Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 51
Found at i:221 original size:3 final size:3
Alignment explanation
Indices: 213--290 Score: 70
Period size: 3 Copynumber: 26.3 Consensus size: 3
203 TATATTTAAA
* * * * * * *
213 ATT ATT ATT ATA ATT ATA ATT ATA ATT A-A ATT ATA ATT ATA ATA ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
261 ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
291 AATTACAAGC
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
2 3 0.05
3 55 0.92
4 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:246 original size:17 final size:17
Alignment explanation
Indices: 212--295 Score: 84
Period size: 17 Copynumber: 4.9 Consensus size: 17
202 TTATATTTAA
212 AATTATTATTATAATTAT
1 AATTATTATTA-AATTAT
*
230 AATTATAATTAAATTAT
1 AATTATTATTAAATTAT
*
247 AATTA-TAAT-AATATAT
1 AATTATTATTAAAT-TAT
* *
263 TATTATTATTATTATTAT
1 AATTATTATTA-AATTAT
281 -ATTATTATTAAATTA
1 AATTATTATTAAATTA
296 CAAGCTCAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
15 3 0.05
16 13 0.24
17 24 0.44
18 13 0.24
19 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTATTATTAAATTAT
Found at i:494 original size:16 final size:15
Alignment explanation
Indices: 473--502 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
463 TCAAGTTTGA
473 AACCCTAGGGTATCAT
1 AACCCTAGGG-ATCAT
489 AACCCTAGGGATCA
1 AACCCTAGGGATCA
503 CGTGGTGGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (15 bp):
AACCCTAGGGATCAT
Found at i:1505 original size:20 final size:20
Alignment explanation
Indices: 1477--1514 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1467 GTCCTTAAAC
1477 TTTGATATT-TTACATTTTGT
1 TTTGATATTCTTA-ATTTTGT
*
1497 TTTGTTATTCTTAATTTT
1 TTTGATATTCTTAATTTT
1515 ATTATTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.68
Consensus pattern (20 bp):
TTTGATATTCTTAATTTTGT
Found at i:1658 original size:2 final size:2
Alignment explanation
Indices: 1651--1681 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1641 TGTTATTACT
*
1651 TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1682 TAAATAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1958 original size:2 final size:2
Alignment explanation
Indices: 1945--2000 Score: 73
Period size: 2 Copynumber: 29.5 Consensus size: 2
1935 TAATACCTTT
* *
1945 TA TA TC TA TA TA TA TA TA TA TA T- TA TA TA AA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1985 TA TA TA -A TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
2001 TCTTAAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
1 3 0.06
2 44 0.94
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1973 original size:13 final size:12
Alignment explanation
Indices: 1945--2000 Score: 73
Period size: 11 Copynumber: 4.9 Consensus size: 12
1935 TAATACCTTT
*
1945 TATATCTATATA
1 TATATATATATA
1957 TATATATATAT-
1 TATATATATATA
*
1968 TATATAAATATA
1 TATATATATATA
1980 TA-ATATATATA
1 TATATATATATA
1991 -ATATATATAT
1 TATATATATAT
2001 TCTTAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
10 1 0.03
11 26 0.67
12 12 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
TATATATATATA
Found at i:2549 original size:27 final size:28
Alignment explanation
Indices: 2496--2555 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
2486 TAATTCTTTC
*
2496 TTTTCAAAATTTTTATATATACTTATTAT
1 TTTTCAAAATATTTATATATAC-TATTAT
* *
2525 TTTTCATAATATTTATATGTA-TATTAT
1 TTTTCAAAATATTTATATATACTATTAT
2552 TTTT
1 TTTT
2556 TTTATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.36
29 18 0.64
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTCAAAATATTTATATATACTATTAT
Found at i:2556 original size:29 final size:28
Alignment explanation
Indices: 2474--2557 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 28
2464 AAAAATTCCT
* *
2474 ATATTTA-ATTTATAATTCTTTCTTTTCAA
1 ATATTTATATATAT-ATTATTT-TTTTCAA
*
2503 A-ATTTTTATATATACTTATTATTTTTCATA
1 ATATTTATATATATA-TTATT-TTTTTCA-A
*
2533 ATATTTATATGTATATTATTTTTTT
1 ATATTTATATATATATTATTTTTTT
2558 TATTTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
28 5 0.11
29 21 0.47
30 8 0.18
31 11 0.24
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (28 bp):
ATATTTATATATATATTATTTTTTTCAA
Found at i:4146 original size:19 final size:20
Alignment explanation
Indices: 4122--4159 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4112 ATCTTTACAT
4122 TTTTAT-TTTGCATTTGTAC
1 TTTTATGTTTGCATTTGTAC
*
4141 TTTTATGTTTGCTTTTGTA
1 TTTTATGTTTGCATTTGTA
4160 TTGCATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.13, C:0.08, G:0.13, T:0.66
Consensus pattern (20 bp):
TTTTATGTTTGCATTTGTAC
Found at i:11803 original size:45 final size:45
Alignment explanation
Indices: 11735--12567 Score: 1377
Period size: 45 Copynumber: 18.6 Consensus size: 45
11725 CTATTTTCCA
11735 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * * * *
11780 GATTTGTAAGCCTTTCAGTGCATGGTGTTATCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
11825 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
11870 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCCTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
11915 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAATCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
11960 AATTTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
12005 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
12050 CATCTGT-AGCCCTTCAGTGCATGATG-TTTCAAAACCCTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
12093 CATCTGTAAGCCCTTCAGTGCATGAT-TTTTCAAAATCTT-GGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * * *
12136 AATTTCTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
12181 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
12226 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
12271 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACATTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
12316 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
12361 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTTGGAT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
12406 CATCTATAAGCCCTTCAGTACATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
12451 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAACCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
12496 CATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTAGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
12541 CATCTGTAAGACCTACAGTGCAAGATG
1 CATCTGTAAGCCCTTCAGTGCATGATG
12568 ATAAGACCTC
Statistics
Matches: 731, Mismatches: 53, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
43 50 0.07
44 59 0.08
45 622 0.85
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:12754 original size:3 final size:3
Alignment explanation
Indices: 12746--12788 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
