Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 87 of 216
Found at i:26811588 original size:6 final size:6
Alignment explanation
Indices: 26811577--26811624 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
26811567 ACTTTTAGAC
* *
26811577 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGAAT TTTATT TTTATT TTTA
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG--T TTTAGT TTTAGT TTTA
26811625 TTTATTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 34 0.87
8 5 0.13
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (6 bp):
TTTAGT
Found at i:26811600 original size:18 final size:19
Alignment explanation
Indices: 26811562--26811624 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
26811552 AAATTATTTG
*
26811562 TTTAGACTTTTAGACTTTAGT
1 TTTAGA-TTTTAG-TTTTAGT
26811583 TTTAG-TTTTAGTTTTAGT
1 TTTAGATTTTAGTTTTAGT
* *
26811601 TTTAGAATTTTATTTTTATT
1 TTTAG-ATTTTAGTTTTAGT
26811621 TTTA
1 TTTA
26811625 TTTATTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 11 0.30
19 6 0.16
20 15 0.41
21 5 0.14
ACGTcount: A:0.22, C:0.03, G:0.11, T:0.63
Consensus pattern (19 bp):
TTTAGATTTTAGTTTTAGT
Found at i:26813521 original size:26 final size:26
Alignment explanation
Indices: 26813485--26813536 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
26813475 GAATCCAAAG
26813485 TAAGGATCAAGGAAGATTTTGAAGAA
1 TAAGGATCAAGGAAGATTTTGAAGAA
26813511 TAAGGATCAAGGAAGATTTTGAAGAA
1 TAAGGATCAAGGAAGATTTTGAAGAA
26813537 CAAATTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.27, T:0.23
Consensus pattern (26 bp):
TAAGGATCAAGGAAGATTTTGAAGAA
Found at i:26814989 original size:26 final size:26
Alignment explanation
Indices: 26814953--26815004 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
26814943 GAATCCAAAG
26814953 TAAGGATCAAGGAAGATTTTGAAGAA
1 TAAGGATCAAGGAAGATTTTGAAGAA
26814979 TAAGGATCAAGGAAGATTTTGAAGAA
1 TAAGGATCAAGGAAGATTTTGAAGAA
26815005 CAAATTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.27, T:0.23
Consensus pattern (26 bp):
TAAGGATCAAGGAAGATTTTGAAGAA
Found at i:26816406 original size:27 final size:27
Alignment explanation
Indices: 26816364--26816463 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
26816354 TTGTTCTTTG
*
26816364 CCACAAAGACAATTCTTTCATAATGCT
1 CCACAAAGACATTTCTTTCATAATGCT
* * ** *
26816391 CCGCAAAGGCATTTCTTTTGTGATG-T
1 CCACAAAGACATTTCTTTCATAATGCT
*
26816417 GCCACAAAGACATTTCTTTCATAATGCA
1 -CCACAAAGACATTTCTTTCATAATGCT
* *
26816445 CCAAAAAGGCATTTCTTTC
1 CCACAAAGACATTTCTTTC
26816464 TTGACATGTT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
26 1 0.02
27 56 0.98
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (27 bp):
CCACAAAGACATTTCTTTCATAATGCT
Found at i:26821365 original size:85 final size:85
Alignment explanation
Indices: 26821269--26821451 Score: 289
Period size: 85 Copynumber: 2.2 Consensus size: 85
26821259 AAAATAGAAA
*
26821269 TGAAAATGAAAATTTGCAATCTTATA-AGGATTACTTAAAAACTTG-TCGGAAGAATAAGTTTAT
1 TGAAAATGAAAATTTGCAATCTTATATA-GATTACTTAAAAAC-AGATCGGAAGAATAAGTTTAT
* *
26821332 GTTTTTGGACTATTTTGAAGCT
64 GTTTTTGGACTAATTTGAAGCC
*
26821354 TGAAAATGAAAATTTGCAATCTTATATAGATTACTTAAAAACAGATTGGAAGAATAAGTTTATGT
1 TGAAAATGAAAATTTGCAATCTTATATAGATTACTTAAAAACAGATCGGAAGAATAAGTTTATGT
26821419 TTTTGGACTAATTTGAAGCC
66 TTTTGGACTAATTTGAAGCC
*
26821439 TGGAAATGAAAAT
1 TGAAAATGAAAAT
26821452 AAACTATTCG
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
84 1 0.01
85 89 0.98
86 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (85 bp):
TGAAAATGAAAATTTGCAATCTTATATAGATTACTTAAAAACAGATCGGAAGAATAAGTTTATGT
TTTTGGACTAATTTGAAGCC
Found at i:26823951 original size:50 final size:50
Alignment explanation
Indices: 26823827--26824067 Score: 268
Period size: 50 Copynumber: 4.8 Consensus size: 50
26823817 GATAATAACA
* * ** * * * **
26823827 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTATG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * ** * *
26823877 -GCCAATGCCATATTCCAAATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
26823926 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
*
26823976 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
*
26824026 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
26824068 TTACCCAAAT
Statistics
Matches: 162, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 37 0.23
50 125 0.77
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:26837459 original size:6 final size:6
Alignment explanation
Indices: 26837444--26837475 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
26837434 TATTTTTAAT
26837444 TTAT-A TTATAA TTATAA TTATAA TTATAA TTA
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTA
26837476 CCATAACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTATAA
Found at i:26837549 original size:16 final size:16
Alignment explanation
Indices: 26837522--26837560 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
26837512 ATTTGGTTCA
*
26837522 TTGTAATGGAATAAAG
1 TTGTAATAGAATAAAG
* *
26837538 TTTTAATAGAATAGAG
1 TTGTAATAGAATAAAG
26837554 TTGTAAT
1 TTGTAAT
26837561 CCGTAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (16 bp):
TTGTAATAGAATAAAG
Found at i:26837826 original size:17 final size:17
Alignment explanation
Indices: 26837801--26837848 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 17
26837791 TCATTAAATA
*
26837801 TAATTTAATAATATTTT
1 TAATATAATAATATTTT
26837818 TAATATAAT--TATTTT
1 TAATATAATAATATTTT
26837833 T-ATATTAA-AATATTTT
1 TAATA-TAATAATATTTT
26837849 ATTTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 3 0.11
15 10 0.37
16 6 0.22
17 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATATAATAATATTTT
Found at i:26837859 original size:31 final size:31
Alignment explanation
Indices: 26837810--26837894 Score: 86
Period size: 31 Copynumber: 2.7 Consensus size: 31
26837800 ATAATTTAAT
* * *
26837810 AATATTTTTAATATAATTAT-TTTT-ATATTAA
1 AATAGTTTTATTA-AATTATATTTTAAAATT-A
26837841 AATA-TTTTATTTTAAATTATATTTTAAAATTA
1 AATAGTTTTA--TTAAATTATATTTTAAAATTA
26837873 AATAGTTTTATTAAATTATATT
1 AATAGTTTTATTAAATTATATT
26837895 AAAATTTTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
30 5 0.11
31 22 0.47
32 11 0.23
33 9 0.19
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (31 bp):
AATAGTTTTATTAAATTATATTTTAAAATTA
Found at i:26837864 original size:17 final size:17
Alignment explanation
Indices: 26837811--26837894 Score: 58
Period size: 15 Copynumber: 5.3 Consensus size: 17
26837801 TAATTTAATA
*
26837811 ATATTTT-TAATATAATT
1 ATATTTTATATTA-AATT
26837828 AT-TTTTATATTAAA--
1 ATATTTTATATTAAATT
*
26837842 ATATTTTATTTTAAATT
1 ATATTTTATATTAAATT
*
26837859 ATATTTTAAAATT-AA--
1 ATATTTT-ATATTAAATT
*
26837874 ATAGTTT-TATTAAATT
1 ATATTTTATATTAAATT
26837890 ATATT
1 ATATT
26837895 AAAATTTTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 17
0.68 0.09 0.22
Matches are distributed among these distances:
13 3 0.06
14 4 0.08
15 17 0.33
16 10 0.19
17 15 0.29
18 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (17 bp):
ATATTTTATATTAAATT
Found at i:26838280 original size:44 final size:44
Alignment explanation
Indices: 26838217--26838301 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
26838207 TAATTGTAAA
* *
26838217 TTAAATTATAGTTACTTTTAAATGTGTAA-TTATCACAACTTTTG
1 TTAAATTATAATTACTTTTAAATGTATAACTT-TCACAACTTTTG
*
26838261 TTAAATTATAATTATTTTTAAATGTATAACTTTCACAACTT
1 TTAAATTATAATTACTTTTAAATGTATAACTTTCACAACTT
26838302 ATATATATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 35 0.95
45 2 0.05
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (44 bp):
TTAAATTATAATTACTTTTAAATGTATAACTTTCACAACTTTTG
Found at i:26845534 original size:14 final size:13
Alignment explanation
Indices: 26845519--26845571 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
26845509 TCTATCTTTC
26845519 TTTTCTTTAATTT
1 TTTTCTTTAATTT
*
26845532 CTTTACTTTAATTT
1 -TTTTCTTTAATTT
* *
26845546 TGTTCTTATTATTT
1 TTTTCTT-TAATTT
*
26845560 TTATCTTTAATT
1 TTTTCTTTAATT
26845572 ACTTAATGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTTCTTTAATTT
Found at i:26852201 original size:17 final size:15
Alignment explanation
Indices: 26852169--26852206 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
26852159 TGTTATTGGT
26852169 TGATTGTTGGTTGTG
1 TGATTGTTGGTTGTG
26852184 TGATTGTGTGGTT-TG
1 TGATTGT-TGGTTGTG
26852199 TG-TTGTTG
1 TGATTGTTG
26852207 AAGCGTTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 4 0.18
15 11 0.50
16 5 0.23
ACGTcount: A:0.05, C:0.00, G:0.39, T:0.55
Consensus pattern (15 bp):
TGATTGTTGGTTGTG
Found at i:26860560 original size:71 final size:70
Alignment explanation
Indices: 26860442--26860578 Score: 220
Period size: 71 Copynumber: 1.9 Consensus size: 70
26860432 TTAAAGTGTT
* * * *
26860442 TTTCAACTTGTTTTAAGATATTAGAAGGTTTCTAATGTTACATTGAATTTTTCGTTAAGAATTTT
1 TTTCAACTTGTTTTAACATATTAAAAGGTTTCTAACGTTACATTGAATTTTTCATTAAGAATTTT
26860507 TTGAG
66 TTGAG
*
26860512 TTTCAACTTGTTTTAACATGATTAAAAGGTTTCTAACGTTACTTTGAATTTTTCATTAAGAATTT
1 TTTCAACTTGTTTTAACAT-ATTAAAAGGTTTCTAACGTTACATTGAATTTTTCATTAAGAATTT
26860577 TT
65 TT
26860579 CGGTTTTAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
70 18 0.30
71 43 0.70
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (70 bp):
TTTCAACTTGTTTTAACATATTAAAAGGTTTCTAACGTTACATTGAATTTTTCATTAAGAATTTT
TTGAG
Found at i:26865134 original size:22 final size:21
Alignment explanation
Indices: 26865109--26865150 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
26865099 TTAAATAAAT
*
26865109 TTTAGTTAATTTAGTTTAAGTA
