Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 42 of 100
Found at i:10850239 original size:17 final size:15
Alignment explanation
Indices: 10850154--10850258 Score: 63
Period size: 17 Copynumber: 6.7 Consensus size: 15
10850144 CTCTTTTCCA
*
10850154 TTTTTTTCTT-CTTT
1 TTTTTTTTTTGCTTT
* *
10850168 TTTTTGTTTTTTCCTT
1 TTTTT-TTTTTGCTTT
*
10850184 TTTTCTTTTT-CTTT
1 TTTTTTTTTTGCTTT
*
10850198 TTCCTTTTTGCTT-CTTGAT
1 TT--TTTTT-TTTGCTT--T
10850217 TTTTTTTTTTGCTTT
1 TTTTTTTTTTGCTTT
*
10850232 TTGCTTTTTTTTTCTTT
1 TT--TTTTTTTTGCTTT
10850249 TTTTTTTTTT
1 TTTTTTTTTT
10850259 TACACTTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
14 10 0.14
15 20 0.27
16 13 0.18
17 27 0.37
19 3 0.04
ACGTcount: A:0.01, C:0.12, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTTGCTTT
Found at i:10850247 original size:34 final size:32
Alignment explanation
Indices: 10850182--10850259 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 32
10850172 TGTTTTTTCC
10850182 TTTTTTCTTTTTCTTTTTCCTTTTTGCTTCTTGA
1 TTTTTT-TTTTTCTTTTTCCTTTTTGCTTCTT-A
* ** *
10850216 TTTTTTTTTTTGCTTTTTGCTTTTTTTTTCTTT
1 TTTTTTTTTTT-CTTTTTCCTTTTTGCTTCTTA
10850249 TTTTTTTTTTT
1 TTTTTTTTTTT
10850260 ACACTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
33 16 0.41
34 23 0.59
ACGTcount: A:0.01, C:0.12, G:0.05, T:0.82
Consensus pattern (32 bp):
TTTTTTTTTTTCTTTTTCCTTTTTGCTTCTTA
Found at i:10850572 original size:27 final size:26
Alignment explanation
Indices: 10850530--10850584 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
10850520 TTGCCCAATA
*
10850530 TATTTTCCTTT-TTTTTCTTTTTTTTT
1 TATTTTCCTTTATTTTT-GTTTTTTTT
10850556 TATTTTCTCTTTATTTTTGTTTTTTTT
1 TATTTTC-CTTTATTTTTGTTTTTTTT
10850583 TA
1 TA
10850585 GTGGAGCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.27
27 14 0.54
28 5 0.19
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.82
Consensus pattern (26 bp):
TATTTTCCTTTATTTTTGTTTTTTTT
Found at i:10850644 original size:53 final size:52
Alignment explanation
Indices: 10850575--10850676 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 52
10850565 TTTATTTTTG
* * * **
10850575 TTTTTTTTTAGTGGAGCATATTGGCATTTTGCCTTATCAATTTCTTTTTTTCT
1 TTTTTTTTTAGCGGAGCACATTGGCATTTTACCCCATCAATTT-TTTTTTTCT
*
10850628 TTTTTTTTTAGCGGAGCACATTGGTATTTTACCCCATCAATTTTTTTTT
1 TTTTTTTTTAGCGGAGCACATTGGCATTTTACCCCATCAATTTTTTTTT
10850677 CATTTATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 6 0.14
53 37 0.86
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.56
Consensus pattern (52 bp):
TTTTTTTTTAGCGGAGCACATTGGCATTTTACCCCATCAATTTTTTTTTTCT
Found at i:10851212 original size:17 final size:17
Alignment explanation
Indices: 10851190--10851222 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10851180 TAAAATGATG
10851190 AAAAATAAGATGAAATT
1 AAAAATAAGATGAAATT
10851207 AAAAATAAGATGAAAT
1 AAAAATAAGATGAAAT
10851223 CTAAGTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAAATAAGATGAAATT
Found at i:10853545 original size:39 final size:40
Alignment explanation
Indices: 10853490--10853572 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 40
10853480 TAAAAAAAGC
* * * *
10853490 AAATGAGTAATTAAGCAAGTATAAACAGTGAAAAGGAA-A
1 AAATGAATAATAAAGCAAGTATAAACAATGAAAAGAAATA
*
10853529 AAATGAATAATAAAGCAAGTATAAGCAATGAAAAGAAATA
1 AAATGAATAATAAAGCAAGTATAAACAATGAAAAGAAATA
10853569 AAAT
1 AAAT
10853573 AATTTTAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 33 0.87
40 5 0.13
ACGTcount: A:0.60, C:0.05, G:0.17, T:0.18
Consensus pattern (40 bp):
AAATGAATAATAAAGCAAGTATAAACAATGAAAAGAAATA
Found at i:10854581 original size:18 final size:18
Alignment explanation
Indices: 10854555--10854596 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
10854545 AAATTTCTCA
10854555 AAAAT-AAAACTAAAAAG
1 AAAATAAAAACTAAAAAG
*
10854572 AAAATAAAAACTAAAAAT
1 AAAATAAAAACTAAAAAG
10854590 AAAATAA
1 AAAATAA
10854597 GCTGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (18 bp):
AAAATAAAAACTAAAAAG
Found at i:10854604 original size:24 final size:24
Alignment explanation
Indices: 10854554--10854629 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
10854544 GAAATTTCTC
* *
10854554 AAAAATA-AAACTAAAAAGAAAAT-
1 AAAAATATAAAAT-AAAATAAAATG
**
10854577 AAAAACTA-AAAATAAAATAAGCTG
1 AAAAA-TATAAAATAAAATAAAATG
10854601 AAAAATATAAAATAAAATAAAATG
1 AAAAATATAAAATAAAATAAAATG
10854625 AAAAA
1 AAAAA
10854630 AGGAAACCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
23 14 0.32
24 30 0.68
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (24 bp):
AAAAATATAAAATAAAATAAAATG
Found at i:10854622 original size:18 final size:17
Alignment explanation
Indices: 10854555--10854622 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 17
10854545 AAATTTCTCA
*
10854555 AAAATAAAACT-AAAAAG
1 AAAATAAAA-TAAAAAAT
10854572 AAAATAAAA-ACTAAAAAT
1 AAAATAAAATA--AAAAAT
**
10854590 AAAATAAGCTGAAAAATAT
1 AAAATAAAAT-AAAAA-AT
10854609 AAAATAAAATAAAA
1 AAAATAAAATAAAA
10854623 TGAAAAAAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
17 9 0.22
18 20 0.50
19 10 0.25
20 1 0.03
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAATAAAATAAAAAAT
Found at i:10854914 original size:12 final size:12
Alignment explanation
Indices: 10854897--10854921 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10854887 TCATATTTCG
10854897 TCAAAAAATTCA
1 TCAAAAAATTCA
10854909 TCAAAAAATTCA
1 TCAAAAAATTCA
10854921 T
1 T
10854922 ATTTCGTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (12 bp):
TCAAAAAATTCA
Found at i:10854914 original size:31 final size:31
Alignment explanation
Indices: 10854879--10854946 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
10854869 AAAATCCCAC
*
10854879 CAAAAAGTTCATATTTCGTCAAAAAATTCAT
1 CAAAAAATTCATATTTCGTCAAAAAATTCAT
*
10854910 CAAAAAATTCATATTTCGTCGAAAAATTCAT
1 CAAAAAATTCATATTTCGTCAAAAAATTCAT
*
10854941 CCAAAA
1 CAAAAA
10854947 CCTAGACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (31 bp):
CAAAAAATTCATATTTCGTCAAAAAATTCAT
Found at i:10855470 original size:3 final size:3
Alignment explanation
Indices: 10855464--10855531 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
10855454 GATGATGATG
* * * * *
10855464 ATA ATA ATA ATA AAA ATA ATA ATA AT- GTA ATA CTA TTCA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* *
10855508 ATA ATA ATA AAA ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
10855532 TGGTCCAATT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 3 0.06
3 45 0.90
4 2 0.04
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:10856165 original size:14 final size:15
Alignment explanation
Indices: 10856135--10856173 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
10856125 TAGATTTAAT
10856135 TAATTAATTTTTATTG
1 TAATT-ATTTTTATTG
*
10856151 TGATTATTTTT-TTG
1 TAATTATTTTTATTG
10856165 TAATTATTT
1 TAATTATTT
10856174 ACTGTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 11 0.52
15 6 0.29
16 4 0.19
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (15 bp):
TAATTATTTTTATTG
Found at i:10856539 original size:5 final size:5
Alignment explanation
Indices: 10856529--10856565 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
10856519 ATCACTTTCT
*
10856529 TTTTA TTTTA -TTTA TCTT- TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
10856566 TAAATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
4 7 0.25
5 21 0.75
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:10856541 original size:23 final size:23
Alignment explanation
Indices: 10856515--10856564 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
10856505 CATTTAAACA
10856515 ATTTATCACTTTCT-TTTTATTTT
1 ATTTATC-CTTTCTATTTTATTTT
* *
10856538 ATTTATCTTTTTTATTTTATTTT
1 ATTTATCCTTTCTATTTTATTTT
10856561 ATTT
1 ATTT
10856565 TTAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (23 bp):
ATTTATCCTTTCTATTTTATTTT
Found at i:10856572 original size:18 final size:18
Alignment explanation
Indices: 10856533--10856574 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10856523 CTTTCTTTTT
**
10856533 ATTTTATTTATCTTTTTT
1 ATTTTATTTATCTTTTAA
10856551 ATTTTATTTTAT-TTTTAA
1 ATTTTA-TTTATCTTTTAA
10856569 ATTTTA
1 ATTTTA
10856575 AATTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTATTTATCTTTTAA
Found at i:10856573 original size:23 final size:23
Alignment explanation
Indices: 10856529--10856589 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
10856519 ATCACTTTCT
* ***
10856529 TTTTATTTTATTTATCTTTTTTA
1 TTTTATTTTATTTTTAAATTTTA
10856552 TTTTATTTTATTTTTAAATTTTA
1 TTTTATTTTATTTTTAAATTTTA
**
10856575 AATT-TTTTATTTTTA
1 TTTTATTTTATTTTTA
10856590 GCAAAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 11 0.34
23 21 0.66
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTATTTTATTTTTAAATTTTA
Found at i:10856811 original size:3 final size:3
Alignment explanation
Indices: 10856801--10856838 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
10856791 TAGTAATAAC
*
10856801 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10856839 TCATAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:10856926 original size:20 final size:19
Alignment explanation
Indices: 10856883--10856940 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
10856873 AAATTATATA
*
10856883 AAATAACATAAAATCAAACAC
1 AAATAA-ATAAAAT-AAAAAC
10856904 AAATAAATAAAATAAAAATC
1 AAATAAATAAAATAAAAA-C
10856924 AAA-ACAA-AAAATAAAAA
1 AAATA-AATAAAATAAAAA
10856941 AAGGGAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 15 0.44
20 13 0.38
21 6 0.18
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (19 bp):
AAATAAATAAAATAAAAAC
Found at i:10856941 original size:26 final size:26
Alignment explanation
Indices: 10856883--10856939 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
10856873 AAATTATATA
*
10856883 AAATAACAT-AAAATCAAACACAAAT
1 AAATAAAATAAAAATCAAACACAAAT
10856908 AAATAAAATAAAAATCAAA-ACAAA-
1 AAATAAAATAAAAATCAAACACAAAT
10856932 AAATAAAA
1 AAATAAAA