12736 TATATTTAAA
*
12746 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
12789 AATTACAAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:13812 original size:13 final size:13
Alignment explanation
Indices: 13794--13818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13784 CAACCTATAT
13794 GTATTTTAATTTG
1 GTATTTTAATTTG
13807 GTATTTTAATTT
1 GTATTTTAATTT
13819 TTTTTGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
GTATTTTAATTTG
Found at i:14291 original size:34 final size:32
Alignment explanation
Indices: 14212--14296 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 32
14202 TTGTTTACTT
* *
14212 ATATTTT-ATATATATATATTAAATAAAAATCC
1 ATATTTTAATATTTA-ATTTTAAATAAAAATCC
*
14244 -TATTTATAA-ATTTAATTTTATATAAAAATAACC
1 ATATTT-TAATATTTAATTTTAAATAAAAAT--CC
*
14277 ATATTTTAATATTTACTTTT
1 ATATTTTAATATTTAATTTT
14297 TTAATATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
31 18 0.42
32 5 0.12
33 6 0.14
34 14 0.33
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (32 bp):
ATATTTTAATATTTAATTTTAAATAAAAATCC
Found at i:14532 original size:14 final size:14
Alignment explanation
Indices: 14513--14539 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14503 ATACCTTATT
14513 TATAAATATATATA
1 TATAAATATATATA
14527 TATAAATATATAT
1 TATAAATATATAT
14540 TAATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATAAATATATATA
Found at i:21791 original size:18 final size:18
Alignment explanation
Indices: 21768--21805 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
21758 CAAGTTTATC
21768 TTTTCGAAATTCAATTTA
1 TTTTCGAAATTCAATTTA
21786 TTTTCGAAATTCAATTTA
1 TTTTCGAAATTCAATTTA
21804 TT
1 TT
21806 CTTTCATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTCGAAATTCAATTTA
Found at i:22515 original size:22 final size:22
Alignment explanation
Indices: 22482--22532 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
22472 CATTCTACAT
*
22482 TCTT-AAAGATGATAGATGCTC
1 TCTTCAAAAATGATAGATGCTC
*
22503 TCTTCAAAAATGATAGATTCTC
1 TCTTCAAAAATGATAGATGCTC
*
22525 TTTTCAAA
1 TCTTCAAA
22533 GAAGAAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (22 bp):
TCTTCAAAAATGATAGATGCTC
Found at i:22542 original size:22 final size:22
Alignment explanation
Indices: 22482--22543 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
22472 CATTCTACAT
* *
22482 TCTT-AAAGATGATAGATGCTC
1 TCTTCAAAGAAGATAGATTCTC
22503 TCTTCAAA-AATGATAGATTCTC
1 TCTTCAAAGAA-GATAGATTCTC
* *
22525 TTTTCAAAGAAGAAAGATT
1 TCTTCAAAGAAGATAGATT
22544 TATTGGATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 5 0.15
22 27 0.79
23 2 0.06
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.34
Consensus pattern (22 bp):
TCTTCAAAGAAGATAGATTCTC
Found at i:23168 original size:123 final size:121
Alignment explanation
Indices: 22931--23379 Score: 635
Period size: 123 Copynumber: 3.7 Consensus size: 121
22921 CACTCGATGG
* *
22931 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAATTTCATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAAAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAA
* * * * *
22996 TGAGAAGAGCTTGTTCAACCTTTTGCTTGATTCTATCACAAAAGAAGATAGATCAAC
66 TGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATC-AC
*
23053 ATCAACATTTTCAGAAGGAGTTCATAATGAAAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAA-GAGTTCATAATGAAAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
*
23118 ATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAGATCATC
65 ATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCA-C
* * * *
23176 AT-ACACTTTTCCAGAGAAAGTTCATAAT-AAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCA
1 ATCA-ACATTTCCAGA-AGAGTTCATAATGAA-AAGAACTCATCTGAAGAAGAAGAAGAAGTTCA
*
23239 TAATGAGAAGAACTTGTTCAACCTTTTGCATGACGCTATCACAGAAGGAGATAG-----
63 TAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAC
*
23293 ATCAACATTTCCAGAAGAGTTCATAATGAGAAA-AACTCATCTGAAGAAGGAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGA-AAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
*
23357 ATGAGAAGAATTTGTTCAACCTT
65 ATGAGAAGAACTTGTTCAACCTT
23380 GCCTTAATTT
Statistics
Matches: 297, Mismatches: 22, Indels: 22
0.87 0.06 0.06
Matches are distributed among these distances:
116 61 0.21
117 15 0.05
118 2 0.01
122 19 0.06
123 199 0.67
124 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (121 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAAAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAC
Found at i:23751 original size:3 final size:3
Alignment explanation
Indices: 23738--23792 Score: 69
Period size: 3 Copynumber: 18.0 Consensus size: 3
23728 TTTTCATTTT
23738 TTA TT- TTA TTA TTA TTA TT- TATA TTA TTA TTA TTA TTA TTAA TTAA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TT-A TT-A
23784 TTA TTA TTA
1 TTA TTA TTA
23793 CAGGCCCAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 3 0.06
3 37 0.77
4 8 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:25259 original size:16 final size:14
Alignment explanation
Indices: 25228--25264 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
25218 AAAAATCCTA
25228 TTTATAAATTTATT
1 TTTATAAATTTATT
*
25242 TTTATATAATTTACT
1 TTTATA-AATTTATT
25257 TTTATAAA
1 TTTATAAA
25265 CATATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTATAAATTTATT
Found at i:25420 original size:144 final size:144
Alignment explanation
Indices: 25271--25531 Score: 418
Period size: 144 Copynumber: 1.8 Consensus size: 144
25261 TAAACATATT
**
25271 TTAATATTTATTTATTTTTTAATATTAAGAAAATGGTTGTCTTAAAGCAACTAGAAGTCA-TTTT
1 TTAATATTTATTTATTTTTTAATATTAAGAAAATGAATGTCTTAAAGCAACTAGAAGT-ATTTTT
* **
25335 CTGATATTTTTAAATAAATAAATATCCTACTT-TATAAATTGTATATATATATAATTTAATTATT
65 CTGATATTTCTAAATAAATAAATATCCTA-TTATATAAATAATATATATATATAATTTAATTATT
25399 TTTAGAGAATTTTTTA
129 TTTAGAGAATTTTTTA
25415 TTAATATTTATTTATTTTTTAATATTAAGAAAATGAATGTCTTAAAGCAACTAGAAGTATTTTTC
1 TTAATATTTATTTATTTTTTAATATTAAGAAAATGAATGTCTTAAAGCAACTAGAAGTATTTTTC
* * *
25480 TGATATTTCTAAGTAAATAAATATCTTATTATATATATAATATATATATATA
66 TGATATTTCTAAATAAATAAATATCCTATTATATAAATAATATATATATATA
25532 TATATATATA
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
143 3 0.03
144 104 0.97
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (144 bp):
TTAATATTTATTTATTTTTTAATATTAAGAAAATGAATGTCTTAAAGCAACTAGAAGTATTTTTC
TGATATTTCTAAATAAATAAATATCCTATTATATAAATAATATATATATATAATTTAATTATTTT
TAGAGAATTTTTTA
Found at i:25516 original size:2 final size:2
Alignment explanation
Indices: 25509--25566 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
25499 AATATCTTAT
25509 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25550 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
25567 TTGTAAAAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26829 original size:20 final size:20
