found at i:20285533 original size:43 final size:43
Alignment explanation
Indices: 20285393--20285620 Score: 219
Period size: 43 Copynumber: 5.3 Consensus size: 43
20285383 ATGATATATT
* * * * * *
20285393 TTTAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * * * *
20285435 TATAGTGGCGTTTGTGATAAATAGCGCCTTCTGAAGGTCATGGTT
1 TTTAGCGGCGTTTGTGAGAAA-AGCGCC-GCTAAAGGTCATGGTC
*
20285480 TTTAGTGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
20285523 TATAGCGGCGTTTGTG-GAAAAAGCACCGCTAAGGGTCATGGTT
1 TTTAGCGGCGTTTGTGAG-AAAAGCGCCGCTAAAGGTCATGGTC
* **
20285566 TTTAGCGGCGTTTGTGTA-AAAAGCGTCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTG-AGAAAAGCGCCGCTAAAGGTCATGGTC
20285609 TTTAGCGGCGTT
1 TTTAGCGGCGTT
20285621 GATTTTAAAA
Statistics
Matches: 151, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
42 16 0.11
43 100 0.66
44 13 0.09
45 22 0.15
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:20285578 original size:86 final size:88
Alignment explanation
Indices: 20285391--20285620 Score: 274
Period size: 86 Copynumber: 2.6 Consensus size: 88
20285381 GCATGATATA
* * * * * *
20285391 TTTTTAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGTTCTATAGTGGCGTTTGTGATAA
1 TTTTTAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGATAA
* *
20285455 ATAGCGCCTTCTGAAGGTCATGG
66 ATAGCACCTGCTGAAGGTCATGG
* * *
20285478 TTTTTAGTGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGA-A
1 TTTTTAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTTTGT-GATA
20285542 AA-AGCACC-GCT-AAGGGTCATGG
65 AATAGCACCTGCTGAA-GGTCATGG
* *
20285564 TTTTTAGCGGCGTTTGTGTA-AAAAGCGTCGCTAAAGGTCATGACCTTTAGCGGCGTT
1 TTTTTAGCGGCGTTTGTG-AGAAAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTT
20285621 GATTTTAAAA
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
85 2 0.02
86 60 0.48
87 39 0.31
88 21 0.17
89 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (88 bp):
TTTTTAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGATAA
ATAGCACCTGCTGAAGGTCATGG
Found at i:20287706 original size:7 final size:7
Alignment explanation
Indices: 20287696--20287748 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
20287686 TCAATCCCAT
20287696 TTTTCAA
1 TTTTCAA
20287703 TTTT-ATA
1 TTTTCA-A
20287710 TTTTCAA
1 TTTTCAA
*
20287717 TCTTCAAA
1 TTTTC-AA
20287725 TTTT-AA
1 TTTTCAA
20287731 TTTTCAA
1 TTTTCAA
*
20287738 TTTTTAA
1 TTTTCAA
20287745 TTTT
1 TTTT
20287749 TAATCCTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 7 0.18
7 26 0.67
8 6 0.15
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTTCAA
Found at i:20287733 original size:21 final size:21
Alignment explanation
Indices: 20287701--20287752 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
20287691 CCCATTTTTC
20287701 AATTTTATATTTTCAATCTTCA
1 AATTTTA-ATTTTCAATCTTCA
* *
20287723 AATTTTAATTTTCAATTTTTA
1 AATTTTAATTTTCAATCTTCA
*
20287744 ATTTTTAAT
1 AATTTTAAT
20287753 CCTCAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.60
Consensus pattern (21 bp):
AATTTTAATTTTCAATCTTCA
Found at i:20287774 original size:12 final size:12
Alignment explanation
Indices: 20287757--20287784 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
20287747 TTTAATCCTC
20287757 AATTATTTTTCA
1 AATTATTTTTCA
20287769 AATTATTTTTCA
1 AATTATTTTTCA
20287781 AATT
1 AATT
20287785 TTATTATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTATTTTTCA
Found at i:20287802 original size:15 final size:15
Alignment explanation
Indices: 20287782--20287811 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20287772 TATTTTTCAA
20287782 ATTTTATTATCTTCT
1 ATTTTATTATCTTCT
*
20287797 ATTTTATTATTTTCT
1 ATTTTATTATCTTCT
20287812 TATAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTATTATCTTCT
Found at i:20289224 original size:24 final size:23
Alignment explanation
Indices: 20289193--20289239 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
20289183 TATTCACACA
20289193 TATTCTTAC-TTAATTTCAAATGT
1 TATTCTTACATTAATTT-AAATGT
*
20289216 TATTACTTACATTACTTTAAATGT
1 TATT-CTTACATTAATTTAAATGT