10856940 AAAGGGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 8 0.27
25 13 0.43
26 9 0.30
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.14
Consensus pattern (26 bp):
AAATAAAATAAAAATCAAACACAAAT
Found at i:10857571 original size:16 final size:16
Alignment explanation
Indices: 10857552--10857585 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10857542 TCGGTTATCC
10857552 TTCTAT-TTTTTTTCTT
1 TTCTATCTTTTTTT-TT
10857568 TTCTATCTTTTTTTTT
1 TTCTATCTTTTTTTTT
10857584 TT
1 TT
10857586 GTTTCCTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (16 bp):
TTCTATCTTTTTTTTT
Found at i:10857583 original size:21 final size:24
Alignment explanation
Indices: 10857557--10857615 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 24
10857547 TATCCTTCTA
10857557 TTTTTTTTCTTTTC-T-ATCTTT-
1 TTTTTTTTCTTTTCTTCATCTTTG
* *
10857578 TTTTTTTTGTTTCCTTCATCTTTG
1 TTTTTTTTCTTTTCTTCATCTTTG
*
10857602 TTTTTTTTTTTTTC
1 TTTTTTTTCTTTTC
10857616 GCAAAATCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 12 0.39
22 1 0.03
23 6 0.19
24 12 0.39
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.80
Consensus pattern (24 bp):
TTTTTTTTCTTTTCTTCATCTTTG
Found at i:10857590 original size:20 final size:22
Alignment explanation
Indices: 10857557--10857612 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
10857547 TATCCTTCTA
*
10857557 TTTTTTTTCTTTTCTATCTTTTTT
1 TTTTTTTTC-CTTC-ATCTTTTTT
10857581 TTTTTGTTTCCTTCATCTTTGTTT
1 TTTTT-TTTCCTTCATCTTT-TTT
10857605 TTTTTTTT
1 TTTTTTTT
10857613 TTCGCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 9 0.31
24 16 0.55
25 4 0.14
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.80
Consensus pattern (22 bp):
TTTTTTTTCCTTCATCTTTTTT
Found at i:10858086 original size:40 final size:40
Alignment explanation
Indices: 10858036--10858114 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
10858026 TTAAAATTTA
* * *
10858036 AAAAAACTCATCTGACTAGAGGCTATGAAACTTTAAATTC
1 AAAAAACTCATCTAACCAGAGGCAATGAAACTTTAAATTC
10858076 AAAAAACTCATCTAACCAGAGGCAATGAAACTTTAAATT
1 AAAAAACTCATCTAACCAGAGGCAATGAAACTTTAAATT
10858115 GCTCCTTGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (40 bp):
AAAAAACTCATCTAACCAGAGGCAATGAAACTTTAAATTC
Found at i:10861994 original size:328 final size:329
Alignment explanation
Indices: 10861397--10862348 Score: 1438
Period size: 328 Copynumber: 2.8 Consensus size: 329
10861387 ACAATTCCTC
10861397 ATGCTTTTCATGGTACCCTCTAGTGTGCTTCAGTAACAGTGCCACAGCATTCTGTGCGATTTCTT
1 ATGCTTTTCATGGTACCCTCTAGTGTGCTTCAGTAACAGTGCCACAGCATTCTGTGCGATTTCTT
*
10861462 CAGCTCCTGTAGAGGATAATGTAGATTGGTCAGAGGATTTGTCATCACTTTTCTGTTTCCTTATA
66 CAGCTCCTGTAGAGGATAATGTAGATTGGTCAGAGGATTTATCATCACTTTTCTGTTTCCTTATA
10861527 ATAAGACCCGAGGCAGTAGTTTCAATTCCTGAGTGCCTTTTAACCTGTTGATCATCAACACTCCC
131 ATAAGACCCGAGGCAGTAGTTTCAATTCCTGAGTGCCTTTTAACCTGTTGATCATCAACACTCCC
10861592 AAGAACTTTCTTCCTATCTTTGTAATCAAAAAATTCGTCAACTTTATGTGTATCTATTAAGAAAT
196 AAGAACTTTCTTCCTATCTTTGTAATCAAAAAATTCGTCAACTTTATGTGTATCTATTAAGAAAT
10861657 GAAGGCTTCTCAGGACCAAGCACTCGTTTTTTCTTTTTATCTTTCGTCTTAGATTGATTTCTGGC
261 GAAGGCTTCTCAGGACCAAGCACTCGTTTTTTCTTTTTATCTTTCGTCTTAGATTGATTTCTGGC
10861722 CAA-
326 CAAT
10861725 ATGCTTTTCATGGTACCCTCTAGTGTGCTTCAGTAACAGTGCCACAGCATTCTGTGCGATTTCTT
1 ATGCTTTTCATGGTACCCTCTAGTGTGCTTCAGTAACAGTGCCACAGCATTCTGTGCGATTTCTT
10861790 CAGCTCCTGTAGAGGATAATGTAGATTGGTCAGAGGATTTATCATCACTTTTCTGTTTCCTTATA
66 CAGCTCCTGTAGAGGATAATGTAGATTGGTCAGAGGATTTATCATCACTTTTCTGTTTCCTTATA
10861855 ATAAGACCCGAGGCAGTAGTTTCAATTCCTGAGTGCCTTTTAACCTGTTGATCATCAACACTCCC
131 ATAAGACCCGAGGCAGTAGTTTCAATTCCTGAGTGCCTTTTAACCTGTTGATCATCAACACTCCC
10861920 AAGAACTTTCTTCCTATCTTTGTAATCAAAAAATTCGTCAACTTTATGTGTATCTATTAAGAAAT
196 AAGAACTTTCTTCCTATCTTTGTAATCAAAAAATTCGTCAACTTTATGTGTATCTATTAAGAAAT
*
10861985 GAAGGCTTCTCAGGACCAAGCACTCGTTTTTTCTTTTTATCTTTCTTCTTAGATTGATTTCTGGC
261 GAAGGCTTCTCAGGACCAAGCACTCGTTTTTTCTTTTTATCTTTCGTCTTAGATTGA-TT-T---
10862050 CAATATTTCAGGGGTTTCATACAATTCCT
321 C------T----GG---C---CAA----T
** *
10862079 CATGCTTTTCATGGTACCCTCTTATGTGCTTCAGTAACAGTGCCACAGCATTCTGTGCGATATCT
1 -ATGCTTTTCATGGTACCCTCTAGTGTGCTTCAGTAACAGTGCCACAGCATTCTGTGCGATTTCT
10862144 TCAGCTCCTGTAGAGGATAATGTAGATTGGTCAGAGGATTTGTCATCACTTTCAGGGTTCTGAAC
65 TCAGCTCCTGTAGAGGATAATGTAGATTGGTCAGAGGA--T-T--T-A---TCA----TC---A-
10862209 CTGTTTCTGTTTCCTTATAATAAGACCCGAGGCAGTAGTTTCAATTCCTGAGTGCCTTTTAACCT
113 CT-TTTCTGTTTCCTTATAATAAGACCCGAGGCAGTAGTTTCAATTCCTGAGTGCCTTTTAACCT
* *
10862274 GTTGATCATCAACACTCCCAAGAACTTTCTTCCTATCTTTGTAGTAAAAAAATTCGTCAACTTTA
177 GTTGATCATCAACACTCCCAAGAACTTTCTTCCTATCTTTGTAATCAAAAAATTCGTCAACTTTA
10862339 TGTGTATCTA
242 TGTGTATCTA
10862349 CTTCTACTAC
Statistics
Matches: 572, Mismatches: 7, Indels: 45
0.92 0.01 0.07
Matches are distributed among these distances:
328 315 0.55
329 2 0.00
330 1 0.00
333 1 0.00
339 1 0.00
343 2 0.00
346 1 0.00
349 3 0.01
355 99 0.17
357 1 0.00
358 1 0.00
360 1 0.00
361 1 0.00
364 3 0.01
368 2 0.00
371 1 0.00
372 2 0.00
373 135 0.24
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (329 bp):
ATGCTTTTCATGGTACCCTCTAGTGTGCTTCAGTAACAGTGCCACAGCATTCTGTGCGATTTCTT
CAGCTCCTGTAGAGGATAATGTAGATTGGTCAGAGGATTTATCATCACTTTTCTGTTTCCTTATA
ATAAGACCCGAGGCAGTAGTTTCAATTCCTGAGTGCCTTTTAACCTGTTGATCATCAACACTCCC
AAGAACTTTCTTCCTATCTTTGTAATCAAAAAATTCGTCAACTTTATGTGTATCTATTAAGAAAT
GAAGGCTTCTCAGGACCAAGCACTCGTTTTTTCTTTTTATCTTTCGTCTTAGATTGATTTCTGGC
CAAT
Found at i:10864207 original size:147 final size:150
Alignment explanation
Indices: 10863937--10864232 Score: 508
Period size: 147 Copynumber: 2.0 Consensus size: 150
10863927 TCCTCATCAG
* *
10863937 AGCTAAATCTACTTTTGTGCCTAGTTCTCATTGTAGTCGTAGGGTCATCAAGGCCTTCCTCATCA
1 AGCTAAAACTACTTTTGTGCCTAGTTCTCATTGTAGTCGCAGGGTCATCAAGGCCTTCCTCATCA
*
10864002 TTAGCATTTTTTTCCATCATTGATCCTTCGAAATCTCTTTCTTTGACATCACATTTCAAGGAGAG
66 TTAGCATTTCTTTCCATCATTGATCCTTCGAAATCTCTTTCTTTGACATCACATTTCAAGGAGAG
10864067 CCAATTTGGATCAATTGCAA
131 CCAATTTGGATCAATTGCAA
*
10864087 AGCTAAAACTACTTTTGT-CCTAGTTCTCGTTGTAGTCGCAGGGTCATCAAGGCCTTCCTCATCA
1 AGCTAAAACTACTTTTGTGCCTAGTTCTCATTGTAGTCGCAGGGTCATCAAGGCCTTCCTCATCA
* *
10864151 TTA-CA-TTCTTTCCATCCTTGATCCTTCGAAATCTCTTTTTTTGACATCACATTTCAAGGAGAG
66 TTAGCATTTCTTTCCATCATTGATCCTTCGAAATCTCTTTCTTTGACATCACATTTCAAGGAGAG
*
10864214 CCAATTTGGATCCATTGCA
131 CCAATTTGGATCAATTGCA
10864233 GATTTAGGTT
Statistics
Matches: 139, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
147 73 0.53
148 2 0.01
149 47 0.34
150 17 0.12
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (150 bp):
AGCTAAAACTACTTTTGTGCCTAGTTCTCATTGTAGTCGCAGGGTCATCAAGGCCTTCCTCATCA
TTAGCATTTCTTTCCATCATTGATCCTTCGAAATCTCTTTCTTTGACATCACATTTCAAGGAGAG
CCAATTTGGATCAATTGCAA
Found at i:10864527 original size:27 final size:27
Alignment explanation
Indices: 10864496--10864598 Score: 136
Period size: 27 Copynumber: 3.8 Consensus size: 27
10864486 CACCATCAGA
*
10864496 ACTGTAATATGTGCTGGATTCATCAAC
1 ACTGTAATTTGTGCTGGATTCATCAAC
*
10864523 ACTGTAATTTGTGTTGGATTCATCAGA-
1 ACTGTAATTTGTGCTGGATTCATCA-AC
** *
10864550 ACCATAATTTGTGCTGGATTCATCAGC
1 ACTGTAATTTGTGCTGGATTCATCAAC
*
10864577 ACTGTAACTTGTGCTGGATTCA
1 ACTGTAATTTGTGCTGGATTCA
10864599 ACCTCATCGT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 64 0.98
28 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (27 bp):
ACTGTAATTTGTGCTGGATTCATCAAC
Found at i:10864563 original size:54 final size:54
Alignment explanation
Indices: 10864489--10864598 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 54
10864479 GCCTCTTCAC
** * *
10864489 CATCAGAACTGTAATATGTGCTGGATTCATCAACACTGTAATTTGTGTTGGATT
1 CATCAGAACCATAATATGTGCTGGATTCATCAACACTGTAACTTGTGCTGGATT
* *
10864543 CATCAGAACCATAATTTGTGCTGGATTCATCAGCACTGTAACTTGTGCTGGATT
1 CATCAGAACCATAATATGTGCTGGATTCATCAACACTGTAACTTGTGCTGGATT
10864597 CA
1 CA
10864599 ACCTCATCGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (54 bp):
CATCAGAACCATAATATGTGCTGGATTCATCAACACTGTAACTTGTGCTGGATT
Found at i:10867551 original size:52 final size:52
Alignment explanation
Indices: 10867473--10867629 Score: 215
Period size: 52 Copynumber: 3.0 Consensus size: 52
10867463 TATAACCATG
*
10867473 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
10867525 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * ** * * **
10867577 CGAACTTACCTATTAAGAATCTTTTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
10867629 C
1 C
10867630 TTCTTGTCCA
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 94 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:10867669 original size:11 final size:11
Alignment explanation
Indices: 10867653--10867695 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
10867643 AGCAATATCT
10867653 AACAAATCTCA
1 AACAAATCTCA
*
10867664 AACAAATCTCT
1 AACAAATCTCA
10867675 AACAAATCTCA
1 AACAAATCTCA
10867686 AACAAATCTC
1 AACAAATCTC
10867696 TTATGGGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:10867675 original size:22 final size:22
Alignment explanation
Indices: 10867650--10867696 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
10867640 TCAAGCAATA
10867650 TCTAACAAATCTCAAACAAATC
1 TCTAACAAATCTCAAACAAATC
10867672 TCTAACAAATCTCAAACAAATC
1 TCTAACAAATCTCAAACAAATC
10867694 TCT
1 TCT
10867697 TATGGGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (22 bp):
TCTAACAAATCTCAAACAAATC
Found at i:10867969 original size:25 final size:25
Alignment explanation
Indices: 10867935--10867998 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
10867925 TCAAACCAAG
**
10867935 CTCTTCCCATATCTCGAACTGTCAA
1 CTCTTCCCATATCTCGAACCATCAA
* *
10867960 CTCTTCCCATGTCTCGAACCATCGA
1 CTCTTCCCATATCTCGAACCATCAA
*
10867985 CTCTTCCCACATCT
1 CTCTTCCCATATCT
10867999 TGAATCTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.41, G:0.08, T:0.31
Consensus pattern (25 bp):
CTCTTCCCATATCTCGAACCATCAA
Found at i:10868624 original size:52 final size:52
Alignment explanation
Indices: 10868553--10868657 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