Alignment explanation
Indices: 26804--26860 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
26794 TTAGAATGTT
26804 AGAGTGTGGATGTATGTATG
1 AGAGTGTGGATGTATGTATG
26824 AGAGTGTGGATGTATGTATG
1 AGAGTGTGGATGTATGTATG
26844 AGAGTGT-GATTGTATGT
1 AGAGTGTGGA-TGTATGT
26861 GTGCGTAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 2 0.06
20 34 0.94
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.37
Consensus pattern (20 bp):
AGAGTGTGGATGTATGTATG
Found at i:32361 original size:20 final size:20
Alignment explanation
Indices: 32324--32360 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
32314 GTTTGATCAC
32324 TTATTTAATTTTTAAAAATA
1 TTATTTAATTTTTAAAAATA
32344 TTATTT-ATTTTTAAAAA
1 TTATTTAATTTTTAAAAA
32361 AATCAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTTAATTTTTAAAAATA
Found at i:34658 original size:25 final size:26
Alignment explanation
Indices: 34610--34660 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
34600 TATTTTTGGC
* *
34610 TTTTATAATTTTAGAAGTTCATTATT
1 TTTTAAAATTTTAGAAATTCATTATT
*
34636 TTTTAAAATTTTA-AAATTTATTATT
1 TTTTAAAATTTTAGAAATTCATTATT
34661 ATTATTATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (26 bp):
TTTTAAAATTTTAGAAATTCATTATT
Found at i:44451 original size:24 final size:24
Alignment explanation
Indices: 44419--44469 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
44409 CTTTGAGCTC
44419 GATCAATTTCACTTTAAAACTCTA
1 GATCAATTTCACTTTAAAACTCTA
*
44443 GATCGATTTCACTTTAAAACTCTA
1 GATCAATTTCACTTTAAAACTCTA
44467 GAT
1 GAT
44470 TACTTTGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (24 bp):
GATCAATTTCACTTTAAAACTCTA
Found at i:48454 original size:33 final size:35
Alignment explanation
Indices: 48412--48486 Score: 127
Period size: 36 Copynumber: 2.2 Consensus size: 35
48402 GGGTTTGTAT
48412 TATATAATTAATAT-AAAAATAT-AAAATATTATA
1 TATATAATTAATATAAAAAATATAAAAATATTATA
48445 TATATAATTAATATAAAAAATATAAAAAATATTATA
1 TATATAATTAATATAAAAAATAT-AAAAATATTATA
48481 TATATA
1 TATATA
48487 TATATATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
33 14 0.36
34 8 0.21
36 17 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (35 bp):
TATATAATTAATATAAAAAATATAAAAATATTATA
Found at i:48492 original size:33 final size:32
Alignment explanation
Indices: 48409--48494 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 32
48399 TTAGGGTTTG
48409 TATTATATA-AT-TA-ATATAAAAATATAAAA
1 TATTATATATATATATATATAAAAATATAAAA
48438 TATTATATATATA-ATTAATATAAAAAATATAAAAAA
1 TATTATATATATATA-T-ATAT-AAAAATAT--AAAA
48474 TATTATATATATATATATATA
1 TATTATATATATATATATATA
48495 TATATAATCG
Statistics
Matches: 48, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
29 9 0.19
30 3 0.06
33 4 0.08
34 9 0.19
35 4 0.08
36 18 0.38
37 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
TATTATATATATATATATATAAAAATATAAAA
Found at i:51469 original size:13 final size:13
Alignment explanation
Indices: 51451--51475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51441 ATGCCTTAAT
51451 AATTAATTATCAA
1 AATTAATTATCAA
51464 AATTAATTATCA
1 AATTAATTATCA
51476 GCTCAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTAATTATCAA
Found at i:52298 original size:13 final size:14
Alignment explanation
Indices: 52261--52302 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
52251 TCGCAACGCG
52261 AATTCCAATTTCGC
1 AATTCCAATTTCGC
* *
52275 AA-CCCAGTTTC-C
1 AATTCCAATTTCGC
52287 AATTCCAATTTCGC
1 AATTCCAATTTCGC
52301 AA
1 AA
52303 CACGAATATG
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
12 3 0.14
13 14 0.64
14 5 0.23
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.31
Consensus pattern (14 bp):
AATTCCAATTTCGC
Found at i:52359 original size:20 final size:20
Alignment explanation
Indices: 52334--52469 Score: 193
Period size: 20 Copynumber: 6.8 Consensus size: 20
52324 TGCGATTTTC
*
52334 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
* *
52354 CAAATTCTCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
52374 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* *
52394 CAAATTTGTAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
52414 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* **
52434 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACGCGAAAGT
52453 CAAATTCGCAACGCGAA
1 CAAATTCGCAACGCGAA
52470 TTTAATTTCG
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
19 16 0.15
20 88 0.85
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:53430 original size:24 final size:24
Alignment explanation
Indices: 53372--53418 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
53362 AGTCAGTATT
* *
53372 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGATCAATACC
53396 CGAACTTTGATCTTGATCAATAC
1 CGAACTTTGATCTTGATCAATAC
53419 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGATCAATACC
Found at i:55715 original size:18 final size:18
Alignment explanation
Indices: 55692--55727 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
55682 AAGCAAAAGG
*
55692 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
55710 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
55728 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:56069 original size:20 final size:20
Alignment explanation
Indices: 56044--56085 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
56034 CGCGAAATAA
56044 GCGTTGCGAATTTGACTATC
1 GCGTTGCGAATTTGACTATC
56064 GCGTTGCGAATTTGACTATC
1 GCGTTGCGAATTTGACTATC
56084 GC
1 GC
56086 AACGCTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.33
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTATC
Found at i:56214 original size:25 final size:25
Alignment explanation
Indices: 56176--56225 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
56166 AAATCAATTA
*
56176 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
56201 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
56226 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:56630 original size:18 final size:18
Alignment explanation
Indices: 56609--56645 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
56599 GTAATTGGAG
56609 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
56627 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
56645 T
1 T
56646 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:56652 original size:24 final size:24
Alignment explanation
Indices: 56601--56653 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
56591 TTTCATATGT
* * *
56601 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
56625 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
56649 AATTT
1 AATTT
56654 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:56959 original size:39 final size:39
Alignment explanation
Indices: 56916--56999 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
