Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 28 of 120
Found at i:7337946 original size:30 final size:28
Alignment explanation
Indices: 7337877--7337999 Score: 95
Period size: 30 Copynumber: 4.2 Consensus size: 28
7337867 AAATGTATTT
* * * * *
7337877 TTTTGGAAAGTTCAGGGTGAAATTGTTA
1 TTTTGGAAAGTTAAGAGTTAAAATGTGA
*
7337905 TTTTGGAAAGTTCGAGAGTTAAAATGTGA
1 TTTTGGAAAGTT-AAGAGTTAAAATGTGA
*
7337934 TTTTAGGTAAGTTTAAGA-TTCAAAATGTGA
1 TTTT-GGAAAG-TTAAGAGTT-AAAATGTGA
* *
7337964 TTTTTGAAAAGTTTAGAGGTTAAAATGTGA
1 -TTTTGGAAAGTTAAGA-GTTAAAATGTGA
7337994 TATTTG
1 T-TTTG
7338000 AATAAAATAG
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
28 12 0.16
29 23 0.30
30 34 0.44
31 8 0.10
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.40
Consensus pattern (28 bp):
TTTTGGAAAGTTAAGAGTTAAAATGTGA
Found at i:7340332 original size:18 final size:18
Alignment explanation
Indices: 7340297--7340332 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7340287 TCAAATCTAG
**
7340297 TGACCGTTGGAGTGTATA
1 TGACCGTTGGAGCATATA
7340315 TGACCGTTGGAGCATATA
1 TGACCGTTGGAGCATATA
7340333 AATAATCGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.31
Consensus pattern (18 bp):
TGACCGTTGGAGCATATA
Found at i:7340446 original size:27 final size:29
Alignment explanation
Indices: 7340388--7340474 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 29
7340378 AATTAAAATT
* *
7340388 TTTGATTTTCGAATTTATATTAAGTTTGAA
1 TTTGATTTT-GAATTTATATTAAATTTAAA
*
7340418 -TTGATTTTAAATTTAT-TTAAATTTAAA
1 TTTGATTTTGAATTTATATTAAATTTAAA
* *
7340445 TTTG-TTTTGAATTTAAATTTAA-TTAAA
1 TTTGATTTTGAATTTATATTAAATTTAAA
7340472 TTT
1 TTT
7340475 AAAATGGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
27 27 0.55
28 14 0.29
29 8 0.16
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.56
Consensus pattern (29 bp):
TTTGATTTTGAATTTATATTAAATTTAAA
Found at i:7340479 original size:17 final size:16
Alignment explanation
Indices: 7340423--7340477 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
7340413 TTGAATTGAT
7340423 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
* *
7340439 TTTAAATTTGTTTTGAA
1 TTTAAATTT-ATTTAAA
*
7340456 TTTAAATTTAATTAAA
1 TTTAAATTTATTTAAA
7340472 TTTAAA
1 TTTAAA
7340478 ATGGTTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 19 0.58
17 14 0.42
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:7340485 original size:33 final size:33
Alignment explanation
Indices: 7340418--7340485 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
7340408 TAAGTTTGAA
* * * *
7340418 TTGATTTTAAATTTATTTAAATTTAAATTTGTT
1 TTGAATTTAAATTTAATTAAATTTAAAATGGTT
7340451 TTGAATTTAAATTTAATTAAATTTAAAATGGTT
1 TTGAATTTAAATTTAATTAAATTTAAAATGGTT
7340484 TT
1 TT
7340486 AAACTTAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (33 bp):
TTGAATTTAAATTTAATTAAATTTAAAATGGTT
Found at i:7341349 original size:13 final size:13
Alignment explanation
Indices: 7341331--7341356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7341321 AATAAATGTT
7341331 TTATTAATAATAA
1 TTATTAATAATAA
7341344 TTATTAATAATAA
1 TTATTAATAATAA
7341357 AAATAAAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTATTAATAATAA
Found at i:7349139 original size:92 final size:92
Alignment explanation
Indices: 7348982--7349772 Score: 1356
Period size: 92 Copynumber: 8.7 Consensus size: 92
7348972 TTAGATCAAA
*
7348982 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGACCAAGATGAAGTTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
7349047 ATCCTCTTGAAGTTGTAGTAAAGTTGG
66 ATCCTCTTGAAGTTGTAGTAAAGTTGG
*
7349074 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATTAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
7349139 ATCCTCTTGAAGTTGTAGTAAAGTTGG
66 ATCCTCTTGAAGTTGTAGTAAAGTTGG
* *
7349166 ATAGCAAGTCTTTATCTCTCTGAATTTGTAGTAAGAGCAAGATGAAGTTTCAAACATTAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
7349231 ATCCTCTTGAAGTTGTAGTAAAGTTGG
66 ATCCTCTTGAAGTTGTAGTAAAGTTGG
*
7349258 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
7349323 ATCCTCTTGAAGTTGTAGTAAAGTTGG
66 ATCCTCTTGAAGTTGTAGTAAAGTTGG
7349350 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTT-AAACATCAATTCC
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAG-TTTCAAACATCAATTCC
7349414 TATCCTCTTGAAGTTGTAGTAAAGTTGG
65 TATCCTCTTGAAGTTGTAGTAAAGTTGG
7349442 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAA----T
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
7349503 -T-C-C-T---GTTGTAGTAAAGTTGG
66 ATCCTCTTGAAGTTGTAGTAAAGTTGG
7349523 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
*
7349588 ATCCTCTTGAAGTTGTAGTAAAATTGG
66 ATCCTCTTGAAGTTGTAGTAAAGTTGG
* * *
7349615 ATAGCAAGTCTTTATCTCTCTGAAGTTTTAGTAAGAGTAAGATGAAGCTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
*
7349680 ATCCTCTTAAAGTTGTAGTAAAGTTGG
66 ATCCTCTTGAAGTTGTAGTAAAGTTGG
* * * *
7349707 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATAAAGCTTC-AGCATCAAATCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
7349771 AT
66 AT
7349773 ATTCATGAAG
Statistics
Matches: 668, Mismatches: 18, Indels: 27
0.94 0.03 0.04
Matches are distributed among these distances:
81 76 0.11
84 1 0.00
85 2 0.00
86 2 0.00
87 2 0.00
88 2 0.00
89 1 0.00
91 16 0.02
92 563 0.84
93 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (92 bp):
ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
ATCCTCTTGAAGTTGTAGTAAAGTTGG
Found at i:7349475 original size:276 final size:265
Alignment explanation
Indices: 7348982--7349758 Score: 1331
Period size: 265 Copynumber: 2.9 Consensus size: 265
7348972 TTAGATCAAA
*
7348982 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGACCAAGATGAAGTTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
7349047 ATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGC
66 ATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGC
*
7349112 AAGATGAAG-TTTCAAACATTAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTC
131 AAGATGAAGCTTT-AAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTC
* *
7349176 TTTATCTCTCTGAATTTGTAGTAAGAGCAAGATGAAGTTTCAAACATTAATTCCTATCCTCTTGA
195 TTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAA----T-T-C-C-T--
7349241 AGTTGTAGTAAAGTTGG
250 -GTTGTAGTAAAGTTGG
*
7349258 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
7349323 ATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGC
66 ATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGC
7349388 AAGATGAAGCTTTAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
131 AAGATGAAGCTTTAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
7349453 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTGTTGTAGTAAA
196 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTGTTGTAGTAAA
7349518 GTTGG
261 GTTGG
7349523 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
* * *
7349588 ATCCTCTTGAAGTTGTAGTAAAATTGGATAGCAAGTCTTTATCTCTCTGAAGTTTTAGTAAGAGT
66 ATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGC
* *
7349653 AAGATGAAGCTTCAAACATCAATTCCTATCCTCTTAAAGTTGTAGTAAAGTTGGATAGCAAGTCT
131 AAGATGAAGCTTTAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
* *
7349718 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATAAAGCTTCA
196 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCA
7349759 GCATCAAATC
Statistics
Matches: 487, Mismatches: 13, Indels: 13
0.95 0.03 0.03
Matches are distributed among these distances:
265 244 0.50
268 1 0.00
269 1 0.00
270 1 0.00
271 1 0.00
272 1 0.00
276 235 0.48
277 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (265 bp):
ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCT
ATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGC
AAGATGAAGCTTTAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTGTTGTAGTAAA
GTTGG
Found at i:7349605 original size:52 final size:51
Alignment explanation
Indices: 7349538--7349700 Score: 134
Period size: 52 Copynumber: 3.4 Consensus size: 51
7349528 AAGTCTTTAT
7349538 CTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATC
1 CTCT-TGAAGTTGTAGTAAGAG-AAGATGAAGTTTCAAACATCAATTCCTATC
* * ** *
7349591 CTCTTGAAGTTGTAGT-A-A-AA-TTGGA-TAGC-AA-GTC--TT--TAT-
1 CTCTTGAAGTTGTAGTAAGAGAAGATGAAGTTTCAAACATCAATTCCTATC
* *
7349630 CTCTCTGAAGTTTTAGTAAGAGTAAGATGAAGCTTCAAACATCAATTCCTATC
1 CTCT-TGAAGTTGTAGTAAGAG-AAGATGAAGTTTCAAACATCAATTCCTATC
*
7349683 CTCTTAAAGTTGTAGTAA
1 CTCTTGAAGTTGTAGTAA
7349701 AGTTGGATAG
Statistics
Matches: 82, Mismatches: 14, Indels: 29
0.66 0.11 0.23
Matches are distributed among these distances:
39 4 0.05
40 14 0.17
41 1 0.01
42 3 0.04
44 4 0.05
45 5 0.06
46 3 0.04
47 5 0.06
48 4 0.05
50 3 0.04
51 1 0.01
52 27 0.33
53 8 0.10
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (51 bp):
CTCTTGAAGTTGTAGTAAGAGAAGATGAAGTTTCAAACATCAATTCCTATC
Found at i:7350431 original size:16 final size:16
Alignment explanation
Indices: 7350410--7350461 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
7350400 GAATTGATTC
7350410 TAAATTTATTTAAATT
1 TAAATTTATTTAAATT
* *
7350426 TAAATTTTTTTGAATT
1 TAAATTTATTTAAATT
*
7350442 TAAATTTAATTAAATT
1 TAAATTTATTTAAATT
7350458 TAAA
1 TAAA
7350462 ATGGTTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TAAATTTATTTAAATT
Found at i:7352482 original size:30 final size:27
Alignment explanation
Indices: 7352445--7352614 Score: 115
Period size: 30 Copynumber: 5.7 Consensus size: 27
7352435 GCTTAAAGGT
*
7352445 CCCTAAACTATCCAAAACTTATATTTTGA
1 CCCTAAACT-TCCAAAA-TTACATTTTGA
7352474 CCCTTAAACTTCTCCAAAATTACATTTTTGA
1 CCC-TAAAC-T-TCCAAAATTACA-TTTTGA
*
7352505 CCCTACAACTTCCAAAAATTACATTTTTGC
1 CCCTA-AACTTCC-AAAATTACA-TTTTGA
* * * *
7352535 CCCCAAACTTCCAAAAAATCCATTTTTAA
1 CCCTAAACTTCC-AAAATTACA-TTTTGA
*
7352564 CCCTGAAACTTCCAAAAATTCCATTTTTGA
1 CCCT-AAACTTCC-AAAATTACA-TTTTGA
* **
7352594 CCCCAAAAATCTCAAAATTAC
1 CCCTAAACTTC-CAAAATTAC
7352615 CATTATACCC
Statistics
Matches: 119, Mismatches: 15, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
29 41 0.34
30 58 0.49
31 20 0.17
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (27 bp):
CCCTAAACTTCCAAAATTACATTTTGA
Found at i:7352531 original size:29 final size:29
Alignment explanation
Indices: 7352445--7352596 Score: 171
Period size: 30 Copynumber: 5.1 Consensus size: 29
7352435 GCTTAAAGGT
* *
7352445 CCCTAAACTATCCAAAACTTATA-TTTTGA
1 CCCTAAACT-TCCAAAAATTACATTTTTGA
*
7352474 CCCTTAAACTTCTCCAAAATTACATTTTTGA
1 CCC-TAAACTTC-CAAAAATTACATTTTTGA
*
7352505 CCCTACAACTTCCAAAAATTACATTTTTGC
1 CCCTA-AACTTCCAAAAATTACATTTTTGA
* * * *
7352535 CCCCAAACTTCCAAAAAATCCATTTTTAA
1 CCCTAAACTTCCAAAAATTACATTTTTGA
*
7352564 CCCTGAAACTTCCAAAAATTCCATTTTTGA
1 CCCT-AAACTTCCAAAAATTACATTTTTGA
7352594 CCC
1 CCC
7352597 CAAAAATCTC
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
29 28 0.27
30 62 0.59
31 15 0.14
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTACATTTTTGA
Found at i:7354072 original size:27 final size:27
Alignment explanation
Indices: 7354034--7354088 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
7354024 GATAATTTGA
*
7354034 AGAAATATCGATATTGAGTCAAAAAGT
1 AGAAATATCGATATTAAGTCAAAAAGT
7354061 AGAAATATCGATATTAAGTCAAAAAGT
1 AGAAATATCGATATTAAGTCAAAAAGT
7354088 A
1 A
7354089 TCGATACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.25
Consensus pattern (27 bp):
AGAAATATCGATATTAAGTCAAAAAGT
Found at i:7354418 original size:7 final size:7