10868543 TATAACCATG
*
10868553 CAAACTTGCCCATTAAGAATCC-CTCTCCTCTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCCATTAAGAATCCTCT-TCCTCTTAGAATTCTTCTCTTGCAAGT
* * * *
10868605 CAAACTTACCTATTAAGAATCCTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTACCCATTAAGAATCCTCTTCCTCTTAGAATTCTTCTCTTGCAAGT
10868657 C
1 C
10868658 TTCTTGTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 45 0.96
53 2 0.04
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.38
Consensus pattern (52 bp):
CAAACTTACCCATTAAGAATCCTCTTCCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:10868698 original size:11 final size:11
Alignment explanation
Indices: 10868682--10868723 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
10868672 GCAATATCTG
10868682 ACAAATCTCAA
1 ACAAATCTCAA
*
10868693 ACAAATCTCTA
1 ACAAATCTCAA
10868704 ACAAATCTCAA
1 ACAAATCTCAA
10868715 ACAAATCTC
1 ACAAATCTC
10868724 TTATGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:10868707 original size:22 final size:22
Alignment explanation
Indices: 10868682--10868724 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
10868672 GCAATATCTG
10868682 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
10868704 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
10868725 TATGAGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:10874869 original size:20 final size:21
Alignment explanation
Indices: 10874830--10874867 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10874820 GCCAAGTCAG
10874830 ATTTTTTAAATAATCATTTAT
1 ATTTTTTAAATAATCATTTAT
10874851 ATTTTTTAAA-AAT-ATTT
1 ATTTTTTAAATAATCATTT
10874868 TAAAAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 10 0.59
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTTTAAATAATCATTTAT
Found at i:10876863 original size:15 final size:16
Alignment explanation
Indices: 10876843--10876873 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10876833 AAAAATTCTA
10876843 GTTTCCTTTTT-TTTT
1 GTTTCCTTTTTGTTTT
10876858 GTTTCCTTTTTGTTTT
1 GTTTCCTTTTTGTTTT
10876874 TATTTTCCCC
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:0.13, G:0.10, T:0.77
Consensus pattern (16 bp):
GTTTCCTTTTTGTTTT
Found at i:10898420 original size:81 final size:78
Alignment explanation
Indices: 10898328--10898487 Score: 239
Period size: 81 Copynumber: 2.0 Consensus size: 78
10898318 TCATCATCAG
*
10898328 CCTCATCATCAAAGCTAAAACTTCCACTGCTCCAAAGTCTTGTTGTGATAGTGGGATTATCAAGG
1 CCTCATCATCAAAGCTAAAACTTCCACTGCTCCAAAGTCTTGTTGTGATAATGGGATTATCAAGG
10898393 CCATTGTCAAAATTGA
66 ---TTGTCAAAATTGA
* * * * *
10898409 CCTCATCATCAAAGCTGAAACTTCCACTGCTTCAACGTCTTTTTGTGATAATGGGATTATCATGG
1 CCTCATCATCAAAGCTAAAACTTCCACTGCTCCAAAGTCTTGTTGTGATAATGGGATTATCAAGG
10898474 TTGTCAAAATTGA
66 TTGTCAAAATTGA
10898487 C
1 C
10898488 ATCTTCTTGA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
78 14 0.19
81 59 0.81
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (78 bp):
CCTCATCATCAAAGCTAAAACTTCCACTGCTCCAAAGTCTTGTTGTGATAATGGGATTATCAAGG
TTGTCAAAATTGA
Found at i:10911433 original size:29 final size:29
Alignment explanation
Indices: 10911396--10911455 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
10911386 TTTCTACTAC
* * *
10911396 ATAAGCCCAAAAATCTATAATTCAAAACT
1 ATAAACCCAAAAAACTATAATTAAAAACT
10911425 ATAAACCCAAAAAACTATAATTAAAAACT
1 ATAAACCCAAAAAACTATAATTAAAAACT
10911454 AT
1 AT
10911456 GGATGAAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.57, C:0.18, G:0.02, T:0.23
Consensus pattern (29 bp):
ATAAACCCAAAAAACTATAATTAAAAACT
Found at i:10917834 original size:14 final size:14
Alignment explanation
Indices: 10917793--10917835 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10917783 TTTATTGAGA
10917793 TTATTTTAAA-TAT
1 TTATTTTAAATTAT
**
10917806 TTAACTTATAATTAT
1 TTATTTTA-AATTAT
10917821 TTATTTTAAATTAT
1 TTATTTTAAATTAT
10917835 T
1 T
10917836 AAATATGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.25
14 9 0.38
15 9 0.38
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TTATTTTAAATTAT
Found at i:10919318 original size:21 final size:21
Alignment explanation
Indices: 10919277--10919318 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10919267 ATTTTTTATT
* *
10919277 TTTTTAAATTAATTTTTAAAA
1 TTTTTAAATTAATATTAAAAA
10919298 TTTTTAAA-TATATATTAAAAA
1 TTTTTAAATTA-ATATTAAAAA
10919319 AACATATGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTAAATTAATATTAAAAA
Found at i:10922845 original size:19 final size:17
Alignment explanation
Indices: 10922821--10922860 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
10922811 AGAATGATTC
10922821 AATTTTAAAATTATAATAA
1 AATTTT-AAATT-TAATAA
*
10922840 AATTTTAAATTTTATAA
1 AATTTTAAATTTAATAA
10922857 AATT
1 AATT
10922861 ACGAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 5 0.25
19 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTAAATTTAATAA
Found at i:10924187 original size:21 final size:21
Alignment explanation
Indices: 10924155--10924201 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
10924145 TACAAAAGAA
**
10924155 TTTTTGTCATATTTTTATAAT
1 TTTTTGTCATATGATTATAAT
*
10924176 TTTTTGGT-ATATGATTATATT
1 TTTTT-GTCATATGATTATAAT
10924197 TTTTT
1 TTTTT
10924202 TATAAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (21 bp):
TTTTTGTCATATGATTATAAT
Found at i:10925147 original size:17 final size:18
Alignment explanation
Indices: 10925125--10925160 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
10925115 AGATAATTTT
10925125 TTTTTAGT-TTTTTTATA
1 TTTTTAGTATTTTTTATA
10925142 TTTTTAGTAATTTTTTATA
1 TTTTTAGT-ATTTTTTATA
10925161 AACATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (18 bp):
TTTTTAGTATTTTTTATA
Found at i:10927340 original size:21 final size:21
Alignment explanation
Indices: 10927308--10927354 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
10927298 TACAAAAGAA
**
10927308 TTTTTGTCATATTTTTATAAT
1 TTTTTGTCATATGATTATAAT
*
10927329 TTTTTGGT-ATATGATTATATT
1 TTTTT-GTCATATGATTATAAT
10927350 TTTTT
1 TTTTT
10927355 TATAAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (21 bp):
TTTTTGTCATATGATTATAAT
Found at i:10928300 original size:17 final size:18
Alignment explanation
Indices: 10928278--10928313 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
10928268 AGATAATTTT
10928278 TTTTTAGT-TTTTTTATA
1 TTTTTAGTATTTTTTATA
10928295 TTTTTAGTAATTTTTTATA
1 TTTTTAGT-ATTTTTTATA
10928314 AACATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (18 bp):
TTTTTAGTATTTTTTATA
Found at i:10933880 original size:19 final size:17
Alignment explanation
Indices: 10933856--10933895 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
10933846 AGAATGATTC
10933856 AATTTTAAAATTATAATAA
1 AATTTT-AAATT-TAATAA
*
10933875 AATTTTAAATTTTATAA
1 AATTTTAAATTTAATAA
10933892 AATT
1 AATT
10933896 AAGAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 5 0.25
19 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTAAATTTAATAA
Found at i:10933984 original size:15 final size:16
Alignment explanation
Indices: 10933964--10934001 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
10933954 ATAAAATAAA
10933964 ATAATTTTATT-TAAT
1 ATAATTTTATTGTAAT
10933979 ATAATTTTATTGTAAT
1 ATAATTTTATTGTAAT
*
10933995 ATCATTT
1 ATAATTT
10934002 CATCTTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (16 bp):
ATAATTTTATTGTAAT
Found at i:10940603 original size:20 final size:19
Alignment explanation
Indices: 10940595--10940643 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
10940585 TAATTTTTTA
10940595 ATTTTTTTTATAAATTGTT
1 ATTTTTTTTATAAATTGTT
* * *
10940614 A-TTTTTTTATTATTTGAGT
1 ATTTTTTTTATAAATTG-TT
10940633 ATTTTTTTTAT
1 ATTTTTTTTAT
10940644 TATTTATGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 13 0.52
19 3 0.12
20 9 0.36
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.71
Consensus pattern (19 bp):
ATTTTTTTTATAAATTGTT
Found at i:10943108 original size:21 final size:21
Alignment explanation
Indices: 10943084--10943123 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10943074 AACCAATTTT
10943084 ATTACTATTATTATTAAAATC
1 ATTACTATTATTATTAAAATC
* *
10943105 ATTATTGTTATTATTAAAA
1 ATTACTATTATTATTAAAA
10943124 AAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTACTATTATTATTAAAATC
Found at i:10943622 original size:104 final size:103
Alignment explanation
Indices: 10943444--10943663 Score: 289
Period size: 104 Copynumber: 2.1 Consensus size: 103
10943434 CATAAGTTGA
* * ** * * *
10943444 AAAATAAAAAGATTGGGATTAAATCATGAGTCAGAGAATAATGAGGATCAGGATTAAACTGCGAC
1 AAAATAAAAAGACTGAGATTAAATCACAAGTCAGAGAATAATAAGGATCAGGATGAAACCGCGAC
* * *
10943509 TTAAAAGTAAAGAAATCGGGATTGAATTGTGAATTAAG
66 TTAAAAGTAAAGAAATCGGGATTGAATCGCGAATCAAG
* * *
10943547 AAAATAGAAAAGACTGAGATTGAATCACAAGTTAGAGAATAATAAGGATC-GAGATGAAACCGTG
1 AAAATA-AAAAGACTGAGATTAAATCACAAGTCAGAGAATAATAAGGATCAG-GATGAAACCGCG
*
10943611 ACTTAAAAGTAAAGAAATCGGGATTGAATCGCGAGTCAAG
64 ACTTAAAAGTAAAGAAATCGGGATTGAATCGCGAATCAAG
10943651 AAAATAAAAAGAC
1 AAAATAAAAAGAC
10943664 CAAGAATGAT
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
103 14 0.14
104 87 0.86
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.21
Consensus pattern (103 bp):
AAAATAAAAAGACTGAGATTAAATCACAAGTCAGAGAATAATAAGGATCAGGATGAAACCGCGAC
TTAAAAGTAAAGAAATCGGGATTGAATCGCGAATCAAG
Found at i:10943841 original size:107 final size:105
Alignment explanation
Indices: 10943703--10944078 Score: 439
Period size: 107 Copynumber: 3.5 Consensus size: 105
10943693 AAGTGACAGG
* * * * * *
10943703 GATTAAATCACAAGTCGAAAATTATATAAATGATCGGGATTAAACTACGAGCCAAATATTAACGA
1 GATTAAA-CGCAAGTCGAAAACTATAGAAATGATCGAGATTAAACCACGAGCCAAATATTAACAA
* * *
10943768 TGACTGGAACTGAATCGCAAATCAAGAAGCAAAAGTGACTAA
65 TGACTGGGACTGAA-CGCAAGTCAAGGAGCAAAAGTGACTAA
* * *
10943810 AATTAAACGGCAAGTCGATAACTATAGAAATGATCGAGATTAAACCACAAGCCAAATATTAACAA
1 GATTAAAC-GCAAGTCGAAAACTATAGAAATGATCGAGATTAAACCACGAGCCAAATATTAACAA
* * * *