56906 GATGCTCATA
56916 AAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAAATC
1 AAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAAATC
*
56955 AAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAAATC
1 AAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAAATC
56994 AAAATC
1 AAAATC
57000 TACAACTTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (39 bp):
AAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAAATC
Found at i:57262 original size:20 final size:20
Alignment explanation
Indices: 57237--57274 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57227 GTAAAGCTTA
*
57237 TTTCGCGTTTCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
57257 TTTCGCGTTGCGAATTTG
1 TTTCGCGTTGCGAATTTG
57275 TACCTTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.18, G:0.24, T:0.45
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:58823 original size:42 final size:42
Alignment explanation
Indices: 58745--58842 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
58735 GGCGGGACCA
* * * * * * *
58745 CTTGAACGATGACAATGGCCTCTTAAACGGTGGGAGGGGCTT
1 CTTGAATGATGATAAGGGCCTCTTAAACGATAGGAGGCGCCT
*
58787 CTTCG-ATGATGATAAGGGCCTCTTGAACGATAGGAGGCGCCT
1 CTT-GAATGATGATAAGGGCCTCTTAAACGATAGGAGGCGCCT
58829 CTTGAATGATGATA
1 CTTGAATGATGATA
58843 GGTGCATCGG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (42 bp):
CTTGAATGATGATAAGGGCCTCTTAAACGATAGGAGGCGCCT
Found at i:60886 original size:31 final size:31
Alignment explanation
Indices: 60844--61076 Score: 403
Period size: 31 Copynumber: 7.5 Consensus size: 31
60834 AGGGTCGAGG
60844 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
60875 ATTTACTTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
60906 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
60937 GTTTACCTATGTTCTTCGGGGCATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
60968 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
60999 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
61030 GTTTACCTATGTTCTTCGGGATATATGAACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
61061 GATTACCTAGGTTCTT
1 GTTTACCTATGTTCTT
61077 TAGAATCTAT
Statistics
Matches: 192, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 192 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:61598 original size:21 final size:21
Alignment explanation
Indices: 61573--61615 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
61563 AAAGAATATA
61573 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
61594 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
61615 T
1 T
61616 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:64141 original size:18 final size:18
Alignment explanation
Indices: 64120--64188 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
64110 AGAATGTCTA
64120 GGGGGTA-CAGATTCCCCT
1 GGGGGTATC-GATTCCCCT
64138 GGGGGTATCGATTCCCC-
1 GGGGGTATCGATTCCCCT
*
64155 --GGG-AACAGATTCCCCT
1 GGGGGTATC-GATTCCCCT
64171 GGGGGGTATCGATTCCCC
1 -GGGGGTATCGATTCCCC
64189 CCTAAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
14 2 0.05
15 11 0.26
18 15 0.36
19 12 0.29
20 2 0.05
ACGTcount: A:0.16, C:0.29, G:0.33, T:0.22
Consensus pattern (18 bp):
GGGGGTATCGATTCCCCT
Found at i:65174 original size:31 final size:31
Alignment explanation
Indices: 65136--65321 Score: 284
Period size: 31 Copynumber: 6.0 Consensus size: 31
65126 GGGTTGAGGA
*
65136 TTTACCTATGTTCTTCGGGATATATGGACTG
1 TTTACCTATGTTCTTCGGGACATATGGACTG
* *
65167 TTTACCTATGTTCTTCGAGACATATGGACTA
1 TTTACCTATGTTCTTCGGGACATATGGACTG
*
65198 TTTACCTATGTTCTTCGGGGCATATGGACTG
1 TTTACCTATGTTCTTCGGGACATATGGACTG
*
65229 TTTACCTATGTTCTTCGGGGCATATGGACTG
1 TTTACCTATGTTCTTCGGGACATATGGACTG
65260 TTTACCTATGTTCTTCGGGACATATGGACTG
1 TTTACCTATGTTCTTCGGGACATATGGACTG
* * *
65291 ATTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTTACCTATGTTCTTCGGGA-CATATGGACTG
65322 GTCCTTCGGG
Statistics
Matches: 144, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
31 143 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.39
Consensus pattern (31 bp):
TTTACCTATGTTCTTCGGGACATATGGACTG
Found at i:65827 original size:21 final size:21
Alignment explanation
Indices: 65802--65844 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
65792 AAAGAATATA
65802 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
65823 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
65844 T
1 T
65845 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:66147 original size:21 final size:21
Alignment explanation
Indices: 66123--66180 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
66113 ATCTTCACGT
*
66123 AAAGTACCAACCTCATGACGC
1 AAAGCACCAACCTCATGACGC
66144 AAAGCACCAACCTCATGACGC
1 AAAGCACCAACCTCATGACGC
*
66165 AAAGCACCGACCTCAT
1 AAAGCACCAACCTCAT
66181 CACGTAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.36, G:0.14, T:0.12
Consensus pattern (21 bp):
AAAGCACCAACCTCATGACGC
Found at i:67910 original size:19 final size:20
Alignment explanation
Indices: 67888--67930 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
67878 AATTCGCAAC
67888 GCGA-TTTTAGTTTCGCGTT
1 GCGATTTTTAGTTTCGCGTT
*
67907 GCGATTTTTATTTTCGCGTT
1 GCGATTTTTAGTTTCGCGTT
67927 GCGA
1 GCGA
67931 ATTTGGTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.12, C:0.16, G:0.26, T:0.47
Consensus pattern (20 bp):
GCGATTTTTAGTTTCGCGTT
Found at i:68219 original size:22 final size:22
Alignment explanation
Indices: 68191--68260 Score: 131
Period size: 22 Copynumber: 3.2 Consensus size: 22
68181 GATGGAGATA
68191 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
68213 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
*
68235 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAAATGGG
68257 GACG
1 GACG
68261 AATGTCGCCG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.21, C:0.14, G:0.43, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGGG
Found at i:68513 original size:19 final size:20
Alignment explanation
Indices: 68472--68522 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
68462 AGAAACTGGA
* * *
68472 TTGCGAAATTGTAATTCGTG
1 TTGCGAATTTGTAAATCGCG
68492 TTGCGAATTTG-AAATCGCG
1 TTGCGAATTTGTAAATCGCG
*
68511 TTGTGAATTTGT
1 TTGCGAATTTGT
68523 TGGTCATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.24, C:0.10, G:0.25, T:0.41
Consensus pattern (20 bp):
TTGCGAATTTGTAAATCGCG
Found at i:87333 original size:20 final size:21
Alignment explanation
Indices: 87267--87341 Score: 102
Period size: 20 Copynumber: 3.7 Consensus size: 21
87257 TAATTCAAAG
*
87267 TCCC-TTAGAAAAAGAATCGA
1 TCCCTTTAAAAAAAGAATCGA
87287 TCCC-TTAAAAAAAGAATCGA
1 TCCCTTTAAAAAAAGAATCGA
*
87307 TCCCTTTAAAAATAG-ATCGA
1 TCCCTTTAAAAAAAGAATCGA
*
87327 TCCCTTTACAAAAAG
1 TCCCTTTAAAAAAAG
87342 GTTTGATCCC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 41 0.82