1 TTTAATTAATTTAG-TTAAGTA
26865131 TTTAATTAATTTAGTTAAGT
1 TTTAATTAATTTAGTTAAGT
26865151 GTTAAATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTAATTAATTTAGTTAAGTA
Found at i:26876254 original size:19 final size:18
Alignment explanation
Indices: 26876229--26876273 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
26876219 TTATTTATAT
**
26876229 AAATTTTTA-AAATTTTA
1 AAATTTTTATAAAAATTA
26876246 AGAATTTTTATAAAAATTA
1 A-AATTTTTATAAAAATTA
26876265 AAATTTTTA
1 AAATTTTTA
26876274 GATAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 16 0.67
19 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AAATTTTTATAAAAATTA
Found at i:26881560 original size:29 final size:29
Alignment explanation
Indices: 26881528--26881596 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
26881518 CATACACAGT
*
26881528 CAGATTCAGATTC-GGTCTTAAGTCCTTTA
1 CAGATTCAGATTCAGAT-TTAAGTCCTTTA
*
26881557 CAGATCCAGATTCAGATTTAAGTCCTTTA
1 CAGATTCAGATTCAGATTTAAGTCCTTTA
26881586 CAGATTCAGAT
1 CAGATTCAGAT
26881597 AACAGAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 34 0.94
30 2 0.06
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (29 bp):
CAGATTCAGATTCAGATTTAAGTCCTTTA
Found at i:26889381 original size:43 final size:43
Alignment explanation
Indices: 26889320--26889403 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
26889310 ATGCACAAAG
26889320 TAAGCTTTGGAAGCTTAGTAAGCCATAAGAAAATAAATCATAT
1 TAAGCTTTGGAAGCTTAGTAAGCCATAAGAAAATAAATCATAT
26889363 TAAGCTTTGGAAGCTTAGTAAGCCATAAGAAAATAAATCAT
1 TAAGCTTTGGAAGCTTAGTAAGCCATAAGAAAATAAATCAT
26889404 CTCAATGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (43 bp):
TAAGCTTTGGAAGCTTAGTAAGCCATAAGAAAATAAATCATAT
Found at i:26889729 original size:41 final size:40
Alignment explanation
Indices: 26889623--26889780 Score: 113
Period size: 43 Copynumber: 3.8 Consensus size: 40
26889613 AGCTCGTACA
* * * *
26889623 ATGCC-ATATCCCAGATATGGTCTTACATGTTAACGCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG--AA-TCATATCG
* * * * *
26889665 ATGCCACTATCCTAGACAGGGTCTTATACGAATCATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATCATAT-CG
* **
26889706 ATGCCAATGTCCCAAACATGGTCTTACACGTTTTC-TCACTTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCAT-A--TCG
*
26889749 ATGCCAATGTCCCAGACATGGTTTTACACGAA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAA
26889781 GTCACACCTT
Statistics
Matches: 91, Mismatches: 19, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
40 5 0.05
41 29 0.32
42 8 0.09
43 48 0.53
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (40 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATCATATCG
Found at i:26889953 original size:30 final size:30
Alignment explanation
Indices: 26889894--26890218 Score: 361
Period size: 30 Copynumber: 10.7 Consensus size: 30
26889884 ATCCAATGCT
*
26889894 CAAATCAATTCGGTAATATATATGTATACATTTA
1 CAAATCAATTCGGTAATATATATCTAT--A--TA
26889928 CAAATCAATTCGGTAATATATATAC-ATATA
1 CAAATCAATTCGGTAATATATAT-CTATATA
* *
26889958 CAAATCAATTCGGTAATTTATATCAATATA
1 CAAATCAATTCGGTAATATATATCTATATA
* * *
26889988 CAAAT-AATTCGGCAATGTATATCCATATA
1 CAAATCAATTCGGTAATATATATCTATATA
* *
26890017 CAAATCAATTCGACT-ATATTTATCTATATA
1 CAAATCAATTCG-GTAATATATATCTATATA
*
26890047 TAAATCAATTCGGTAATATATATCTATATA
1 CAAATCAATTCGGTAATATATATCTATATA
* * *
26890077 CAAATCAATTCGGCAATTTATATCAATATA
1 CAAATCAATTCGGTAATATATATCTATATA
* *
26890107 CAAATCAATTCGGCAATGTATATCTATATA
1 CAAATCAATTCGGTAATATATATCTATATA
* *
26890137 CAAATCAATTCCGCT-ATATTTATCTATATA
1 CAAATCAATT-CGGTAATATATATCTATATA
* * *
26890167 TAAATCAATTTGGTAATATATATCCATATA
1 CAAATCAATTCGGTAATATATATCTATATA
* * *
26890197 CAAACCAATTTGGCAATATATA
1 CAAATCAATTCGGTAATATATA
26890219 AAACATATAC
Statistics
Matches: 253, Mismatches: 31, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
29 30 0.12
30 195 0.77
31 2 0.01
32 1 0.00
34 25 0.10
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (30 bp):
CAAATCAATTCGGTAATATATATCTATATA
Found at i:26892140 original size:21 final size:20
Alignment explanation
Indices: 26892108--26892147 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
26892098 CCCGATTAAC
*
26892108 CAATGATTCACTAACCAAAA
1 CAATAATTCACTAACCAAAA
*
26892128 CAATAATTACACTTACCAAA
1 CAATAATT-CACTAACCAAA
26892148 CTTACCAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.23
Consensus pattern (20 bp):
CAATAATTCACTAACCAAAA
Found at i:26893938 original size:33 final size:33
Alignment explanation
Indices: 26893861--26893986 Score: 130
Period size: 33 Copynumber: 3.8 Consensus size: 33
26893851 CCCACCCATT
* *
26893861 TTTACTAT-CTAAGTGGACTATCTCTTTTTTGTG
1 TTTACTATCCCAA-TGGACTATCTCTGTTTTGTG
* * * *
26893894 TTTATTGTCCCAATGTACTATCTATGTTTTGTG
1 TTTACTATCCCAATGGACTATCTCTGTTTTGTG
** * *
26893927 TTTACTATCCCAGCGGACTATATCTGTTATGTG
1 TTTACTATCCCAATGGACTATCTCTGTTTTGTG
26893960 TTTACTATCCCAATTGG-CTATCTCTGT
1 TTTACTATCCCAA-TGGACTATCTCTGT
26893987 GGATGCCATA
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
33 69 0.93
34 5 0.07
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (33 bp):
TTTACTATCCCAATGGACTATCTCTGTTTTGTG
Found at i:26896691 original size:55 final size:55
Alignment explanation
Indices: 26896628--26896735 Score: 180
Period size: 55 Copynumber: 2.0 Consensus size: 55
26896618 TGAGATTCAT
*
26896628 AAGTTAGTCGTAGCACTGAAATTACGAGAATTTATGGTTCTATTTGAATGAGCAC
1 AAGTTAGTCGGAGCACTGAAATTACGAGAATTTATGGTTCTATTTGAATGAGCAC
* * *
26896683 AAGTTAGTCGGGGCACTGAAATTACGGGAATTTGTGGTTCTATTTGAATGAGC
1 AAGTTAGTCGGAGCACTGAAATTACGAGAATTTATGGTTCTATTTGAATGAGC
26896736 GCGGAAATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (55 bp):
AAGTTAGTCGGAGCACTGAAATTACGAGAATTTATGGTTCTATTTGAATGAGCAC
Found at i:26906989 original size:25 final size:24
Alignment explanation
Indices: 26906955--26907007 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
26906945 AAGTTCAAGT
26906955 GAGCCATATCAGGA-AGCTCACAAA
1 GAGCCATATCAGGACA-CTCACAAA
*
26906979 GAGCCTATATCAGGACACTCATAAA
1 GAGCC-ATATCAGGACACTCACAAA
26907004 GAGC
1 GAGC
26907008 TACGGTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 20 0.77
26 1 0.04
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (24 bp):
GAGCCATATCAGGACACTCACAAA
Found at i:26912978 original size:20 final size:21
Alignment explanation
Indices: 26912955--26913002 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
26912945 CACTCTCTTG
*
26912955 GCTTTTATCACACTC-GCAAT
1 GCTTTTATCACACTCACCAAT
*
26912975 GCTTTTA--ACCCTCACCAAT
1 GCTTTTATCACACTCACCAAT
26912994 GCTTTTATC
1 GCTTTTATC
26913003 CGCTCATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 5 0.22
19 11 0.48
20 7 0.30
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (21 bp):
GCTTTTATCACACTCACCAAT
Found at i:26928171 original size:3 final size:3
Alignment explanation
Indices: 26928163--26928198 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
26928153 TCAAATGTAA
26928163 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26928199 CTTATGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:26928560 original size:16 final size:16
Alignment explanation
Indices: 26928531--26928597 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
26928521 AAATATAAAT
*
26928531 ATAAATAGACATGAAA
1 ATAAATAAACATGAAA
*
26928547 ATAAATAAAGATG-AA
1 ATAAATAAACATGAAA
26928562 ATAAGA-ATAA-AT--AA
1 ATAA-ATA-AACATGAAA
*
26928576 ATAAATAAACATTAAA
1 ATAAATAAACATGAAA
26928592 ATAAAT
1 ATAAAT
26928598 TGCATAATGG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
13 3 0.07
14 9 0.21
15 9 0.21
16 22 0.51
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.22
Consensus pattern (16 bp):
ATAAATAAACATGAAA
Found at i:26929092 original size:6 final size:6
Alignment explanation
Indices: 26929081--26929115 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
26929071 GAATCCTCTT
26929081 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
26929116 GCAAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:26929758 original size:3 final size:3
Alignment explanation
Indices: 26929752--26929808 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
26929742 CTAAAAAAAG
* * * * * *
26929752 ATA ATA ATA ATA TTA ATTA ATA CTA ATA GTA GTA GTA ATG ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26929798 ATA ATA ATA AT
1 ATA ATA ATA AT
26929809 TTGGGCCTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:26933835 original size:21 final size:21
Alignment explanation
Indices: 26933797--26933856 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
26933787 GCTCACATGG
** *
26933797 GCATGTGTCCCCTCCACACGA
1 GCATGTGTGGCCTTCACACGA
* * *
26933818 GCATGTGTGGGCTTCACATGG
1 GCATGTGTGGCCTTCACACGA
*
26933839 GTATGTGTGGCCTTCACA
1 GCATGTGTGGCCTTCACA
26933857 TGGGTGTGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (21 bp):
GCATGTGTGGCCTTCACACGA
Found at i:26933857 original size:21 final size:21
Alignment explanation
Indices: 26933820--26933861 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
26933810 CCACACGAGC
*
26933820 ATGTGTGGGCTTCACATGGGT
1 ATGTGTGGCCTTCACATGGGT
26933841 ATGTGTGGCCTTCACATGGGT
1 ATGTGTGGCCTTCACATGGGT
26933862 GTGTAGACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.17, G:0.36, T:0.33
Consensus pattern (21 bp):
ATGTGTGGCCTTCACATGGGT
Found at i:26936627 original size:2 final size:2
Alignment explanation
Indices: 26936620--26936656 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
26936610 ACCTAACAAA
26936620 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