10943875 TGACTGGGATTGAACCGCAAGTCAGGGAGCAAAAGTGATTGA
65 TGACTGGGACTGAA-CGCAAGTCAAGGAGCAAAAGTGACTAA
* * *
10943917 GATTAAACTGCAAGTCAAAAACTATAGAAATGATTGAGATTAAACCATGAGCCAAATATTAACAA
1 GATTAAAC-GCAAGTCGAAAACTATAGAAATGATCGAGATTAAACCACGAGCCAAATATTAACAA
* * **
10943982 TGACTGGGACTGAACTACAAGTTAAGGAGTGAAAGTGACTAA
65 TGACTGGGACTGAAC-GCAAGTCAAGGAGCAAAAGTGACTAA
* * * *
10944024 GATTAAATCACAAGT-TAAAACTATAGAAATGATCGGGATTAAACTACGAGCCAAA
1 GATTAAA-CGCAAGTCGAAAACTATAGAAATGATCGAGATTAAACCACGAGCCAAA
10944079 AAATAGCAAC
Statistics
Matches: 228, Mismatches: 38, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
106 37 0.16
107 190 0.83
108 1 0.00
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (105 bp):
GATTAAACGCAAGTCGAAAACTATAGAAATGATCGAGATTAAACCACGAGCCAAATATTAACAAT
GACTGGGACTGAACGCAAGTCAAGGAGCAAAAGTGACTAA
Found at i:10944220 original size:34 final size:34
Alignment explanation
Indices: 10944164--10944351 Score: 114
Period size: 34 Copynumber: 5.4 Consensus size: 34
10944154 TGAAAATCAA
* *
10944164 GATTAAATCATAAATCAGAAAATAAAGAGACTGG
1 GATTAAATCATAAGTCAAAAAATAAAGAGACTGG
* * * * * *
10944198 GATTAAACCACAAGTCAAAAAATGACGTTA-AGTTG
1 GATTAAATCATAAGTCAAAAAATAAAG--AGACTGG
* * *
10944233 GATTGAATCACAAGTCAAAAAATAAAGAGA-TCGA
1 GATTAAATCATAAGTCAAAAAATAAAGAGACT-GG
* * * * * *
10944267 AATTAAACCGTGAGTCGAAACATAAAGAGACTGG
1 GATTAAATCATAAGTCAAAAAATAAAGAGACTGG
* *
10944301 GATTAAATCGTAAGTCAAAAGAATAATA-AGGA-TCAG
1 GATTAAATCATAAGTCAAAA-AATAA-AGA-GACT-GG
10944337 GATTAAATCATAAGT
1 GATTAAATCATAAGT
10944352 TAGAGAAATA
Statistics
Matches: 115, Mismatches: 30, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
33 2 0.02
34 61 0.53
35 33 0.29
36 19 0.17
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (34 bp):
GATTAAATCATAAGTCAAAAAATAAAGAGACTGG
Found at i:10957126 original size:18 final size:18
Alignment explanation
Indices: 10957105--10957145 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10957095 CATTTTATAA
*
10957105 AATTTTTATATTTTTTT-T
1 AATTTTAAT-TTTTTTTAT
10957123 AATTTTAATTTTTTTTAT
1 AATTTTAATTTTTTTTAT
10957141 AATTT
1 AATTT
10957146 CTCAACATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
AATTTTAATTTTTTTTAT
Found at i:10957135 original size:16 final size:17
Alignment explanation
Indices: 10957108--10957139 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10957098 TTTATAAAAT
10957108 TTTTATATTTTTTTTAA
1 TTTTATATTTTTTTTAA
10957125 TTTTA-ATTTTTTTTA
1 TTTTATATTTTTTTTA
10957140 TAATTTCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATATTTTTTTTAA
Found at i:10958442 original size:21 final size:21
Alignment explanation
Indices: 10958418--10958457 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10958408 TAAACCAATT
*
10958418 ATTATTATTATTATTAAAATC
1 ATTATCATTATTATTAAAATC
*
10958439 ATTATCGTTATTATTAAAA
1 ATTATCATTATTATTAAAA
10958458 AAAAGTAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTATCATTATTATTAAAATC
Found at i:10959274 original size:116 final size:115
Alignment explanation
Indices: 10959081--10959308 Score: 323
Period size: 116 Copynumber: 2.0 Consensus size: 115
10959071 TTTTTTGTTC
* * *
10959081 AGGGAAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTCTTGAAATTTTAATTTCGAGGAAA
1 AGGGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTCTTGAAATTTTAATTTCAAAGAAA
* * *
10959146 ATTGATACTTTCAACTTTTCCTCAAAAAT-TTATTTTTTTGAAAATTTATT
66 ATTGATAATTTCAACTTTTCCCCAAAAATATT-TTTTTTGGAAAATTTATT
* * * * * *
10959196 AGGGAAAATTGATACTTTCAACTTTTCCTCAAAGACTTTTTTTTTGAAATTTTATTTTTAAAGAA
1 AGGGAAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTCTTGAAATTTTAATTTCAAAGAA
10959261 AATTGATAATTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAAATTT
65 AATTGATAATTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAAATTT
10959309 GATTTTTATT
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
115 27 0.27
116 70 0.71
117 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (115 bp):
AGGGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTCTTGAAATTTTAATTTCAAAGAAA
ATTGATAATTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAAATTTATT
Found at i:10959296 original size:59 final size:59
Alignment explanation
Indices: 10959083--10959316 Score: 262
Period size: 59 Copynumber: 4.0 Consensus size: 59
10959073 TTTTGTTCAG
* * * * **
10959083 GGAAAATTGATACTTTCAACTTTTTCCAAAAAATA-TTTTCTTGAAATTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTTAA
* * * *
10959141 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTA---TTAG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTTGAAATTTTATTTTTAA
* *
10959198 GGAAAATTGATACTTTCAACTTTTCCTCAAAGACT-TTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAA-AATATTTTTTTTGAAATTTTATTTTTAA
* * *
10959257 AGAAAATTGATAATTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAAATTTGATTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT-G-AAATTTTATTTTTA
10959317 TTTAAAGAAA
Statistics
Matches: 150, Mismatches: 17, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
56 15 0.10
57 33 0.22
58 35 0.23
59 39 0.26
60 15 0.10
61 13 0.09
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTTAA
Found at i:10959366 original size:17 final size:17
Alignment explanation
Indices: 10959346--10959399 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
10959336 TAAAAAAGTG
10959346 AAAATAAATAAAGATAA
1 AAAATAAATAAAGATAA
*
10959363 AAAATAAAGGAAAG-TAA
1 AAAATAAA-TAAAGATAA
*
10959380 AACCA-AAATAAAGATAA
1 AA-AATAAATAAAGATAA
10959397 AAA
1 AAA
10959400 GAATATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.13
17 21 0.70
18 5 0.17
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (17 bp):
AAAATAAATAAAGATAA
Found at i:10959465 original size:23 final size:23
Alignment explanation
Indices: 10959422--10959464 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
10959412 AACCTAATCT
10959422 AATAAATAAAAAATAAAAAAACA
1 AATAAATAAAAAATAAAAAAACA
*
10959445 AATAAAT-GAAAATAAAAAAA
1 AATAAATAAAAAATAAAAAAA
10959465 AACCTGGAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (23 bp):
AATAAATAAAAAATAAAAAAACA
Found at i:10959826 original size:20 final size:20
Alignment explanation
Indices: 10959801--10959842 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
10959791 GAATTTTCGC
10959801 CGGAATCTGGAAAATGTCGT
1 CGGAATCTGGAAAATGTCGT
*
10959821 CGGAATCTGGAAAATTTCGT
1 CGGAATCTGGAAAATGTCGT
10959841 CG
1 CG
10959843 AAAGTTGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (20 bp):
CGGAATCTGGAAAATGTCGT
Found at i:10959962 original size:13 final size:13
Alignment explanation
Indices: 10959944--10959968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10959934 AAAATTCAAA
10959944 TTTCGCCGGAATT
1 TTTCGCCGGAATT
10959957 TTTCGCCGGAAT
1 TTTCGCCGGAAT
10959969 CTGGAAATTT
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:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (13 bp):
TTTCGCCGGAATT
Found at i:10960021 original size:25 final size:25
Alignment explanation
Indices: 10959976--10960029 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
10959966 AATCTGGAAA
*
10959976 TTTCCCAGAAATTTCCAAAAAATTT
1 TTTCCCAAAAATTTCCAAAAAATTT
*
10960001 TTTCGCCAAAAATTT-CTAAAAATTT
1 TTTC-CCAAAAATTTCCAAAAAATTT
10960026 TTTC
1 TTTC
10960030 TCACTCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.41
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAAAAAATTT
Found at i:10960440 original size:3 final size:3
Alignment explanation
Indices: 10960434--10960491 Score: 82
Period size: 3 Copynumber: 18.7 Consensus size: 3
10960424 ACCAGAAAAA
10960434 AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10960479 AAT GAAT ATAT AA
1 AAT -AAT A-AT AA
10960492 CTATATACAT
Statistics
Matches: 51, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.04
3 40 0.78
4 9 0.18
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10960472 original size:23 final size:23
Alignment explanation
Indices: 10960434--10960491 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
10960424 ACCAGAAAAA
10960434 AATAATAA-ATAATAATAATAAT
1 AATAATAATATAATAATAATAAT
10960456 AATAATAATATAATAATAATAAT
1 AATAATAATATAATAATAATAAT
10960479 AATGAAT-ATATAA
1 AAT-AATAATATAA
10960492 CTATATACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.24
23 23 0.68
24 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
AATAATAATATAATAATAATAAT
Found at i:10960504 original size:8 final size:7
Alignment explanation
Indices: 10960435--10960504 Score: 60
Period size: 6 Copynumber: 10.1 Consensus size: 7
10960425 CCAGAAAAAA
*
10960435 ATAATAA
1 ATAATAT
10960442 ATAATA-
1 ATAATAT
10960448 ATAATA-
1 ATAATAT
10960454 ATAATA-
1 ATAATAT
10960460 ATAATAT
1 ATAATAT
10960467 AATAATA-
1 -ATAATAT
10960474 ATAATA-
1 ATAATAT
10960480 ATGAATAT
1 AT-AATAT
10960488 ATAACTAT
1 ATAA-TAT
10960496 ATACATAT
1 ATA-ATAT
10960504 A
1 A
10960505 AATCTATTCT
Statistics
Matches: 57, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
6 26 0.46
7 12 0.21
8 18 0.32
9 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (7 bp):
ATAATAT
Found at i:10961082 original size:23 final size:23
Alignment explanation
Indices: 10961056--10961103 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
10961046 ATTTAATTAA
* *
10961056 TTAATTTTTATTGTGATTATTTT
1 TTAATTTTTACTATGATTATTTT
*
10961079 TTAATTTTTACTATTATTATTTT
1 TTAATTTTTACTATGATTATTTT
10961102 TT
1 TT
10961104 TTTATTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (23 bp):
TTAATTTTTACTATGATTATTTT
Found at i:10961118 original size:25 final size:25
Alignment explanation
Indices: 10961075--10961124 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
10961065 ATTGTGATTA
*
10961075 TTTTTTAATTTTTACTATTATTATT
1 TTTTTTAATTATTACTATTATTATT
* *
10961100 TTTTTTTATTATTATTATTATTATT
1 TTTTTTAATTATTACTATTATTATT
10961125 AAAAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTTTAATTATTACTATTATTATT
Found at i:10961279 original size:21 final size:21
Alignment explanation