21 9 0.18
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (21 bp):
TCCCTTTAAAAAAAGAATCGA
Found at i:87370 original size:21 final size:21
Alignment explanation
Indices: 87267--87371 Score: 65
Period size: 20 Copynumber: 5.1 Consensus size: 21
87257 TAATTCAAAG
* * *
87267 TCCCTT-AGAAAAAGAATCGA
1 TCCCTTCACAAAAAGGATAGA
* * *
87287 TCCCTT-AAAAAAAGAATCGA
1 TCCCTTCACAAAAAGGATAGA
* *
87307 TCCCTTTA-AAAATA-GATCGA
1 TCCCTTCACAAAA-AGGATAGA
* * *
87327 TCCCTTTACAAAAAGGTTTGA
1 TCCCTTCACAAAAAGGATAGA
*
87348 TCCCTTCACCAAAAGGATAGA
1 TCCCTTCACAAAAAGGATAGA
87369 TCC
1 TCC
87372 TTCGATGAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
20 43 0.59
21 30 0.41
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (21 bp):
TCCCTTCACAAAAAGGATAGA
Found at i:91166 original size:29 final size:29
Alignment explanation
Indices: 91131--91212 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
91121 AAACTAAATT
91131 GATGTCATTGCTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
91160 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
91189 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
91213 GTTAGGTGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 46 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:95889 original size:29 final size:29
Alignment explanation
Indices: 95854--95935 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
95844 AAACTAAATT
95854 GATGTCATTGCTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
95883 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
95912 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
95936 GTTAGGTGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 46 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:100569 original size:2 final size:2
Alignment explanation
Indices: 100564--100588 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100554 TTATTTTATT
100564 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
100589 TTTATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100613 original size:20 final size:18
Alignment explanation
Indices: 100588--100639 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 18
100578 TATATATATA
100588 TTTTATATTATTATTATTT
1 TTTTAT-TTATTATTATTT
100607 GTTTTATTTA-TA-TATTT
1 -TTTTATTTATTATTATTT
*
100624 TTTTATTTATTTTTAT
1 TTTTATTTATTATTAT
100640 ATTTATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 9 0.31
17 6 0.21
18 5 0.17
19 3 0.10
20 6 0.21
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTATTTATTATTATTT
Found at i:100628 original size:12 final size:12
Alignment explanation
Indices: 100601--100648 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
100591 TATATTATTA
*
100601 TTATTTGTTTTAT
1 TTATTTATTTT-T
*
100614 TTATATATTTTT
1 TTATTTATTTTT
100626 TTATTTATTTTT
1 TTATTTATTTTT
*
100638 ATATTTATTTT
1 TTATTTATTTT
100649 ACTTACTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 22 0.71
13 9 0.29
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (12 bp):
TTATTTATTTTT
Found at i:100640 original size:20 final size:21
Alignment explanation
Indices: 100522--100649 Score: 83
Period size: 20 Copynumber: 6.2 Consensus size: 21
100512 CTTATTATCG
* *
100522 TTTATTAATTTATATATATAT
1 TTTATTTATTTATATATTTAT
100543 ATTTACTTT-TTT-TAT-TTTA-
1 -TTTA-TTTATTTATATATTTAT
* * *
100562 TTTATATATATATATATATAT
1 TTTATTTATTTATATATTTAT
*
100583 ATATATTTTATATTAT-TA-TTAT
1 -TTTA-TTTAT-TTATATATTTAT
100605 TTGT-TTTATTTATATATTT-T
1 TT-TATTTATTTATATATTTAT
*
100625 TTTATTTATTTTTATATTTAT
1 TTTATTTATTTATATATTTAT
100646 TTTA
1 TTTA
100650 CTTACTATTT
Statistics
Matches: 82, Mismatches: 11, Indels: 27
0.68 0.09 0.22
Matches are distributed among these distances:
17 2 0.02
18 6 0.07
19 8 0.10
20 30 0.37
21 11 0.13
22 14 0.17
23 8 0.10
24 3 0.04
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (21 bp):
TTTATTTATTTATATATTTAT
Found at i:100690 original size:4 final size:4
Alignment explanation
Indices: 100522--100647 Score: 53
Period size: 4 Copynumber: 30.8 Consensus size: 4
100512 CTTATTATCG
* * * *
100522 TTTA TTAA TTTA TATATA TATA TTTA CTTTT TTTA TTTTA TTTA TATA
1 TTTA TTTA TTTA T-T-TA TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA
* * * * * *
100570 TATA TATA TATA TATA TAT- TTTA TATTA -TTA -TTA TTTGT TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTT-A TTTA TTTA
* *
100617 TATA TTTT TTTA TTTA TTT- TTATA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTT
100648 TACTTACTAT
Statistics
Matches: 98, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
3 10 0.10
4 69 0.70
5 16 0.16
6 3 0.03
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:100703 original size:25 final size:25
Alignment explanation
Indices: 100657--100718 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
100647 TTACTTACTA
*
100657 TTTTATTTACTTTCTTTATCTT-AT
1 TTTTATTTAATTTCTTTATCTTCAT
* *
100681 CTTTTATTTAATTTGTTTTTCTTCAT
1 -TTTTATTTAATTTCTTTATCTTCAT
*
100707 TTTAATTTAATT
1 TTTTATTTAATT
100719 AATTATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTATTTAATTTCTTTATCTTCAT
Found at i:103702 original size:11 final size:11
Alignment explanation
Indices: 103686--103745 Score: 65
Period size: 11 Copynumber: 5.8 Consensus size: 11
103676 AGATTCAATC
103686 AGAACAAAAAG
1 AGAACAAAAAG
103697 AGAACAAAAAG
1 AGAACAAAAAG
103708 AGAA-AAAAAG
1 AGAACAAAAAG
*
103718 AG--CAAAGAG
1 AGAACAAAAAG
* *
103727 AAAATAAAAAG
1 AGAACAAAAAG
103738 AGAA-AAAA
1 AGAACAAAA
103746 CAAAGGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
9 6 0.15
10 12 0.29
11 23 0.56
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (11 bp):
AGAACAAAAAG
Found at i:103739 original size:13 final size:14
Alignment explanation
Indices: 103720--103756 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
103710 AAAAAAAGAG
103720 CAAAGAGAAAATAA
1 CAAAGAGAAAATAA
103734 -AAAGAGAAAA-AA
1 CAAAGAGAAAATAA
103746 CAAAG-GAAAAT
1 CAAAGAGAAAAT
103757 TGAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.73, C:0.05, G:0.16, T:0.05
Consensus pattern (14 bp):
CAAAGAGAAAATAA
Found at i:103899 original size:69 final size:69
Alignment explanation
Indices: 103802--103943 Score: 223
Period size: 69 Copynumber: 2.1 Consensus size: 69
103792 TTCTCTCGAT
* *
103802 TCAAACTGAGATTGATCAAGCAAATCATTTCTAAATCACTGAACCACTTCACTCGAAGATCATAG
1 TCAAACTGAGATTGATCAAGCAAATCATTTCTAAATCACTGAACCACTCCACTCAAAGATCATAG
*
103867 ATCA
66 AGCA
* *
103871 TCAAA-TGAGATTGATCAAGCATAATCATTTCTGAATCACTGAATCACTCCACTCAAAGATCATA
1 TCAAACTGAGATTGATCAAGCA-AATCATTTCTAAATCACTGAACCACTCCACTCAAAGATCATA
103935 GAGCA
65 GAGCA
103940 TCAA
1 TCAA
103944 GAGAGAGACA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
68 16 0.24
69 51 0.76
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (69 bp):