26936657 TATATATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:26937044 original size:18 final size:18
Alignment explanation
Indices: 26937018--26937053 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26937008 TTTAATTTTA
*
26937018 TGTTGTTTTATTTTATTT
1 TGTTATTTTATTTTATTT
*
26937036 TGTTATTTTCTTTTATTT
1 TGTTATTTTATTTTATTT
26937054 GAAAAAAATC
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:0.11, C:0.03, G:0.08, T:0.78
Consensus pattern (18 bp):
TGTTATTTTATTTTATTT
Found at i:26940764 original size:6 final size:6
Alignment explanation
Indices: 26940753--26940789 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
26940743 GACTTCTTTC
26940753 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA A
26940790 TAAATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:26942793 original size:15 final size:15
Alignment explanation
Indices: 26942773--26942804 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
26942763 TTTTGTACTG
26942773 AATTGTAAACAATTA
1 AATTGTAAACAATTA
26942788 AATTGTAAACAATTA
1 AATTGTAAACAATTA
26942803 AA
1 AA
26942805 ATTTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (15 bp):
AATTGTAAACAATTA
Found at i:26944835 original size:13 final size:13
Alignment explanation
Indices: 26944817--26944844 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
26944807 ATAAAATTAG
26944817 AAAGATGATAAAT
1 AAAGATGATAAAT
26944830 AAAGATGATAAAT
1 AAAGATGATAAAT
26944843 AA
1 AA
26944845 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:26945878 original size:26 final size:26
Alignment explanation
Indices: 26945846--26945897 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
26945836 ACCGCAACTC
26945846 TTATGAGCGTCCC-ATTATATGGCTCT
1 TTATGAGCGTCCCGATTA-ATGGCTCT
*
26945872 TTATGAGCTTCCCGATTAATGGCTCT
1 TTATGAGCGTCCCGATTAATGGCTCT
26945898 CTGGATCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (26 bp):
TTATGAGCGTCCCGATTAATGGCTCT
Found at i:26945965 original size:24 final size:24
Alignment explanation
Indices: 26945938--26945991 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
26945928 TTCCCGATAT
*
26945938 ATGGCTA-TCTGGAGCTCCCCGTTA
1 ATGGCTATTC-GGAGCTACCCGTTA
*
26945962 ATGGCTCTTCGGAGCTACCCGTTA
1 ATGGCTATTCGGAGCTACCCGTTA
*
26945986 TTGGCT
1 ATGGCT
26945992 CACATGAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.15, C:0.28, G:0.26, T:0.31
Consensus pattern (24 bp):
ATGGCTATTCGGAGCTACCCGTTA
Found at i:26947860 original size:16 final size:15
Alignment explanation
Indices: 26947825--26947854 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
26947815 GATACTAAAT
26947825 CTCATCCATATCAAA
1 CTCATCCATATCAAA
26947840 CTCATACCATATCAA
1 CTCAT-CCATATCAA
26947855 TATCATTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (15 bp):
CTCATCCATATCAAA
Found at i:26950541 original size:29 final size:27
Alignment explanation
Indices: 26950523--26950592 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
26950513 ATATTAAGTC
26950523 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
26950550 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
26950578 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
26950593 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:26950586 original size:28 final size:28
Alignment explanation
Indices: 26950523--26950620 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
26950513 ATATTAAGTC
*
26950523 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
26950550 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
26950578 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
26950607 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26950621 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:26953436 original size:19 final size:20
Alignment explanation
Indices: 26953395--26953442 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
26953385 GAGGCACCGG
* * *
26953395 AGTGCAAGCAGAAGCATCGA
1 AGTGCAAACAGAAGCACCAA
26953415 AGTGCAAACAG-AGCACCAA
1 AGTGCAAACAGAAGCACCAA
26953434 AGTGCAAAC
1 AGTGCAAAC
26953443 TCATACAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.08
Consensus pattern (20 bp):
AGTGCAAACAGAAGCACCAA
Found at i:26954356 original size:11 final size:10
Alignment explanation
Indices: 26954336--26954381 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
26954326 TGTTTTTATG
26954336 TTTTAACATA
1 TTTTAACATA
26954346 TTTTAAACATA
1 TTTT-AACATA
*
26954357 ATTTAACATTA
1 TTTTAACA-TA
*
26954368 TTTTAACTTA
1 TTTTAACATA
26954378 TTTT
1 TTTT
26954382 TCTCTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
10 14 0.45
11 17 0.55
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAACATA
Found at i:26958787 original size:14 final size:14
Alignment explanation
Indices: 26958755--26958815 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
26958745 TCACAATTTG
* *
26958755 ATTCTCAATTTCTT
1 ATTCTCGATTTGTT
*
26958769 GTTCTCGATTTGTT
1 ATTCTCGATTTGTT
* *
26958783 ATTCTC-AATTGTCA
1 ATTCTCGATTTGT-T
*
26958797 ATTCTCGATTTTTT
1 ATTCTCGATTTGTT
26958811 ATTCT
1 ATTCT
26958816 AAATTATTCG
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
13 5 0.14
14 27 0.75
15 4 0.11
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.56
Consensus pattern (14 bp):
ATTCTCGATTTGTT
Found at i:26958898 original size:15 final size:16
Alignment explanation
Indices: 26958876--26958912 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
26958866 GTAATAAAAT
*
26958876 ATTATTAAATTATTTA
1 ATTATTAAATTAGTTA
26958892 A-TATT-AATTAGTTA
1 ATTATTAAATTAGTTA
26958906 ATTATTA
1 ATTATTA
26958913 TGATGTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
14 9 0.50
15 8 0.44
16 1 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTATTAAATTAGTTA
Found at i:26958931 original size:51 final size:51
Alignment explanation
Indices: 26958871--26959021 Score: 248
Period size: 51 Copynumber: 2.9 Consensus size: 51
26958861 AAATGGTAAT
* * * *
26958871 AAAATATTATTAAATTATTTAATATTAATTAGTTAATTATTATGATGTTAAG
1 AAAA-ATTATTTAATGATTTAATTTTAAATAGTTAATTATTATGATGTTAAG
26958923 AAAAATTATTTAATGATTTAATTTTAAATAGTTAATTATTATGATGTTAAG
1 AAAAATTATTTAATGATTTAATTTTAAATAGTTAATTATTATGATGTTAAG
*
26958974 AAAAATTATTTAATGATTTAATTTTAAATAGTTAATTATTATGTTGTT
1 AAAAATTATTTAATGATTTAATTTTAAATAGTTAATTATTATGATGTT
26959022 TATATTAGTA
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
51 90 0.96
52 4 0.04
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (51 bp):
AAAAATTATTTAATGATTTAATTTTAAATAGTTAATTATTATGATGTTAAG
Found at i:26972563 original size:21 final size:20
Alignment explanation
Indices: 26972539--26972608 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
26972529 TATTGAAAAA
26972539 TATAAAAATTAG-AAATTTTTT
1 TATAAAAA-TAGTAAA-TTTTT
* *
26972560 TATAGAAATCGTAAATTTTT
1 TATAAAAATAGTAAATTTTT
* **
26972580 TATAAAATATTGTAAA-AATT
1 TATAAAA-ATAGTAAATTTTT
26972600 TATAAAAAT
1 TATAAAAAT
26972609 CATAAAGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 2 0.05
20 22 0.54
21 17 0.41
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (20 bp):
TATAAAAATAGTAAATTTTT
Found at i:26972915 original size:21 final size:20
Alignment explanation
Indices: 26972834--26972915 Score: 55
Period size: 21 Copynumber: 4.0 Consensus size: 20
26972824 TTTTTATGAA
*
26972834 TTTTATATTTCTTTATA-TT
1 TTTTATATTTCTATATATTT
*
26972853 TTTTATAATATTCT-TACTACTT
1 TTTTAT-AT-TTCTATA-TATTT
* *
26972875 TTTAAAATTT-TATA-ATTTT
1 TTTTATATTTCTATATA-TTT
26972894 TTTCTATATTTCTATATATTT
1 TTT-TATATTTCTATATATTT
26972915 T
1 T
26972916 ATAAATTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 13 0.27
21 16 0.33
22 7 0.14
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTATATTTCTATATATTT
Found at i:26972938 original size:61 final size:63
Alignment explanation
Indices: 26972837--26972958 Score: 144
Period size: 61 Copynumber: 2.0 Consensus size: 63
26972827 TTATGAATTT
* * * * *
26972837 TATATTTCTTTATATTTTTTATAATATTCTTACTACTTTTTA-A-AATTTTATAATTTTTTTC
1 TATATTTCTATATATTTTATATAATATTCTTACGACTTTTTATATAATTTTACAATCTTTTTC
*
26972898 TATATTTCTATATATTTTATA-AATTTTCTTTTACGA-TTTTTATATAATTTTACAATCTTTT
1 TATATTTCTATATATTTTATATAATATTC--TTACGACTTTTTATATAATTTTACAATCTTTT
26972959 ATAATTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
60 6 0.12
61 25 0.49
62 6 0.12
63 14 0.27
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (63 bp):
TATATTTCTATATATTTTATATAATATTCTTACGACTTTTTATATAATTTTACAATCTTTTTC
Found at i:26972967 original size:19 final size:19
Alignment explanation
Indices: 26972926--26972966 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
26972916 ATAAATTTTC
*
26972926 TTTTACGATTTTTATATAA
1 TTTTACAATTTTTATATAA
*
26972945 TTTTACAATCTTT-TATAA
1 TTTTACAATTTTTATATAA
26972963 TTTT
1 TTTT
26972967 TTTTATGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTACAATTTTTATATAA
Found at i:26972968 original size:10 final size:10
Alignment explanation
Indices: 26972834--26973070 Score: 52
Period size: 10 Copynumber: 23.4 Consensus size: 10
26972824 TTTTTATGAA
26972834 TTTTAT-ATT
1 TTTTATAATT
26972843 TCTTTAT-ATT
1 T-TTTATAATT
26972853 TTTTATAATAT
1 TTTTATAAT-T
* *
26972864 TCTTACT-ACT
1 TTTTA-TAATT
*
26972874 TTTTA-AA-A
1 TTTTATAATT
26972882 TTTTATAATT
1 TTTTATAATT
*
26972892 TTTT-TCTATAT
1 TTTTAT-AAT-T
* *
26972903 TTCTAT-ATA
1 TTTTATAATT
26972912 TTTTATAAATT
1 TTTTAT-AATT
*
26972923 TTCTTTTACGATT
1 TT-TTATA--ATT
26972936 TTTATATAA--
1 TTT-TATAATT
* *
26972945 TTTTACAATC
1 TTTTATAATT
26972955 TTTTATAATT
1 TTTTATAATT
*
26972965 TTTT-TTATGAT
1 TTTTATAAT--T
26972976 TTTTATAATTTT
1 TTTTATAA--TT