20289240 CTCATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTCTTACATTAATTTAAATGT
Found at i:20289520 original size:22 final size:24
Alignment explanation
Indices: 20289478--20289521 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
20289468 TAACTAAGCT
20289478 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
20289502 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
20289522 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:20290138 original size:5 final size:5
Alignment explanation
Indices: 20290119--20290188 Score: 62
Period size: 5 Copynumber: 14.6 Consensus size: 5
20290109 TTAGTTTATT
20290119 TAATA T-ATAA TAATA TAATA TAATA TAAT- T-ATA TAATA TATTATA
1 TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TA--ATA
*
20290164 TTATA TAATA -AA-A TAATA T-ATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAA
20290189 AACATAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
3 3 0.06
4 12 0.22
5 33 0.61
6 2 0.04
7 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:20290139 original size:15 final size:16
Alignment explanation
Indices: 20290119--20290187 Score: 69
Period size: 15 Copynumber: 4.7 Consensus size: 16
20290109 TTAGTTTATT
20290119 TAATATATA-ATAATA
1 TAATATATATATAATA
20290134 TAATATA-ATATAAT-
1 TAATATATATATAATA
*
20290148 T-ATATA-ATATATTA
1 TAATATATATATAATA
* *
20290162 TATTATATA-ATAAAA
1 TAATATATATATAATA
20290177 TAATATATATA
1 TAATATATATA
20290188 AAACATAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
13 11 0.25
14 3 0.07
15 28 0.64
16 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATATATATATAATA
Found at i:20290311 original size:23 final size:23
Alignment explanation
Indices: 20290285--20290329 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20290275 ATTAATCTAT
20290285 AATTCAACT-TTTACTCCTAATTC
1 AATTCAACTCTTT-CTCCTAATTC
* *
20290308 AATTTAACTCTTTTTCCTAATT
1 AATTCAACTCTTTCTCCTAATT
20290330 TCTCTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTCAACTCTTTCTCCTAATTC
Found at i:20295826 original size:16 final size:16
Alignment explanation
Indices: 20295805--20295856 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
20295795 TTTGGTTCGC
20295805 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
20295821 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
20295837 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
20295853 TGTA
1 TGTA
20295857 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:20295903 original size:45 final size:44
Alignment explanation
Indices: 20295837--20295931 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
20295827 GGATTAGAGG
* *
20295837 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
20295882 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
20295926 TGTAAT
1 TGTAAT
20295932 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:20296101 original size:25 final size:25
Alignment explanation
Indices: 20296069--20296123 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
20296059 TAATTTAATC
*
20296069 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
20296093 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
20296118 ATATAT
1 ATATAT
20296124 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:20300626 original size:21 final size:23
Alignment explanation
Indices: 20300597--20300643 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20300587 CGTGAATTAA
20300597 GTTTATAATA-TT-TAATCTATT
1 GTTTATAATAGTTATAATCTATT
* *
20300618 GTTTTTAATAGTTATAATGTATT
1 GTTTATAATAGTTATAATCTATT
20300641 GTT
1 GTT
20300644 ACCATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
GTTTATAATAGTTATAATCTATT
Found at i:20303579 original size:17 final size:18
Alignment explanation
Indices: 20303548--20303582 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20303538 ATTTAATTAT
20303548 CAATTTATACAAATTTTG
1 CAATTTATACAAATTTTG
*
20303566 CAATTTATTC-AATTTTG
1 CAATTTATACAAATTTTG
20303583 TCCCTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (18 bp):
CAATTTATACAAATTTTG
Done.