TCAAACTGAGATTGATCAAGCAAATCATTTCTAAATCACTGAACCACTCCACTCAAAGATCATAG
AGCA
Found at i:104889 original size:32 final size:32
Alignment explanation
Indices: 104847--104936 Score: 135
Period size: 32 Copynumber: 2.8 Consensus size: 32
104837 GCATCTTTAA
104847 AGATTCAACATCAAATGTTGGGGCATTTTTTT
1 AGATTCAACATCAAATGTTGGGGCATTTTTTT
* * *
104879 ATATTTAACATTAAATGTTGGGGCATTTTTTT
1 AGATTCAACATCAAATGTTGGGGCATTTTTTT
* *
104911 AGATTCAACATCGAATATTGGGGCAT
1 AGATTCAACATCAAATGTTGGGGCAT
104937 CTTTGGGAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (32 bp):
AGATTCAACATCAAATGTTGGGGCATTTTTTT
Found at i:106043 original size:30 final size:30
Alignment explanation
Indices: 106007--106066 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
105997 TCCGAATGAC
106007 CTATCCAGAAGCCATAAAGATCCTCAGTAA
1 CTATCCAGAAGCCATAAAGATCCTCAGTAA
* * *
106037 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAAGCCATAAAGATCCTCAGTAA
106067 ACTGTCTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.22
Consensus pattern (30 bp):
CTATCCAGAAGCCATAAAGATCCTCAGTAA
Found at i:107250 original size:62 final size:59
Alignment explanation
Indices: 107181--107333 Score: 191
Period size: 62 Copynumber: 2.5 Consensus size: 59
107171 CTTTAGCTAG
* * * *
107181 GCATCGATGCAGTACGTGCATCGATGCACAAAT-CAACTTCGATGTTTTCATTTTAATGGGAT
1 GCATCGATGCACTCCGTGCATCGATGCACAAATGC-A-TTCGATGTTTCCA-TTTAATAGG-T
*
107243 GCATCGATGCACTCCGTGCATCGATGCACCAATTGCATTCGATGTTTCCATTTAATAGGT
1 GCATCGATGCACTCCGTGCATCGATGCA-CAAATGCATTCGATGTTTCCATTTAATAGGT
*
107303 GCATCGATGCACTTCCGTGCATCGATACACA
1 GCATCGATGCAC-TCCGTGCATCGATGCACA
107334 CTGAACAATT
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
60 15 0.18
61 23 0.28
62 38 0.46
63 5 0.06
64 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (59 bp):
GCATCGATGCACTCCGTGCATCGATGCACAAATGCATTCGATGTTTCCATTTAATAGGT
Found at i:110747 original size:30 final size:30
Alignment explanation
Indices: 110711--110813 Score: 188
Period size: 30 Copynumber: 3.4 Consensus size: 30
110701 TCCGAAGGAC
110711 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
110741 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
110771 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
110801 CTGTCCATAGGTC
1 CTATCCAGAGGTC
110814 CCGAAGAACC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 71 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:110830 original size:30 final size:30
Alignment explanation
Indices: 110787--110880 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 30
110777 AGAGGTCATA
* * *
110787 AAGATCCTCGGTAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAACTGTCCATATGTCCCG
* * *
110817 AAGAACCTAGGTAAACTATCCATATGTTCCT
1 AAGAACCTAGGT-AACTGTCCATATGTCCCG
* * *
110848 TAGAACATAGGTATACTGTCCATATGTCTCG
1 AAGAACCTAGGTA-ACTGTCCATATGTCCCG
110879 AA
1 AA
110881 AGACATAGGT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
30 11 0.22
31 38 0.78
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (30 bp):
AAGAACCTAGGTAACTGTCCATATGTCCCG
Found at i:110830 original size:60 final size:61
Alignment explanation
Indices: 110711--110838 Score: 186
Period size: 60 Copynumber: 2.1 Consensus size: 61
110701 TCCGAAGGAC
* * *
110711 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGT-AA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCACAAAGAACCTAGGTAAA
* * * *
110771 CTATCCAGAGGTCATAAAGATCCTCGGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCACAAAGAACCTAGGTAAA
110832 CTATCCA
1 CTATCCA
110839 TATGTTCCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
60 51 0.85
61 9 0.15
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (61 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCACAAAGAACCTAGGTAAA
Found at i:110887 original size:31 final size:30
Alignment explanation
Indices: 110796--110891 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
110786 AAAGATCCTC
* * *
110796 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATATGTCTCGAAGAACATA
* **
110826 GGTAAACTATCCATATGT-TCCTTAGAACATA
1 GGT-AACTGTCCATATGTCT-CGAAGAACATA
110857 GGTATACTGTCCATATGTCTCGAA-AGACATA
1 GGTA-ACTGTCCATATGTCTCGAAGA-ACATA
110888 GGTA
1 GGTA
110892 GTTCTTTGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 46 0.88
32 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (30 bp):
GGTAACTGTCCATATGTCTCGAAGAACATA
Found at i:111085 original size:4 final size:4
Alignment explanation
Indices: 111076--111251 Score: 345
Period size: 4 Copynumber: 44.2 Consensus size: 4
111066 ATATAACCAT
111076 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
111124 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
111172 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
111219 TACA TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA T
111252 GTTATCATTT
Statistics
Matches: 171, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
3 3 0.02
4 168 0.98
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:112220 original size:64 final size:63
Alignment explanation
Indices: 112147--112287 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 63
112137 GCAGTACCCG
* * *
112147 TGCATCGATGCACAAATCACCTTCGATGTTTTCATTTTAAGGGGATGCATCGATGCAC-TCCTTA
1 TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGG-TGCATCGATGCACTTCC-TA
* ** * * *
112211 TGCATCGATGCACCAATTGCATTCGATGTTTCCATTTTAATAGGTGTATCGATGCACTTCCTG
1 TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGGTGCATCGATGCACTTCCTA
*
112274 TGCATCGATACACA
1 TGCATCGATGCACA
112288 CTGAACAATT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 25 0.38
64 40 0.62
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (63 bp):
TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGGTGCATCGATGCACTTCCTA
Found at i:113277 original size:132 final size:132
Alignment explanation
Indices: 113121--113476 Score: 599
Period size: 132 Copynumber: 2.7 Consensus size: 132
113111 GATTATATCT
* * *
113121 ATATATATTATTT-TTATAAATAAGATATTTATTTACTT-AGAAATATCAGAAAATGACTTCTAG
1 ATATATATGATTTATGA-AAATAAGATATTTATTTATTTAAG-AATATCAGAAAATGACTTCTAG
*
113184 GTGCTTTAAGACAGCCCATTTCTTAATATATTAATAAAACATTTTTCTAAAAATAATTAAAATAA
64 GTTCTTTAAGACAGCCCATTTCTTAATATATTAATAAAACATTTTTCTAAAAATAATTAAAATAA
113249 ATTA
129 ATTA
113253 ATATATATGATTTATGAAAATAAGATATTTATTTATTTAAGAATATCAGAAAATGACTTCTAGGT
1 ATATATATGATTTATGAAAATAAGATATTTATTTATTTAAGAATATCAGAAAATGACTTCTAGGT
*
113318 TCTTTAAGACAGCCCATTTCTTAATATATTAATAAAACATTTTTTTAAAAATAATTAAAATAAAT
66 TCTTTAAGACAGCCCATTTCTTAATATATTAATAAAACATTTTTCTAAAAATAATTAAAATAAAT
113383 TA
131 TA
* * *
113385 ATATATATGATTTATGAAAATAAGATATTTATTTGTTTAAGAATATCATAAAAGGACTTCTAGGT
1 ATATATATGATTTATGAAAATAAGATATTTATTTATTTAAGAATATCAGAAAATGACTTCTAGGT
*
113450 TCTTTAAGACAACCCATTTCTTAATAT
66 TCTTTAAGACAGCCCATTTCTTAATAT
113477 TAAAATATGA
Statistics