Indices: 10961255--10961296 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10961245 TTCATTATCA
10961255 TTATGATTTCTTATATTGTTT
1 TTATGATTTCTTATATTGTTT
* *
10961276 TTATTATTTTTTATATTGTTT
1 TTATGATTTCTTATATTGTTT
10961297 AAATAAACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (21 bp):
TTATGATTTCTTATATTGTTT
Found at i:10961469 original size:18 final size:19
Alignment explanation
Indices: 10961446--10961484 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
10961436 ATTTAAACAA
10961446 TTTATC-ATTTTTTTATTT
1 TTTATCAATTTTTTTATTT
10961464 TTTATCAATTTTTTTATTT
1 TTTATCAATTTTTTTATTT
10961483 TT
1 TT
10961485 AAATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATCAATTTTTTTATTT
Found at i:10961682 original size:17 final size:17
Alignment explanation
Indices: 10961656--10961694 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
10961646 TAGGTCTATA
10961656 TTTT-ATTTTAATTATT
1 TTTTCATTTTAATTATT
*
10961672 TTTTCATTTTATTTATT
1 TTTTCATTTTAATTATT
10961689 TATTTC
1 T-TTTC
10961695 TAAAAGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 12 0.60
18 4 0.20
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCATTTTAATTATT
Found at i:10961823 original size:21 final size:26
Alignment explanation
Indices: 10961763--10961817 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
10961753 TCATCAAAAT
* *
10961763 ACAAACAAATAACATAAAAATCAAAC
1 ACAAATAAATAAAATAAAAATCAAAC
10961789 ACAAATAAATAAAATAAAAA-CAAA-
1 ACAAATAAATAAAATAAAAATCAAAC
10961813 ACAAA
1 ACAAA
10961818 AAAAAAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 5 0.19
25 4 0.15
26 18 0.67
ACGTcount: A:0.75, C:0.15, G:0.00, T:0.11
Consensus pattern (26 bp):
ACAAATAAATAAAATAAAAATCAAAC
Found at i:10962446 original size:19 final size:20
Alignment explanation
Indices: 10962422--10962464 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
10962412 TAGATTGAAA
10962422 TTTTTGTTT-TGAAAATTTT
1 TTTTTGTTTCTGAAAATTTT
*
10962441 TTTTTGTTTCTGGAAATTTT
1 TTTTTGTTTCTGAAAATTTT
10962461 TTTT
1 TTTT
10962465 ACTTTGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.16, C:0.02, G:0.12, T:0.70
Consensus pattern (20 bp):
TTTTTGTTTCTGAAAATTTT
Found at i:10963170 original size:40 final size:40
Alignment explanation
Indices: 10963059--10963175 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
10963049 TTAAAATTTA
* * *
10963059 AAAAGGCTCCTCTAACCAGAGGCTATAAAACTTTAAATTG
1 AAAAGGCTCTTCTAACCAGAAGCTATAAAACTTTAAATTC
* * * * * *
10963099 AAAAAGCTCTTTTAACCATAAACAACAAAACTTTAAATTC
1 AAAAGGCTCTTCTAACCAGAAGCTATAAAACTTTAAATTC
*
10963139 AAAAGGCTCTTCTAACCAGAAGCTATGAAACTTTAAA
1 AAAAGGCTCTTCTAACCAGAAGCTATAAAACTTTAAA
10963176 ATTTAAGGCT
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (40 bp):
AAAAGGCTCTTCTAACCAGAAGCTATAAAACTTTAAATTC
Found at i:10963500 original size:40 final size:40
Alignment explanation
Indices: 10963448--10963542 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
10963438 ACTAGAGGCG
* * *
10963448 ATAAAACATTAAATTTAAAAGGCTC-TTCTAACCAAAGGTA
1 ATAAAACTTTAAATTCAAAAAGCTCATT-TAACCAAAGGTA
* *
10963488 ATGAAACTTTAAATTCAAAAAGCTCATTTAACTAAAGGTA
1 ATAAAACTTTAAATTCAAAAAGCTCATTTAACCAAAGGTA
10963528 ATAAAACTTTAAATT
1 ATAAAACTTTAAATT
10963543 GCTCATCGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (40 bp):
ATAAAACTTTAAATTCAAAAAGCTCATTTAACCAAAGGTA
Found at i:10964208 original size:40 final size:40
Alignment explanation
Indices: 10964164--10964244 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
10964154 GGGAGAAGTG
**
10964164 TTTTATGCATTATTTAAAGGGATATAAC-AAGAACAATAGA
1 TTTTATGCATTATCCAAAGGGATATAACAAAGAA-AATAGA
10964204 TTTTATGCATTATCCAAAGGGATATAACAAAGAAAATAGA
1 TTTTATGCATTATCCAAAGGGATATAACAAAGAAAATAGA
10964244 T
1 T
10964245 AATCACATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 33 0.87
41 5 0.13
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.31
Consensus pattern (40 bp):
TTTTATGCATTATCCAAAGGGATATAACAAAGAAAATAGA
Found at i:10969018 original size:147 final size:150
Alignment explanation
Indices: 10968748--10969043 Score: 490
Period size: 147 Copynumber: 2.0 Consensus size: 150
10968738 TCCTCATCAG
* *
10968748 AGCTAAATCTACTTTTGTGCCTAGTTCTCATTGTAGTCGTAGGGTCATCAAGGCCTTCCTCATCA
1 AGCTAAAACTACTTTTGTGCCTAGTTCTCATTGTAGTCGCAGGGTCATCAAGGCCTTCCTCATCA
*
10968813 TTAGCATTTTTTTCCATCATTGATCCTTCGAAATCTCTTTCTTTGACATCACATTTCAAGGAAAG
66 TTAGCATTTCTTTCCATCATTGATCCTTCGAAATCTCTTTCTTTGACATCACATTTCAAGGAAAG
10968878 CCAACTTGGATCAATTGCAA
131 CCAACTTGGATCAATTGCAA
* *
10968898 AGCTAAAACTACTTTTGT-CCTAGTTCTCGTTGTAGTCGCAGGGTCATCAGGGCCTTCCTCATCA
1 AGCTAAAACTACTTTTGTGCCTAGTTCTCATTGTAGTCGCAGGGTCATCAAGGCCTTCCTCATCA
* * *
10968962 TTA-CA-TTCTTTCCATCCTTGATCCTTCGAAATCTCTTTTTTTGACATCACATTTCAAGGAGAG
66 TTAGCATTTCTTTCCATCATTGATCCTTCGAAATCTCTTTCTTTGACATCACATTTCAAGGAAAG
*
10969025 CCAATTTGGATCAATTGCA
131 CCAACTTGGATCAATTGCA
10969044 GATTTAGGTT
Statistics
Matches: 137, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
147 72 0.53
148 2 0.01
149 46 0.34
150 17 0.12
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (150 bp):
AGCTAAAACTACTTTTGTGCCTAGTTCTCATTGTAGTCGCAGGGTCATCAAGGCCTTCCTCATCA
TTAGCATTTCTTTCCATCATTGATCCTTCGAAATCTCTTTCTTTGACATCACATTTCAAGGAAAG
CCAACTTGGATCAATTGCAA
Found at i:10969260 original size:150 final size:151
Alignment explanation
Indices: 10969053--10969350 Score: 508
Period size: 150 Copynumber: 2.0 Consensus size: 151
10969043 AGATTTAGGT
* * *
10969053 TCCATCATGGCAGCACCACATCTGTTCTCTTCGTCTTTAGTGAATGATAAAGTAGCATGACAACT
1 TCCATCATGGAAGCACCACATCTGTTCTCTTCATCTTTAGTGAATAATAAAGTAGCATGACAACT
* *
10969118 TGATTCCAAAATCTCAATGG-TTGGATCCACTGCCTCTTCACCCTCAGAACTGTAATTTGTGCTA
66 TGATTCCAAAATCTCAATGGTTTGGATCCACTGCCTCTTCACCATCAGAACTGTAATTTGCGCTA
10969182 GATTCATCAACACTGTAAGGA
131 GATTCATCAACACTGTAAGGA
* * *
10969203 TCCATCATGGAAGCACCACATCTGTTCTCTTCATCTTTGGTGAATAATTATGTAGCATGACAACT
1 TCCATCATGGAAGCACCACATCTGTTCTCTTCATCTTTAGTGAATAATAAAGTAGCATGACAACT
*
10969268 TGATTCCAATATCTCAATGGTTTGGATCCACTGCCTCTTCACCATCAGAACTGTAATTTGCGCTA
66 TGATTCCAAAATCTCAATGGTTTGGATCCACTGCCTCTTCACCATCAGAACTGTAATTTGCGCTA
10969333 GATTCATCAACACTGTAA
131 GATTCATCAACACTGTAA
10969351 TTTGTGCTGG
Statistics
Matches: 138, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
150 78 0.57
151 60 0.43
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (151 bp):
TCCATCATGGAAGCACCACATCTGTTCTCTTCATCTTTAGTGAATAATAAAGTAGCATGACAACT
TGATTCCAAAATCTCAATGGTTTGGATCCACTGCCTCTTCACCATCAGAACTGTAATTTGCGCTA
GATTCATCAACACTGTAAGGA
Found at i:10969348 original size:27 final size:27
Alignment explanation
Indices: 10969310--10969419 Score: 157
Period size: 27 Copynumber: 4.1 Consensus size: 27
10969300 GCCTCTTCAC
* * * *
10969310 CATCAGAACTGTAATTTGCGCTAGATT
1 CATCAGCACTGTAACTTGTGCTGGATT
* *
10969337 CATCAACACTGTAATTTGTGCTGGATT
1 CATCAGCACTGTAACTTGTGCTGGATT
*
10969364 CATCAGCACTTTAACTTGTGCTGGATT
1 CATCAGCACTGTAACTTGTGCTGGATT
10969391 CATCAGCACTGTAACTTGTGCTGGATT
1 CATCAGCACTGTAACTTGTGCTGGATT
10969418 CA
1 CA
10969420 AACTCTTCGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
CATCAGCACTGTAACTTGTGCTGGATT
Found at i:10977640 original size:15 final size:16
Alignment explanation
Indices: 10977620--10977650 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10977610 AAAAATTCTA
10977620 GTTTCCTTTTT-TTTT
1 GTTTCCTTTTTGTTTT
10977635 GTTTCCTTTTTGTTTT
1 GTTTCCTTTTTGTTTT
10977651 TATTTTCCCC
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:0.13, G:0.10, T:0.77
Consensus pattern (16 bp):
GTTTCCTTTTTGTTTT
Found at i:10989057 original size:18 final size:18
Alignment explanation
Indices: 10989034--10989068 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10989024 TATGTTTTAG
10989034 ATGAATAACTAAAGCAAT
1 ATGAATAACTAAAGCAAT
*
10989052 ATGAATAACTAGAGCAA
1 ATGAATAACTAAAGCAA
10989069 ATAGCTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.20
Consensus pattern (18 bp):
ATGAATAACTAAAGCAAT
Found at i:10997459 original size:17 final size:17
Alignment explanation
Indices: 10997437--10997474 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
10997427 TTTAAATTAT
*
10997437 ATAATTTTTAAATAA-AA
1 ATAA-TTTTAAAAAATAA
10997454 ATAATTTTAAAAAATAA
1 ATAATTTTAAAAAATAA
10997471 ATAA
1 ATAA
10997475 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAATTTTAAAAAATAA
Found at i:11001007 original size:99 final size:98
Alignment explanation
Indices: 11000836--11001033 Score: 333
Period size: 99 Copynumber: 2.0 Consensus size: 98
11000826 TATCCAACTT
* * *
11000836 ATATTTATACAGATATAAAAGTATGGGGTTCTGATAGTTCATATGCTTTAGTAAAGTGTAACGAT
1 ATATTTATACAGATATAAAAGTATGAGGTTCTGATAGTTCATATGCTATAGTAAAGTGTAAAGAT
*
11000901 GAGCAAAAGAGTGCTGCTAAAATCTATATGACAC
66 GAGCAAAAAAGTGCTGCT-AAATCTATATGACAC
*
11000935 ATATTTATACAGGTATAAAAGTATGAGGTTCTGATAGTTCATATGCTATAGTAAAGTGTAAAGAT
1 ATATTTATACAGATATAAAAGTATGAGGTTCTGATAGTTCATATGCTATAGTAAAGTGTAAAGAT
*
11001000 GAGCAAAAAAGTGGTGCTAAATCTATATGACAC
66 GAGCAAAAAAGTGCTGCTAAATCTATATGACAC
11001033 A
1 A
11001034 CATACAGTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 16 0.17
99 77 0.83
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (98 bp):
ATATTTATACAGATATAAAAGTATGAGGTTCTGATAGTTCATATGCTATAGTAAAGTGTAAAGAT
GAGCAAAAAAGTGCTGCTAAATCTATATGACAC
Found at i:11003153 original size:27 final size:27
Alignment explanation
Indices: 11003096--11003160 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 27
11003086 ATATATTTAG
* *
11003096 TAAATAATT-TTTT-TATTAAATAATA
1 TAAATAATTATTTTAAATTAAATAAAA
*
11003121 TAAATAATTATTTTAAATTAATTAAAA
1 TAAATAATTATTTTAAATTAAATAAAA
*
11003148 TTAAT-A-TATTTTA
1 TAAATAATTATTTTA
11003161 TTGAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 16 0.47
26 5 0.15
27 13 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TAAATAATTATTTTAAATTAAATAAAA
Found at i:11003361 original size:17 final size:16
Alignment explanation
Indices: 11003335--11003366 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11003325 ATATTTATTG