Alignment explanation
Indices: 7354367--7354522 Score: 195
Period size: 7 Copynumber: 23.4 Consensus size: 7
7354357 ACAATTATCA
7354367 TTTTCA-
1 TTTTCAT
7354373 TTTTCAT
1 TTTTCAT
7354380 TTTT-A-
1 TTTTCAT
7354385 TTTTCA-
1 TTTTCAT
7354391 TTTTCA-
1 TTTTCAT
7354397 TTTTCA-
1 TTTTCAT
7354403 TTTTCAT
1 TTTTCAT
*
7354410 TTTTTAT
1 TTTTCAT
*
7354417 TTTTTAT
1 TTTTCAT
*
7354424 TTTTTAT
1 TTTTCAT
7354431 TTTTCAT
1 TTTTCAT
7354438 TTTTCAT
1 TTTTCAT
7354445 TTTTCAT
1 TTTTCAT
7354452 TTTTCAT
1 TTTTCAT
7354459 TTTTCAT
1 TTTTCAT
7354466 TTTTCAT
1 TTTTCAT
7354473 TTTTCAT
1 TTTTCAT
7354480 TTTTCAT
1 TTTTCAT
7354487 TTTTCAT
1 TTTTCAT
*
7354494 TTTT-TT
1 TTTTCAT
*
7354500 GTTTTTAT
1 -TTTTCAT
7354508 TTTT-AT
1 TTTTCAT
7354514 TTTT-AT
1 TTTTCAT
7354520 TTT
1 TTT
7354523 ATTATGCACT
Statistics
Matches: 141, Mismatches: 4, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
5 4 0.03
6 38 0.27
7 98 0.70
8 1 0.01
ACGTcount: A:0.14, C:0.10, G:0.01, T:0.76
Consensus pattern (7 bp):
TTTTCAT
Found at i:7355453 original size:14 final size:13
Alignment explanation
Indices: 7355431--7355490 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
7355421 TTAGTGTTTT
7355431 AAAAAAAAAAGTTG
1 AAAAAAAAAA-TTG
*
7355445 AAAAGAAAAATTG
1 AAAAAAAAAATTG
*
7355458 AAAAAAATGAAA--A
1 AAAAAAA--AAATTG
7355471 AAAAAAGAAAATTG
1 AAAAAA-AAAATTG
7355485 AAAAAA
1 AAAAAA
7355491 GAAGAAGAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
12 3 0.08
13 15 0.41
14 16 0.43
15 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (13 bp):
AAAAAAAAAATTG
Found at i:7355509 original size:28 final size:26
Alignment explanation
Indices: 7355445--7355496 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
7355435 AAAAAAGTTG
*
7355445 AAAAGAAAAATTGAAAAAAATGAAAA
1 AAAAGAAAAATTGAAAAAAAAGAAAA
*
7355471 AAAAAAGAAAATTGAAAAAAGAAGAA
1 AAAAGA-AAAATTGAAAAAA-AAGAA
7355497 GAGAAAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 13 0.59
28 4 0.18
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (26 bp):
AAAAGAAAAATTGAAAAAAAAGAAAA
Found at i:7369640 original size:18 final size:18
Alignment explanation
Indices: 7369619--7369657 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
7369609 TTTTTATTAT
7369619 TTTA-TAATATTTTAAAAA
1 TTTATTAAT-TTTTAAAAA
7369637 TTTATTAATTTTTAAAAA
1 TTTATTAATTTTTAAAAA
7369655 TTT
1 TTT
7369658 GGAACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATTAATTTTTAAAAA
Found at i:7374269 original size:17 final size:19
Alignment explanation
Indices: 7374244--7374285 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
7374234 CTTTTAAAAA
*
7374244 AATATAAAATATA-ATAC-
1 AATAAAAAATATATATACT
7374261 AATAAAAAATATATATACT
1 AATAAAAAATATATATACT
7374280 AATAAA
1 AATAAA
7374286 TTTATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.55
18 4 0.18
19 6 0.27
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAAAAAATATATATACT
Found at i:7375118 original size:43 final size:43
Alignment explanation
Indices: 7375045--7375201 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 43
7375035 ATTGCTATAG
* * * ** *
7375045 AACATGATCTTTAACGATATTTTTTTCACAAGCGCCGCTAAAA
1 AACATAATCTTTAACGGTACTTTTCCCACAAACGCCGCTAAAA
* * *
7375088 AACATAATCATTAACGGTACTTTTCCCACAAACGTCGCTAAAG
1 AACATAATCTTTAACGGTACTTTTCCCACAAACGCCGCTAAAA
* * * *
7375131 AACATGAT-TTTTA--GTGACGTTTTTCTCACAAACGCCACTAAAA
1 AACATAATCTTTAACGGT-AC--TTTTCCCACAAACGCCGCTAAAA
**
7375174 AACATAATCTTTAACGACACTTTTCCCA
1 AACATAATCTTTAACGGTACTTTTCCCA
7375202 TCAATAACAA
Statistics
Matches: 87, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 3 0.03
43 74 0.85
44 4 0.05
45 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (43 bp):
AACATAATCTTTAACGGTACTTTTCCCACAAACGCCGCTAAAA
Found at i:7378124 original size:20 final size:20
Alignment explanation
Indices: 7378099--7378138 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7378089 AACCAGGGAG
7378099 AATAGAATCAAAATAATGCA
1 AATAGAATCAAAATAATGCA
7378119 AATAGAATCAAAATAATGCA
1 AATAGAATCAAAATAATGCA
7378139 GGTAATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (20 bp):
AATAGAATCAAAATAATGCA
Found at i:7384410 original size:14 final size:14
Alignment explanation
Indices: 7384391--7384425 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
7384381 CTTGAAACCC
*
7384391 AAGAAAAAAAAAGA
1 AAGAAAAAAAAACA
7384405 AAGAAAAAAAAACA
1 AAGAAAAAAAAACA
7384419 AAGAAAA
1 AAGAAAA
7384426 GAATGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAAACA
Found at i:7385926 original size:49 final size:48
Alignment explanation
Indices: 7385857--7386133 Score: 221
Period size: 49 Copynumber: 5.7 Consensus size: 48
7385847 CATTGATTCA
* * *
7385857 TATACCCTAGAAGATATGAAGGGAAATATTGAA-CCTACAAC-GACGAGTAT
1 TATACCCTA-AAGATGTGAAGGGAAA-ATTGAAGCC-ACAACAG-CGAATCT
*
7385907 TATACCCTAAAGATGTGAAGGGAAAAGTT-AA---ACAACAGCGAGTCT
1 TATACCCTAAAGATGTGAAGGGAAAA-TTGAAGCCACAACAGCGAATCT
* * * *
7385952 TATACCCAAAAGATGTTG-AGGGAAAAATTGAAGCCGCAACAACGAACCT
1 TATACCCTAAAGATG-TGAAGGG-AAAATTGAAGCCACAACAGCGAATCT
*
7386001 TATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCACAACAGCGAATCT
1 TATACCCTAAAGATGTGAAGGGAAA-ATTGAAGCCACAACAGCGAATCT
* * * * * * *
7386050 TATACCCTAGAGATGT-AGAGGGAAAGGTTGAAGTCGCAA-TGACGTACCT
1 TATACCCTAAAGATGTGA-AGGGAAA-ATTGAAGCCACAACAG-CGAATCT
* *
7386099 TATACCTTAGAGATGTGAAGGGAAAGATTGAAGCC
1 TATACCCTAAAGATGTGAAGGGAAA-ATTGAAGCC
7386134 GTAACGACAA
Statistics
Matches: 193, Mismatches: 21, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
45 31 0.16
46 9 0.05
48 10 0.05
49 133 0.69
50 10 0.05
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (48 bp):
TATACCCTAAAGATGTGAAGGGAAAATTGAAGCCACAACAGCGAATCT
Found at i:7386071 original size:98 final size:98
Alignment explanation
Indices: 7385906--7386133 Score: 304
Period size: 98 Copynumber: 2.4 Consensus size: 98
7385896 ACGACGAGTA
* *
7385906 TTATACCCTAAAGATGTGAAGGGAAA-AGTT-AA---ACAACAGCGAGTCTTATACCCAAAAGAT
1 TTATACCCTAGAGATGTGAAGGGAAAGA-TTGAAGCCACAACAGCGAATCTTATACCCAAAAGAT
*
7385966 GTTGAGGGAAAAATTGAAGCCGCAACAACGAACC
65 GTAGAGGGAAAAATTGAAGCCGCAACAACGAACC
* *
7386000 TTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCACAACAGCGAATCTTATACCCTAGAGATG
1 TTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCACAACAGCGAATCTTATACCCAAAAGATG
** * ** *
7386065 TAGAGGGAAAGGTTGAAGTCGCAATGACGTACC
66 TAGAGGGAAAAATTGAAGCCGCAACAACGAACC
*
7386098 TTATACCTTAGAGATGTGAAGGGAAAGATTGAAGCC
1 TTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCC
7386134 GTAACGACAA
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
94 27 0.23
95 3 0.03
98 87 0.74
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.20
Consensus pattern (98 bp):
TTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCACAACAGCGAATCTTATACCCAAAAGATG
TAGAGGGAAAAATTGAAGCCGCAACAACGAACC
Found at i:7386570 original size:188 final size:186
Alignment explanation
Indices: 7386246--7386803 Score: 683
Period size: 188 Copynumber: 3.0 Consensus size: 186
7386236 CAACAAAGTG
* * * * *
7386246 GATCTCAACGTCTCTGAGGTTACAGTGGAGTGGAGTGAAGCGCCAAATCTTATACCTCTGAGTTA
1 GATCTCAACGTCCCTGAGGTTACAATGAAGTGGAGTGAAGCACCAAATCTTATACCTCTGAGTTG
* * * * * *
7386311 TAGTGGGTTGGATAAAAATAATAAAGTC-GAGCTCAACGTATCTGAGGTTATAGTGTAGTGGAGT
66 TAGT-GGTTAGATGAAAATAATGAAG-CAGAGCTCAACGTCTCTGAGGTTACAGTGGAGTGGAGT
* * * *
7386375 GAGACTTCAAATCCCATCTTCCTAGCGAGGTACAAAGATGTGGGTCAAAACAGGTAGCA
129 GAGACTTCAAATCCCATCTT-CTGGTGAGGTACAAAGAAGTGGGTCAAAACAAGTAGCA
* *
7386434 GATCTCAACGTCCCTGAGGTTACAATTAAGTGGAGTGAAGCACCAAATCTTATACCCCTGAGTTG
1 GATCTCAACGTCCCTGAGGTTACAATGAAGTGGAGTGAAGCACCAAATCTTATACCTCTGAGTTG
* * * * *
7386499 CAGTGAGTCT-GATGAAAGTAATGAAGCAGAGCTCAATGTCTCTAAGGTTACAGTGGAGTTGAGT
66 TAGTG-GT-TAGATGAAAATAATGAAGCAGAGCTCAACGTCTCTGAGGTTACAGTGGAGTGGAGT
* * * *
7386563 AAGACTTCAATTCCCATCTGTCTGGTGAGGTACAAAGAAGTCGGTCAAAACAAGTAGTA
129 GAGACTTCAAATCCCATCT-TCTGGTGAGGTACAAAGAAGTGGGTCAAAACAAGTAGCA
* * * * * *
7386622 GATCTCAACGTCCCTAAGGTTAC-AGGAGAGTGGAGTGAAACACCAAATCCTATATCTTTGAGTT
1 GATCTCAACGTCCCTGAGGTTACAATGA-AGTGGAGTGAAGCACCAAATCTTATACCTCTGAGTT
* *
7386686 GTAGTGGATTAGATGAAAATAATGAAACAGAGCTCAACGTC-CTTGAGGTTACAATGGAGTGGAG
65 GTAGTGG-TTAGATGAAAATAATGAAGCAGAGCTCAACGTCTC-TGAGGTTACAGTGGAGTGGAG
*
7386750 TGAGACTTCAAATCCCATCTTTTTGGTGAGGTACAAAGAAGTGGGTCAAAACAA
128 TGAGACTTCAAATCCCATC-TTCTGGTGAGGTACAAAGAAGTGGGTCAAAACAA
7386804 TGTGTTGAAT
Statistics
Matches: 317, Mismatches: 44, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
187 7 0.02
188 307 0.97
189 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (186 bp):
GATCTCAACGTCCCTGAGGTTACAATGAAGTGGAGTGAAGCACCAAATCTTATACCTCTGAGTTG
TAGTGGTTAGATGAAAATAATGAAGCAGAGCTCAACGTCTCTGAGGTTACAGTGGAGTGGAGTGA
GACTTCAAATCCCATCTTCTGGTGAGGTACAAAGAAGTGGGTCAAAACAAGTAGCA
Found at i:7389594 original size:19 final size:21
Alignment explanation
Indices: 7389570--7389610 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7389560 ATCATTAATA
7389570 ATTCAAT-TT-TAATATAAAT
1 ATTCAATATTATAATATAAAT
*
7389589 ATTCAATATTATTATATAAAT
1 ATTCAATATTATAATATAAAT
7389610 A
1 A
7389611 GTACAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 2 0.11
21 10 0.53
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTCAATATTATAATATAAAT
Found at i:7389941 original size:19 final size:18
Alignment explanation
Indices: 7389917--7389955 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7389907 AAAAGAGAGT
*
7389917 AAAAATTATGGGGAAAATA
1 AAAAATT-TGGAGAAAATA
*
7389936 AAAAATTTTGAGAAAATA
1 AAAAATTTGGAGAAAATA
7389954 AA
1 AA
7389956 TAGGGGGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (18 bp):
AAAAATTTGGAGAAAATA
Found at i:7390031 original size:15 final size:16
Alignment explanation
Indices: 7390013--7390043 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7390003 AAAATAGGTT
7390013 TGGGGT-AGATGGGAG
1 TGGGGTGAGATGGGAG
7390028 TGGGGTGAGATGGGAG
1 TGGGGTGAGATGGGAG
7390044 GTGATAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.00, G:0.61, T:0.19
Consensus pattern (16 bp):
TGGGGTGAGATGGGAG
Found at i:7390300 original size:16 final size:16
Alignment explanation
Indices: 7390279--7390313 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
7390269 GAGTTTTGCT
7390279 CATCCCTATGTATGAA
1 CATCCCTATGTATGAA
7390295 CATCCCTATGTATGAA
1 CATCCCTATGTATGAA
7390311 CAT
1 CAT
7390314 TAAAGCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (16 bp):
CATCCCTATGTATGAA
Found at i:7395658 original size:14 final size:14
Alignment explanation
Indices: 7395639--7395667 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7395629 GGAGTCAGTT
7395639 TTCCAGTAAAGGAG
1 TTCCAGTAAAGGAG
7395653 TTCCAGTAAAGGAG
1 TTCCAGTAAAGGAG
7395667 T
1 T
7395668 CAACCAAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (14 bp):
TTCCAGTAAAGGAG
Found at i:7397234 original size:22 final size:22
Alignment explanation
Indices: 7397209--7397250 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
7397199 AAACAAAAAA
7397209 TTGAATTAAGAAAAGGTAAAGG
1 TTGAATTAAGAAAAGGTAAAGG
*
7397231 TTGAATTAAGAATAGGTAAA
1 TTGAATTAAGAAAAGGTAAA
7397251 CTTGACTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (22 bp):
TTGAATTAAGAAAAGGTAAAGG
Found at i:7399565 original size:18 final size:19
Alignment explanation
Indices: 7399542--7399578 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7399532 AAAATATATA
*
7399542 CAAAGAA-TCAATACGAAG