Matches: 213, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
132 209 0.98
133 4 0.02
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (132 bp):
ATATATATGATTTATGAAAATAAGATATTTATTTATTTAAGAATATCAGAAAATGACTTCTAGGT
TCTTTAAGACAGCCCATTTCTTAATATATTAATAAAACATTTTTCTAAAAATAATTAAAATAAAT
TA
Found at i:113652 original size:21 final size:22
Alignment explanation
Indices: 113609--113653 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
113599 TACTAATAAG
113609 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
113631 AACATATAA-AATTAAA-ATATA
1 AACA-ATAATAATTAAATATATA
113652 AA
1 AA
113654 TAAACAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:113886 original size:2 final size:2
Alignment explanation
Indices: 113879--113916 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
113869 GGTATTTTAC
* *
113879 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113917 AGAAGTGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:114993 original size:26 final size:26
Alignment explanation
Indices: 114955--115006 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
114945 ATTTTTTTAT
*
114955 TAATAATAATAATAGTATAAATAAAA
1 TAATAATAATAATAGTAAAAATAAAA
* *
114981 TAATAATATTAATATTAAAAATAAAA
1 TAATAATAATAATAGTAAAAATAAAA
115007 ATAAAAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
TAATAATAATAATAGTAAAAATAAAA
Found at i:114999 original size:20 final size:22
Alignment explanation
Indices: 114952--115009 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
114942 ATAATTTTTT
114952 TATTAATAATAATAATAGTATAA
1 TATTAA-AATAATAATAGTATAA
114975 -A-TAAAATAATAATA-T-TAA
1 TATTAAAATAATAATAGTATAA
*
114993 TATTAAAAATAAAAATA
1 TATT-AAAATAATAATA
115010 AAAACAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 3 0.10
19 2 0.06
20 11 0.35
21 14 0.45
22 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
TATTAAAATAATAATAGTATAA
Found at i:115393 original size:138 final size:121
Alignment explanation
Indices: 115360--115697 Score: 343
Period size: 121 Copynumber: 2.9 Consensus size: 121
115350 TTTCAATATG
** *
115360 TGAT-GAATCAAATTAAGGTTGAACAAGTTCTTCTCATTGTGAACTTCTTCTCCTTCTTCAGATG
1 TGATAGAATCAAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT-CTTCTTCAGATG
*
115424 AGTTCTTCTCATTATG-A-TCACTTCTGGAAATGTTGATGTTGATCTATCTCCTTCTA
65 AGTTCTTCTCATTATGAACTC-CTTCTGGAAATGTTGATCTTGATCTATCTCCTTCTA
*
115480 TGATAGAATCAAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATG
1 TGATAGAATCAAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCTTCTTCAGATG
* *
115545 AGTTCTTCTCATTATGAACTTCC-TCTGGAAAAGTTGATC-----C-A------TCGA
65 AGTTCTTCTCATTATGAAC-TCCTTCTGGAAATGTTGATCTTGATCTATCTCCTTCTA
* * * *
115590 GTGAT-GAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
1 -TGATAGAA-TCAAAC-AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-T-CTTCTTCA
* *
115654 GATGAGTTCTTCTTATTATGAACT-CTACCTGGAAATGTTGATCT
61 GATGAGTTCTTCTCATTATGAACTCCT-TCTGGAAATGTTGATCT
115698 ATCAAGCGAT
Statistics
Matches: 191, Mismatches: 15, Indels: 30
0.81 0.06 0.13
Matches are distributed among these distances:
110 6 0.03
111 10 0.05
112 37 0.19
113 43 0.23
116 1 0.01
117 1 0.01
120 4 0.02
121 70 0.37
122 16 0.08
123 1 0.01
124 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (121 bp):
TGATAGAATCAAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTTCTTCAGATGA
GTTCTTCTCATTATGAACTCCTTCTGGAAATGTTGATCTTGATCTATCTCCTTCTA
Found at i:115524 original size:121 final size:116
Alignment explanation
Indices: 115359--115758 Score: 407
Period size: 113 Copynumber: 3.5 Consensus size: 116
115349 ATTTCAATAT
** *
115359 GTGATGAATCAAATTAAGGTTGAACAAGTTCTTCTCATTGTGAACTTCTTC-TCCTTCTTCAGAT
1 GTGATGAATCAAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * * *
115423 GAGTTCTTCTCATTATGATCACTTCTGGAAATGTTGATGTTGATCTATCTCCTTCTA
66 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGTTG----A--TCCATCGA
115480 -TGATAGAATCAAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGA
1 GTGAT-GAATCAAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
115543 TGAGTTCTTCTCATTATGAACTTCCTCTGGAAA-----A-GTTGATCCATCGA
65 TGAGTTCTTCTCATTATGAAC-TCTTCTGGAAATGTTGATGTTGATCCATCGA
* * * *
115590 GTGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
1 GTGATGAA-TCAAAC-AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * *
115655 ATGAGTTCTTCTTATTATGAACTCTACCTGGAAATGTTGAT-CT-AT-CA---A
64 ATGAGTTCTTCTCATTATGAACTCT-TCTGGAAATGTTGATGTTGATCCATCGA
* * * *
115703 GCGATGAATTCAAGAAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTC
1 GTGATGAA-TCAA-ACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC
115759 AGATGAGTTT
Statistics
Matches: 242, Mismatches: 22, Indels: 38
0.80 0.07 0.13
Matches are distributed among these distances:
110 9 0.04
111 9 0.04
112 41 0.17
113 85 0.35
116 6 0.02
117 3 0.01
118 2 0.01
120 4 0.02
121 71 0.29
122 12 0.05
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (116 bp):
GTGATGAATCAAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGTTGATCCATCGA
Found at i:115687 original size:113 final size:111
Alignment explanation
Indices: 115494--115814 Score: 422
Period size: 113 Copynumber: 2.9 Consensus size: 111
115484 AGAATCAAAC
*
115494 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
115558 ATGAACTTCCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAGCA
65 ATGAACTTAC-CTGGAAATGTTGATCCATCAAGTGATGAATTCAAGAA
* *
115606 AAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
115671 ATGAACTCTACCTGGAAATGTTGATCTATCAAGCGATGAATTCAAGAA
65 ATGAACT-TACCTGGAAATGTTGATCCATCAAGTGATGAATTCAAGAA
* *
115719 AAAGGTTAAACAAATTCTTCTCATTATGAA-----CTT-CTTCTTCAGATGAGTTTTTCTCATTA
1 AAAGGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * *
115778 TGAACTTTACCTAGCAATGCTGATCCATCAAGTGATG
66 TGAAC-TTACCTGGAAATGTTGATCCATCAAGTGATG
115815 GGTTAAAATT
Statistics
Matches: 187, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
106 54 0.29
107 4 0.02
112 38 0.20
113 89 0.48
114 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (111 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTACCTGGAAATGTTGATCCATCAAGTGATGAATTCAAGAA
Found at i:115755 original size:17 final size:17
Alignment explanation
Indices: 115733--115784 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
115723 GTTAAACAAA
115733 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* *
115750 TTCTTCTTCA-GATG-AG
1 TTCTTC-TCATTATGAAC
*
115766 TTTTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
115783 TT
1 TT
115785 TACCTAGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
15 3 0.11
16 9 0.33
17 12 0.44
18 3 0.11
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:116207 original size:21 final size:22
Alignment explanation
Indices: 116165--116221 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
116155 AATAAAGCTT
*