11003335 AATATAAATATAAAAA
1 AATATAAATATAAAAA
11003351 AATATATAATATAAAA
1 AATATA-AATATAAAA
11003367 TTTAGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AATATAAATATAAAAA
Found at i:11004135 original size:20 final size:21
Alignment explanation
Indices: 11004111--11004298 Score: 109
Period size: 21 Copynumber: 8.8 Consensus size: 21
11004101 ATTGTAACGT
11004111 TATAATTATTATATTAATAAA
1 TATAATTATTATATTAATAAA
*
11004132 -ATAA-TATT-T-TT-AT-TA
1 TATAATTATTATATTAATAAA
* *
11004147 TAGAAATATTATATTAATAAA
1 TATAATTATTATATTAATAAA
* *
11004168 TATTATTATATTTTATTAATAAA
1 TA-TAAT-TATTATATTAATAAA
* *
11004191 TAGAATTATATTTATTATATAAATA
1 TATAATTAT-TATATTA-AT-AA-A
* * *
11004216 TTATAAATATTATATTTATTATA
1 -TATAATTATTATA-TTAATAAA
* *
11004239 TAAAAATATTATATTAATAAA
1 TATAATTATTATATTAATAAA
* *
11004260 TAAAAATATTATATTAATAAA
1 TATAATTATTATATTAATAAA
*
11004281 TAATATATTATAATATTA
1 T-ATA-ATTATTATATTA
11004299 TTTTAAAATA
Statistics
Matches: 131, Mismatches: 20, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
15 1 0.01
16 5 0.04
17 6 0.05
18 2 0.02
19 6 0.05
20 6 0.05
21 34 0.26
22 24 0.18
23 29 0.22
24 3 0.02
25 5 0.04
26 10 0.08
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (21 bp):
TATAATTATTATATTAATAAA
Found at i:11004170 original size:15 final size:15
Alignment explanation
Indices: 11004150--11004408 Score: 83
Period size: 15 Copynumber: 16.6 Consensus size: 15
11004140 TTTATTATAG
11004150 AAATATTATATTAAT
1 AAATATTATATTAAT
11004165 AAATA-T-TATT-AT
1 AAATATTATATTAAT
** *
11004177 ATTTTATTA-ATAAAT
1 A-AATATTATATTAAT
*
11004192 AGAATTATATTTATTATAT
1 A-AA-TAT-TATATTA-AT
11004211 AAATATTATA--AAT
1 AAATATTATATTAAT
*
11004224 ATTATATT-TATTATAT
1 A-AATATTATATTA-AT
11004240 AAAAATATTATATTAATAAAT
1 --AAATATTATA-T--T-AAT
11004261 AAAAATATTATATTAAT
1 -AA-ATATTATATTAAT
*
11004278 AAATAATATATT-AT
1 AAATATTATATTAAT
*
11004292 -AATATTATTTTAA-
1 AAATATTATATTAAT
* *
11004305 AATATTTTATAATTTATT
1 AA-ATATTAT-A-TTAAT
** * *
11004323 ATTTATTAAAATAA-
1 AAATATTATATTAAT
*
11004337 ATAATATTGTATTAA-
1 A-AATATTATATTAAT
*
11004352 AAATAATATATTAAT
1 AAATATTATATTAAT
11004367 AAATAATATTATATTAAT
1 --A-AATATTATATTAAT
**
11004385 AAATAAAATATTAAT
1 AAATATTATATTAAT
11004400 AAATATTAT
1 AAATATTAT
11004409 TATATTAATT
Statistics
Matches: 178, Mismatches: 35, Indels: 62
0.65 0.13 0.23
Matches are distributed among these distances:
12 3 0.02
13 20 0.11
14 26 0.15
15 54 0.30
16 12 0.07
17 20 0.11
18 23 0.13
19 4 0.02
20 4 0.02
21 11 0.06
22 1 0.01
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.47
Consensus pattern (15 bp):
AAATATTATATTAAT
Found at i:11004184 original size:23 final size:23
Alignment explanation
Indices: 11004152--11004323 Score: 101
Period size: 23 Copynumber: 7.5 Consensus size: 23
11004142 TATTATAGAA
*
11004152 ATATTATATTAATAAATATTATT
1 ATATTTTATTAATAAATATTATT
**
11004175 ATATTTTATTAATAAATAGAATT
1 ATATTTTATTAATAAATATTATT
11004198 ATA-TTTATTATATAAATATTATAAAT
1 ATATTTTATTA-ATAAATATTAT---T
*
11004224 ATTATATTTATTATATAAA-AATATT
1 A-TAT-TTTATTA-ATAAATATTATT
* * *
11004249 ATA-TTAATAAATAAA-AATATT
1 ATATTTTATTAATAAATATTATT
* * *
11004270 ATA-TTAATAAATAATATATTATA
1 ATATTTTATTAATAA-ATATTATT
11004293 ATATTATT-TT-A-AAATATT-TT
1 ATATT-TTATTAATAAATATTATT
*
11004313 ATAATTTATTA
1 ATATTTTATTA
11004324 TTTATTAAAA
Statistics
Matches: 122, Mismatches: 14, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.02
20 7 0.06
21 30 0.25
22 15 0.12
23 40 0.33
24 4 0.03
25 3 0.02
26 2 0.02
27 2 0.02
28 4 0.03
29 13 0.11
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (23 bp):
ATATTTTATTAATAAATATTATT
Found at i:11004215 original size:61 final size:60
Alignment explanation
Indices: 11004117--11004292 Score: 167
Period size: 61 Copynumber: 3.0 Consensus size: 60
11004107 ACGTTATAAT
* *
11004117 TATTATATTAATAAA-ATAA-TATTTTTATTATAGAAATATTATATTAATAAATATTATTA
1 TATTATATTAATAAATA-AATTATATTTATTATAAAAATATTATATTAATAAATATTATTA
* * *
11004176 TATTTTATTAATAAATAGAATTATATTTATTATATAAATATTATA--AAT-ATTA-TATT-
1 TATTATATTAATAAATA-AATTATATTTATTATAAAAATATTATATTAATAAATATTATTA
* *
11004232 TATTATA-TAA-AAAT--ATTATATTAATAAATAAAAATATTATATTAATAAATAATATATTA
1 TATTATATTAATAAATAAATTATATTTAT-TATAAAAATATTATATTAATAAAT-AT-TATTA
11004291 TA
1 TA
11004293 ATATTATTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
51 10 0.10
52 13 0.13
54 7 0.07
55 5 0.05
56 7 0.07
57 4 0.04
58 7 0.07
59 19 0.20
60 3 0.03
61 22 0.23
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (60 bp):
TATTATATTAATAAATAAATTATATTTATTATAAAAATATTATATTAATAAATATTATTA
Found at i:11004232 original size:52 final size:52
Alignment explanation
Indices: 11004171--11004272 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
11004161 TAATAAATAT
* * *
11004171 TATTATATTTTATTA-ATAAATAGA-ATTATATTTAT-TATATAAATATTATAAA
1 TATTATA-TTTATTATATAAA-A-ATATTATATTAATAAATAAAAATATTATAAA
11004223 TATTATATTTATTATATAAAAATATTATATTAATAAATAAAAATATTATA
1 TATTATATTTATTATATAAAAATATTATATTAATAAATAAAAATATTATA
11004273 TTAATAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
50 1 0.02
51 18 0.41
52 25 0.57
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (52 bp):
TATTATATTTATTATATAAAAATATTATATTAATAAATAAAAATATTATAAA
Found at i:11004250 original size:13 final size:13
Alignment explanation
Indices: 11004232--11004316 Score: 54
Period size: 13 Copynumber: 6.8 Consensus size: 13
11004222 ATATTATATT
11004232 TATTATATAAAAA
1 TATTATATAAAAA
*
11004245 TATTATAT--TAA
1 TATTATATAAAAA
11004256 TA--A-ATAAAAA
1 TATTATATAAAAA
11004266 TATTATATTAATAAA
1 TATTATA-TAA-AAA
* * *
11004281 TAATATATTATAA
1 TATTATATAAAAA
* *
11004294 TATTATTTTAAAA
1 TATTATATAAAAA
*
11004307 TATTTTATAA
1 TATTATATAA
11004317 TTTATTATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
8 2 0.04
9 1 0.02
10 4 0.07
11 4 0.07
12 1 0.02
13 28 0.52
14 5 0.09
15 9 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTATATAAAAA
Found at i:11004279 original size:113 final size:107
Alignment explanation
Indices: 11004164--11004412 Score: 240
Period size: 107 Copynumber: 2.2 Consensus size: 107
11004154 ATTATATTAA
*
11004164 TAAATAT-TATTAT-ATTTTATTA-ATAAATAGAATTAT-ATTTATTATATAAATATTATAAATA
1 TAAATATATATTATAATATTATTATA-AAATA-AATTATAATTTATTAT-T---TATTA-AAATA
* * *
11004225 TTATATTTATTATA-TAAAAATATTATATTAATAAATAAAAATATTATATTAA
59 -AATA-ATATTATATTAAAAATAATATATTAATAAAT--AAATATTATATTAA
* **
11004277 TAAATAATATATTATAATATTATTTTAAAATATTTTATAATTTATTATTTATTAAAATAAATAAT
1 TAAAT-ATATATTATAATATTATTATAAAATAAATTATAATTTATTATTTATTAAAATAAATAAT
*
11004342 ATTGTATTAAAAATAATATATTAATAAAT-AATATTATATTAA
65 ATTATATTAAAAATAATATATTAATAAATAAATATTATATTAA
*
11004384 TAAATAAAATATTAATAAATATTATTATA
1 TAAAT-ATATATT-AT-AATATTATTATA
11004413 TTAATTTTAT
Statistics
Matches: 118, Mismatches: 10, Indels: 20
0.80 0.07 0.14
Matches are distributed among these distances:
107 25 0.21
108 2 0.02
109 17 0.14
110 24 0.20
111 5 0.04
112 5 0.04
113 5 0.04
114 2 0.02
115 11 0.09
116 21 0.18
117 1 0.01
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (107 bp):
TAAATATATATTATAATATTATTATAAAATAAATTATAATTTATTATTTATTAAAATAAATAATA
TTATATTAAAAATAATATATTAATAAATAAATATTATATTAA
Found at i:11004359 original size:20 final size:18
Alignment explanation
Indices: 11004322--11004363 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
11004312 TATAATTTAT
11004322 TATTTATTAAAATAAATAA
1 TATTTATTAAAATAAAT-A
11004341 TATTGTATTAAAA-ATAATA
1 TATT-TATTAAAATA-AATA
11004360 TATT
1 TATT
11004364 AATAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TATTTATTAAAATAAATA
Found at i:11004396 original size:33 final size:33
Alignment explanation
Indices: 11004332--11004417 Score: 138
Period size: 33 Copynumber: 2.6 Consensus size: 33
11004322 TATTTATTAA
* *
11004332 AATAAATAATATTGTATTAA-AAATAATATATT
1 AATAAATAATATTATATTAATAAATAAAATATT
11004364 AATAAATAATATTATATTAATAAATAAAATATT
1 AATAAATAATATTATATTAATAAATAAAATATT
*
11004397 AATAAATATTATTATATTAAT
1 AATAAATAATATTATATTAAT
11004418 TTTATTGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
32 19 0.38
33 31 0.62
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (33 bp):
AATAAATAATATTATATTAATAAATAAAATATT
Found at i:11004442 original size:107 final size:107
Alignment explanation
Indices: 11004239--11004442 Score: 261
Period size: 107 Copynumber: 1.9 Consensus size: 107
11004229 ATTTATTATA
* * *
11004239 TAAAAATATTATATTAATAAATAAAAATATTATATTAATAAATAATATATTATAATATTATTTTA
1 TAAAAATAATATATTAATAAAT--AAATATTATATTAATAAATAAAATATTATAATATTATTATA
* * *
11004304 AAATATTTTATAATTTATTATTTATTAAAATAAATAATATTGTAT
64 AAATATTTTAT-ATGTATTATTAATAAAAATAAATAATATTGTAT
11004349 TAAAAATAATATATTAATAAAT-AATATTATATTAATAAATAAAATATTAATAAATATTATTATA
1 TAAAAATAATATATTAATAAATAAATATTATATTAATAAATAAAATATT-AT-AATATTATTATA
**
11004413 TTA-ATTTTAT-TGTATTATTAATAATAAATA
64 AAATATTTTATATGTATTATTAATAA-AAATA
11004443 GAGCCTAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
106 11 0.13
107 30 0.36
108 9 0.11
109 12 0.14
110 21 0.25
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (107 bp):
TAAAAATAATATATTAATAAATAAATATTATATTAATAAATAAAATATTATAATATTATTATAAA
ATATTTTATATGTATTATTAATAAAAATAAATAATATTGTAT
Found at i:11007488 original size:21 final size:21
Alignment explanation
Indices: 11007463--11007502 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11007453 ATAAGTTAGA
11007463 AATTTTAATTTTAAAATTTGT
1 AATTTTAATTTTAAAATTTGT
* *
11007484 AATTTTTATTTTCAAATTT
1 AATTTTAATTTTAAAATTT
11007503 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
AATTTTAATTTTAAAATTTGT
Found at i:11010901 original size:16 final size:16
Alignment explanation
Indices: 11010880--11010910 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11010870 TCGAAGGTTT
*
11010880 GGTTTTAAAGTTTGAG
1 GGTTTTAAAGCTTGAG
11010896 GGTTTTAAAGCTTGA
1 GGTTTTAAAGCTTGA
11010911 ATTTTAGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.42
Consensus pattern (16 bp):