1 CAAAGAATTCAAAACGAAG
7399560 CAAAGAATTCAAAACGAAG
1 CAAAGAATTCAAAACGAAG
7399579 AAATCTCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.11
Consensus pattern (19 bp):
CAAAGAATTCAAAACGAAG
Found at i:7403470 original size:36 final size:36
Alignment explanation
Indices: 7403430--7403501 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
7403420 CAGATGTATT
** * *
7403430 TCATAAACAGAATCAGGGTTATAATCAGAACATATC
1 TCATAAACAGAATCAGAATTAGAATCAAAACATATC
*
7403466 TCATAAACAGAATTAGAATTAGAATCAAAACATATC
1 TCATAAACAGAATCAGAATTAGAATCAAAACATATC
7403502 AGATGCAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (36 bp):
TCATAAACAGAATCAGAATTAGAATCAAAACATATC
Found at i:7403598 original size:37 final size:37
Alignment explanation
Indices: 7403557--7403670 Score: 94
Period size: 37 Copynumber: 3.2 Consensus size: 37
7403547 TAACCATCCC
7403557 TACACATCAAATAGGGTATTAAATACTCATCCAACCT
1 TACACATCAAATAGGGTATTAAATACTCATCCAACCT
*** * * * * *
7403594 TACACA-CCGCTA-TGTGACT--AT-CTCTAACCATCCC
1 TACACATCAAATAGGGT-ATTAAATACTC-ATCCAACCT
*
7403628 TACACATCAAATAGGTTATTAAATACTCATCCAACCT
1 TACACATCAAATAGGGTATTAAATACTCATCCAACCT
7403665 TACACA
1 TACACA
7403671 CCGCTATATG
Statistics
Matches: 53, Mismatches: 17, Indels: 14
0.63 0.20 0.17
Matches are distributed among these distances:
33 3 0.06
34 14 0.26
35 7 0.13
36 6 0.11
37 20 0.38
38 3 0.06
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (37 bp):
TACACATCAAATAGGGTATTAAATACTCATCCAACCT
Found at i:7403625 original size:71 final size:71
Alignment explanation
Indices: 7403542--7403685 Score: 270
Period size: 71 Copynumber: 2.0 Consensus size: 71
7403532 GTTACAAACC
7403542 ATCTCTAACCATCCCTACACATCAAATAGGGTATTAAATACTCATCCAACCTTACACACCGCTAT
1 ATCTCTAACCATCCCTACACATCAAATAGGGTATTAAATACTCATCCAACCTTACACACCGCTAT
*
7403607 GTGACT
66 ATGACT
*
7403613 ATCTCTAACCATCCCTACACATCAAATAGGTTATTAAATACTCATCCAACCTTACACACCGCTAT
1 ATCTCTAACCATCCCTACACATCAAATAGGGTATTAAATACTCATCCAACCTTACACACCGCTAT
7403678 ATGACT
66 ATGACT
7403684 AT
1 AT
7403686 ATGTCACTTC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.35, C:0.31, G:0.07, T:0.28
Consensus pattern (71 bp):
ATCTCTAACCATCCCTACACATCAAATAGGGTATTAAATACTCATCCAACCTTACACACCGCTAT
ATGACT
Found at i:7405366 original size:30 final size:30
Alignment explanation
Indices: 7405332--7405409 Score: 113
Period size: 30 Copynumber: 2.6 Consensus size: 30
7405322 AAAATTATTA
7405332 TTTTAGGACA-TTTTAAAATTTTTAACATTG
1 TTTTA-GACATTTTTAAAATTTTTAACATTG
*
7405362 TTTTAGACATTTTTATAATTTTTAACATTG
1 TTTTAGACATTTTTAAAATTTTTAACATTG
* *
7405392 TTTTATAAATTTTTAAAA
1 TTTTAGACATTTTTAAAA
7405410 AATATAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 4 0.09
30 39 0.91
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (30 bp):
TTTTAGACATTTTTAAAATTTTTAACATTG
Found at i:7409934 original size:16 final size:18
Alignment explanation
Indices: 7409913--7409945 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7409903 CCATTGTATA
7409913 TATTTT-TT-AAATACGG
1 TATTTTATTGAAATACGG
7409929 TATTTTATTGAAATACG
1 TATTTTATTGAAATACG
7409946 AAAATACGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (18 bp):
TATTTTATTGAAATACGG
Found at i:7410149 original size:100 final size:99
Alignment explanation
Indices: 7409962--7410150 Score: 276
Period size: 100 Copynumber: 1.9 Consensus size: 99
7409952 CGAGAATTTG
*
7409962 AAAAAAAATTCATAATTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCTTTTTCTCGAAAAAA
1 AAAAAAAATTCATAATTTTTTGGTGTTGGCCATCAAATGACCGACACCCCTTTTTCTCGAAAAAA
*
7410027 ATTACATTTTTAGGTGTCGGCCATGCCTGTTTCA
66 ATTACATTTTTAGGTATCGGCCATGCCTGTTTCA
*
7410061 AAAAAAAATTTCA-AATTTTTTTGGTGTTGGCCATCAAATGACCGACATCCCC-TTTTCTCGGAA
1 AAAAAAAA-TTCATAA-TTTTTTGGTGTTGGCCATCAAATGACCGACA-CCCCTTTTTCTCGAAA
* *
7410124 AAAATTGCATTTTT-GAGTATTGGCCAT
63 AAAATTACATTTTTAG-GTATCGGCCAT
7410151 TGCATGGGCG
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
99 11 0.14
100 66 0.81
101 4 0.05
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (99 bp):
AAAAAAAATTCATAATTTTTTGGTGTTGGCCATCAAATGACCGACACCCCTTTTTCTCGAAAAAA
ATTACATTTTTAGGTATCGGCCATGCCTGTTTCA
Found at i:7410717 original size:62 final size:61
Alignment explanation
Indices: 7410523--7410756 Score: 317
Period size: 61 Copynumber: 3.8 Consensus size: 61
7410513 AGAAGAAGTT
* * * *
7410523 GGTGTCGACCATTTGATGGCCAACACAAAAAAAATTTGGAATTTTTTTATTTGAGAAAA-GG
1 GGTGTCGGCCATTTGATGGCCAACACAAAAAAAATTTGAAATTTTTTT-CTCGAGAAAAGGG
* * * *
7410584 GGTGTCGGCCATTTGATGGCTAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAATAGGA
1 GGTGTCGGCCATTTGATGGCCAACACAAAAAAAATTTGAAATTTTTTTCTCGAGAAAAGGG
* * * *
7410645 GGTGTCGGCCATTTGATGGTCAACACGAAAAAATTTTGAAATATTTTTCTCGAGAAAAGGG
1 GGTGTCGGCCATTTGATGGCCAACACAAAAAAAATTTGAAATTTTTTTCTCGAGAAAAGGG
* *
7410706 GCGTGTCGGCCATTTGATGGCCATCACTAAAAAAATTTGAAATTTTTTTCT
1 G-GTGTCGGCCATTTGATGGCCAACACAAAAAAAATTTGAAATTTTTTTCT
7410757 AAAACAGGAG
Statistics
Matches: 151, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
60 7 0.05
61 100 0.66
62 44 0.29
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (61 bp):
GGTGTCGGCCATTTGATGGCCAACACAAAAAAAATTTGAAATTTTTTTCTCGAGAAAAGGG
Found at i:7410726 original size:123 final size:120
Alignment explanation
Indices: 7410523--7410791 Score: 344
Period size: 122 Copynumber: 2.2 Consensus size: 120
7410513 AGAAGAAGTT
* * * * *
7410523 GGTGTCGACCATTTGATGGCCAACACAAAAAAAATTTGGAATTTTTTTATTTGAGAAAAGGGGTG
1 GGTGTCGGCCATTTGATGGCCAACACAAAAAAAATTTGAAATATTTTTACTCGAGAAAAGGGGTG
* * *
7410588 TCGGCCATTTGATGGCTAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAATAGGA
66 TCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTCT--AAAACAGGA
* * *
7410645 GGTGTCGGCCATTTGATGGTCAACACGAAAAAATTTTGAAATATTTTT-CTCGAGAAAAGGGGCG
1 GGTGTCGGCCATTTGATGGCCAACACAAAAAAAATTTGAAATATTTTTACTCGAGAAAA-GGG-G
* *
7410709 TGTCGGCCATTTGATGGCCATCACTAAAAAAATTTGAAATTTTTTTCTAAAACAGGA
64 TGTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTCTAAAACAGGA
* *
7410766 GTTGTCGGCCATGCT-ATGGCCAACAC
1 GGTGTCGGCCAT-TTGATGGCCAACAC
7410792 CCAAAAATGC
Statistics
Matches: 128, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
121 36 0.28
122 46 0.36
123 46 0.36
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (120 bp):
GGTGTCGGCCATTTGATGGCCAACACAAAAAAAATTTGAAATATTTTTACTCGAGAAAAGGGGTG
TCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTCTAAAACAGGA
Found at i:7410824 original size:121 final size:119
Alignment explanation
Indices: 7410523--7410821 Score: 311
Period size: 121 Copynumber: 2.5 Consensus size: 119
7410513 AGAAGAAGTT
* * * * * * *
7410523 GGTGTCGACCATTTGATGGCCAACACAAAAAAAATTTGGAATTTTTTTATTTGAGAAAA-GGGGT
1 GGTGTCGGCCATCTGATGGCCAACAC-CAAAAAA-TTGAAATATTTTT-CTCGAGAAAAGGGGGT
* * *
7410587 GTCGGCCATTTGATGGCTAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAATAGGA
63 GTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTCTC-AAAACAGGA
* * *
7410645 GGTGTCGGCCATTTGATGGTCAACACGAAAAAATTTTGAAATATTTTTCTCGAGAAAAGGGGCGT
1 GGTGTCGGCCATCTGATGGCCAACACCAAAAAA--TTGAAATATTTTTCTCGAGAAAAGGGG-GT
* *
7410710 GTCGGCCATTTGATGGCCATCACTAAAAAAATTTGAAATTTTTTTCT-AAAACAGGA
63 GTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTCTCAAAACAGGA
* * *
7410766 GTTGTCGGCCATGCT-ATGGCCAACACCCAAAAA-TGCAAAT-TTTTTTTCCGAGAAAA
1 GGTGTCGGCCAT-CTGATGGCCAACACCAAAAAATTG-AAATATTTTTCT-CGAGAAAA
7410822 AAGCCGACAC
Statistics
Matches: 153, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
118 8 0.05
119 12 0.08
121 47 0.31
122 40 0.26
123 46 0.30
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (119 bp):
GGTGTCGGCCATCTGATGGCCAACACCAAAAAATTGAAATATTTTTCTCGAGAAAAGGGGGTGTC
GGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTCTCAAAACAGGA
Found at i:7410983 original size:58 final size:57
Alignment explanation
Indices: 7410828--7410989 Score: 177
Period size: 55 Copynumber: 2.8 Consensus size: 57
7410818 AAAAAAGCCG
* *
7410828 ACACCAAAAAAATTTGAATTTTTTTTCTGAAACAGGGGGTGTCGGCCATGCAATGGTCA
1 ACACC-AAAAAATTTGAAATTTTTTT-TGAAACAGGGGGTGTCGGCCATGCAATGGCCA
* * * ***
7410887 ACACCCAAAAA--TGCAATTTTTTTTAGAAA-AGGGGGTGTCGGCTATTTGATGGCCA
1 ACACCAAAAAATTTGAAATTTTTTTT-GAAACAGGGGGTGTCGGCCATGCAATGGCCA
* *
7410942 AGACCAAAAAATTTTGAAAATTTTTTTGAAACAGGGGGTGTCGGCCAT
1 ACACCAAAAAA-TTTGAAATTTTTTTTGAAACAGGGGGTGTCGGCCAT
7410990 TCCAATTTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
55 31 0.36
56 14 0.16
57 4 0.05
58 31 0.36
59 5 0.06
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (57 bp):
ACACCAAAAAATTTGAAATTTTTTTTGAAACAGGGGGTGTCGGCCATGCAATGGCCA
Found at i:7414279 original size:29 final size:28
Alignment explanation
Indices: 7414218--7414670 Score: 274
Period size: 29 Copynumber: 15.6 Consensus size: 28
7414208 AAAAAGATAA
* * *
7414218 TTTTGGACACTTCGGGGT-AAAATAGTAAA
1 TTTTGGA-AGTTCGGGGTAAAAAT-GGAAT
*
7414247 TTTTGGAGGTTCGGGGTCAAAAATGGAAT
1 TTTTGGAAGTTCGGGGT-AAAAATGGAAT
7414276 TTTTGGATA-TTCGGGGGT-AAAATGGTAATT
1 TTTTGGA-AGTTC-GGGGTAAAAATGG-AA-T
* * *
7414306 TTTTGAAAGTTCGGGATTAAAAAT-GAAA
1 TTTTGGAAGTTCGGG-GTAAAAATGGAAT
*
7414334 TTTTGGAAGTTTGAGGGTAAAAATGTG-AT
1 TTTTGGAAGTTCG-GGGTAAAAATG-GAAT
* * * *
7414363 TTTTGGAAAGATCAGGATCAAAAATAGAAT
1 TTTTGG-AAGTTCGGGGT-AAAAATGGAAT
* *
7414393 TTTTGGAAGTTCATGGGTAAAAATGCAAT
1 TTTTGGAAGTTC-GGGGTAAAAATGGAAT
* *
7414422 TTTTGAGAAGTTCGAGGTTAAAAATAGAAT
1 TTTTG-GAAGTTCG-GGGTAAAAATGGAAT
**
7414452 TTTTGGAAGTTTAAGGGT-AAAATGGTAA-
1 TTTTGGAAG-TTCGGGGTAAAAATGG-AAT
* * *
7414480 TTTTGGAGAATTCGAGGTCAAAATGGAATT
1 TTTTGGA-AGTTCGGGGTAAAAATGGAA-T
* * ** *
7414510 TTTTGAAATTTAAGGGTAAAAATGTAAT
1 TTTTGGAAGTTCGGGGTAAAAATGGAAT
* *
7414538 TTTTGGAAGATTTAGGGTTAAAAATGGAAT
1 TTTTGGAAG--TTCGGGGTAAAAATGGAAT
* * *
7414568 TTTTGAAAATTTAGGGGT-AAAATGGTAAT
1 TTTTG-GAAGTTCGGGGTAAAAATGG-AAT
* * * *
7414597 TTTTGGAAATTTGAGGGCAAAAATGTAAT
1 TTTTGGAAGTTCG-GGGTAAAAATGGAAT
* * *
7414626 TTTTGGAAGTTCGAGGTCAAAATGTAAT
1 TTTTGGAAGTTCGGGGTAAAAATGGAAT
*
7414654 TTTTGGAAAGTTTGGGG
1 TTTTGG-AAGTTCGGGG
7414671 GCCAAAATAT
Statistics
Matches: 332, Mismatches: 61, Indels: 62
0.73 0.13 0.14
Matches are distributed among these distances:
28 91 0.27
29 131 0.39
30 103 0.31
31 7 0.02
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (28 bp):
TTTTGGAAGTTCGGGGTAAAAATGGAAT
Found at i:7414293 original size:58 final size:58
Alignment explanation
Indices: 7414232--7414670 Score: 340
Period size: 59 Copynumber: 7.5 Consensus size: 58
7414222 GGACACTTCG
* * ***
7414232 GGGTAAAATAGTAAATTTTGGAGGTTCGGGGTCAAAAATGGAATTTTTGGATA-TTCGG
1 GGGTAAAATAGTAATTTTTGGAAGTTCGGGGTCAAAAATGGAATTTTTGGA-AGTTTAA
* * * * * *
7414290 GGGTAAAATGGTAATTTTTTGAAAGTTCGGGATTAAAAAT-GAAATTTTGGAAGTTTGA
1 GGGTAAAATAGTAA-TTTTTGGAAGTTCGGGGTCAAAAATGGAATTTTTGGAAGTTTAA
* * * * * * *
7414348 GGGTAAAA-ATGTGATTTTTGGAAAGATCAGGATCAAAAATAGAATTTTTGGAAGTTCAT
1 GGGTAAAATA-GTAATTTTTGG-AAGTTCGGGGTCAAAAATGGAATTTTTGGAAGTTTAA
* * * *
7414407 GGGTAAAA-ATGCAATTTTTGAGAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTTTAA
1 GGGTAAAATA-GTAATTTTTG-GAAGTTCGGGGTCAAAAATGGAATTTTTGGAAGTTTAA
* * * * *
7414466 GGGTAAAATGGTAA-TTTTGGAGAATTCGAGGTC-AAAATGGAATTTTTTGAAATTTAA
1 GGGTAAAATAGTAATTTTTGGA-AGTTCGGGGTCAAAAATGGAATTTTTGGAAGTTTAA
** * * * *
7414523 GGGTAAAA-ATGTAATTTTTGGAAGATTTAGGGTTAAAAATGGAATTTTTGAAAATTTAG
1 GGGTAAAATA-GTAATTTTTGGAAG-TTCGGGGTCAAAAATGGAATTTTTGGAAGTTTAA
* * * * **