*
26972988 TTTTCTAATT
1 TTTTATAATT
* *
26972998 TTTAATAA-A
1 TTTTATAATT
26973007 TTTTA-AATACT
1 TTTTATAAT--T
*
26973018 TTTTAT-GTT
1 TTTTATAATT
**
26973027 TTTTATTAAAA
1 TTTTA-TAATT
* *
26973038 TTTAATCA-T
1 TTTTATAATT
26973047 TTTTATAATT
1 TTTTATAATT
*
26973057 TTTTATCATT
1 TTTTATAATT
26973067 TTTT
1 TTTT
26973071 GCCACATGTC
Statistics
Matches: 165, Mismatches: 33, Indels: 59
0.64 0.13 0.23
Matches are distributed among these distances:
8 11 0.07
9 37 0.22
10 61 0.37
11 31 0.19
12 16 0.10
13 8 0.05
14 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:26972968 original size:30 final size:30
Alignment explanation
Indices: 26972934--26973062 Score: 79
Period size: 30 Copynumber: 4.2 Consensus size: 30
26972924 TCTTTTACGA
26972934 TTTTTATATAATTTTACAATCTTTTATAAT
1 TTTTTATATAATTTTACAATCTTTTATAAT
* * * * *
26972964 TTTTTTTATGATTTTTATAATTTTTTTTCTAAT
1 TTTTTATAT-AATTTTACAA--TCTTTTATAAT
* *
26972997 TTTTAATA-AATTTTA-AATACTTTT-TATGT
1 TTTTTATATAATTTTACAAT-CTTTTATA-AT
* *
26973026 TTTTTATTAAAATTTAATC-AT-TTTTATAAT
1 TTTTTA-TATAATTTTA-CAATCTTTTATAAT
26973056 TTTTTAT
1 TTTTTAT
26973063 CATTTTTTGC
Statistics
Matches: 76, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
28 3 0.04
29 11 0.14
30 23 0.30
31 22 0.29
32 2 0.03
33 15 0.20
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (30 bp):
TTTTTATATAATTTTACAATCTTTTATAAT
Found at i:26972969 original size:21 final size:21
Alignment explanation
Indices: 26972912--26973010 Score: 78
Period size: 21 Copynumber: 4.6 Consensus size: 21
26972902 TTTCTATATA
*
26972912 TTTTATAAATTTTCTTTTACGAT
1 TTTTAT-AATTTT-TTTTACAAT
**
26972935 TTTTAT-A-TAATTTTACAAT
1 TTTTATAATTTTTTTTACAAT
**
26972954 CTTTTATAATTTTTTTTATGAT
1 -TTTTATAATTTTTTTTACAAT
26972976 TTTTATAATTTTTTTT-CTAAT
1 TTTTATAATTTTTTTTAC-AAT
*
26972997 TTTTAATAAATTTT
1 TTTT-ATAATTTTT
26973011 AAATACTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
19 8 0.13
20 7 0.11
21 24 0.39
22 16 0.26
23 6 0.10
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTATAATTTTTTTTACAAT
Found at i:26972972 original size:12 final size:12
Alignment explanation
Indices: 26972955--26973000 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
26972945 TTTTACAATC
26972955 TTTTATAATTTT
1 TTTTATAATTTT
*
26972967 TTTTATGA---T
1 TTTTATAATTTT
26972976 TTTTATAATTTT
1 TTTTATAATTTT
*
26972988 TTTTCTAATTTT
1 TTTTATAATTTT
26973000 T
1 T
26973001 AATAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 8 0.29
12 20 0.71
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:26973059 original size:9 final size:9
Alignment explanation
Indices: 26972812--26972988 Score: 65
Period size: 9 Copynumber: 18.0 Consensus size: 9
26972802 TTTTAGTATG
26972812 ATAATTTTT
1 ATAATTTTT
26972821 AT-ATTTTT
1 ATAATTTTT
26972829 ATGAA-TTTT
1 AT-AATTTTT
*
26972838 ATATTTCTTT
1 ATAATT-TTT
*
26972848 ATATTTTTT
1 ATAATTTTT
26972857 ATAATATTCTT
1 ATAAT-TT-TT
*
26972868 ACTACTTTTT
1 A-TAATTTTT
*
26972878 A-AAATTTT
1 ATAATTTTT
26972886 ATAATTTTTTT
1 ATAA--TTTTT
* *
26972897 CTATATTTCT
1 ATA-ATTTTT
26972907 AT-ATATTTT
1 ATAAT-TTTT
26972916 ATAAATTTTCTT
1 AT-AA-TTT-TT
*
26972928 TTACGATTTTT
1 ATA--ATTTTT
*
26972939 ATATAATTTT
1 ATA-ATTTTT
*
26972949 ACAATCTTTT
1 ATAAT-TTTT
26972959 ATAATTTTTTTT
1 ATAA---TTTTT
*
26972971 ATGATTTTT
1 ATAATTTTT
26972980 ATAATTTTT
1 ATAATTTTT
26972989 TTTCTAATTT
Statistics
Matches: 127, Mismatches: 19, Indels: 44
0.67 0.10 0.23
Matches are distributed among these distances:
8 17 0.13
9 37 0.29
10 34 0.27
11 19 0.15
12 18 0.14
13 2 0.02
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:26973302 original size:97 final size:92
Alignment explanation
Indices: 26973154--26973345 Score: 235
Period size: 97 Copynumber: 2.0 Consensus size: 92
26973144 AATTGAGTGC
* *
26973154 AAAAAAAAAGTAAGACTTAATTGCTTTTTTGAAAAAGTTTAAGGACCTTTTTGATGAATTTTGAA
1 AAAAAAAAAGTAAGACTTAATTGCTTTTTTGAAAAAATTTAAGGACCTTTTTGATGAATTGTGAA
*
26973219 AGTTCAAATA-CCTAATTGAGTGAAAAGA
66 AGTTCAAATATCC-AAGTGAGTGAAAA-A
* ** *
26973247 AAAAAAGAAAGT-AGAAGCTTAATTGCTTTTTTTGAAAAAAATTTGAGGGTCTTTTTGATGCATT
1 AAAAAA-AAAGTAAG-A-CTTAATTGC-TTTTTTG-AAAAAATTTAAGGACCTTTTTGATGAATT
*
26973311 GTGAAAGTTCAAGTATCCAAGTGAGTGAAAAA
61 GTGAAAGTTCAAATATCCAAGTGAGTGAAAAA
26973343 AAA
1 AAA
26973346 TACTTAATTT
Statistics
Matches: 85, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
93 8 0.09
94 6 0.07
95 9 0.11
96 11 0.13
97 49 0.58
98 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.32
Consensus pattern (92 bp):
AAAAAAAAAGTAAGACTTAATTGCTTTTTTGAAAAAATTTAAGGACCTTTTTGATGAATTGTGAA
AGTTCAAATATCCAAGTGAGTGAAAAA
Found at i:26973993 original size:34 final size:33
Alignment explanation
Indices: 26973951--26974074 Score: 142
Period size: 34 Copynumber: 3.7 Consensus size: 33
26973941 TGATTTTAAA
** *
26973951 AATTAAATTAGGGTTTATAATTTTAAAAAAAATT
1 AATTAAATTAGGGTTTAGGATTTT-AAATAAATT
* * *
26973985 AATTAAATTAGGTTTTAGGGGTTTTAAGTAAATT
1 AATTAAATTAGGGTTTA-GGATTTTAAATAAATT
*
26974019 AATTAAA-TAGGGTTTAGGATTTTTAATAAATT
1 AATTAAATTAGGGTTTAGGATTTTAAATAAATT
* *
26974051 AATTAAATTAGTGTTTAGGGTTTT
1 AATTAAATTAGGGTTTAGGATTTT
26974075 TTAAAAATAA
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
32 20 0.26
33 22 0.29
34 30 0.39
35 4 0.05
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (33 bp):
AATTAAATTAGGGTTTAGGATTTTAAATAAATT
Found at i:26974043 original size:33 final size:33
Alignment explanation
Indices: 26973951--26974075 Score: 144
Period size: 33 Copynumber: 3.8 Consensus size: 33
26973941 TGATTTTAAA
** * *
26973951 AATTAAATTAGGGTTTATAATTTTAAAAAAAATT
1 AATTAAATTAGGGTTTAGGATTTT-TAATAAATT
* **
26973985 AATTAAATTAGGTTTTAGGGGTTTTAAGTAAATT
1 AATTAAATTAGGGTTTAGGATTTTTAA-TAAATT
26974019 AATTAAA-TAGGGTTTAGGATTTTTAATAAATT
1 AATTAAATTAGGGTTTAGGATTTTTAATAAATT
* *
26974051 AATTAAATTAGTGTTTAGGGTTTTT
1 AATTAAATTAGGGTTTAGGATTTTT
26974076 TAAAAATAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
32 13 0.17
33 33 0.43
34 31 0.40
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (33 bp):
AATTAAATTAGGGTTTAGGATTTTTAATAAATT
Found at i:26974443 original size:126 final size:126
Alignment explanation
Indices: 26974186--26974686 Score: 639
Period size: 126 Copynumber: 4.0 Consensus size: 126
26974176 AGTAGTTTCC
* * **
26974186 AAAAAATTAATTTTGAGCAGACGGTTTTGAAAAAATAGTGACAAAAACGCTTCAAGCAGGATGCA
1 AAAAAA-TAATTTTGAGAAGACAGTTTTGAAAAAATAGTGTTAAAAACGCTTCAAGCAGGATGCA
* * * * * * *
26974251 CCGTCAGCAAAAGTACT-AAAAAAGTTCCTACGTGAACGTTCTTTTTCTATAGTAGTTTTTG
65 CTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTG
* * *
26974312 AAAAAATAATTTTGAGAAAAC-GTTTCTGAAAAAATAATGTTAAAAACGCTTCAAGCAGTATGCA
1 AAAAAATAATTTTGAGAAGACAGTTT-TGAAAAAATAGTGTTAAAAACGCTTCAAGCAGGATGCA
* *
26974376 CTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGTTCTTTTTCTACAATAGTTCTTG
65 CTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTG
* * * *
26974438 AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAAACGCTTCAAGTAGGATGCAC
1 AAAAAATAATTTTGAGAAGACAGTTTTGAAAAAATAGTGTTAAAAACGCTTCAAGCAGGATGCAC
* * * *
26974503 TGTCAGTAAAATTACTAAAAAAAGCTCCCACGTAGG-CGCTCTTTTTCTACAGTAGTTCCTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGT-GGACGCTCTTTTTCTACAGTAGTTCTTG
* * ** *
26974564 AAAAACTAATTTTAAGAAGACAGTTTTGAAAAAATAGTGTTAAAAACGCTTCAAATAGGATGCGC
1 AAAAAATAATTTTGAGAAGACAGTTTTGAAAAAATAGTGTTAAAAACGCTTCAAGCAGGATGCAC
* * * * *
26974629 TATCAGCAAAATTACTGAAAAAAAGATCCCATGTGGACGCTCTTTTTCTATAGTAGTT
66 TGTCAGCAAAAGTACTG-AAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
26974687 TCTGCTTGGC
Statistics
Matches: 331, Mismatches: 38, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
124 4 0.01
125 63 0.19
126 225 0.68
127 39 0.12
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
AAAAAATAATTTTGAGAAGACAGTTTTGAAAAAATAGTGTTAAAAACGCTTCAAGCAGGATGCAC
TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTG
Found at i:26979808 original size:26 final size:24
Alignment explanation
Indices: 26979754--26979807 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 24
26979744 ACTGTTATAA
* *
26979754 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAAATAATT
26979778 AAAATTACATAAATGAAAAAATATATT
1 AAAATTACA-AAAT-AAAAAATA-ATT
26979805 AAA
1 AAA
26979808 TAATATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 4 0.16
26 7 0.28
27 6 0.24
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAATTACAAAATAAAAAATAATT
Found at i:26982331 original size:17 final size:18
Alignment explanation
Indices: 26982317--26982379 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 18
26982307 ATAATCTTCG
26982317 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
26982335 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
* *
26982354 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
26982373 A-GATATG
1 AGGATATG
26982380 ATTTTGTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.14
18 1 0.02
19 35 0.83
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:26982343 original size:19 final size:19
Alignment explanation
Indices: 26982319--26982372 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
26982309 AATCTTCGAG
26982319 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26982338 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
26982357 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
26982373 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:26982398 original size:22 final size:22
Alignment explanation
Indices: 26982332--26982395 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 22