GGTTTTAAAGCTTGAG
Found at i:11010985 original size:16 final size:15
Alignment explanation
Indices: 11010911--11011107 Score: 102
Period size: 16 Copynumber: 12.9 Consensus size: 15
11010901 TAAAGCTTGA
* *
11010911 ATTTTAGGAATTTTGA
1 ATTTTAGG-GTTTTGG
*
11010927 ATTTTGGGGTTTGTGG
1 ATTTTAGGGTTT-TGG
*
11010943 --TTTGGGGTTTT-G
1 ATTTTAGGGTTTTGG
*
11010955 ATTTAAGGG-TTTGG
1 ATTTTAGGGTTTTGG
11010969 ATTTTAGGGATTTTGG
1 ATTTTAGGG-TTTTGG
* *
11010985 ATTTT-GGGGTTTGA
1 ATTTTAGGGTTTTGG
* *
11010999 ATTTTAGGGGTTTGAA
1 ATTTTAGGGTTTTG-G
*
11011015 ATTTTAAGGG-TTCGG
1 ATTTT-AGGGTTTTGG
* * *
11011030 ATTTAAGAGATTTTAG
1 ATTTTAG-GGTTTTGG
* *
11011046 ATTTTTAAAGG-TTTAG
1 A-TTTT-AGGGTTTTGG
11011062 ATTTTAGAAGGTTTTGG
1 ATTTTAG--GGTTTTGG
*
11011079 ATTTTAGGGGTTTGG
1 ATTTTAGGGTTTTGG
11011094 ATTTTAGGAGTTTT
1 ATTTTAGG-GTTTT
11011108 AGAAACCTAG
Statistics
Matches: 143, Mismatches: 21, Indels: 34
0.72 0.11 0.17
Matches are distributed among these distances:
12 1 0.01
13 4 0.03
14 36 0.25
15 38 0.27
16 44 0.31
17 19 0.13
18 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (15 bp):
ATTTTAGGGTTTTGG
Found at i:11011002 original size:14 final size:14
Alignment explanation
Indices: 11010922--11011019 Score: 72
Period size: 14 Copynumber: 6.7 Consensus size: 14
11010912 TTTTAGGAAT
11010922 TTTGAATTTTGGGG
1 TTTGAATTTTGGGG
***
11010936 TTTGTGGTTTGGGG
1 TTTGAATTTTGGGG
**
11010950 TTTTG-ATTTAAGGG
1 -TTTGAATTTTGGGG
* *
11010964 TTTGGATTTTAGGGAT
1 TTTGAATTTT-GGG-G
*
11010980 TTTGGATTTTGGGG
1 TTTGAATTTTGGGG
11010994 TTTGAATTTTAGGGG
1 TTTGAATTTT-GGGG
11011009 TTTGAAATTTT
1 TTTG-AATTTT
11011020 AAGGGTTCGG
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
13 4 0.06
14 29 0.44
15 17 0.26
16 16 0.24
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (14 bp):
TTTGAATTTTGGGG
Found at i:11011100 original size:15 final size:15
Alignment explanation
Indices: 11010946--11011106 Score: 110
Period size: 15 Copynumber: 10.5 Consensus size: 15
11010936 TTTGTGGTTT
*
11010946 GGGGTTTTGA-TTTA
1 GGGGTTTGGATTTTA
*
11010960 AGGGTTTGGATTTTA
1 GGGGTTTGGATTTTA
*
11010975 GGGATTTTGGATTTT-
1 GGG-GTTTGGATTTTA
*
11010990 GGGGTTTGAATTTTA
1 GGGGTTTGGATTTTA
*
11011005 GGGGTTTGAAATTTTA
1 GGGGTTTG-GATTTTA
* * *
11011021 AGGGTTCGGATTTAA
1 GGGGTTTGGATTTTA
** *
11011036 GAGATTTTAGATTTTTA
1 G-GGGTTTGGA-TTTTA
** *
11011053 AAGGTTTAGATTTTA
1 GGGGTTTGGATTTTA
*
11011068 GAAGGTTTTGGATTTTA
1 G--GGGTTTGGATTTTA
11011085 GGGGTTTGGATTTTA
1 GGGGTTTGGATTTTA
*
11011100 GGAGTTT
1 GGGGTTT
11011107 TAGAAACCTA
Statistics
Matches: 113, Mismatches: 26, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
14 17 0.15
15 46 0.41
16 34 0.30
17 16 0.14
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.47
Consensus pattern (15 bp):
GGGGTTTGGATTTTA
Found at i:11012507 original size:20 final size:22
Alignment explanation
Indices: 11012482--11012534 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
11012472 CATCCTCAAT
11012482 TATTTTTTTTA-T-TTTTTTGC
1 TATTTTTTTTATTATTTTTTGC
* *
11012502 TATTTTTTGTATTATTTTTTGG
1 TATTTTTTTTATTATTTTTTGC
11012524 TATTTATTTTT
1 TATTT-TTTTT
11012535 TTTGTATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.37
21 1 0.04
22 12 0.44
23 4 0.15
ACGTcount: A:0.13, C:0.02, G:0.08, T:0.77
Consensus pattern (22 bp):
TATTTTTTTTATTATTTTTTGC
Found at i:11012536 original size:15 final size:13
Alignment explanation
Indices: 11012502--11012535 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
11012492 ATTTTTTTGC
11012502 TATTTTTTGTA-T
1 TATTTTTTGTATT
11012514 TATTTTTTGGTATT
1 TATTTTTT-GTATT
11012528 TATTTTTT
1 TATTTTTT
11012536 TTGTATTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 3 0.15
14 9 0.45
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (13 bp):
TATTTTTTGTATT
Found at i:11012541 original size:15 final size:14
Alignment explanation
Indices: 11012504--11012543 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
11012494 TTTTTTGCTA
11012504 TTTTTTGTA-TTAT
1 TTTTTTGTATTTAT
*
11012517 TTTTTGGTATTTATT
1 TTTTTTGTATTTA-T
11012532 TTTTTTGTATTT
1 TTTTTTGTATTT
11012544 CGTATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 8 0.35
14 3 0.13
15 12 0.52
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (14 bp):
TTTTTTGTATTTAT
Found at i:11012898 original size:88 final size:87
Alignment explanation
Indices: 11012681--11012926 Score: 254
Period size: 88 Copynumber: 2.9 Consensus size: 87
11012671 TTTTTTTTAA
* * * * * * *
11012681 ACAAAA-CGATTGGGATTACACCGTAAGTTAAAAAAAATAATAAATCGATCGAGATAACACACGC
1 ACAAAATCGACTGGGATAACACCGTAAG-T-CAAAAGATAAAAAATCGATCGGGATAACA-ACGT
**
11012745 GAATCAAAATTATACCGGAGGTCTT
63 GAATCAAAATTATACCAAAGGTCTT
* * * *
11012770 AC----TGGACTGGGATAACATC--ACAGTCAAAAGATAAAGAATCGATCGGGATAACATCGTGA
1 ACAAAATCGACTGGGATAACACCGTA-AGTCAAAAGATAAAAAATCGATCGGGATAACAACGTGA
11012829 ATCAAAATTATATCCAAAGGTCTT
65 ATCAAAATTATA-CCAAAGGTCTT
* *
11012853 ACAAAATCGACTGGGATAACACCGTAAGTCAAAAGATAAAAAATCGATCGGGATAACACCATGAA
1 ACAAAATCGACTGGGATAACACCGTAAGTCAAAAGATAAAAAATCGATCGGGATAACAACGTGAA
*
11012918 TCGAAATTA
66 TCAAAATTA
11012927 CGCTCGGAGG
Statistics
Matches: 129, Mismatches: 19, Indels: 19
0.77 0.11 0.11
Matches are distributed among these distances:
82 16 0.12
83 35 0.27
84 2 0.02
85 2 0.02
86 12 0.09
87 15 0.12
88 44 0.34
89 3 0.02
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (87 bp):
ACAAAATCGACTGGGATAACACCGTAAGTCAAAAGATAAAAAATCGATCGGGATAACAACGTGAA
TCAAAATTATACCAAAGGTCTT
Found at i:11012993 original size:70 final size:70
Alignment explanation
Indices: 11012880--11013020 Score: 228
Period size: 70 Copynumber: 2.0 Consensus size: 70
11012870 AACACCGTAA
* *
11012880 GTCAAAAGATAAAAAATCGATCGGGATAACACCATGAATCGAAATTACGCTCGGAGGTCTTAAGA
1 GTCAAAAGATAAAAAATCGATCGGGATAACACCACGAATCGAAATTACGCTCGGAGGTCCTAAGA
11012945 ATCAT
66 ATCAT
* * * *
11012950 GTCAAAAGATAAAGAATCGATTGGGATAACACCGCGAATCGAAATTATGCTCGGAGGTCCTAAGA
1 GTCAAAAGATAAAAAATCGATCGGGATAACACCACGAATCGAAATTACGCTCGGAGGTCCTAAGA
11013015 ATCAT
66 ATCAT
11013020 G
1 G
11013021 CCCGGAGGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (70 bp):
GTCAAAAGATAAAAAATCGATCGGGATAACACCACGAATCGAAATTACGCTCGGAGGTCCTAAGA
ATCAT
Found at i:11013026 original size:22 final size:23
Alignment explanation
Indices: 11012996--11013039 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11012986 AATCGAAATT
*
11012996 ATGCTCGGAGGTCCTA-AGAATC
1 ATGCCCGGAGGTCCTACAGAATC
*
11013018 ATGCCCGGAGGTCTTACAGAAT
1 ATGCCCGGAGGTCCTACAGAAT
11013040 TGACTGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (23 bp):
ATGCCCGGAGGTCCTACAGAATC
Found at i:11013086 original size:110 final size:109
Alignment explanation
Indices: 11012945--11013258 Score: 416
Period size: 110 Copynumber: 2.9 Consensus size: 109
11012935 GGTCTTAAGA
* *
11012945 ATCAT-GTCAAAAGATAAAGAATCGATTGGGATAACACCGCGAATCGAAATTATGCTCGGAGGTC
1 ATCATAGTCAAAAGATAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCCGGAGGTC
* * * *
11013009 CTAAGAATCATGCCCGGAGGTCTTACAGAATTGACTGGAATAAC
66 TTAAAAATCATGCTCGGAGGTCTTACAGAATAGACTGGAATAAC
* * * * ** *
11013053 ATCATAAGTCGAAAGATAAAGAATCGATCGGGATAATACTGCGAATCAAAATTATGCCCATAAGT
1 ATCAT-AGTCAAAAGATAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCCGGAGGT
* * *
11013118 CTTAAAAATCGTGCTCGGAGGTCTTACAGGATAGACTGGGATAAC
65 CTTAAAAATCATGCTCGGAGGTCTTACAGAATAGACTGGAATAAC
* *
11013163 ATCGTAGTCAAAAGAT-AAGAAATCGATCGGGATAACACCGTGAATCGAAATTATGCCCGGAGGT
1 ATCATAGTCAAAAGATAAAG-AATCGATCGGGATAACACCGCGAATCGAAATTATGCCCGGAGGT
* *
11013227 CTTAAAAATCATGCTCGAAAGTCTTACAGAAT
65 CTTAAAAATCATGCTCGGAGGTCTTACAGAAT
11013259 CATGTCCGGA
Statistics
Matches: 174, Mismatches: 29, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
108 8 0.05
109 75 0.43
110 91 0.52
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.23
Consensus pattern (109 bp):
ATCATAGTCAAAAGATAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCCGGAGGTC
TTAAAAATCATGCTCGGAGGTCTTACAGAATAGACTGGAATAAC
Found at i:11013262 original size:23 final size:23
Alignment explanation
Indices: 11013215--11013304 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 23
11013205 AATCGAAATT
* *
11013215 ATGCCCGGAGGTCTTA-AAAATC
1 ATGCTCGGAGGTCTTACAGAATC
* *
11013237 ATGCTCGAAAGTCTTACAGAATC
1 ATGCTCGGAGGTCTTACAGAATC
*
11013260 ATG-TCCGGAGGTCTTACAGAGTC
1 ATGCT-CGGAGGTCTTACAGAATC
* *
11013283 ATGCCCGGAGGTCTAACAGAAT
1 ATGCTCGGAGGTCTTACAGAAT
11013305 TGACTGGGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
22 14 0.25
23 41 0.75
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (23 bp):
ATGCTCGGAGGTCTTACAGAATC
Found at i:11013440 original size:45 final size:44
Alignment explanation
Indices: 11013365--11013452 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 44
11013355 TCACGAATTG
*
11013365 AAATTATGCCCGGAGGTCATAAAAATCATGCTCGAAAGTCTTAA
1 AAATCATGCCCGGAGGTCATAAAAATCATGCTCGAAAGTCTTAA
* * * * *
11013409 AAATCATGCTCGGAGGTCTTATAGAATCATGCTCGGAGGTCTTA
1 AAATCATGCCCGGAGGTCATA-AAAATCATGCTCGAAAGTCTTA
11013453 TAGAATCGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.49
45 19 0.51
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
AAATCATGCCCGGAGGTCATAAAAATCATGCTCGAAAGTCTTAA
Found at i:11013459 original size:23 final size:22
Alignment explanation
Indices: 11013365--11013452 Score: 113
Period size: 22 Copynumber: 4.0 Consensus size: 22
11013355 TCACGAATTG
* * *
11013365 AAATTATGCCCGGAGGTCATAA
1 AAATCATGCTCGGAGGTCTTAA
* *
11013387 AAATCATGCTCGAAAGTCTTAA
1 AAATCATGCTCGGAGGTCTTAA
11013409 AAATCATGCTCGGAGGTCTTATA
1 AAATCATGCTCGGAGGTCTTA-A
*
11013432 GAATCATGCTCGGAGGTCTTA
1 AAATCATGCTCGGAGGTCTTA
11013453 TAGAATCGAC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 36 0.63
23 21 0.37
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (22 bp):
AAATCATGCTCGGAGGTCTTAA
Found at i:11013548 original size:22 final size:22
Alignment explanation
Indices: 11013517--11013560 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