7414582 GGGTAAAATGGTAATTTTTGGAAATTTGAGGG-CAAAAATGTAATTTTTGGAAGTTCGA
1 GGGTAAAATAGTAATTTTTGGAAGTTCG-GGGTCAAAAATGGAATTTTTGGAAGTTTAA
*
7414640 -GGTCAAAAT-GTAATTTTTGGAAAGTTTGGGG
1 GGGT-AAAATAGTAATTTTTGG-AAGTTCGGGG
7414671 GCCAAAATAT
Statistics
Matches: 310, Mismatches: 55, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
57 60 0.19
58 111 0.36
59 138 0.45
60 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (58 bp):
GGGTAAAATAGTAATTTTTGGAAGTTCGGGGTCAAAAATGGAATTTTTGGAAGTTTAA
Found at i:7414330 original size:59 final size:58
Alignment explanation
Indices: 7414218--7414665 Score: 341
Period size: 58 Copynumber: 7.7 Consensus size: 58
7414208 AAAAAGATAA
* * * *
7414218 TTTTGGACACTTC-GGGGT-AAAATAGTAAATTTTGG-AGGTTCGGGGTCAAAAATGGAAT
1 TTTTGGA-AGTTCAGGGGTAAAAAT-GTAATTTTTGGAAAGTTC-GGGTTAAAAATGGAAT
* * *
7414276 TTTTGGATA-TTCGGGGGT-AAAATGGTAATTTTTTGAAAGTTCGGGATTAAAAAT-GAAA
1 TTTTGGA-AGTTCAGGGGTAAAAAT-GTAATTTTTGGAAAGTTCGGG-TTAAAAATGGAAT
* * * * * *
7414334 TTTTGGAAGTT-TGAGGGTAAAAATGTGATTTTTGGAAAGATCAGGATCAAAAATAGAAT
1 TTTTGGAAGTTCAG-GGGTAAAAATGTAATTTTTGGAAAGTTC-GGGTTAAAAATGGAAT
* * *
7414393 TTTTGGAAGTTCATGGGTAAAAATGCAATTTTT-GAGAAGTTCGAGGTTAAAAATAGAAT
1 TTTTGGAAGTTCAGGGGTAAAAATGTAATTTTTGGA-AAGTTCG-GGTTAAAAATGGAAT
* * *
7414452 TTTTGGAAGTTTAAGGGT-AAAATGGTAA-TTTTGGAGAA-TTCGAGG-TCAAAATGGAAT
1 TTTTGGAAGTTCAGGGGTAAAAAT-GTAATTTTTGGA-AAGTTCG-GGTTAAAAATGGAAT
* * * * * *
7414509 TTTTTGAAATTTAAGGGTAAAAATGTAATTTTTGGAAGATTTAGGGTTAAAAATGGAAT
1 TTTTGGAAGTTCAGGGGTAAAAATGTAATTTTTGGAA-AGTTCGGGTTAAAAATGGAAT
* * * * ** *
7414568 TTTTGAAAATTTAGGGGT-AAAATGGTAATTTTTGGAAA-TTTGAGGGCAAAAATGTAAT
1 TTTTGGAAGTTCAGGGGTAAAAAT-GTAATTTTTGGAAAGTTCG-GGTTAAAAATGGAAT
* *
7414626 TTTTGGAAGTTC-GAGGTCAAAATGTAATTTTTGGAAAGTT
1 TTTTGGAAGTTCAGGGGTAAAAATGTAATTTTTGGAAAGTT
7414666 TGGGGGCCAA
Statistics
Matches: 327, Mismatches: 41, Indels: 44
0.79 0.10 0.11
Matches are distributed among these distances:
57 57 0.17
58 136 0.42
59 134 0.41
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (58 bp):
TTTTGGAAGTTCAGGGGTAAAAATGTAATTTTTGGAAAGTTCGGGTTAAAAATGGAAT
Found at i:7416234 original size:6 final size:6
Alignment explanation
Indices: 7416223--7416313 Score: 73
Period size: 6 Copynumber: 15.8 Consensus size: 6
7416213 AATGGGACTT
* * * ** *
7416223 TTTAAA TTTAAA -ATAAT TTTAAT TTTAAA AATAAA TTTAAA CTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** *
7416269 TTTAAA TTTAAA TTTAAA -ACAAA TTTAAA TTTAAA -ATAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
7416314 TCTTATAATA
Statistics
Matches: 65, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
5 14 0.22
6 51 0.78
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:7416244 original size:17 final size:17
Alignment explanation
Indices: 7416223--7416331 Score: 130
Period size: 17 Copynumber: 6.4 Consensus size: 17
7416213 AATGGGACTT
*
7416223 TTTAAATTTAAAATAAT
1 TTTAAATTTAAAATAAA
*
7416240 TTTAATTTTAAAAATAAA
1 TTTAAATTT-AAAATAAA
* **
7416258 TTTAAACTTAATTTAAA
1 TTTAAATTTAAAATAAA
*
7416275 TTTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
7416292 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
7416309 TTT-AATCTTATAATAAA
1 TTTAAAT-TTAAAATAAA
7416326 TTTAAA
1 TTTAAA
7416332 AAGGAGTTCA
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
16 3 0.04
17 58 0.75
18 16 0.21
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:7416272 original size:11 final size:12
Alignment explanation
Indices: 7416254--7416303 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
7416244 ATTTTAAAAA
7416254 TAAATTTAAACT
1 TAAATTTAAACT
*
7416266 T-AATTTAAATT
1 TAAATTTAAACT
7416277 TAAATTTAAAAC-
1 TAAATTT-AAACT
*
7416289 -AAATTTAAATT
1 TAAATTTAAACT
7416300 TAAA
1 TAAA
7416304 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 3 0.10
11 16 0.52
12 9 0.29
13 3 0.10
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAATTTAAACT
Found at i:7416272 original size:23 final size:24
Alignment explanation
Indices: 7416241--7416286 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
7416231 TAAAATAATT
7416241 TTAATTTTAAAAATAAATTTAAAC
1 TTAATTTTAAAAATAAATTTAAAC
**
7416265 TTAA-TTTAAATTTAAATTTAAA
1 TTAATTTTAAAAATAAATTTAAA
7416287 ACAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAATTTTAAAAATAAATTTAAAC
Found at i:7416272 original size:29 final size:29
Alignment explanation
Indices: 7416225--7416280 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
7416215 TGGGACTTTT
*
7416225 TAAATTTAAAATAATTTTAATTTTAAAAA
1 TAAATTTAAAATAATTTTAAATTTAAAAA
*
7416254 TAAATTTAAACTTAA-TTTAAATTTAAA
1 TAAATTTAAA-ATAATTTTAAATTTAAA
7416281 TTTAAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TAAATTTAAAATAATTTTAAATTTAAAAA
Found at i:7416286 original size:29 final size:29
Alignment explanation
Indices: 7416223--7416286 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
7416213 AATGGGACTT
*
7416223 TTTAAATTTAAAATAATTTTAATTTTAAA
1 TTTAAATTTAAAATAATTTTAAATTTAAA
** *
7416252 AATAAATTTAAACTTAA-TTTAAATTTAAA
1 TTTAAATTTAAA-ATAATTTTAAATTTAAA
7416281 TTTAAA
1 TTTAAA
7416287 ACAAATTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
TTTAAATTTAAAATAATTTTAAATTTAAA
Found at i:7416293 original size:23 final size:23
Alignment explanation
Indices: 7416254--7416303 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
7416244 ATTTTAAAAA
*
7416254 TAAATTTAAACTTAATTTAAATT
1 TAAATTTAAACTAAATTTAAATT
7416277 TAAATTTAAAAC-AAATTTAAATT
1 TAAATTT-AAACTAAATTTAAATT
7416300 TAAA
1 TAAA
7416304 ATAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAATTTAAACTAAATTTAAATT
Found at i:7416797 original size:91 final size:91
Alignment explanation
Indices: 7416635--7416814 Score: 272
Period size: 91 Copynumber: 2.0 Consensus size: 91
7416625 GATCTCATGC
* * *
7416635 GATGATCTGATAGTTGAGGGTGTTTATCATTTTAGGTGTGACTTGAGTTCGAGTCTCACTAGTCG
1 GATGATCTGATAGTTAAGGGTGTTTATCACTTTAGGTGTGACTTAAGTTCGAGTCTCACTAGTCG
*
7416700 CATTTGTTGTTTAAACTTTGTCTTGT
66 CATTTGTTGTTCAAACTTTGTCTTGT
* *
7416726 GATGGTCTGATAGTTAAGGGTGTTTATCACTTTAGGTGTGACTTAAGTTCGAGTCGT-GCTAGTC
1 GATGATCTGATAGTTAAGGGTGTTTATCACTTTAGGTGTGACTTAAGTTCGAGTC-TCACTAGTC
* *
7416790 GCGTTTGTTGTTCAAGCTTTGTCTT
65 GCATTTGTTGTTCAAACTTTGTCTT
7416815 TTTATTGTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 79 0.99
92 1 0.01
ACGTcount: A:0.18, C:0.13, G:0.27, T:0.43
Consensus pattern (91 bp):
GATGATCTGATAGTTAAGGGTGTTTATCACTTTAGGTGTGACTTAAGTTCGAGTCTCACTAGTCG
CATTTGTTGTTCAAACTTTGTCTTGT
Found at i:7418777 original size:29 final size:29
Alignment explanation
Indices: 7418720--7418986 Score: 231
Period size: 30 Copynumber: 9.0 Consensus size: 29
7418710 GGAAAAAAAA
* * *
7418720 GGGGTTAAAAAATGAAGTTTCGGAGAA-TTT
1 GGGGTTAAAATAT-AA-TTTTGGAAAAGTTT
* *
7418750 GGAGTTAAAATATAATTTTGGAAAAATTT
1 GGGGTTAAAATATAATTTTGGAAAAGTTT
*
7418779 AGGGGTTAAAATATAATTTTAGAAAAGTTT
1 -GGGGTTAAAATATAATTTTGGAAAAGTTT
* *
7418809 GGGGTCAAAATATGATTTTGGAAAAGTTT
1 GGGGTTAAAATATAATTTTGGAAAAGTTT
*
7418838 AGGGGTTAAAATGTAATTTT-GAAAAGGTTT
1 -GGGGTTAAAATATAATTTTGGAAAA-GTTT
* * *
7418868 AGGGTCAAAATAAAATTTT-GAAGAAGTTT
1 GGGGTTAAAATATAATTTTGGAA-AAGTTT
*
7418897 GAGGGTTAAAATGA-AATTTTAGAAAAAGTTT
1 G-GGGTTAAAAT-ATAATTTT-GGAAAAGTTT
* *
7418928 GAGGGTTAAAATGA-AATTTTGCAAAAGTTC
1 G-GGGTTAAAAT-ATAATTTTGGAAAAGTTT
* *
7418958 GAGGGTTAAAATGTAAATTT-GAAAAGTTT
1 G-GGGTTAAAATATAATTTTGGAAAAGTTT
7418987 AGGGATCCCT
Statistics
Matches: 201, Mismatches: 26, Indels: 21
0.81 0.10 0.08
Matches are distributed among these distances:
28 8 0.04
29 65 0.32
30 99 0.49
31 27 0.13
32 2 0.01
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.34
Consensus pattern (29 bp):
GGGGTTAAAATATAATTTTGGAAAAGTTT
Found at i:7418810 original size:59 final size:58
Alignment explanation
Indices: 7418747--7418986 Score: 229
Period size: 59 Copynumber: 4.1 Consensus size: 58
7418737 TTTCGGAGAA
* *
7418747 TTTGGAGTTAAAATATAATTTTGGAAAAATTTAG-GGGTTAAAATATAATTTTAGAAAAG
1 TTTGGGGTCAAAATATAATTTT-GAAAAATTTAGAGGGTTAAAATATAATTTT-GAAAAG
* * *
7418806 TTTGGGGTCAAAATATGATTTTGGAAAAGTTTAG-GGGTTAAAATGTAATTTTGAAAAGG
1 TTTGGGGTCAAAATATAATTTT-GAAAAATTTAGAGGGTTAAAATATAATTTTGAAAA-G
* * *
7418865 TTTAGGGTCAAAATAAAATTTTGAAGAAGTTT-GAGGGTTAAAATGA-AATTTTAGAAAAAG
1 TTTGGGGTCAAAATATAATTTTGAA-AAATTTAGAGGGTTAAAAT-ATAATTTT-G-AAAAG
* * * * * *
7418925 TTTGAGGGTTAAAATGA-AATTTTGCAAAAGTTCGAGGGTTAAAATGTAAATTTGAAAAG
1 TTTG-GGGTCAAAAT-ATAATTTTGAAAAATTTAGAGGGTTAAAATATAATTTTGAAAAG
7418984 TTT
1 TTT
7418987 AGGGATCCCT
Statistics
Matches: 155, Mismatches: 16, Indels: 20
0.81 0.08 0.10
Matches are distributed among these distances:
58 9 0.06
59 97 0.63
60 10 0.06
61 38 0.25
62 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.23, T:0.35
Consensus pattern (58 bp):
TTTGGGGTCAAAATATAATTTTGAAAAATTTAGAGGGTTAAAATATAATTTTGAAAAG
Found at i:7419741 original size:3 final size:3
Alignment explanation
Indices: 7419735--7419786 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
7419725 AAAAAATCTG
7419735 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7419782 TTA TT
1 TTA TT
7419787 TCTTTATGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7422625 original size:704 final size:676
Alignment explanation
Indices: 7421346--7422663 Score: 1922
Period size: 704 Copynumber: 1.9 Consensus size: 676
7421336 TTATTTTTCA
* * *
7421346 GTTAATTAAAATAAGGTGGTTTTCGTAATTAACTATTCTAGACTTTTGATTCTGTAATTCTTTTT
1 GTTAATTAAAATAAAGTGGTTTTCGTAATAAACTATTCTAGACTTTTGATACTGTAATTCTTTTT
*
7421411 TTGACTAAGTTTCTGTTTGTGTTTCATATATGTTAACAATAAACTGCAAAAGCATACAATTTATC
66 TTGACTAAGTTTATGTTTGTGTTTCATATATGTTAACAATAAACTGCAAAAGCATACAATTTATC
* * *
7421476 AAATTAGAATTCATTTTTAAAATTAAAGCTTCGACATTTTTCGCTACGAAACCGAATAAGTCCTT
131 AAATTAGAATTCATTTTTAAAATTAAAACTTCAAAATTTTTCGCTACGAAACCGAATAAGTCCTT
7421541 AAGTGATTTTATTGTAAGATAAGTGTTTTCGAACATAAGATTTAACTAAATTATGTAAGAGGTTT
196 AAGTGATTTTATTGTAAGATAAGTGTTTTCGAACATAAGATTTAACTAAATTATGTAAGAGGTTT
* * **
7421606 TGCGACCCTTATATTTTCGAAACACACATTGAAAACAAAAGTTTTTAAATGCGATCAATGTGAAA
261 TGCGACACTTATATTTTCAAAACACACACCGAAAACAAAAGTTTTTAAATGCGATCAATGTGAAA
*
7421671 TGGATAAGTTCTGCTCGTTTGTAATTTTAAAAATAACACGCAAGTGTTTTGCTAAAATAATATTT
326 TGGATAACTTCTGCTCGTTTGTAATTTTAAAAATAACACGCAAGTGTTTTGCTAAAATAATATTT
**
7421736 TTCGAATTTAAGGTTTCTAAAATTATGATTATAACTTTTAAGTTTTTAAACAAACTAATATAATT
391 TTCGAATTTAAAATTTCTAAAATTATGATTATAACTTTTAAGTTTTTAAACAAACTAATATAATT
* *
7421801 CCTCCCAATTCAACAATAAAGTCTAAGTTAGATTTGGAGTGTTACAAATTTAATACTACCGTTTA
456 CCTCCCAATTCAACAATAAAGTCTAAGTTAAATTTGGAGTGTTACAAATTTAATACTACCATTTA
** *
7421866 TTAATTTTGACAACCTCTTGAATTCCATCCTCAAAATACACAATATTTCATTGTAGAAATTTCTA
521 TTAATTTTGACAACCTCTTGAATTAAATCCTCAAAATACACAATATGTCATTGTAGAAATTTCTA
*
7421931 TATTATAACTCAACACTATATGTTTGCAGCGAAAACAGTGTTTTCATATTGTTTAATAATTTCAT
586 TATTACAACTCAACACTATATGTTTGCAGCGAAAACAGTGTTTTCATATTGTTTAATAATTTCAT
7421996 TATCTTTGGTGCACGACCCCAAGAAG
651 TATCTTTGGTGCACGACCCCAAGAAG
*
7422022 GTTAATTAAAATAAAGTGGTTTTCGTAATAAATTATTCTAGACTTTTGATACTGTAATTCTTTTT
1 GTTAATTAAAATAAAGTGGTTTTCGTAATAAACTATTCTAGACTTTTGATACTGTAATTCTTTTT
* * * * *
7422087 TTGATTAAGTTTATGTTTGTGTTTTGTTCTGTCAGCTTTTGATATTTTAACACTAAATTGTAAAA
66 TTGACTAAGTTTATG-TT-TG---TG-T-T-TCA-----T-ATATGTTAACAATAAACTGCAAAA
* ** * *
7422152 GTATACGGTTTATCAAATTAGAATTTATTTTTAAAATTAAAATTTCAAAATTTTTCGCTACGAAA
117 GCATACAATTTATCAAATTAGAATTCATTTTTAAAATTAAAACTTCAAAATTTTTCGCTACGAAA
* ** *