26982322 ATGCAATCTT
*
26982332 AGATATGATATGCAATCTT---
1 AGATATGATATGTAATCTTAGA
26982351 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
26982373 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
26982396 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.46
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:26982405 original size:22 final size:23
Alignment explanation
Indices: 26982361--26982405 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
26982351 AGATATGATA
*
26982361 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
26982384 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
26982406 GTACATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:26982590 original size:19 final size:21
Alignment explanation
Indices: 26982566--26982604 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
26982556 GGCTTACTGT
*
26982566 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
26982585 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
26982605 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:26989825 original size:44 final size:44
Alignment explanation
Indices: 26989772--26990092 Score: 129
Period size: 44 Copynumber: 7.3 Consensus size: 44
26989762 GATCGAAGAC
*
26989772 ACCAG-CCTTGCCTCCCTAGGTTGCAGCGGAGCAGGCTAAAAAT
1 ACCAGACCTTGCCTCCCTAGGTTGCAGCGAAGCAGGCTAAAAAT
* * *** * * * *
26989815 AACAGACCTTGCCTTCCT-GCACCGACAGCGAAGCA-GATCGAAGAC
1 ACCAGACCTTGCCTCCCTAG-GTTG-CAGCGAAGCAGGCT-AAAAAT
* *
26989860 ACCAG-CCTTGCCTCCCTGGGTTGCAGTGAAGCAGGCTAAAAAT
1 ACCAGACCTTGCCTCCCTAGGTTGCAGCGAAGCAGGCTAAAAAT
* * * ***** * * *
26989903 AGCAGATCTTGCCTTCCTTTACCGACAGCGAAGCA-GATCGAAGAT
1 ACCAGACCTTGCCTCCCTAGGTTG-CAGCGAAGCAGGCT-AAAAAT
* * *
26989948 ACCAG-CCTTACCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAAT
1 ACCAGACCTTGCCTCCCTAGGTTGCAGCGAAGCAGGCTAAAAAT
* * * **** * * ** *
26989991 AGCAGATCTTGCCTTCCTACACCGATAGCGAAGCA-GATCGAAGT
1 ACCAGACCTTGCCTCCCTAGGTTG-CAGCGAAGCAGGCTAAAAAT
* *
26990035 CACCAG-CCTTGCTTCCCTAGGTTGCAGC-AGAGCAGGCTGAAAAT
1 -ACCAGACCTTGCCTCCCTAGGTTGCAGCGA-AGCAGGCTAAAAAT
* *
26990079 AGCAGATCTTGCCT
1 ACCAGACCTTGCCT
26990093 TCCTGCACCG
Statistics
Matches: 186, Mismatches: 76, Indels: 31
0.63 0.26 0.11
Matches are distributed among these distances:
42 1 0.01
43 49 0.26
44 90 0.48
45 46 0.25
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (44 bp):
ACCAGACCTTGCCTCCCTAGGTTGCAGCGAAGCAGGCTAAAAAT
Found at i:26990241 original size:88 final size:88
Alignment explanation
Indices: 26989377--26990204 Score: 1125
Period size: 88 Copynumber: 9.4 Consensus size: 88
26989367 GTGAAGATAA
* * * * * *
26989377 CAGATCTTGCATTCATGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * * *
26989442 GCAACAGAGCATGTTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * *
26989465 CAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGTCACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
26989530 GCAGCGGAGTAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * ** * *
26989553 CAAATCTTGTCTTCCTGCACTGACAGCGAAACAGATCGAAGACATTAGCCTTACCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
26989618 GCAGCGGAGTAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * * *
26989641 CAGATCTTGCCTTTCTACACCGACAGAGAAGCAGATCGAAGACACCAGCCTTGCTTCCTTGGGAT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
26989706 GTAGCAGAGCAGGCTAAAAATAA
66 GCAGCGGAGCAGGCTAAAAATAG
* ** *
26989729 TAGATCTTGCCTTCCTGCACCGACAGTAAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
26989794 GCAGCGGAGCAGGCTAAAAATAA
66 GCAGCGGAGCAGGCTAAAAATAG
*
26989817 CAGACCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
26989882 GCAGTGAAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
** * *
26989905 CAGATCTTGCCTTCCTTTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTACCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
26989970 GCAGCGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * *
26989993 CAGATCTTGCCTTCCTACACCGATAGCGAAGCAGATCGAAGTCACCAGCCTTGCTTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
26990058 GCAGCAGAGCAGGCTGAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * *
26990081 CAGATCTTGCCTTCCTGCACCGACAACGAAGTAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
26990146 GCAGTGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * *
26990169 CAGATCTTACCTTCCTGCACTGACAGTGAAGAAGAT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
26990205 TGATGACCCC
Statistics
Matches: 655, Mismatches: 85, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 655 1.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGCTAAAAATAG
Found at i:26990268 original size:44 final size:44
Alignment explanation
Indices: 26990218--26990549 Score: 405
Period size: 44 Copynumber: 7.7 Consensus size: 44
26990208 TGACCCCAAC
*
26990218 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
26990262 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
26990306 TCTATCTCCCT-GTGCAGCAGTAGAATAGATT-AA-A----GAAT
1 CCTATCTCCCTGGT-CAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
26990344 CCTATCTCCCTAGAT-AGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
**
26990388 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTAAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * * *
26990432 TCTATCTCCCTGGGCAGCAATGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGA-AT
* *
26990476 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
26990520 CCTATCTCCCTGAG-CAGCAGTGGAGTAGGT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGT
26990550 GGAAAATAGA
Statistics
Matches: 247, Mismatches: 28, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
38 28 0.11
39 2 0.01
40 2 0.01
42 1 0.00
43 7 0.03
44 205 0.83
45 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:26990373 original size:126 final size:131
Alignment explanation
Indices: 26990218--26990549 Score: 498
Period size: 126 Copynumber: 2.6 Consensus size: 131
26990208 TGACCCCAAC
26990218 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
* * *
26990283 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGTGCAGCAGTAGAATAGATT-AA-A-G-A-A
66 GGAATAGGTTGAAGATTAAGAATTCTATCTCCCTGGGCAGCAATAGAATAGATTGAAGATGTAGA
26990343 T
131 T
*
26990344 CCTATCTCCCTAGAT-AGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAG
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAG
*
26990408 TGGAATAGGTTGAAGATTAAGAATTCTATCTCCCTGGGCAGCAATGGAATAGATTGAAGATTGTA
65 TGGAATAGGTTGAAGATTAAGAATTCTATCTCCCTGGGCAGCAATAGAATAGATTGAAGA-TGTA
*
26990473 GGT
129 GAT
* * *
26990476 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAACCCTATCTCCCTGAG-CAGCAG
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTG-GTCAGCAG
*
26990540 TGGAGTAGGT
65 TGGAATAGGT
26990550 GGAAAATAGA
Statistics
Matches: 186, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
126 111 0.60
127 4 0.02
128 1 0.01
130 1 0.01
131 3 0.02
132 65 0.35
133 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (131 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
GGAATAGGTTGAAGATTAAGAATTCTATCTCCCTGGGCAGCAATAGAATAGATTGAAGATGTAGA
T
Found at i:26991416 original size:21 final size:21
Alignment explanation
Indices: 26991391--26991434 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
26991381 ACCTTCGAGG
26991391 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
26991412 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
26991433 AT
1 AT
26991435 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:26991440 original size:19 final size:19
Alignment explanation
Indices: 26991390--26991445 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
26991380 AACCTTCGAG
26991390 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26991409 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
26991430 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
26991446 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:26991452 original size:22 final size:23
Alignment explanation
Indices: 26991403--26991468 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
26991393 ATGCAATCTT
*
26991403 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
26991424 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
26991446 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
26991469 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:26991478 original size:22 final size:23
Alignment explanation
Indices: 26991434--26991478 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
26991424 AGATATGATA
*
26991434 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
26991457 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
26991479 GTAGATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:26991901 original size:15 final size:15
Alignment explanation
Indices: 26991877--26991914 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
26991867 GTTTTTAGTC
26991877 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
26991891 TGTTATTATTATTTT
1 TATTATTATTAATTT
26991906 TATTATTAT
1 TATTATTAT
26991915 ATTATATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:26991908 original size:12 final size:12
Alignment explanation
Indices: 26991879--26991929 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
26991869 TTTTAGTCTA
26991879 TTTTATTAATT-T
1 TTTTATT-ATTAT
*
26991891 TGTTATTATTAT
1 TTTTATTATTAT
26991903 TTTTATTATTAT
1 TTTTATTATTAT
26991915 ATTATATATTATTAT
1 -TT-T-TATTATTAT
26991930 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
11 3 0.09
12 18 0.55