11013507 ATCGTGAATT
*
11013517 AAAATTATGCTCGGAGGTCTTA
1 AAAATCATGCTCGGAGGTCTTA
11013539 AAAATCATGCTCGGAGGTCTTA
1 AAAATCATGCTCGGAGGTCTTA
11013561 CAGAATCGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (22 bp):
AAAATCATGCTCGGAGGTCTTA
Found at i:11013983 original size:17 final size:17
Alignment explanation
Indices: 11013957--11013989 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11013947 ATGAAACTTA
*
11013957 AAAATTTTTTTTTTTTG
1 AAAATGTTTTTTTTTTG
11013974 AAAATGTTTTTTTTTT
1 AAAATGTTTTTTTTTT
11013990 TCAATCGGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
AAAATGTTTTTTTTTTG
Found at i:11014585 original size:33 final size:33
Alignment explanation
Indices: 11014507--11015044 Score: 621
Period size: 33 Copynumber: 16.5 Consensus size: 33
11014497 GAAGGTCAAC
* * * *
11014507 TAAACTGAGCTTAAA-TTTTATTGATGGCTAGA
1 TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
* * *
11014539 TAAACTAGGCTTAAAGCTTCATTAATGACCAGA
1 TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
* * * *
11014572 TAAATTGGACTTAAAACTTCATTGATGGCCAAA
1 TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
* *
11014605 TAAATTGGGCTTAAAGCTTCATTGATGGCCAAA
1 TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
*
11014638 TAAATTGGGCTTAAAGCTTCATTGATGGCCAGA
1 TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
* *
11014671 TAAACTGGGCTTAAAACTTCATTAATGGCCAGA
1 TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
** * *
11014704 TAAACTGGGCTTAAATTTTGA-TGATGGCCATA
1 TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
* * *
11014736 TAAACTGGGCTTAAAGCTTTATTAATGGCCAAA
1 TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
* *
11014769 TAAAATGGGCTTAAAGCTTCATTGATGGCCAAA
1 TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
* * *
11014802 TAAGCTGGGCTTAAAACTTCATTAATGGCCAGA
1 TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
11014835 TAAACTGGGCTTAAA--TATCATTGATGGCCAGA
1 TAAACTGGGCTTAAAGCT-TCATTGATGGCCAGA
11014867 TAAACTGGGCTTAAA--TATCATTGATGGCCAGA
1 TAAACTGGGCTTAAAGCT-TCATTGATGGCCAGA
* * * *
11014899 TAAACTGGGCTTAAAACTTCATTGAGGGTCAAA
1 TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
* *
11014932 TAAACTAGGCTTAAATCTTCATTTGA-GGCCAGA
1 TAAACTGGGCTTAAAGCTTCA-TTGATGGCCAGA
*
11014965 TAAACTGGTCTTAAA--TATCATTGATGGCCAGA
1 TAAACTGGGCTTAAAGCT-TCATTGATGGCCAGA
*
11014997 TAAACTGGGCTTAAAGCTTTATTTGA-GGCCAGA
1 TAAACTGGGCTTAAAGCTTCA-TTGATGGCCAGA
*
11015030 T-AATTGGGCTTAAAG
1 TAAACTGGGCTTAAAG
11015045 TTTTTCCCTT
Statistics
Matches: 443, Mismatches: 52, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
31 6 0.01
32 138 0.31
33 289 0.65
34 10 0.02
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (33 bp):
TAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
Found at i:11014619 original size:98 final size:98
Alignment explanation
Indices: 11014507--11015044 Score: 601
Period size: 98 Copynumber: 5.5 Consensus size: 98
11014497 GAAGGTCAAC
* * * * * * *
11014507 TAAACTGAGCTTAAATTTTATTGATGGCTAGATAAACTAGGCTTAAAGCTTCATTAATGACCAGA
1 TAAACTGGGCTTAAACTTCATTGATGGCCAAATAAACTGGGCTTAAAGCTTCATTAATGGCCAGA
* * *
11014572 TAAATTGGACTTAAAACTTCATTGATGGCCAAA
66 TAAACTGGGCTTAAAACTTCATTGATGGCCAGA
* * *
11014605 TAAATTGGGCTTAAAGCTTCATTGATGGCCAAATAAATTGGGCTTAAAGCTTCATTGATGGCCAG
1 TAAACTGGGCTTAAA-CTTCATTGATGGCCAAATAAACTGGGCTTAAAGCTTCATTAATGGCCAG
*
11014670 ATAAACTGGGCTTAAAACTTCATTAATGGCCAGA
65 ATAAACTGGGCTTAAAACTTCATTGATGGCCAGA
* * * * *
11014704 TAAACTGGGCTTAAATTTTGA-TGATGGCCATATAAACTGGGCTTAAAGCTTTATTAATGGCCAA
1 TAAACTGGGCTTAAA-CTTCATTGATGGCCAAATAAACTGGGCTTAAAGCTTCATTAATGGCCAG
* * *
11014768 ATAAAATGGGCTTAAAGCTTCATTGATGGCCAAA
65 ATAAACTGGGCTTAAAACTTCATTGATGGCCAGA
* * * *
11014802 TAAGCTGGGCTTAAAACTTCATTAATGGCCAGATAAACTGGGCTTAAA--TATCATTGATGGCCA
1 TAAACTGGGCTT-AAACTTCATTGATGGCCAAATAAACTGGGCTTAAAGCT-TCATTAATGGCCA
11014865 GATAAACTGGGCTT-AAA-TATCATTGATGGCCAGA
64 GATAAACTGGGCTTAAAACT-TCATTGATGGCCAGA
* * * * *
11014899 TAAACTGGGCTTAAAACTTCATTGAGGGTCAAATAAACTAGGCTTAAATCTTCATTTGA-GGCCA
1 TAAACTGGGCTT-AAACTTCATTGATGGCCAAATAAACTGGGCTTAAAGCTTCA-TTAATGGCCA
*
11014963 GATAAACTGGTCTT-AAA-TATCATTGATGGCCAGA
64 GATAAACTGGGCTTAAAACT-TCATTGATGGCCAGA
* * *
11014997 TAAACTGGGCTTAAAGCTTTATTTGA-GGCCAGAT-AATTGGGCTTAAAG
1 TAAACTGGGCTTAAA-CTTCA-TTGATGGCCAAATAAACTGGGCTTAAAG
11015045 TTTTTCCCTT
Statistics
Matches: 379, Mismatches: 51, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
96 1 0.00
97 73 0.19
98 181 0.48
99 124 0.33
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (98 bp):
TAAACTGGGCTTAAACTTCATTGATGGCCAAATAAACTGGGCTTAAAGCTTCATTAATGGCCAGA
TAAACTGGGCTTAAAACTTCATTGATGGCCAGA
Found at i:11014778 original size:131 final size:131
Alignment explanation
Indices: 11014474--11015044 Score: 692
Period size: 131 Copynumber: 4.4 Consensus size: 131
11014464 TTGGGGCTAA
* * * * * * * * *
11014474 ATAAACTTGGCTTAAA-TTTTATTGAAGGTCAACTAAACTGAGCTTAAA-TTTTATTGATGGCTA
1 ATAAACTGGGCTTAAAGCTTTATTGATGGCCAAATAAACTGGGCTTAAAGCTTCATTGATGGCCA
* * * * *
11014537 GATAAACTAGGCTTAAAGCTTCATTAATGACCAGATAAATTGGACTTAAA-ACTTCATTGATGGC
66 AATAAACTAGGCTTAAAACTTCATTAATGGCCAGATAAACTGGGCTTAAATA--TCATTGATGGC
*
11014601 CAA
129 CAG
* * *
11014604 ATAAATTGGGCTTAAAGCTTCATTGATGGCCAAATAAATTGGGCTTAAAGCTTCATTGATGGCCA
1 ATAAACTGGGCTTAAAGCTTTATTGATGGCCAAATAAACTGGGCTTAAAGCTTCATTGATGGCCA
* * * *
11014669 GATAAACTGGGCTTAAAACTTCATTAATGGCCAGATAAACTGGGCTTAAATTTTGA-TGATGGCC
66 AATAAACTAGGCTTAAAACTTCATTAATGGCCAGATAAACTGGGCTTAAA-TATCATTGATGGCC
*
11014733 AT
130 AG
* *
11014735 ATAAACTGGGCTTAAAGCTTTATTAATGGCCAAATAAAATGGGCTTAAAGCTTCATTGATGGCCA
1 ATAAACTGGGCTTAAAGCTTTATTGATGGCCAAATAAACTGGGCTTAAAGCTTCATTGATGGCCA
* *
11014800 AATAAGCTGGGCTTAAAACTTCATTAATGGCCAGATAAACTGGGCTTAAATATCATTGATGGCCA
66 AATAAACTAGGCTTAAAACTTCATTAATGGCCAGATAAACTGGGCTTAAATATCATTGATGGCCA
11014865 G
131 G
* * * * *
11014866 ATAAACTGGGCTTAAA--TATCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTGAGGGTC
1 ATAAACTGGGCTTAAAGCT-TTATTGATGGCCAAATAAACTGGGCTTAAAGCTTCATTGATGGCC
* * *
11014929 AAATAAACTAGGCTTAAATCTTCATTTGA-GGCCAGATAAACTGGTCTTAAATATCATTGATGGC
65 AAATAAACTAGGCTTAAAACTTCA-TTAATGGCCAGATAAACTGGGCTTAAATATCATTGATGGC
11014993 CAG
129 CAG
* *
11014996 ATAAACTGGGCTTAAAGCTTTATTTGA-GGCCAGAT-AATTGGGCTTAAAG
1 ATAAACTGGGCTTAAAGCTTTA-TTGATGGCCAAATAAACTGGGCTTAAAG
11015045 TTTTTCCCTT
Statistics
Matches: 387, Mismatches: 44, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
129 1 0.00
130 141 0.36
131 181 0.47
132 64 0.17
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (131 bp):
ATAAACTGGGCTTAAAGCTTTATTGATGGCCAAATAAACTGGGCTTAAAGCTTCATTGATGGCCA
AATAAACTAGGCTTAAAACTTCATTAATGGCCAGATAAACTGGGCTTAAATATCATTGATGGCCA
G
Found at i:11016997 original size:12 final size:13
Alignment explanation
Indices: 11016980--11017008 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11016970 CAAAACTTCA
11016980 TTTTTT-CTTTTT
1 TTTTTTGCTTTTT
11016992 TTTTTTGCTTTTT
1 TTTTTTGCTTTTT
11017005 TTTT
1 TTTT
11017009 CAAGAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (13 bp):
TTTTTTGCTTTTT
Found at i:11021873 original size:21 final size:21
Alignment explanation
Indices: 11021847--11021888 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11021837 GAAAAATAGA
11021847 ATAAAA-AAAATTAAATTAAAT
1 ATAAAATAAAA-TAAATTAAAT
*
11021868 ATAAAATAAAATCAATTAAAT
1 ATAAAATAAAATAAATTAAAT
11021889 CCAACCATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAAAATAAAATAAATTAAAT
Found at i:11023145 original size:44 final size:46
Alignment explanation
Indices: 11023097--11023185 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 46
11023087 TTAAAGGTTT
11023097 GGATTTTGTG-GTTTGGGGTTTTG-ATTTAAGGG-TTTGG-ATTTTAG
1 GGATTTTG-GAGTTTGGGG-TTTGAATTTAAGGGTTTTGGAATTTTAG
* *
11023141 GGATTTTGGATTTTGGGGTTTGAATTTTAGGGTTTTGGAATTTTA
1 GGATTTTGGAGTTTGGGGTTTGAATTTAAGGGTTTTGGAATTTTA
11023186 AGGGTTCGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 5 0.13
44 23 0.59
45 5 0.13
46 6 0.15
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.51
Consensus pattern (46 bp):
GGATTTTGGAGTTTGGGGTTTGAATTTAAGGGTTTTGGAATTTTAG
Found at i:11023150 original size:16 final size:15
Alignment explanation
Indices: 11023112--11023272 Score: 125
Period size: 16 Copynumber: 10.5 Consensus size: 15
11023102 TTGTGGTTTG
*
11023112 GGGTTTT-GATTTAA
1 GGGTTTTGGATTTTA
11023126 GGG-TTTGGATTTTA
1 GGGTTTTGGATTTTA
11023140 GGGATTTTGGATTTT-
1 GGG-TTTTGGATTTTA
* *
11023155 GGGGTTTGAATTTTA
1 GGGTTTTGGATTTTA
11023170 GGGTTTTGGAATTTTAA
1 GGGTTTTGG-ATTTT-A
* *
11023187 GGG-TTCGGATTTAA
1 GGGTTTTGGATTTTA
* *
11023201 GAGATTTTAGATTTTTAA
1 G-GGTTTTGGA-TTTT-A
11023219 GGG-TTTGGATTTTA
1 GGGTTTTGGATTTTA
11023233 GAAGGTTTTGGATTTTA
1 G--GGTTTTGGATTTTA
* *
11023250 GGGGTTTGAATTTTA
1 GGGTTTTGGATTTTA
11023265 GGAGTTTT
1 GG-GTTTT
11023273 AGAAACCTGG
Statistics
Matches: 117, Mismatches: 16, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
13 3 0.03
14 25 0.21
15 33 0.28
16 34 0.29
17 20 0.17
18 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (15 bp):
GGGTTTTGGATTTTA
Found at i:11023249 original size:32 final size:30
Alignment explanation
Indices: 11023112--11023272 Score: 166
Period size: 32 Copynumber: 5.2 Consensus size: 30
11023102 TTGTGGTTTG
11023112 GGGTTTT-GA-TTTAAGGGTTTGGATTTTA
1 GGGTTTTGGATTTTAAGGGTTTGGATTTTA
* *
11023140 GGGATTTTGGATTTT-GGGGTTTGAATTTTA
1 GGG-TTTTGGATTTTAAGGGTTTGGATTTTA
* *
11023170 GGGTTTTGGAATTTTAAGGGTTCGGATTTAA
1 GGGTTTTGG-ATTTTAAGGGTTTGGATTTTA
* *
11023201 GAGATTTTAGATTTTTAAGGGTTTGGATTTTA
1 G-GGTTTTGGA-TTTTAAGGGTTTGGATTTTA
* *
11023233 GAAGGTTTTGGATTTTAGGGGTTTGAATTTTA
1 G--GGTTTTGGATTTTAAGGGTTTGGATTTTA
11023265 GGAGTTTT
1 GG-GTTTT
11023273 AGAAACCTGG
Statistics
Matches: 110, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
28 3 0.03
29 10 0.09
30 24 0.22
31 21 0.19
32 44 0.40
33 8 0.07
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (30 bp):
GGGTTTTGGATTTTAAGGGTTTGGATTTTA
Done.