7422217 TCGAATAAGTTTTTAAGTGATTTTATTGTAAGATAAGTGTTTTTGAACATAAGATTTAACTAAAT
182 CCGAATAAGTCCTTAAGTGATTTTATTGTAAGATAAGTGTTTTCGAACATAAGATTTAACTAAAT
*
7422282 TATGTAAGAGGTTTTGCGACACTTATATTTTCAAAACACACACCGGAAACAAAAGTTTTTAAATG
247 TATGTAAGAGGTTTTGCGACACTTATATTTTCAAAACACACACCGAAAACAAAAGTTTTTAAATG
7422347 CGATCAAGTTAAGAGTTTTTCTGTGAAATGGATAACTTCTGCTCGTTTGTAATTTTAAAAATAAC
312 CGATC------A-A-------TGTGAAATGGATAACTTCTGCTCGTTTGTAATTTTAAAAATAAC
* *
7422412 ACGCAAGTGTTTTGCTAAAATAATATTTTTCGAATTTAAAATTTCTAAAGTTATGATTATAATTT
363 ACGCAAGTGTTTTGCTAAAATAATATTTTTCGAATTTAAAATTTCTAAAATTATGATTATAACTT
** * *
7422477 TTGGGTTTTTAAACAAACTAATATAATTTCTCCCAATTCAACAATAACGTCT-AGATTAAATTT-
428 TTAAGTTTTTAAACAAACTAATATAATTCCTCCCAATTCAACAATAAAGTCTAAG-TTAAATTTG
* *
7422540 GATGTGTTACAAATTTGATACTACCATTTATTAATTTTGACAATCTCTT-AAGTTAAATCCTCAA
492 GA-GTGTTACAAATTTAATACTACCATTTATTAATTTTGACAACCTCTTGAA-TTAAATCCTCAA
* *
7422604 AATACTCAATATGTCATTGTAGAAATTTCTATATTACAACTGAACACTATATGTTTGCAG
555 AATACACAATATGTCATTGTAGAAATTTCTATATTACAACTCAACACTATATGTTTGCAG
7422664 TACAATTTCA
Statistics
Matches: 565, Mismatches: 46, Indels: 34
0.88 0.07 0.05
Matches are distributed among these distances:
676 74 0.13
677 2 0.00
678 2 0.00
681 2 0.00
682 1 0.00
683 1 0.00
684 3 0.01
689 1 0.00
690 203 0.36
696 1 0.00
697 1 0.00
703 6 0.01
704 268 0.47
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (676 bp):
GTTAATTAAAATAAAGTGGTTTTCGTAATAAACTATTCTAGACTTTTGATACTGTAATTCTTTTT
TTGACTAAGTTTATGTTTGTGTTTCATATATGTTAACAATAAACTGCAAAAGCATACAATTTATC
AAATTAGAATTCATTTTTAAAATTAAAACTTCAAAATTTTTCGCTACGAAACCGAATAAGTCCTT
AAGTGATTTTATTGTAAGATAAGTGTTTTCGAACATAAGATTTAACTAAATTATGTAAGAGGTTT
TGCGACACTTATATTTTCAAAACACACACCGAAAACAAAAGTTTTTAAATGCGATCAATGTGAAA
TGGATAACTTCTGCTCGTTTGTAATTTTAAAAATAACACGCAAGTGTTTTGCTAAAATAATATTT
TTCGAATTTAAAATTTCTAAAATTATGATTATAACTTTTAAGTTTTTAAACAAACTAATATAATT
CCTCCCAATTCAACAATAAAGTCTAAGTTAAATTTGGAGTGTTACAAATTTAATACTACCATTTA
TTAATTTTGACAACCTCTTGAATTAAATCCTCAAAATACACAATATGTCATTGTAGAAATTTCTA
TATTACAACTCAACACTATATGTTTGCAGCGAAAACAGTGTTTTCATATTGTTTAATAATTTCAT
TATCTTTGGTGCACGACCCCAAGAAG
Found at i:7423580 original size:23 final size:23
Alignment explanation
Indices: 7423549--7423592 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7423539 AAAATTTTCA
*
7423549 TTTAATATTTTAAAAATTACATT
1 TTTAATATTGTAAAAATTACATT
*
7423572 TTTACTATTGTAAAAATTACA
1 TTTAATATTGTAAAAATTACA
7423593 ATTTAACTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTAATATTGTAAAAATTACATT
Found at i:7425464 original size:35 final size:35
Alignment explanation
Indices: 7425425--7425491 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
7425415 ATTGATATTT
* **
7425425 TGATTCTCATGTTAAGCATGTTATTATTCTGACTA
1 TGATTCACATGTTAAGCATGCCATTATTCTGACTA
*
7425460 TGATTCACATGTTGAGCATGCCATTATTCTGA
1 TGATTCACATGTTAAGCATGCCATTATTCTGA
7425492 TTTGCATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (35 bp):
TGATTCACATGTTAAGCATGCCATTATTCTGACTA
Found at i:7429464 original size:24 final size:24
Alignment explanation
Indices: 7429413--7429467 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
7429403 TCTTTCAGTT
*
7429413 AAACTCTGTTTATTTGTTTAAATT
1 AAACTCTGTTTATTTGTTTAAATC
* *
7429437 AAACTCTGTTTATTTGTTTGAGTC
1 AAACTCTGTTTATTTGTTTAAATC
7429461 AAACTCT
1 AAACTCT
7429468 TATTACTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTATTTGTTTAAATC
Found at i:7431425 original size:24 final size:24
Alignment explanation
Indices: 7431397--7431459 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
7431387 AGAAATAATC
* *
7431397 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTATTTA
*
7431421 TTTCAATTAAACTCTATTTATTTA
1 TTTCAGTTAAACTCTATTTATTTA
* *
7431445 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
7431460 TATTACTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTA
Found at i:7436868 original size:17 final size:17
Alignment explanation
Indices: 7436846--7436884 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
7436836 AGGTGGAGAA
* * *
7436846 CTTGTTTGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
7436863 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
7436880 CTTGT
1 CTTGT
7436885 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.26, T:0.49
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:7441129 original size:10 final size:9
Alignment explanation
Indices: 7441109--7441168 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
7441099 ATATGAACTT
7441109 TTTTTATAA
1 TTTTTATAA
7441118 TTTTTATGAA
1 TTTTTAT-AA
* *
7441128 TTTTGA-AC
1 TTTTTATAA
*
7441136 TTTTTGAAAA
1 TTTTT-ATAA
*
7441146 TTTTTAGAA
1 TTTTTATAA
*
7441155 TTTTTAAAA
1 TTTTTATAA
7441164 TTTTT
1 TTTTT
7441169 TTACGTGACA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 5 0.12
9 24 0.57
10 13 0.31
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:7441168 original size:18 final size:18
Alignment explanation
Indices: 7441109--7441168 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
7441099 ATATGAACTT
* *
7441109 TTTTTATAATTTTTATGAA
1 TTTTTAGAATTTTTA-AAA
7441128 -TTTT-GAACTTTTTGAAAA
1 TTTTTAGAA-TTTTT-AAAA
7441146 TTTTTAGAATTTTTAAAA
1 TTTTTAGAATTTTTAAAA
7441164 TTTTT
1 TTTTT
7441169 TTACGTGACA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 2 0.06
18 20 0.57
19 10 0.29
20 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTTAGAATTTTTAAAA
Found at i:7441679 original size:22 final size:21
Alignment explanation
Indices: 7441654--7441695 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
7441644 TTTTTCAGAT
* *
7441654 TTATGATATTTCATTTTATATA
1 TTATGAAATTT-ATATTATATA
7441676 TTATGAAATTTATATTATAT
1 TTATGAAATTTATATTATAT
7441696 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (21 bp):
TTATGAAATTTATATTATATA
Found at i:7441701 original size:17 final size:16
Alignment explanation
Indices: 7441668--7441709 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
7441658 GATATTTCAT
7441668 TTTATATATTATGAAA
1 TTTATATATTATGAAA
7441684 TTTATAT-TATATGAAA
1 TTTATATAT-TATGAAA
* *
7441700 ATTAAATATT
1 TTTATATATT
7441710 TTAAACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
TTTATATATTATGAAA
Found at i:7442784 original size:20 final size:19
Alignment explanation
Indices: 7442768--7442866 Score: 55
Period size: 20 Copynumber: 5.3 Consensus size: 19
7442758 TTTTTAGATT
7442768 TTTTTTATAAATTTTAGAAA
1 TTTTTTA-AAATTTTAGAAA
*
7442788 TTTTTTAAAA---TATAAA
1 TTTTTTAAAATTTTAGAAA
* * *
7442804 -TTTTGAAATTTTTATAAA
1 TTTTTTAAAATTTTAGAAA
* * *
7442822 TATTTT-GAATTTTAAAAA
1 TTTTTTAAAATTTTAGAAA
* *
7442840 TCATTTTAAAATTTTAAAAA
1 T-TTTTTAAAATTTTAGAAA
7442860 TTATTTT
1 TT-TTTT
7442867 GATTTTTTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
15 7 0.11
16 5 0.08
18 16 0.26
19 11 0.18
20 23 0.37
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTTTAAAATTTTAGAAA
Found at i:7442824 original size:24 final size:25
Alignment explanation
Indices: 7442773--7442821 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
7442763 AGATTTTTTT
7442773 TATAAATTTTAGAAATTTTTTAAAA
1 TATAAATTTTAGAAATTTTTTAAAA
7442798 TATAAATTTT-GAAATTTTTATAAA
1 TATAAATTTTAGAAATTTTT-TAAA
7442822 TATTTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
TATAAATTTTAGAAATTTTTTAAAA
Found at i:7442874 original size:20 final size:20
Alignment explanation
Indices: 7442789--7442873 Score: 77
Period size: 20 Copynumber: 4.2 Consensus size: 20
7442779 TTTTAGAAAT
*
7442789 TTTTTAAAATATAAATTTTGAAA
1 TTTTTAAAA-AT-TATTTTG-AA
*
7442812 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
* *
7442831 -TTTTAAAAATCATTTTAAA
1 TTTTTAAAAATTATTTTGAA
*
7442850 ATTTTAAAAATTATTTTG-A
1 TTTTTAAAAATTATTTTGAA
7442869 TTTTT
1 TTTTT
7442874 TTTTTGTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.15
19 14 0.27
20 21 0.40
22 1 0.02
23 8 0.15
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:7447288 original size:24 final size:24
Alignment explanation
Indices: 7447238--7447289 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
7447228 TTCATAGGTC
* **
7447238 AAATAAATTATGCTAATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
7447262 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
7447286 AAAT
1 AAAT
7447290 CTTATAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:7448221 original size:20 final size:20
Alignment explanation
Indices: 7448180--7448224 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
7448170 AATTATAAAC
* *
7448180 TTTTTATAATTTTTTTTATT
1 TTTTTAGAATTTTTTATATT
7448200 TTTTTAGAA-TTTTTATAGTT
1 TTTTTAGAATTTTTTATA-TT
7448220 TTTTT
1 TTTTT
7448225 TACGTGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTTAGAATTTTTTATATT
Found at i:7449581 original size:70 final size:70
Alignment explanation
Indices: 7449487--7449640 Score: 247
Period size: 70 Copynumber: 2.2 Consensus size: 70
7449477 AATTAAATAA
*
7449487 GAATCCATGCTTC-AATAGCCTAAAATCAATTTAAACATCATGCATGCTGTAATAGTTGACATGC
1 GAATCCA-GC-TCAAATAGCCTAAAATCAATTTAAACATCATGCATGCTATAATAGTTGACATGC
7449551 TTAACAT
64 TTAACAT
**
7449558 GAATCCAGCTCAAATAGCCTAAAATCAATTTAAATGTCATGCATGCTATAATAGTTGACATGCTT
1 GAATCCAGCTCAAATAGCCTAAAATCAATTTAAACATCATGCATGCTATAATAGTTGACATGCTT
7449623 AACAT
66 AACAT
*
7449628 GAATCCAGTTCAA
1 GAATCCAGCTCAA
7449641 TGGTAGCAGT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
69 2 0.03
70 69 0.88
71 7 0.09
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (70 bp):
GAATCCAGCTCAAATAGCCTAAAATCAATTTAAACATCATGCATGCTATAATAGTTGACATGCTT
AACAT
Found at i:7450594 original size:28 final size:28
Alignment explanation
Indices: 7450563--7450616 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
7450553 ACTTTGGATG
* *
7450563 CTCGGGGGCAAAATGGTGATTTTAGACT
1 CTCGAGGGCAAAATGGTAATTTTAGACT
* *
7450591 CTCGATGGTAAAATGGTAATTTTAGA
1 CTCGAGGGCAAAATGGTAATTTTAGA
7450617 AAAATTTGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (28 bp):
CTCGAGGGCAAAATGGTAATTTTAGACT
Found at i:7450662 original size:29 final size:29
Alignment explanation
Indices: 7450608--7450699 Score: 93
Period size: 28 Copynumber: 3.2 Consensus size: 29
7450598 GTAAAATGGT
*
7450608 AATTTTAGAAAAATTTG-GGATTAAAAATGA
1 AATTTTA-AAAAATCTGAGGA-TAAAAATGA
* *
7450638 AATTTT-AAAAATCTGAGGATAAAAAGGT
1 AATTTTAAAAAATCTGAGGATAAAAATGA
7450666 AATTTTAGAAAAATC-GA-GATCAAAAATGA
1 AATTTTA-AAAAATCTGAGGAT-AAAAATGA
7450695 AATTT
1 AATTT
7450700 ACAGACATTC
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
28 24 0.45
29 16 0.30
30 13 0.25
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.30
Consensus pattern (29 bp):
AATTTTAAAAAATCTGAGGATAAAAATGA
Found at i:7450824 original size:117 final size:118
Alignment explanation
Indices: 7450652--7450937 Score: 425
Period size: 117 Copynumber: 2.4 Consensus size: 118
7450642 TTAAAAATCT
* * * **
7450652 GAGGATAAAAAGGTAA-TTTTAGAAAAATCGAGATCAAAAATGAAATTTACAGACATTCGGGGAT
1 GAGGGTAAAATGGTAATTTTTAGAAAAATCGAGATCAAAAATGGAATTTTTAGACATTCGGGGAT
*
7450716 AAAATGGTAATTTTTAGAAGAATCGGGATCAAAAATAGAATTTTTGGACATTC
66 AAAATGGTAATTTTTAAAAGAATCGGGATCAAAAATAGAATTTTTGGACATTC
* * * * *
7450769 GAGGGT-AAATGGTAATTTTTAGAAGAATCGAGATCAAAAACGGAATTTTTGGACATTTGGGGGT
1 GAGGGTAAAATGGTAATTTTTAGAAAAATCGAGATCAAAAATGGAATTTTTAGACATTCGGGGAT
* *
7450833 AAAATGGTAATTTTTAAAAGCATCGGGATCAAAAATGGAATTTTTGGACATTC
66 AAAATGGTAATTTTTAAAAGAATCGGGATCAAAAATAGAATTTTTGGACATTC