13 2 0.06
14 1 0.03
15 9 0.27
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:26991924 original size:15 final size:13
Alignment explanation
Indices: 26991893--26991930 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
26991883 ATTAATTTTG
26991893 TTATTATTAT-TT
1 TTATTATTATATT
26991905 TTATTATTATATT
1 TTATTATTATATT
26991918 ATATATTATTATA
1 -T-TATTATTATA
26991931 CCTACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATTATTATATT
Found at i:26996538 original size:14 final size:14
Alignment explanation
Indices: 26996519--26996557 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
26996509 TTGTTTCACT
*
26996519 GAAAATGACTTTCG
1 GAAAATGACTTTCA
* *
26996533 GAAAATGATTTTTA
1 GAAAATGACTTTCA
26996547 GAAAATGACTT
1 GAAAATGACTT
26996558 ACTTTTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (14 bp):
GAAAATGACTTTCA
Found at i:26997164 original size:18 final size:18
Alignment explanation
Indices: 26997128--26997166 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26997118 TTATTATTTT
*
26997128 TAAAATTTACTATTGAAA
1 TAAAATTTAATATTGAAA
26997146 TAAAATTTAAATATT-AAA
1 TAAAATTT-AATATTGAAA
26997164 TAA
1 TAA
26997167 TTTATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
TAAAATTTAATATTGAAA
Found at i:26997284 original size:13 final size:14
Alignment explanation
Indices: 26997261--26997293 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
26997251 AATATTAAAA
26997261 ATATATAATATTTT
1 ATATATAATATTTT
26997275 ATAT-TAATATTTT
1 ATATATAATATTTT
*
26997288 AAATAT
1 ATATAT
26997294 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATATAATATTTT
Found at i:26999813 original size:27 final size:27
Alignment explanation
Indices: 26999775--26999866 Score: 154
Period size: 27 Copynumber: 3.5 Consensus size: 27
26999765 AAAGTTAAAA
26999775 AGTATATATTATATAATATTAAAACTT
1 AGTATATATTATATAATATTAAAACTT
*
26999802 AGTATAAATTATAT--TA-TAAAACTT
1 AGTATATATTATATAATATTAAAACTT
26999826 AGTATATATTATATAATATTAAAACTT
1 AGTATATATTATATAATATTAAAACTT
26999853 AGTATATATTATAT
1 AGTATATATTATAT
26999867 TGTATATTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
24 21 0.35
25 2 0.03
26 2 0.03
27 35 0.58
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (27 bp):
AGTATATATTATATAATATTAAAACTT
Found at i:27000970 original size:40 final size:40
Alignment explanation
Indices: 27000850--27000988 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
27000840 ACTTCGAGTT
* * * *
27000850 GATGAGACATTGGGTGTCAATTTATTACTTTAGATTAATTC
1 GATGAGACACTGGGTGTCAAATTATTACTTCAGATT-ATCC
* * * * *
27000891 GATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGCC
1 GATGAGACACTGGGTGTCAAATTATTACTTCAGATTATCC
*
27000928 GATGAGACACTGGGTGTCAAATTATTACTTCAAATTATCC
1 GATGAGACACTGGGTGTCAAATTATTACTTCAGATTATCC
* * *
27000968 GATGAGGCATTGGGTGCCAAA
1 GATGAGACACTGGGTGTCAAA
27000989 CTGGTGTATT
Statistics
Matches: 77, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 17 0.22
38 12 0.16
39 2 0.03
40 32 0.42
41 14 0.18
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCAGATTATCC
Found at i:27003218 original size:29 final size:31
Alignment explanation
Indices: 27003186--27003246 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
27003176 AAACCTTTTT
*
27003186 ACTTTCCCCCCAATA-TTTTAC-TCCCTCCC
1 ACTTTCCCCCCAAAACTTTTACTTCCCTCCC
*
27003215 ACTTTCCCCCCAAAACTTTTACTTTCCTCCC
1 ACTTTCCCCCCAAAACTTTTACTTCCCTCCC
27003246 A
1 A
27003247 TCCCAACCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 14 0.50
30 6 0.21
31 8 0.29
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTTCCCTCCC
Found at i:27011591 original size:26 final size:26
Alignment explanation
Indices: 27011561--27011619 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
27011551 AAACTTTTCT
*
27011561 AAAAGAAGCTTAAGAGAAATTCTTAA
1 AAAAGAAGCTCAAGAGAAATTCTTAA
27011587 AAAAGAAGCTCAAGAGAAATTCTTAA
1 AAAAGAAGCTCAAGAGAAATTCTTAA
27011613 AAAAGAA
1 AAAAGAA
27011620 AACTCAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.19
Consensus pattern (26 bp):
AAAAGAAGCTCAAGAGAAATTCTTAA
Found at i:27011640 original size:27 final size:26
Alignment explanation
Indices: 27011561--27011632 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
27011551 AAACTTTTCT
* *
27011561 AAAAGAAGCTTAAGAGAAATTCTTAA
1 AAAAGAAACTCAAGAGAAATTCTTAA
*
27011587 AAAAGAAGCTCAAGAGAAATTCTTAA
1 AAAAGAAACTCAAGAGAAATTCTTAA
27011613 AAAAGAAAACTCAAAGAGAA
1 AAAAG-AAACTC-AAGAGAA
27011633 TTTATAAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 30 0.71
27 5 0.12
28 7 0.17
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (26 bp):
AAAAGAAACTCAAGAGAAATTCTTAA
Found at i:27026377 original size:4 final size:4
Alignment explanation
Indices: 27026364--27026457 Score: 68
Period size: 4 Copynumber: 22.0 Consensus size: 4
27026354 ATTTTCCTAC
*
27026364 TTTA -TTA TTTA TTTA TTTA TTTA TTCTA -TTA TTTTA TTTTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA -TTTA -TTTA TTTA TTTA
*
27026413 TTTTA TTT- TATTA TTTGG TTTA TGTTTA TTTCA TTTA TTTA TTTA
1 -TTTA TTTA T-TTA TTT-A TTTA --TTTA TTT-A TTTA TTTA TTTA
27026458 CCCTAATTAG
Statistics
Matches: 75, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
3 6 0.08
4 43 0.57
5 22 0.29
6 4 0.05
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:27026399 original size:13 final size:13
Alignment explanation
Indices: 27026364--27026428 Score: 66
Period size: 13 Copynumber: 5.2 Consensus size: 13
27026354 ATTTTCCTAC
27026364 TTTATTA-TTTA-
1 TTTATTATTTTAT
27026375 TTTATT-TATTTAT
1 TTTATTAT-TTTAT
*
27026388 TCTATTATTTTAT
1 TTTATTATTTTAT
*
27026401 TTTATTTTTTTAT
1 TTTATTATTTTAT
27026414 TTTATT-TTATTAT
1 TTTATTATT-TTAT
27026427 TT
1 TT
27026429 GGTTTATGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
11 6 0.13
12 6 0.13
13 33 0.72
14 1 0.02
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:27026400 original size:5 final size:5
Alignment explanation
Indices: 27026392--27026424 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
27026382 ATTTATTCTA
27026392 TTATT TTATT TTA-T TT-TT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT
27026425 ATTTGGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 6 0.23
5 20 0.77
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:27026406 original size:18 final size:18
Alignment explanation
Indices: 27026379--27026424 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
27026369 TATTTATTTA
27026379 TTTA-TTTATTCTATTAT
1 TTTATTTTATTCTATTAT
* *
27026396 TTTATTTTATTTTTTTAT
1 TTTATTTTATTCTATTAT
27026414 TTTATTTTATT
1 TTTATTTTATT
27026425 ATTTGGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTATTTTATTCTATTAT
Found at i:27026454 original size:31 final size:30
Alignment explanation
Indices: 27026371--27026455 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 30
27026361 TACTTTATTA
*
27026371 TTTA-TTTATTTATTTATTCTATTATTTTAT
1 TTTATTTTATTTATTTATT-TATTATTTTAG
*
27026401 TTTATTTT-TTTATTTTATTTTATTA-TTTGG
1 TTTATTTTATTTA-TTTA-TTTATTATTTTAG
27026431 TTTATGTTTATTTCATTTATTTATT
1 TTTAT-TTTATTT-ATTTATTTATT
27026456 TACCCTAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
30 16 0.34
31 21 0.45
32 9 0.19
33 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (30 bp):
TTTATTTTATTTATTTATTTATTATTTTAG
Found at i:27026455 original size:13 final size:13
Alignment explanation
Indices: 27026368--27026456 Score: 60
Period size: 13 Copynumber: 6.8 Consensus size: 13
27026358 TCCTACTTTA
27026368 TTATTTATTT-AT
1 TTATTTATTTCAT
27026380 TTATTTA-TTC-T
1 TTATTTATTTCAT
*
27026391 ATTATTTTATTTTAT
1 -TTA-TTTATTTCAT
* *
27026406 TTTTTTATTTTAT
1 TTATTTATTTCAT
**
27026419 TT-TATTATTTGGT
1 TTAT-TTATTTCAT
27026432 TTATGTTTATTTCAT
1 TTA--TTTATTTCAT
27026447 TTATTTATTT
1 TTATTTATTT
27026457 ACCCTAATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
11 3 0.05
12 11 0.18
13 32 0.52
14 4 0.06
15 11 0.18
16 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.74
Consensus pattern (13 bp):
TTATTTATTTCAT
Found at i:27026581 original size:8 final size:8
Alignment explanation
Indices: 27026568--27026592 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
27026558 CTATTTGGTA
27026568 TATTATTT
1 TATTATTT
27026576 TATTATTT
1 TATTATTT
27026584 TATTATTT
1 TATTATTT
27026592 T
1 T
27026593 TAGTTATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTATTT
Found at i:27026730 original size:36 final size:36
Alignment explanation
Indices: 27026681--27026765 Score: 134
Period size: 36 Copynumber: 2.4 Consensus size: 36
27026671 TGTTACTATT
*
27026681 TTAGTTTATTATTATAGTTACTACTATTATTCGTCC
1 TTAGTTTATTATTATAGTTACTACTATGATTCGTCC
* * *
27026717 TTAGTTTACTATTATAGTTATTATTATGATTCGTCC
1 TTAGTTTATTATTATAGTTACTACTATGATTCGTCC
27026753 TTAGTTTATTATT
1 TTAGTTTATTATT
27026766 TTGAATTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (36 bp):
TTAGTTTATTATTATAGTTACTACTATGATTCGTCC
Found at i:27028433 original size:25 final size:25
Alignment explanation
Indices: 27028360--27028440 Score: 76
Period size: 25 Copynumber: 3.1 Consensus size: 25
27028350 GGATAATTGA
* *
27028360 TTTTATTTGTTTTCTTTTTAATTTTAAT
1 TTTTAGTTGTTTTGTTTTT--TTTT-AT
*
27028388 TTTTAAG-T-TTATGTTTATTTTTTAT
1 TTTT-AGTTGTTTTGTTT-TTTTTTAT
27028413 TTTTAGTTGTTTTGTTTTTTTTTAT
1 TTTTAGTTGTTTTGTTTTTTTTTAT
27028438 TTT
1 TTT
27028441 CTTGTAGTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
24 2 0.04
25 18 0.40
26 11 0.24
27 6 0.13
28 7 0.16
29 1 0.02
ACGTcount: A:0.15, C:0.01, G:0.07, T:0.77
Consensus pattern (25 bp):
TTTTAGTTGTTTTGTTTTTTTTTAT
Found at i:27030955 original size:36 final size:36