7450886 GAGGGTAAAATGGTAATTTTTAGAAAAATC-AGGATCAAAAATGGAATTTTTA
1 GAGGGTAAAATGGTAATTTTTAGAAAAATCGA-GATCAAAAATGGAATTTTTA
7450938 AAAGTTTGGG
Statistics
Matches: 150, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
116 8 0.05
117 102 0.68
118 40 0.27
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (118 bp):
GAGGGTAAAATGGTAATTTTTAGAAAAATCGAGATCAAAAATGGAATTTTTAGACATTCGGGGAT
AAAATGGTAATTTTTAAAAGAATCGGGATCAAAAATAGAATTTTTGGACATTC
Found at i:7450949 original size:117 final size:116
Alignment explanation
Indices: 7450597--7450964 Score: 419
Period size: 117 Copynumber: 3.2 Consensus size: 116
7450587 GACTCTCGAT
* * * * * * *
7450597 GGTAAAATGGTAA-TTTTAGAAA-AATTTGGGATTAAAAAT-GAAATTTT-AAAAATCTGAGGAT
1 GGTAAAATGGTAATTTTTA-AAAGAA-TCGGGATCAAAAATAGAATTTTTGGACATTC-GAGGGT
* * ** *
7450658 AAAAAGGTAA-TTTTAGAAAAATCGAGATCAAAAATGAAATTTACAGACATTCGG
63 AAAATGGTAATTTTTAGAAAAATCGAGATCAAAAATGGAATTTTTA-ACATTTGG
*
7450712 GGATAAAATGGTAATTTTTAGAAGAATCGGGATCAAAAATAGAATTTTTGGACATTCGAGGGT-A
1 GG-TAAAATGGTAATTTTTAAAAGAATCGGGATCAAAAATAGAATTTTTGGACATTCGAGGGTAA
* * *
7450776 AATGGTAATTTTTAGAAGAATCGAGATCAAAAACGGAATTTTTGGACATTTGGG
65 AATGGTAATTTTTAGAAAAATCGAGATCAAAAATGGAATTTTT-AACATTT-GG
* *
7450830 GGTAAAATGGTAATTTTTAAAAGCATCGGGATCAAAAATGGAATTTTTGGACATTCGAGGGTAAA
1 GGTAAAATGGTAATTTTTAAAAGAATCGGGATCAAAAATAGAATTTTTGGACATTCGAGGGTAAA
*
7450895 ATGGTAATTTTTAGAAAAATC-AGGATCAAAAATGGAATTTTTAAAAGTTTGG
66 ATGGTAATTTTTAGAAAAATCGA-GATCAAAAATGGAATTTTTAACA-TTTGG
7450947 GGTAAAAAT-GTAATTTTT
1 GGT-AAAATGGTAATTTTT
7450965 GGAAGTTTTG
Statistics
Matches: 218, Mismatches: 23, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
115 2 0.01
116 33 0.15
117 127 0.58
118 56 0.26
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (116 bp):
GGTAAAATGGTAATTTTTAAAAGAATCGGGATCAAAAATAGAATTTTTGGACATTCGAGGGTAAA
ATGGTAATTTTTAGAAAAATCGAGATCAAAAATGGAATTTTTAACATTTGG
Found at i:7450956 original size:59 final size:59
Alignment explanation
Indices: 7450592--7450936 Score: 373
Period size: 59 Copynumber: 5.9 Consensus size: 59
7450582 TTTTAGACTC
* * * * * *
7450592 TCGATGGTAAAATGGTAA-TTTTAGAAAAATTTGGGATTAAAAAT-GAAATTTT-AAAAA
1 TCGAGGGTAAAATGGTAATTTTTAGAAAAA-TCGGGATCAAAAATGGAATTTTTGAACAT
* * * * **
7450649 TCTGAGGATAAAAAGGTAA-TTTTAGAAAAATCGAGATCAAAAAT-GAAATTTACAGACAT
1 TC-GAGGGTAAAATGGTAATTTTTAGAAAAATCGGGATCAAAAATGGAATTTTTGA-ACAT
* * *
7450708 TCG-GGGATAAAATGGTAATTTTTAGAAGAATCGGGATCAAAAATAGAATTTTTGGACAT
1 TCGAGGG-TAAAATGGTAATTTTTAGAAAAATCGGGATCAAAAATGGAATTTTTGAACAT
* * * *
7450767 TCGAGGGT-AAATGGTAATTTTTAGAAGAATCGAGATCAAAAACGGAATTTTTGGACAT
1 TCGAGGGTAAAATGGTAATTTTTAGAAAAATCGGGATCAAAAATGGAATTTTTGAACAT
* * * *
7450825 TTGGGGGTAAAATGGTAATTTTTA-AAAGCATCGGGATCAAAAATGGAATTTTTGGACAT
1 TCGAGGGTAAAATGGTAATTTTTAGAAA-AATCGGGATCAAAAATGGAATTTTTGAACAT
*
7450884 TCGAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATCAAAAATGGAATTTTT
1 TCGAGGGTAAAATGGTAATTTTTAGAAAAATCGGGATCAAAAATGGAATTTTT
7450937 AAAAGTTTGG
Statistics
Matches: 248, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
57 22 0.09
58 91 0.37
59 123 0.50
60 12 0.05
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (59 bp):
TCGAGGGTAAAATGGTAATTTTTAGAAAAATCGGGATCAAAAATGGAATTTTTGAACAT
Found at i:7450974 original size:29 final size:29
Alignment explanation
Indices: 7450922--7451229 Score: 235
Period size: 29 Copynumber: 10.5 Consensus size: 29
7450912 AATCAGGATC
* **
7450922 AAAAATGGAATTTTTAAAAG-TTTGGGGT
1 AAAAATGTAATTTTTGGAAGTTTTGGGGT
7450950 AAAAATGTAATTTTTGGAAGTTTTGGGGT
1 AAAAATGTAATTTTTGGAAGTTTTGGGGT
* * * ** * *
7450979 CAAAATTGGAA-TTTTGGAAATTTACGAGC
1 -AAAAATGTAATTTTTGGAAGTTTTGGGGT
* * *
7451008 AAAAATATAATTTTTGGAAGTTTCGAGGT
1 AAAAATGTAATTTTTGGAAGTTTTGGGGT
* *
7451037 AAAAAATGTAATTTTTGGAAATTTGGGGGT
1 -AAAAATGTAATTTTTGGAAGTTTTGGGGT
* *** *
7451067 AAAAATGTAATTTTTGGAAATTCAAGGGC
1 AAAAATGTAATTTTTGGAAGTTTTGGGGT
* *
7451096 AAAAATGTAATTTTTGAAAG-TTTAGGGT
1 AAAAATGTAATTTTTGGAAGTTTTGGGGT
* *** *
7451124 CAAAATGTAATTTTCAAAAGTTTTAGGGTT
1 AAAAATGTAATTTTTGGAAGTTTT-GGGGT
* * *
7451154 AAAAATGTGATTTTTAGAAGTTTTTGGGT
1 AAAAATGTAATTTTTGGAAGTTTTGGGGT
* *
7451183 TAAAATGATAATTTTTAGAGAAGTTTGGGGGT
1 AAAAATG-TAATTTTT-G-GAAGTTTTGGGGT
* *
7451215 CAAAATATAATTTTT
1 AAAAATGTAATTTTT
7451230 AGACGGTTTA
Statistics
Matches: 221, Mismatches: 50, Indels: 15
0.77 0.17 0.05
Matches are distributed among these distances:
28 46 0.21
29 88 0.40
30 63 0.29
31 8 0.04
32 16 0.07
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAGTTTTGGGGT
Found at i:7450982 original size:58 final size:58
Alignment explanation
Indices: 7450802--7451219 Score: 251
Period size: 59 Copynumber: 7.1 Consensus size: 58
7450792 AGAATCGAGA
* * ** ** * *
7450802 TCAAAAACGGAATTTTTGGACA-TTTGGGGGT-AAAATGGTAATTTTTAAAAGCATCGGGA
1 TCAAAAATGGAATTTTT-GAAAGTTT-GGGGTAAAAAT-GTAATTTTTGGAAGTTTTGGGG
* * * *** ** *
7450861 TCAAAAATGGAATTTTTGGACA-TTCGAGGGT-AAAATGGTAATTTTTAGAAAAATCAGGA
1 TCAAAAATGGAATTTTT-GAAAGTTTG-GGGTAAAAAT-GTAATTTTTGGAAGTTTTGGGG
*
7450920 TCAAAAATGGAATTTTTAAAAGTTTGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
* * * * * * * *
7450978 TCAAAATTGGAATTTTGGAAA-TTTACGAGCAAAAATATAATTTTTGGAAGTTTCGAGG
1 TCAAAAATGGAATTTTTGAAAGTTT-GGGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
* * * ***
7451036 TAAAAAATGTAATTTTTGGAAA-TTTGGGGGTAAAAATGTAATTTTTGGAAATTCAAGGG
1 TCAAAAATGGAATTTTT-GAAAGTTT-GGGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
* * * *** *
7451095 -CAAAAATGTAATTTTTGAAAGTTTAGGGTCAAAATGTAATTTTCAAAAGTTTTAGGG
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
* * * *
7451152 TTAAAAATGTG-ATTTTT-AGAAGTTTTTGGGTTAAAATGATAATTTTTAGAGAAGTTTGGGGG
1 TCAAAAATG-GAATTTTTGA-AAG-TTTGGGGTAAAAATG-TAATTTTT-G-GAAGTTTTGGGG
7451214 TCAAAA
1 TCAAAA
7451220 TATAATTTTT
Statistics
Matches: 288, Mismatches: 58, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
57 33 0.11
58 114 0.40
59 120 0.42
60 7 0.02
62 14 0.05
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (58 bp):
TCAAAAATGGAATTTTTGAAAGTTTGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
Found at i:7450982 original size:117 final size:117
Alignment explanation
Indices: 7450652--7451137 Score: 358
Period size: 117 Copynumber: 4.2 Consensus size: 117
7450642 TTAAAAATCT
* * * ** * *
7450652 GAGGATAAAAAGGTAA-TTTTAGAAAAATC-GAGATCAAAAATGAAATTTACAGACATTCGGGG-
1 GAGGGTAAAATGGTAATTTTTAGAAAAATCAG-GATCAAAAATGGAATTTTTA-AAATTTGGGGT
* ** * * *
7450714 ATAAAATGGTAATTTTTAGAAGAATCGGGATCAAAAATAGAATTTTTGGACA-TTC
64 A-AAAAT-GTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAAGTTC
* * * *
7450769 GAGGGT-AAATGGTAATTTTTAGAAGAATC-GAGATCAAAAACGGAATTTTTGGACATTTGGGGG
1 GAGGGTAAAATGGTAATTTTTAGAAAAATCAG-GATCAAAAATGGAATTTTT-AAAATTT-GGGG
** ** * *
7450832 T-AAAATGGTAATTTTTAAAAGCATCGGGATCAAAAATGGAATTTTTGGACA-TTC
63 TAAAAAT-GTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAAGTTC
7450886 GAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATCAAAAATGGAATTTTTAAAAGTTTGGGGTA
1 GAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATCAAAAATGGAATTTTTAAAA-TTTGGGGTA
* * *
7450951 AAAATGTAATTTTTGGAAGTTTTGGGGTCAAAATTGGAA-TTTTGGAAATTTAC
65 AAAATGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAAGTT-C
** * * *** * * *
7451004 GA-GCAAAAAT-ATAATTTTTGGAAGTTTCGAGG-TAAAAAATGTAATTTTTGGAAATTTGGGGG
1 GAGGGTAAAATGGTAATTTTTAGAAAAATC-AGGATCAAAAATGGAATTTTT-AAAATTT-GGGG
* * *
7451066 TAAAAATGTAATTTTTGGAA-ATTCAAGGG-CAAAAATGTAATTTTT-GAAAGTT-
63 TAAAAATGTAATTTTTGGAAGTTTC-GGGGTCAAAAATGGAATTTTTGGAAAGTTC
*
7451118 TAGGGTCAAAAT-GTAATTTT
1 GAGGGT-AAAATGGTAATTTT
7451138 CAAAAGTTTT
Statistics
Matches: 308, Mismatches: 44, Indels: 35
0.80 0.11 0.09
Matches are distributed among these distances:
114 1 0.00
115 1 0.00
116 76 0.25
117 174 0.56
118 55 0.18
119 1 0.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.32
Consensus pattern (117 bp):
GAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATCAAAAATGGAATTTTTAAAATTTGGGGTAA
AAATGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAAGTTC
Found at i:7451071 original size:59 final size:59
Alignment explanation
Indices: 7450716--7451137 Score: 303
Period size: 58 Copynumber: 7.2 Consensus size: 59
7450706 ATTCGGGGAT
* ** * * * *
7450716 AAAATGGTAATTTTTAGAAGAATCG-GGATCAAAAATAGAATTTTTGGACATTCGAGGGT-
1 AAAAT-GTAATTTTTGGAAGTTTCGAGG-TCAAAAATGGAATTTTTGGAAATTTGGGGGTA
* ** * * *
7450775 -AAATGGTAATTTTTAGAAGAATCGAGATCAAAAACGGAATTTTTGGACATTTGGGGGT-
1 AAAAT-GTAATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAATTTGGGGGTA
** ** * * *
7450833 AAAATGGTAATTTTTAAAAGCATCG-GGATCAAAAATGGAATTTTTGGACATTCGAGGGT-
1 AAAAT-GTAATTTTTGGAAGTTTCGAGG-TCAAAAATGGAATTTTTGGAAATTTGGGGGTA
* *** *
7450892 AAAATGGTAATTTTTAGAAAAATC-AGGATCAAAAATGGAATTTTT-AAAAGTTT-GGGGTA
1 AAAAT-GTAATTTTTGGAAGTTTCGAGG-TCAAAAATGGAATTTTTGGAAA-TTTGGGGGTA
* * * ** * *
7450951 AAAATGTAATTTTTGGAAGTTTTGGGGTCAAAATTGGAA-TTTTGGAAATTTACGAGCA
1 AAAATGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAATTTGGGGGTA
* * *
7451009 AAAATATAATTTTTGGAAGTTTCGAGGTAAAAAATGTAATTTTTGGAAATTTGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAATTTGGGGGTA
* * * * * *
7451068 AAAATGTAATTTTTGGAA-ATTCAAGGGCAAAAATGTAATTTTT-GAAAGTTT-AGGGTC
1 AAAATGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAA-TTTGGGGGTA
7451125 AAAATGTAATTTT
1 AAAATGTAATTTT
7451138 CAAAAGTTTT
Statistics
Matches: 306, Mismatches: 46, Indels: 24
0.81 0.12 0.06
Matches are distributed among these distances:
57 28 0.09
58 145 0.47
59 133 0.43
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (59 bp):
AAAATGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAATTTGGGGGTA
Found at i:7451161 original size:30 final size:30
Alignment explanation
Indices: 7450922--7451230 Score: 151
Period size: 30 Copynumber: 10.5 Consensus size: 30
7450912 AATCAGGATC
* *
7450922 AAAAATGGAATTTTTAAAAG-TTT-GGGGT
1 AAAAATGTAATTTTTAAAAGTTTTAGGGTT
** * *
7450950 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGTAATTTTTAAAAGTTTTAGGGTT
* * ** * *
7450980 AAAATTGGAATTTTGGAAA--TTTACGAG-C
1 AAAAATGTAATTTTTAAAAGTTTTA-GGGTT
* ** * *
7451008 AAAAATATAATTTTTGGAAG-TTTCGAGGTA
1 AAAAATGTAATTTTTAAAAGTTTTAG-GGTT
* * *
7451038 AAAAATGTAATTTTTGGAAA--TTTGGGGGT
1 AAAAATGTAATTTTT-AAAAGTTTTAGGGTT
* ** *
7451067 AAAAATGTAATTTTTGGAAA-TTCAAGGG-C
1 AAAAATGTAATTTTT-AAAAGTTTTAGGGTT
*
7451096 AAAAATGTAATTTTTGAAAG-TTTAGGG-T
1 AAAAATGTAATTTTTAAAAGTTTTAGGGTT
* *
7451124 CAAAATGTAATTTTCAAAAGTTTTAGGGTT
1 AAAAATGTAATTTTTAAAAGTTTTAGGGTT
* * *
7451154 AAAAATGTGATTTTTAGAAGTTTTTGGGTT
1 AAAAATGTAATTTTTAAAAGTTTTAGGGTT
* *
7451184 -AAAATGATAATTTTTAGAGAAG-TTTGGGGGT
1 AAAAATG-TAATTTTTA-A-AAGTTTTAGGGTT
* *
7451215 CAAAATATAATTTTTA
1 AAAAATGTAATTTTTA
7451231 GACGGTTTAG
Statistics
Matches: 222, Mismatches: 44, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
28 62 0.28
29 59 0.27
30 74 0.33
31 19 0.09
32 8 0.04
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (30 bp):
AAAAATGTAATTTTTAAAAGTTTTAGGGTT
Found at i:7452165 original size:21 final size:21
Alignment explanation
Indices: 7452121--7452165 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7452111 ATCTAAAAAC
* *
7452121 TTTTAAAACCTTGTTGTTATT
1 TTTTAAAACCTTCTTGTTAGT
7452142 TTTTAAAACCTTTCTTGTT-GT
1 TTTTAAAACC-TTCTTGTTAGT
7452163 TTT
1 TTT
7452166 AAACTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTTAAAACCTTCTTGTTAGT
Found at i:7452165 original size:22 final size:21
Alignment explanation
Indices: 7452121--7452165 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
7452111 ATCTAAAAAC
*
7452121 TTTTAAAACCTTGTTGTTATT
1 TTTTAAAACCTTCTTGTTATT
*
7452142 TTTTAAAACCTTTCTTGTTGTT
1 TTTTAAAACC-TTCTTGTTATT
7452164 TT
1 TT
7452166 AAACTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTTAAAACCTTCTTGTTATT
Found at i:7453187 original size:18 final size:18
Alignment explanation
Indices: 7453161--7453208 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
7453151 ACTTTTTAGT
*
7453161 TTTAAATTTAAAAAT-TA
1 TTTAAATTTAAAAATGAA
7453178 TTTCAAATTTAAAAATGAA
1 TTT-AAATTTAAAAATGAA
7453197 TTTAAATTTAAA
1 TTTAAATTTAAA
7453209 TTTAAAGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 3 0.11
18 21 0.75
19 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
TTTAAATTTAAAAATGAA
Found at i:7453221 original size:17 final size:18
Alignment explanation
Indices: 7453199--7453243 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
7453189 AAAATGAATT
*
7453199 TAAATTTAAATTTA-AAG
1 TAAATTTAAATTTAGAAA
*
7453216 TAAATTTAATTTTAGAAA
1 TAAATTTAAATTTAGAAA
7453234 TAAATTTAAA
1 TAAATTTAAA
7453244 ATCCATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TAAATTTAAATTTAGAAA
Found at i:7459940 original size:36 final size:36
Alignment explanation
Indices: 7459900--7460003 Score: 181
Period size: 36 Copynumber: 2.9 Consensus size: 36
7459890 TGTGAAAGTG
7459900 AATATGTGGGTATGTTATTCATGCCATGTGACAGAA
1 AATATGTGGGTATGTTATTCATGCCATGTGACAGAA
* *
7459936 AATATGTGAGTATTTTATTCATGCCATGTGACAGAA
1 AATATGTGGGTATGTTATTCATGCCATGTGACAGAA
*
7459972 AATATGTGGGTATGTTCTTCATGCCATGTGAC
1 AATATGTGGGTATGTTATTCATGCCATGTGAC
7460004 TGATTATGCT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 63 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (36 bp):
AATATGTGGGTATGTTATTCATGCCATGTGACAGAA
Found at i:7463675 original size:17 final size:18
Alignment explanation
Indices: 7463645--7463678 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7463635 ATATTTATGA
7463645 TGTATTTGAGATATTATT
1 TGTATTTGAGATATTATT
7463663 TGTATTT-AGATATTAT
1 TGTATTTGAGATATTAT
7463679 ATAAGGAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (18 bp):
TGTATTTGAGATATTATT
Found at i:7470270 original size:14 final size:14
Alignment explanation
Indices: 7470251--7470279 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7470241 GGAGTCAGTT
7470251 TTCCAGTAAAGGAG
1 TTCCAGTAAAGGAG
7470265 TTCCAGTAAAGGAG
1 TTCCAGTAAAGGAG
7470279 T
1 T
7470280 CAACCAAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (14 bp):
TTCCAGTAAAGGAG
Found at i:7472036 original size:44 final size:44
Alignment explanation
Indices: 7471973--7472061 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
7471963 CCATAGGTTA
**
7471973 ACTTTCTTTTAACCCTAAATATTTGGGTGTAGGGTTTAGAATTT
1 ACTTTCTTTTAACCCTAAATATTTAAGTGTAGGGTTTAGAATTT
7472017 ACTTTCTTTTAACCCTAAATATTTAAGTGTAGGGTTTAGAATTT
1 ACTTTCTTTTAACCCTAAATATTTAAGTGTAGGGTTTAGAATTT
7472061 A
1 A
7472062 AGGTTTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (44 bp):
ACTTTCTTTTAACCCTAAATATTTAAGTGTAGGGTTTAGAATTT
Found at i:7475443 original size:23 final size:23
Alignment explanation
Indices: 7475414--7475462 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
7475404 AGATAGCTAC
7475414 ACTACTTAACTACTAAGCCAAAT
1 ACTACTTAACTACTAAGCCAAAT
7475437 ACTACTTAACTACTAAGCCAAAT
1 ACTACTTAACTACTAAGCCAAAT
7475460 ACT
1 ACT
7475463 CAATTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.27, G:0.04, T:0.27
Consensus pattern (23 bp):
ACTACTTAACTACTAAGCCAAAT
Found at i:7475980 original size:17 final size:18
Alignment explanation
Indices: 7475943--7475983 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
7475933 CGTGTTTATG
7475943 AGAAA-TTAATTCCCAAT
1 AGAAAGTTAATTCCCAAT
7475960 AGAAAGTTACATT-CCAA-
1 AGAAAGTTA-ATTCCCAAT
7475977 AGAAAGT
1 AGAAAGT
7475984 GTTAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 12 0.55
18 7 0.32
19 3 0.14
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (18 bp):
AGAAAGTTAATTCCCAAT
Found at i:7476602 original size:19 final size:20
Alignment explanation
Indices: 7476578--7476622 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
7476568 ACATTATTTG
*
7476578 AAAAATTAAATCAAA-CAAA
1 AAAAATCAAATCAAATCAAA
* *
7476597 AAAAATCAAATTAAATTAAA
1 AAAAATCAAATCAAATCAAA
7476617 AAAAAT
1 AAAAAT
7476623 GAATAACTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAAATCAAATCAAATCAAA
Found at i:7480521 original size:3 final size:3
Alignment explanation
Indices: 7480496--7480558 Score: 74
Period size: 3 Copynumber: 20.7 Consensus size: 3
7480486 TTTTTAGTAA
* * *
7480496 AAT AA- AAT GAT AAT AAAT GAT AAT AAAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
7480542 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
7480559 ATCGTTGGCG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7487011 original size:28 final size:28
Alignment explanation
Indices: 7486944--7487024 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
7486934 TTCATCTCGC
*
7486944 CAAAATAATATTTTCAGAAAACATTTCGT
1 CAAAATAAT-TTTTCAGAACACATTTCGT
** * *
7486973 CAATTTTATTTTTCAGAACTCATATTC-T
1 CAAAATAATTTTTCAGAACACAT-TTCGT
7487001 CAAAATAATTTTTTCAGAACACAT
1 CAAAATAA-TTTTTCAGAACACAT
7487025 CACGTCAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 18 0.44
29 23 0.56
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (28 bp):
CAAAATAATTTTTCAGAACACATTTCGT
Found at i:7500748 original size:13 final size:13
Alignment explanation
Indices: 7500730--7500759 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
7500720 ATAAGATGAT
7500730 TTTTGAATGATTA
1 TTTTGAATGATTA
7500743 TTTTGAATGATTA
1 TTTTGAATGATTA
7500756 TTTT
1 TTTT
7500760 AAAGTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (13 bp):
TTTTGAATGATTA
Found at i:7501053 original size:3 final size:3
Alignment explanation
Indices: 7501047--7501105 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
7501037 AAAAAATAAT
* * *
7501047 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAA AAA AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7501095 AAG AAG AAG AA
1 AAG AAG AAG AA
7501106 AGATGGAGAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7504536 original size:29 final size:29
Alignment explanation
Indices: 7504489--7504565 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
7504479 GATAGTTTAG
* *
7504489 GTACTACATTGAGAC-TTTTCAAAGTACAT
1 GTACCACATTG-GACATTTTCAAAGTACAA
* *
7504518 GTACCACATTGTACATTTTCAAAGTATAA
1 GTACCACATTGGACATTTTCAAAGTACAA
7504547 GTACCACATTGGACATTTT
1 GTACCACATTGGACATTTT
7504566 ATAAAAGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.05
29 40 0.95
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (29 bp):
GTACCACATTGGACATTTTCAAAGTACAA
Found at i:7504576 original size:31 final size:29
Alignment explanation
Indices: 7504489--7504576 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
7504479 GATAGTTTAG
* * * *
7504489 GTACTACATTGAGAC-TTTTCAAAGTACAT
1 GTACCACATTG-GACATTTTAAAAGTATAA
* *
7504518 GTACCACATTGTACATTTTCAAAGTATAA
1 GTACCACATTGGACATTTTAAAAGTATAA
7504547 GTACCACATTGGACATTTTATAAAAGTATA
1 GTACCACATTGGACA-TTT-TAAAAGTATA
7504577 GGAACCAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.04
29 36 0.72
30 3 0.06
31 9 0.18
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (29 bp):
GTACCACATTGGACATTTTAAAAGTATAA
Found at i:7506907 original size:20 final size:19
Alignment explanation
Indices: 7506882--7506932 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
7506872 ACGATATTTT
7506882 CACTTCAGTGCTC-ATGCATA
1 CACTTCAGTGCTCTAT--ATA
*
7506902 CACTTCAGTGTCTCTATTTA
1 CACTTCAGTG-CTCTATATA
7506922 CACTTCAGTGC
1 CACTTCAGTGC
7506933 CTTTGCTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 22 0.79
21 3 0.11
22 2 0.07
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (19 bp):
CACTTCAGTGCTCTATATA
Found at i:7507720 original size:23 final size:24
Alignment explanation
Indices: 7507685--7507733 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
7507675 AACTATAATA
* *
7507685 TTTTACATTTTTTACCC-CAAACTT
1 TTTTACATATTTT-CCCAAAAACTT
7507709 TTTTAC-TATTTTCCCAAAAACTT
1 TTTTACATATTTTCCCAAAAACTT
7507732 TT
1 TT
7507734 ACTCCTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 3 0.14
23 13 0.59
24 6 0.27
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTACATATTTTCCCAAAAACTT
Found at i:7511215 original size:94 final size:94
Alignment explanation
Indices: 7511095--7511281 Score: 284
Period size: 94 Copynumber: 2.0 Consensus size: 94
7511085 AGGGAACGAT
* * *
7511095 TATATGTATAGATACTGTATCGATGGTTGAGGTACAACATATGTTGCGAGTCCTCATCAACTTAG
1 TATATGTACAAATACCGTATCGATGGTTGAGGTACAACATATGTTGCGAGTCCTCATCAACTTAG
*
7511160 TGTGAGCAGCATCGTATACTGGTAACAGC
66 TGTGAGCAGCATCGTATACTGATAACAGC
* * * * * *
7511189 TATATGTACAAATACCGTATCGATGGTTGAGGTACCATATATGTTGCGAGTCCTCGTTAAGTTTG
1 TATATGTACAAATACCGTATCGATGGTTGAGGTACAACATATGTTGCGAGTCCTCATCAACTTAG
7511254 TGTGAGCAGCATCGTATACTGATAACAG
66 TGTGAGCAGCATCGTATACTGATAACAG
7511282 AAATGACATT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 83 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (94 bp):
TATATGTACAAATACCGTATCGATGGTTGAGGTACAACATATGTTGCGAGTCCTCATCAACTTAG
TGTGAGCAGCATCGTATACTGATAACAGC
Found at i:7511881 original size:7 final size:7
Alignment explanation
Indices: 7511869--7511909 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
7511859 AATGGAACCT
7511869 AATTTTA
1 AATTTTA
7511876 AATTTTA
1 AATTTTA
7511883 AATTTTA
1 AATTTTA
*
7511890 AATTATTT
1 AATT-TTA
*
7511898 AAGTTTA
1 AATTTTA
7511905 AATTT
1 AATTT
7511910 ATTTTAAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 24 0.83
8 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:7511931 original size:28 final size:26
Alignment explanation
Indices: 7511884--7511948 Score: 103
Period size: 28 Copynumber: 2.4 Consensus size: 26
7511874 TAAATTTTAA
7511884 ATTTTAAATTATTTAAGTTTAAATTT
1 ATTTTAAATTATTTAAGTTTAAATTT
*
7511910 ATTTTAAACTTATTTTGAGTTTAAATTT
1 ATTTTAAA-TTA-TTTAAGTTTAAATTT
7511938 ATTTTAAATTA
1 ATTTTAAATTA
7511949 AATTAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 8 0.22
27 6 0.17
28 22 0.61
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTTTAAATTATTTAAGTTTAAATTT
Found at i:7513738 original size:29 final size:29
Alignment explanation
Indices: 7513666--7513904 Score: 200
Period size: 29 Copynumber: 8.2 Consensus size: 29
7513656 TCAAAAGGTC
* * *
7513666 CTAAACTGTCCAAAAATCATATTTTGACC-
1 CTAAACT-TCCAAAAATTACATTTTTACCT
*
7513695 CTCAAACTTCTCAAAAATTACATTTTTGCCT
1 CT-AAACTTC-CAAAAATTACATTTTTACCT
* *
7513726 CTAAACTTCCAAAAATCATATTTTTACC-
1 CTAAACTTCCAAAAATTACATTTTTACCT
* * *
7513754 CTCGAACTTCCAAAAATTATATTTTTACCC
1 CT-AAACTTCCAAAAATTACATTTTTACCT
* ** * *
7513784 CAAAACTTATAAAAATTACATTTTTGCCC
1 CTAAACTTCCAAAAATTACATTTTTACCT
*
7513813 CTAAACTTCCAGAAATTACATTTTTACCT
1 CTAAACTTCCAAAAATTACATTTTTACCT
* *
7513842 C-GAACTTCTCAAAAATCACATTTTTACCT
1 CTAAACTTC-CAAAAATTACATTTTTACCT
* * *
7513871 C-GAACTCTCCTAAAATGACATTTTTATCC-
1 CTAAACT-TCCAAAAATTACATTTTTA-CCT
7513900 CTAAA
1 CTAAA
7513905 ACTTTTTAAA
Statistics
Matches: 174, Mismatches: 27, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
28 8 0.05
29 130 0.75
30 34 0.20