Alignment explanation
Indices: 27030865--27030972 Score: 182
Period size: 36 Copynumber: 3.0 Consensus size: 36
27030855 AATTAGAAAG
27030865 AGATTTCAATTAATCAACTTAGAGTCAGTTGTTCTT
1 AGATTTCAATTAATCAACTTAGAGTCAGTTGTTCTT
* * *
27030901 AGTTTTC-ATTAATCAACTTAAAGTGAGTTGTTCTT
1 AGATTTCAATTAATCAACTTAGAGTCAGTTGTTCTT
27030936 AGATTTCAATTAATCAACTTAGAGTCAGTTGTTCTT
1 AGATTTCAATTAATCAACTTAGAGTCAGTTGTTCTT
27030972 A
1 A
27030973 CTCTCGAAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 32 0.49
36 33 0.51
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (36 bp):
AGATTTCAATTAATCAACTTAGAGTCAGTTGTTCTT
Found at i:27042167 original size:23 final size:23
Alignment explanation
Indices: 27042075--27042269 Score: 119
Period size: 23 Copynumber: 8.5 Consensus size: 23
27042065 TTTATCATGT
* *
27042075 TTGAAGTG-TTAAAGTGTTGCATA
1 TTGAAGTGTTTAAA-TGTTGTAAA
* * * *
27042098 TTGAAGTATTTATATGCTGTGAA
1 TTGAAGTGTTTAAATGTTGTAAA
* *
27042121 TTGAAGTG-TTAAAGTGCTGCAAA
1 TTGAAGTGTTTAAA-TGTTGTAAA
*
27042144 TTGAAGTGTTTAAATGTTATAAA
1 TTGAAGTGTTTAAATGTTGTAAA
* ** *
27042167 TGGAAGTGTTTTAAATACTGAAAA
1 TTGAAGTG-TTTAAATGTTGTAAA
* ** * *
27042191 TTGAATTGTTTAGTTGCTGAAAA
1 TTGAAGTGTTTAAATGTTGTAAA
* * *
27042214 TTG-AGATGTTTTATTGCTGT-AA
1 TTGAAG-TGTTTAAATGTTGTAAA
* *
27042236 TTGAGGTGTATAAATGTTGTAAA
1 TTGAAGTGTTTAAATGTTGTAAA
27042259 TTGAAGTGTTT
1 TTGAAGTGTTT
27042270 TATTGCTGAA
Statistics
Matches: 131, Mismatches: 34, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
22 20 0.15
23 85 0.65
24 26 0.20
ACGTcount: A:0.32, C:0.04, G:0.23, T:0.41
Consensus pattern (23 bp):
TTGAAGTGTTTAAATGTTGTAAA
Found at i:27042240 original size:22 final size:23
Alignment explanation
Indices: 27042199--27042288 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
27042189 AATTGAATTG
*
27042199 TTTAGTTGCTGAAAATTGAGATGT
1 TTTA-TTGCTGTAAATTGAGATGT
*
27042223 TTTATTGCTGT-AATTGAGGTGT
1 TTTATTGCTGTAAATTGAGATGT
* * * *
27042245 ATAAATGTTGTAAATTGA-AGTGT
1 TTTATTGCTGTAAATTGAGA-TGT
*
27042268 TTTATTGCTGAAAATTG-GATG
1 TTTATTGCTGTAAATTGAGATG
27042289 GTATAATGAC
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
22 19 0.37
23 28 0.55
24 4 0.08
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.43
Consensus pattern (23 bp):
TTTATTGCTGTAAATTGAGATGT
Found at i:27042821 original size:39 final size:43
Alignment explanation
Indices: 27042778--27042873 Score: 110
Period size: 45 Copynumber: 2.3 Consensus size: 43
27042768 ATTACAACAT
* *
27042778 TATTCCATT-CAATCAA-ACACAA-GAA-TACTATTACAGTTC
1 TATTCCATTACAATCAACAAACAATGAATTACTATTACAGCTC
*
27042817 TATTCCATTACATTCAACCAAACAATTGAATTACTATTACAGCTC
1 TATTCCATTACAATCAA-CAAACAA-TGAATTACTATTACAGCTC
*
27042862 TATTCAATTACA
1 TATTCCATTACA
27042874 GCTTTATTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
39 9 0.19
40 6 0.13
42 5 0.11
44 3 0.06
45 24 0.51
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (43 bp):
TATTCCATTACAATCAACAAACAATGAATTACTATTACAGCTC
Found at i:27042873 original size:16 final size:16
Alignment explanation
Indices: 27042852--27042891 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
27042842 TTGAATTACT
27042852 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
27042868 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCA
27042884 ATTACAGC
1 ATTACAGC
27042892 GAACCAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:27044989 original size:20 final size:19
Alignment explanation
Indices: 27044934--27044993 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 19
27044924 GCCCAAATTA
27044934 TATATTAAATATATATTTT
1 TATATTAAATATATATTTT
* * *
27044953 TATTTTTAATCAAATATACTTT
1 TA-TATTAA--ATATATATTTT
27044975 T-TATTAAATATATATTTT
1 TATATTAAATATATATTTT
27044993 T
1 T
27044994 TTGGACTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
18 10 0.31
19 2 0.06
20 10 0.31
22 10 0.31
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTAAATATATATTTT
Found at i:27044995 original size:20 final size:20
Alignment explanation
Indices: 27044936--27044995 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
27044926 CCAAATTATA
27044936 TATTAAATATATATTTTTATT
1 TATTAAATATATATTTTT-TT
* **
27044957 T-TT-AATCAAATATACTTTT
1 TATTAAAT-ATATATTTTTTT
27044976 TATTAAATATATATTTTTTT
1 TATTAAATATATATTTTTTT
27044996 GGACTTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 6 0.20
20 20 0.67
21 4 0.13
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTAAATATATATTTTTTT
Found at i:27045952 original size:20 final size:20
Alignment explanation
Indices: 27045927--27045965 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27045917 TGGAGCACGA
*
27045927 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
27045947 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
27045966 AGTATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:27047455 original size:18 final size:18
Alignment explanation
Indices: 27047415--27047462 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
27047405 ACACCAATTT
**
27047415 GTTATTTGAGCTATTCAA
1 GTTATTTGAATTATTCAA
* *
27047433 ATTATTTGAATTATTCAC
1 GTTATTTGAATTATTCAA
*
27047451 GTTATTCGAATT
1 GTTATTTGAATT
27047463 GTTAAATTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (18 bp):
GTTATTTGAATTATTCAA
Found at i:27047704 original size:14 final size:14
Alignment explanation
Indices: 27047687--27047717 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27047677 AGTAAAATAT
*
27047687 TTTCTGGAAAATGA
1 TTTCTAGAAAATGA
27047701 TTTCTAGAAAATGA
1 TTTCTAGAAAATGA
27047715 TTT
1 TTT
27047718 ACTTTTCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (14 bp):
TTTCTAGAAAATGA
Found at i:27047733 original size:19 final size:19
Alignment explanation
Indices: 27047709--27047746 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27047699 GATTTCTAGA
27047709 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
27047728 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
27047747 TGTTTGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:27049322 original size:43 final size:43
Alignment explanation
Indices: 27049255--27049476 Score: 311
Period size: 43 Copynumber: 5.2 Consensus size: 43
27049245 CGAAAAAAAT
* *
27049255 GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAACAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
* * *
27049298 GCCGTTAAAGATCATGTTCCTTAGCGGCGCTTTTTCCACAAAT
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
*
27049341 GCCTCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
* *
27049384 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTCTTCCGCAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
* * * * *
27049427 GCCACTAAAGGTCATATTCTTTTAGCGGC-ATTTTTACACAAAC
1 GCCGCTAAAGATCATGTTC-TTTAGCGGCGCTTTTTCCACAAAC
27049470 GCCGCTA
1 GCCGCTA
27049477 TTTGTTTGGT
Statistics
Matches: 158, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 149 0.94
44 9 0.06
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (43 bp):
GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
Found at i:27049963 original size:87 final size:87
Alignment explanation
Indices: 27049825--27050001 Score: 246
Period size: 87 Copynumber: 2.0 Consensus size: 87
27049815 TTCTTCTCTG
* * * * *
27049825 CTCTGCTTCCCTCGCTACAGCGTCTGCTTCTCTCGATGCCGCATCTACTTTAAGTTGTAGCTGGA
1 CTCTGCTTCCCTCGCTACAACCTCTACTTCCCTCGATGCCGCATCTACTTTAAGTTGTAGCTAGA
*
27049890 GTTCTTCATATTTCTTTTGAAC
66 GTTCTTCATATTTCCTTTGAAC
* * * * * *
27049912 CTCTGCTTCTCTCGCTGCAACCTCTACTTCCCTCGTTGTCGCCTCTGCTTTAAGTTGTAGCTAGA
1 CTCTGCTTCCCTCGCTACAACCTCTACTTCCCTCGATGCCGCATCTACTTTAAGTTGTAGCTAGA
27049977 GTTCTTCATATTTCCTTTGAAC
66 GTTCTTCATATTTCCTTTGAAC
27049999 CTC
1 CTC
27050002 AACTGTGGTC
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.14, C:0.31, G:0.16, T:0.40
Consensus pattern (87 bp):
CTCTGCTTCCCTCGCTACAACCTCTACTTCCCTCGATGCCGCATCTACTTTAAGTTGTAGCTAGA
GTTCTTCATATTTCCTTTGAAC
Found at i:27055500 original size:9 final size:9
Alignment explanation
Indices: 27055486--27055887 Score: 211
Period size: 9 Copynumber: 47.4 Consensus size: 9
27055476 CATCATATAT
27055486 TTATGTAAG
1 TTATGTAAG
27055495 TTATGT-A-
1 TTATGTAAG
* *
27055502 TTAAGTAAA
1 TTATGTAAG
27055511 TTATGTAAG
1 TTATGTAAG
27055520 TTATGT-A-
1 TTATGTAAG
27055527 TTATGTAAG
1 TTATGTAAG
*
27055536 TTACGTAAG
1 TTATGTAAG
27055545 TTATGT-A-
1 TTATGTAAG
* *
27055552 TTAAGTAAA
1 TTATGTAAG
27055561 TTATGTAAG
1 TTATGTAAG
27055570 TTATGT-A-
1 TTATGTAAG
27055577 TTATGTAAG
1 TTATGTAAG
27055586 TTATGTAAG
1 TTATGTAAG
*
27055595 TTGTGT-A-
1 TTATGTAAG
* *
27055602 TTATGAAAC
1 TTATGTAAG
27055611 TTATGTAAG
1 TTATGTAAG
*
27055620 TTATGT--C
1 TTATGTAAG
*
27055627 TTATGTAGG
1 TTATGTAAG
27055636 TTATGTAAG
1 TTATGTAAG
27055645 TTATGT-A-
1 TTATGTAAG
27055652 TTATGTAAG
1 TTATGTAAG
27055661 TTATGT-A-
1 TTATGTAAG
* *
27055668 TTAAGTAAA
1 TTATGTAAG
27055677 TTATGTAAG
1 TTATGTAAG
*
27055686 -T-TGT--C
1 TTATGTAAG
*
27055691 TTATATAAG
1 TTATGTAAG
27055700 TTATGT-A-
1 TTATGTAAG
27055707 TTATGTAAG
1 TTATGTAAG
27055716 TTATGTAAG
1 TTATGTAAG
* ***
27055725 TTTTTGTTTT
1 -TTATGTAAG
*
27055735 TTGTGT-A-
1 TTATGTAAG
*
27055742 TTATGTAAC
1 TTATGTAAG
* *
27055751 TTATTTAAT
1 TTATGTAAG
*
27055760 TTATGTAGG
1 TTATGTAAG
27055769 TTATGTATTA-
1 TTATGTA--AG
27055779 TTATGTAAG
1 TTATGTAAG
*
27055788 TTAT-TATG
1 TTATGTAAG
*
27055796 -TA-GGATA-
1 TTATGTA-AG
27055803 TTATGTAAG
1 TTATGTAAG
27055812 TTATGTAAG
1 TTATGTAAG
* ***
27055821 TTTTTGTTTT
1 -TTATGTAAG
*
27055831 TTGTGT-A-
1 TTATGTAAG
*
27055838 TTATGTAAC
1 TTATGTAAG
* *
27055847 TTATTTAAT
1 TTATGTAAG
*
27055856 TTATGTAGG
1 TTATGTAAG
27055865 TTATGTATTA-
1 TTATGTA--AG
27055875 TTATGTAAG
1 TTATGTAAG
27055884 TTAT
1 TTAT
27055888 TATGTAGGTT
Statistics
Matches: 301, Mismatches: 53, Indels: 78
0.70 0.12 0.18
Matches are distributed among these distances:
6 1 0.00
7 67 0.22
8 27 0.09
9 182 0.60
10 24 0.08
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.50
Consensus pattern (9 bp):
TTATGTAAG
Found at i:27055518 original size:25 final size:25
Alignment explanation
Indices: 27055486--27055822 Score: 300
Period size: 25 Copynumber: 13.4 Consensus size: 25
27055476 CATCATATAT
* *
27055486 TTATGTAAGTTATGTATTAAGTAAA
1 TTATGTAAGTTATGTATTATGTAAG
27055511 TTATGTAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
* * *
27055536 TTACGTAAGTTATGTATTAAGTAAA
1 TTATGTAAGTTATGTATTATGTAAG
27055561 TTATGTAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
* * *
27055586 TTATGTAAGTTGTGTATTATGAAAC
1 TTATGTAAGTTATGTATTATGTAAG
* *
27055611 TTATGTAAGTTATGTCTTATGTAGG
1 TTATGTAAGTTATGTATTATGTAAG
27055636 TTATGTAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
*
27055661 TTATGT-A-TTAAGTAAATTATGTAAGTTG
1 TTATGTAAGTTATGT--ATTATGTAA---G
*
27055689 TCTTATATAAGTTATGTATTATGTAAG
1 --TTATGTAAGTTATGTATTATGTAAG
* * * *
27055716 TTATGTAAGTTTTTGTTTTTTGTGTA-
1 TTATGTAAG-TTATGTATTATGT-AAG
* * *
27055742 TTATGTAACTTATTTAATTTATGTAGG
1 TTATGTAAGTTATGT-A-TTATGTAAG
27055769 TTA--T--G-TAT-TATTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
* *
27055788 TTAT-TATG-TAGGATATTATGTAAG
1 TTATGTAAGTTATG-TATTATGTAAG
27055812 TTATGTAAGTT
1 TTATGTAAGTT
27055823 TTTGTTTTTT
Statistics
Matches: 254, Mismatches: 37, Indels: 41
0.77 0.11 0.12
Matches are distributed among these distances:
19 11 0.04
20 2 0.01
21 1 0.00
22 6 0.02
23 5 0.02
24 16 0.06
25 163 0.64
26 19 0.07
27 10 0.04
28 1 0.00
30 14 0.06
31 1 0.00
32 5 0.02
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.49
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTAAG
Found at i:27055715 original size:16 final size:16
Alignment explanation
Indices: 27055486--27055722 Score: 153
Period size: 16 Copynumber: 15.0 Consensus size: 16
27055476 CATCATATAT
27055486 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
27055502 TTAAGTAAATTATGTAA
1 TTATGTAAGTTATGT-A
27055519 GTTATGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
*
27055535 GTTACGTAAGTTATGTA
1 -TTATGTAAGTTATGTA
* *
27055552 TTAAGTAAATTATGTAA
1 TTATGTAAGTTATGT-A
27055569 GTTATGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
*
27055585 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
* *
27055602 TTATGAAACTTATGTAA
1 TTATGTAAGTTATGT-A
*
27055619 GTTATGT--CTTATGTA
1 -TTATGTAAGTTATGTA
27055634 GGTTATGTAAGTTATGTA
1 --TTATGTAAGTTATGTA
27055652 TTATGTAAGTTATG--
1 TTATGTAAGTTATGTA
*
27055666 -TAT-TAAG-TA--AA
1 TTATGTAAGTTATGTA
*
27055677 TTATGTAAG-T-TGTC
1 TTATGTAAGTTATGTA
*
27055691 TTATATAAGTTATGTA
1 TTATGTAAGTTATGTA
27055707 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
27055723 AGTTTTTGTT
Statistics
Matches: 182, Mismatches: 18, Indels: 42
0.75 0.07 0.17
Matches are distributed among these distances:
11 2 0.01
12 7 0.04
13 8 0.04
14 8 0.04
15 2 0.01
16 113 0.62
17 9 0.05
18 33 0.18
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:27055793 original size:12 final size:12
Alignment explanation
Indices: 27055776--27055916 Score: 78
Period size: 12 Copynumber: 11.8 Consensus size: 12
27055766 AGGTTATGTA
27055776 TTATTATGTAAG
1 TTATTATGTAAG
*
27055788 TTATTATGTAGG
1 TTATTATGTAAG
*
27055800 ATATTATGTAAG
1 TTATTATGTAAG
27055812 ---TTATGTAAG
1 TTATTATGTAAG
* * * **
27055821 TTTTTGTTTTTTG
1 TTATT-ATGTAAG
*
27055834 TGTATTATGTAAC
1 T-TATTATGTAAG
* *
27055847 TTATTTAATTTATG
1 TTA-TT-ATGTAAG
27055861 -TAGGTTATGT-A-
1 TTA--TTATGTAAG
27055872 TTATTATGTAAG
1 TTATTATGTAAG
*
27055884 TTATTATGTAGG
1 TTATTATGTAAG
27055896 TTATTATGTAAG
1 TTATTATGTAAG
*
27055908 TCATTATGT
1 TTATTATGT
27055917 TGGTTATGTA
Statistics
Matches: 96, Mismatches: 22, Indels: 22
0.69 0.16 0.16
Matches are distributed among these distances:
9 9 0.09
10 6 0.06
11 1 0.01
12 57 0.59
13 14 0.15
14 9 0.09
ACGTcount: A:0.28, C:0.01, G:0.18, T:0.53
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:27055805 original size:96 final size:96
Alignment explanation
Indices: 27055705--27055908 Score: 399
Period size: 96 Copynumber: 2.1 Consensus size: 96
27055695 ATAAGTTATG
27055705 TATTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGT
1 TATTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGT
27055770 TATGTATTATTATGTAAGTTATTATGTAGGA
66 TATGTATTATTATGTAAGTTATTATGTAGGA
27055801 TATTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGT
1 TATTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGT
*
27055866 TATGTATTATTATGTAAGTTATTATGTAGGT
66 TATGTATTATTATGTAAGTTATTATGTAGGA
27055897 TATTATGTAAGT
1 TATTATGTAAGT
27055909 CATTATGTTG
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 107 1.00
ACGTcount: A:0.27, C:0.01, G:0.18, T:0.54
Consensus pattern (96 bp):
TATTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGT
TATGTATTATTATGTAAGTTATTATGTAGGA
Found at i:27055902 original size:24 final size:24
Alignment explanation
Indices: 27055865--27055923 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
27055855 TTTATGTAGG
*
27055865 TTATGTA--TTATTATGTAAGTTA
1 TTATGTAGGTTATTATGTAAGTCA
27055887 TTATGTAGGTTATTATGTAAGTCA
1 TTATGTAGGTTATTATGTAAGTCA
*
27055911 TTATGTTGGTTAT
1 TTATGTAGGTTAT
27055924 GTAAGTTGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 7 0.21
24 26 0.79
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.53
Consensus pattern (24 bp):
TTATGTAGGTTATTATGTAAGTCA
Found at i:27055925 original size:21 final size:22
Alignment explanation
Indices: 27055875--27055929 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
27055865 TTATGTATTA
*
27055875 TTATGTAAGTTATTATGTAGGTT
1 TTATGTAAGTCATTATGTAGG-T
*
27055898 ATTATGTAAGTCATTATGTTGG-
1 -TTATGTAAGTCATTATGTAGGT
27055920 TTATGTAAGT
1 TTATGTAAGT
27055930 TGCGATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
TTATGTAAGTCATTATGTAGGT
Found at i:27055948 original size:96 final size:95
Alignment explanation
Indices: 27055705--27055964 Score: 294
Period size: 96 Copynumber: 2.7 Consensus size: 95
27055695 ATAAGTTATG
* *** * *
27055705 TATTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGT
1 TATTATGTAAGTCATGTAAGTTTTTGTAAGTTGCGTATGATGTAAC-TATTTAATTTATGTAGGT
27055770 TATGTATTATTATGTAAGTTATTATGTAGGA
65 TATGTATTATTATGTAAGTTATTATGTAGGA
* *** * *
27055801 TATTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGT
1 TATTATGTAAGTCATGTAAGTTTTTGTAAGTTGCGTATGATGTAAC-TATTTAATTTATGTAGGT
*
27055866 TATGTATTATTATGTAAGTTATTATGTAGGT
65 TATGTATTATTATGTAAGTTATTATGTAGGA
* *
27055897 TATTATGTAAGTCAT-TATGTTGGTTATGTAAGTTGCGATATGAT-TAA-TATTT-ATGTATGTA
1 TATTATGTAAGTCATGTAAGTT--TT-TGTAAGTTGCG-TATGATGTAACTATTTAATTTATGTA
*
27055958 AGTTATG
62 GGTTATG
27055965 ATATGATTGA
Statistics
Matches: 150, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
95 19 0.13
96 114 0.76
97 2 0.01
98 10 0.07
99 5 0.03
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.53
Consensus pattern (95 bp):
TATTATGTAAGTCATGTAAGTTTTTGTAAGTTGCGTATGATGTAACTATTTAATTTATGTAGGTT
ATGTATTATTATGTAAGTTATTATGTAGGA
Found at i:27056088 original size:21 final size:20
Alignment explanation
Indices: 27056049--27056087 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
27056039 GTAATGTATC
*
27056049 AATTTTTAAAAATATATATA
1 AATTTTAAAAAATATATATA
27056069 AATTTT-AAAAATATATATA
1 AATTTTAAAAAATATATATA
27056088 TTAAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTTAAAAAATATATATA
Found at i:27056125 original size:9 final size:9
Alignment explanation
Indices: 27056111--27056191 Score: 60
Period size: 9 Copynumber: 9.0 Consensus size: 9
27056101 TAAATATTAA
27056111 TAAGTTATG
1 TAAGTTATG
27056120 TAAGTTATG
1 TAAGTTATG
* *
27056129 TATTA-TAAATT
1 TA--AGT-TATG
*
27056140 TAAATTATG
1 TAAGTTATG
27056149 TAAGTTATG
1 TAAGTTATG
*
27056158 -AA-TTATA
1 TAAGTTATG
27056165 TAAGTTATG
1 TAAGTTATG
* *
27056174 TAAATTACG
1 TAAGTTATG
27056183 TAAGTTATG
1 TAAGTTATG
27056192 AAATTTGAAC
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
7 4 0.07
8 4 0.07
9 40 0.73
10 2 0.04
11 5 0.09
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:27056157 original size:29 final size:33
Alignment explanation
Indices: 27056115--27056193 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 33
27056105 TATTAATAAG
*
27056115 TTATGTAAGTTATGTATTATA-AA-T-T-TAAA
1 TTATGTAAGTTATGAATTATATAAGTATGTAAA
27056144 TTATGTAAGTTATGAATTATATAAGTTATGTAAA
1 TTATGTAAGTTATGAATTATATAAG-TATGTAAA
*
27056178 TTACGTAAGTTATGAA
1 TTATGTAAGTTATGAA
27056194 ATTTGAACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 20 0.47
30 2 0.05
32 1 0.02
33 1 0.02
34 19 0.44
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (33 bp):
TTATGTAAGTTATGAATTATATAAGTATGTAAA
Found at i:27056186 original size:18 final size:17
Alignment explanation
Indices: 27056141--27056196 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
27056131 TTATAAATTT
27056141 AAATTATGTAAGTTATG
1 AAATTATGTAAGTTATG
*
27056158 -AATTATATAAGTTATG
1 AAATTATGTAAGTTATG
*
27056174 TAAATTACGTAAGTTATG
1 -AAATTATGTAAGTTATG
27056192 AAATT
1 AAATT
27056197 TGAACTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 15 0.44
17 5 0.15
18 14 0.41
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (17 bp):
AAATTATGTAAGTTATG
Done.