31 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (29 bp):
CTAAACTTCCAAAAATTACATTTTTACCT
Found at i:7513798 original size:58 final size:58
Alignment explanation
Indices: 7513668--7513908 Score: 227
Period size: 58 Copynumber: 4.1 Consensus size: 58
7513658 AAAAGGTCCT
* * * * * *
7513668 AAACTGTCCAAAAATCATATTTTGACCCTCAAACTTCTCAAAAATTACATTTTTGCCTCT
1 AAACT-TCTAAAAATCACATTTTTACCCTCAAACTTC-CAAAAATTACATTTTTACCCCA
* * * *
7513728 AAACTTCCAAAAATCATATTTTTACCCTCGAACTTCCAAAAATTATATTTTTACCCCA
1 AAACTTCTAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTACCCCA
* * * * *
7513786 AAACTTATAAAAATTACATTTTTGCCC-CTAAACTTCCAGAAATTACATTTTTACCTC-
1 AAACTTCTAAAAATCACATTTTTACCCTC-AAACTTCCAAAAATTACATTTTTACCCCA
* * * * *
7513843 GAACTTCTCAAAAATCACATTTTTA-CCTCGAACTCTCCTAAAATGACATTTTTATCCCTA
1 AAACTTCT-AAAAATCACATTTTTACCCTCAAACT-TCCAAAAATTACATTTTTA-CCCCA
7513903 AAACTT
1 AAACTT
7513909 TTTAAAATTA
Statistics
Matches: 149, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
57 13 0.09
58 95 0.64
59 31 0.21
60 10 0.07
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (58 bp):
AAACTTCTAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTACCCCA
Found at i:7513821 original size:87 final size:87
Alignment explanation
Indices: 7513669--7513869 Score: 280
Period size: 87 Copynumber: 2.3 Consensus size: 87
7513659 AAAGGTCCTA
* * *
7513669 AACTGTCCAAAAATCATATTTTGACCCTCAAACTTCTCAAAAATTACATTTTTGCCTCTAAACTT
1 AACT-TCCAAAAATCATATTTTTACCCTCAAACTTATCAAAAATTACATTTTTGCCCCTAAACTT
*
7513734 CCAAAAATCATATTTTTACCCTCG
65 CCAAAAATCACATTTTTA-CCTCG
*
7513758 AACTTCCAAAAATTATATTTTTACCC-CAAAACTTAT-AAAAATTACATTTTTGCCCCTAAACTT
1 AACTTCCAAAAATCATATTTTTACCCTC-AAACTTATCAAAAATTACATTTTTGCCCCTAAACTT
* *
7513821 CCAGAAATTACATTTTTACCTCG
65 CCAAAAATCACATTTTTACCTCG
*
7513844 AACTTCTCAAAAATCACATTTTTACC
1 AACTTC-CAAAAATCATATTTTTACC
7513870 TCGAACTCTC
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
86 11 0.11
87 59 0.58
88 27 0.27
89 4 0.04
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.35
Consensus pattern (87 bp):
AACTTCCAAAAATCATATTTTTACCCTCAAACTTATCAAAAATTACATTTTTGCCCCTAAACTTC
CAAAAATCACATTTTTACCTCG
Found at i:7513886 original size:87 final size:86
Alignment explanation
Indices: 7513669--7513904 Score: 269
Period size: 87 Copynumber: 2.7 Consensus size: 86
7513659 AAAGGTCCTA
* * *
7513669 AACTGTCCAAAAATCATATTTTGACCCTCAAACTTCTCAAAAATTACATTTTTGCCTCTAAACTT
1 AACT-TCCAAAAATCATATTTTTA-CCTCAAACTTC-CTAAAATTACATTTTTGCCCCTAAACTT
*
7513734 CCAAAAATCATATTTTTACCCTCG
63 CCAAAAATCACATTTTTACCCTCG
* * *
7513758 AACTTCCAAAAATTATATTTTTACCCCAAAACTT-ATAAAAATTACATTTTTGCCCCTAAACTTC
1 AACTTCCAAAAATCATATTTTTACCTC-AAACTTCCT-AAAATTACATTTTTGCCCCTAAACTTC
* *
7513822 CAGAAATTACATTTTTA-CCTCG
64 CAAAAATCACATTTTTACCCTCG
* * * **
7513844 AACTTCTCAAAAATCACATTTTTACCTCGAACTCTCCTAAAATGACATTTTTATCCCTAAA
1 AACTTC-CAAAAATCATATTTTTACCTCAAACT-TCCTAAAATTACATTTTTGCCCCTAAA
7513905 ACTTTTTAAA
Statistics
Matches: 125, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
86 15 0.12
87 82 0.66
88 24 0.19
89 4 0.03
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (86 bp):
AACTTCCAAAAATCATATTTTTACCTCAAACTTCCTAAAATTACATTTTTGCCCCTAAACTTCCA
AAAATCACATTTTTACCCTCG
Found at i:7514077 original size:14 final size:14
Alignment explanation
Indices: 7514054--7514088 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
7514044 TAATTTGTAT
*
7514054 TTTATGTTTCTTATA
1 TTTAT-TTTCATATA
7514069 TTTATTTTCATATA
1 TTTATTTTCATATA
7514083 TTTATT
1 TTTATT
7514089 CATTCATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTATTTTCATATA
Found at i:7526014 original size:78 final size:78
Alignment explanation
Indices: 7525885--7526147 Score: 334
Period size: 78 Copynumber: 3.4 Consensus size: 78
7525875 CAAGAAGGGT
* * * * **
7525885 AGCCATTCAATCTTTTACCTCAAGCCTGGGACAGATCATTATCAATCAATCTCTTACCCCAAGCC
1 AGCCATTCGATCTTTTACCCCAAGCCTGGGGCAGATCATCATCAGCCAATCTCTTACCCCAAGCC
* *
7525950 TTGGATTGATTGC
66 TTGGGTAGATTGC
* *
7525963 AGCCATTCGATCTTTTACCCCAAGCTTGGGGCAGATCATCATCAGCCAATCTCCTACCCCAAG-C
1 AGCCATTCGATCTTTTACCCCAAGCCTGGGGCAGATCATCATCAGCCAATCTCTTACCCCAAGCC
7526027 TTAGGGTAGATTGC
66 TT-GGGTAGATTGC
* * * *
7526041 AG-CAATCGATCTTTTACCCCAAGCCTGAGGCAGATCACCATTAGCCAATCTCTTACCCCGAA-C
1 AGCCATTCGATCTTTTACCCCAAGCCTGGGGCAGATCATCATCAGCCAATCTCTTACCCC-AAGC
*
7526104 CTGGGGTAGATTGC
65 CTTGGGTAGATTGC
* *
7526118 AGCCATTCGATCTCTTACCCCGAGCCTGGG
1 AGCCATTCGATCTTTTACCCCAAGCCTGGG
7526148 CCAAATTGTA
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
77 67 0.42
78 93 0.58
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (78 bp):
AGCCATTCGATCTTTTACCCCAAGCCTGGGGCAGATCATCATCAGCCAATCTCTTACCCCAAGCC
TTGGGTAGATTGC
Found at i:7526131 original size:39 final size:39
Alignment explanation
Indices: 7525957--7526192 Score: 139
Period size: 39 Copynumber: 6.1 Consensus size: 39
7525947 GCCTTGGATT
* *
7525957 GATTGCAGCCATTCGATCTTTTACCCC-AAGCTTGGGGCA
1 GATTGCAGCCATTCGATCTCTTACCCCGAA-CCTGGGGCA
* ** * * * * *
7525996 GATCAT-CA-TCAGCCAATCTCCTACCCC-AAGCTTAGGGTA
1 GAT--TGCAGCCATTCGATCTCTTACCCCGAA-CCTGGGGCA
* * *
7526035 GATTGCAG-CAATCGATCTTTTACCCC-AAGCCTGAGGCA
1 GATTGCAGCCATTCGATCTCTTACCCCGAA-CCTGGGGCA
* *
7526073 GA-T-CA-CCATTAGCCAATCTCTTACCCCGAACCTGGGGTA
1 GATTGCAGCCATT---CGATCTCTTACCCCGAACCTGGGGCA
* *
7526112 GATTGCAGCCATTCGATCTCTTACCCCGAGCCTGGGCCA
1 GATTGCAGCCATTCGATCTCTTACCCCGAACCTGGGGCA
* * * * *
7526151 AATTGTAGCCATTCGATCTTTTACCCTGACCCTGGGGCA
1 GATTGCAGCCATTCGATCTCTTACCCCGAACCTGGGGCA
7526190 GAT
1 GAT
7526193 CACTATCAGC
Statistics
Matches: 152, Mismatches: 33, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
36 5 0.03
37 2 0.01
38 25 0.16
39 107 0.70
40 5 0.03
41 3 0.02
42 5 0.03
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.25
Consensus pattern (39 bp):
GATTGCAGCCATTCGATCTCTTACCCCGAACCTGGGGCA
Found at i:7526802 original size:6 final size:6
Alignment explanation
Indices: 7526740--7526842 Score: 60
Period size: 6 Copynumber: 18.0 Consensus size: 6
7526730 GGAACCTAAT
* * *
7526740 TTTAAA TTTTAAAA TTTAAA -TT--A TTTAAG TTTAAA TAATAAA TTAAAA
1 TTTAAA -TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
* * * *
7526788 TTT-AT TTTAAA TTTAAA CTT-AC TTTAAA TTT-AT TTTAAA -TTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
7526832 -TTAAA TTTAAA
1 TTTAAA TTTAAA
7526843 AAATGCCAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
3 1 0.01
4 2 0.03
5 23 0.32
6 33 0.45
7 11 0.15
8 3 0.04
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:7526818 original size:17 final size:17
Alignment explanation
Indices: 7526778--7526819 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
7526768 GTTTAAATAA
* * *
7526778 TAAATTAAAATTTATTT
1 TAAATTTAAACTTACTT
7526795 TAAATTTAAACTTACTT
1 TAAATTTAAACTTACTT
7526812 TAAATTTA
1 TAAATTTA
7526820 TTTTAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTTAAACTTACTT
Found at i:7527497 original size:24 final size:24
Alignment explanation
Indices: 7527453--7527501 Score: 62
Period size: 27 Copynumber: 1.9 Consensus size: 24
7527443 ATTTCAAAAC
*
7527453 ATTTATAATAAATACATAATAAAT
1 ATTTATAATAAATAAATAATAAAT
7527477 ATTTATAATATTAAATAAATAATAA
1 ATTTAT-A-A-TAAATAAATAATAA
7527502 TAAAAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 1 0.05
26 1 0.05
27 13 0.62
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTTATAATAAATAAATAATAAAT
Found at i:7528636 original size:29 final size:29
Alignment explanation
Indices: 7528547--7528755 Score: 117
Period size: 29 Copynumber: 7.2 Consensus size: 29
7528537 AAACTATCCA
* * * *
7528547 AAAATCATATTTTGACCCCCAAACTTCTT
1 AAAATCACATTTTTACCCCAAAACTTCTC
* ** * *
7528576 AAAACTTACA-TTTT-CCCTTAAACTGCTA
1 AAAA-TCACATTTTTACCCCAAAACTTCTC
7528604 AAAATCACATTTTTACCCCAAAACTTCTC
1 AAAATCACATTTTTACCCCAAAACTTCTC
* * *
7528633 AAAAATTACATTTTT-GCCCATGAACTT-TC
1 -AAAATCACATTTTTACCCCA-AAACTTCTC
* * * *
7528662 AAAAATTACATTTTTGCCTC-GAACTTCTC
1 -AAAATCACATTTTTACCCCAAAACTTCTC
* * *
7528691 AAAAATCACATTTTTACCTC-GAACTCTCCC
1 -AAAATCACATTTTTACCCCAAAACT-TCTC
*
7528721 AAAATGACATTTTTACCCCTAAAACTT-TCC
1 AAAATCACATTTTTACCCC-AAAACTTCT-C
7528751 AAAAT
1 AAAAT
7528756 TACGTTTCAA
Statistics
Matches: 145, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
27 4 0.03
28 24 0.17
29 80 0.55
30 33 0.23
31 4 0.03
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATCACATTTTTACCCCAAAACTTCTC
Found at i:7528725 original size:58 final size:57
Alignment explanation
Indices: 7528625--7528734 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
7528615 TTTACCCCAA
* * * *
7528625 AACTTCTCAAAAATTACATTTTTGCCCATGAACTTTCAAAAATTACATTTTTGCCTCG
1 AACTTCTCAAAAATCACATTTTTACCCA-GAACTTCCAAAAATGACATTTTTGCCTCG
*
7528683 AACTTCTCAAAAATCACATTTTTACCTC-GAACTCTCCCAAAATGACATTTTT
1 AACTTCTCAAAAATCACATTTTTACC-CAGAACT-TCCAAAAATGACATTTTT
7528735 ACCCCTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
57 5 0.11
58 39 0.87
59 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (57 bp):
AACTTCTCAAAAATCACATTTTTACCCAGAACTTCCAAAAATGACATTTTTGCCTCG
Found at i:7528920 original size:14 final size:14
Alignment explanation
Indices: 7528892--7528926 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
7528882 TAATTTGTAT
*
7528892 TTTATTTTTCTTATA
1 TTTA-TTTTCATATA
7528907 TTTATTTTCATATA
1 TTTATTTTCATATA
7528921 TTTATT
1 TTTATT
7528927 CATTCGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTTCATATA
Found at i:7535605 original size:29 final size:29
Alignment explanation
Indices: 7535563--7535618 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
7535553 GATTAAAGGT
7535563 ATGGGATGGCGGATTGGTAATGGGGAGGC
1 ATGGGATGGCGGATTGGTAATGGGGAGGC
7535592 ATGGGATGGCGGATTGGTAATGGGGAG
1 ATGGGATGGCGGATTGGTAATGGGGAG
7535619 TCAACTACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.05, G:0.52, T:0.21
Consensus pattern (29 bp):
ATGGGATGGCGGATTGGTAATGGGGAGGC
Found at i:7539619 original size:19 final size:20
Alignment explanation
Indices: 7539575--7539632 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
7539565 AACATATAAT
*
7539575 TATATTTTAAAAATAAAATA
1 TATATTCTAAAAATAAAATA
*
7539595 TATATTCTAAAATTAAAATA
1 TATATTCTAAAAATAAAATA
7539615 TTATTATT-TAAAAATAAA
1 -TA-TATTCTAAAAATAAA
7539633 TTATTAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.55
21 11 0.33
22 4 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TATATTCTAAAAATAAAATA
Found at i:7539633 original size:20 final size:21
Alignment explanation
Indices: 7539558--7539638 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 21
7539548 ACAATATTAG
*
7539558 TAAAAATAACATATAATTATATTT
1 TAAAAATAA-ATATTA-TATA-TT
7539582 TAAAAATAAA-A-TATATATT
1 TAAAAATAAATATTATATATT
*
7539601 CTAAAATTAAAATATTAT-TATT
1 -TAAAAAT-AAATATTATATATT
7539623 TAAAAATAAATTATTA
1 TAAAAATAAA-TATTA
7539639 AACTTAAAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
19 2 0.04
20 13 0.27
21 15 0.31
22 6 0.12
23 4 0.08
24 9 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAAATAAATATTATATATT
Found at i:7539719 original size:12 final size:12
Alignment explanation
Indices: 7539690--7539721 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
7539680 CAAGATTTAA
7539690 AATGTAATTATT
1 AATGTAATTATT
7539702 --TGTAATTATT
1 AATGTAATTATT
7539712 AATGTAATTA
1 AATGTAATTA
7539722 CTCTAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (12 bp):
AATGTAATTATT
Done.