116165 TCATCTTTGAAGAGATAATCTA
1 TCATCTTTGAAGAGAAAATCTA
116187 TCATCTTTGAAGA-AAAATCTA
1 TCATCTTTGAAGAGAAAATCTA
*
116208 TCACCTTTGAAGAG
1 TCATCTTTGAAGAG
116222 TGTAGATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAAAATCTA
Found at i:117710 original size:58 final size:60
Alignment explanation
Indices: 117597--117710 Score: 133
Period size: 58 Copynumber: 1.9 Consensus size: 60
117587 TGCTGATACA
** * ** * *
117597 AGCGTTCAGAATGCATTCAAAATTGTTGATTCTGACTGAAATGGGTTTTCGGCATGTCCT
1 AGCGTTCAGAATGCATTCAAAATTCCTGATTCTGACTAAAATAAGCTTTCAGCATGTCCT
* *
117657 AGCGTTCA-AATGCATT-AACATTCCTGATTCTGATTAAAATAAGCTTTCAGCATG
1 AGCGTTCAGAATGCATTCAAAATTCCTGATTCTGACTAAAATAAGCTTTCAGCATG
117711 CCCCAGCATT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
58 29 0.64
59 8 0.18
60 8 0.18
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (60 bp):
AGCGTTCAGAATGCATTCAAAATTCCTGATTCTGACTAAAATAAGCTTTCAGCATGTCCT
Found at i:117755 original size:75 final size:74
Alignment explanation
Indices: 117660--117797 Score: 197
Period size: 75 Copynumber: 1.9 Consensus size: 74
117650 ATGTCCTAGC
*
117660 GTTCAAATGCATTAACATTCCTGA-TTCTGATTAAAATAAGCTTTCAGCATGCCCCAGCATTTGG
1 GTTCAAATGCATTAACATTCC-AACTTCTGATTAAAATAAGCTTTCAGCATGCCCCAGCATTTGG
117724 TGATACAAAT
65 TGATACAAAT
* * ** *
117734 GTTCAAAATGCATTAATATTCCAACTTCTGATTGAAATGGGCTTTCAGCATGCCCCATCATTTG
1 GTTC-AAATGCATTAACATTCCAACTTCTGATTAAAATAAGCTTTCAGCATGCCCCAGCATTTG
117798 CTTCTTGTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
74 5 0.09
75 51 0.91
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (74 bp):
GTTCAAATGCATTAACATTCCAACTTCTGATTAAAATAAGCTTTCAGCATGCCCCAGCATTTGGT
GATACAAAT
Found at i:124052 original size:15 final size:15
Alignment explanation
Indices: 124032--124062 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
124022 CTTTATTCTG
124032 AATGCCCTGACTGAT
1 AATGCCCTGACTGAT
124047 AATGCCCTGACTGAT
1 AATGCCCTGACTGAT
124062 A
1 A
124063 CTCTTGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (15 bp):
AATGCCCTGACTGAT
Found at i:125782 original size:131 final size:132
Alignment explanation
Indices: 125582--125919 Score: 574
Period size: 132 Copynumber: 2.6 Consensus size: 132
125572 TTATTTTTAT
* * * *
125582 AAATAAGATATTTATTTACTT-AGAAATATCATAAAAGGGCTTCTAGGTGCTTTAAGACAGCTCA
1 AAATAAGATATTTATTTATTTAAG-AATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAGCCCA
125646 TTTCTTAATATATTAATAAAACATTTTT-TAAAAATAATTAAAATAAATTAATATATACT-ATTT
65 TTTCTTAATATATTAATAAAACATTTTTCTAAAAATAATTAAAATAAATTAATATATA-TGATTT
125709 ATGA
129 ATGA
*
125713 AAATAAGATATTTATTTATTTAAGAATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAACCCAT
1 AAATAAGATATTTATTTATTTAAGAATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAGCCCAT
*
125778 TTCTTAATATATTAATAAAATATTTTTCTAAAAATAATTAAAATAAATTAATATATATGATTTAT
66 TTCTTAATATATTAATAAAACATTTTTCTAAAAATAATTAAAATAAATTAATATATATGATTTAT
125843 GA
131 GA
*
125845 AAATAAGATATTTATTTATTTAAGAATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAGCCTAT
1 AAATAAGATATTTATTTATTTAAGAATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAGCCCAT
125910 TTCTTAATAT
66 TTCTTAATAT
125920 TAAAAAAATA
Statistics
Matches: 196, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
131 84 0.43
132 112 0.57
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (132 bp):
AAATAAGATATTTATTTATTTAAGAATATCAGAAAAGGACTTCTAGGTGCTTTAAGACAGCCCAT
TTCTTAATATATTAATAAAACATTTTTCTAAAAATAATTAAAATAAATTAATATATATGATTTAT
GA
Found at i:126975 original size:21 final size:21
Alignment explanation
Indices: 126913--126976 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
126903 TTTGCTATGG
* *
126913 TTTGGTCTTTGTC-TGTTGTTG
1 TTTGCTCTTTGTCGT-TTGTTT
*
126934 GTTGCTCTTTGTCGTTTGTTT
1 TTTGCTCTTTGTCGTTTGTTT
126955 TTTGCTCTTTGTCGTTTGTTT
1 TTTGCTCTTTGTCGTTTGTTT
126976 T
1 T
126977 CCTTGGTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.00, C:0.12, G:0.23, T:0.64
Consensus pattern (21 bp):
TTTGCTCTTTGTCGTTTGTTT
Found at i:127402 original size:3 final size:3
Alignment explanation
Indices: 127394--127460 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
127384 AATTTTTTAT
127394 TAA TAA TAA TAA TAA T-A TAA TAA TAA T-A TAAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * * *
127437 TAC TAA TAT TAA TAT TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
127461 AAAAACAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
2 6 0.12
3 44 0.85
4 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:127416 original size:17 final size:17
Alignment explanation
Indices: 127394--127460 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
127384 AATTTTTTAT
127394 TAATAATAATAATAATA
1 TAATAATAATAATAATA
127411 TAATAATAAT-ATAAATA
1 TAATAATAATAAT-AATA
* *
127428 AAATAATAATACTAATA
1 TAATAATAATAATAATA
* *
127445 TTAATATTAAAAATAA
1 -TAATAATAATAATAA
127461 AAAAACAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
16 2 0.05
17 27 0.66
18 12 0.29
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (17 bp):
TAATAATAATAATAATA
Found at i:127427 original size:23 final size:23
Alignment explanation
Indices: 127401--127450 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
127391 TATTAATAAT
127401 AATAATAAT-ATAATAATAATATA
1 AATAA-AATAATAATAATAATATA
* *
127424 AATAAAATAATAATACTAATATT
1 AATAAAATAATAATAATAATATA
127447 AATA
1 AATA
127451 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
AATAAAATAATAATAATAATATA
Found at i:137795 original size:24 final size:24
Alignment explanation
Indices: 137766--137812 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
137756 ACATGACATG
137766 GTACATAGATGTTTAATACATCAT
1 GTACATAGATGTTTAATACATCAT
*
137790 GTACATAGATGTTTTATACATCA
1 GTACATAGATGTTTAATACATCA
137813 CCGGGAAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (24 bp):
GTACATAGATGTTTAATACATCAT
Found at i:138157 original size:40 final size:40
Alignment explanation
Indices: 138102--138263 Score: 288
Period size: 40 Copynumber: 4.0 Consensus size: 40
138092 TGCAGGTTTA
138102 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
*
138142 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
*
138182 TAATACACTTCGGTGTATATGGTGGGAACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
* *
138222 TAATACACTTCGGTGTTTATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
138262 TA
1 TA
138264 GCACTACGGT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 116 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
Found at i:140505 original size:39 final size:38
Alignment explanation
Indices: 140458--140620 Score: 181
Period size: 39 Copynumber: 4.3 Consensus size: 38
140448 ATTTTTTTAT
*
140458 AAATATATATAGATATTATATAGTTTGAAAACATTTTTA
1 AAATATATATA-ATATTATATAGTTTGAAAACATTTTGA
* *
140497 AAATATATAT-ATAATATATAGTTTTAAAAACATGTTTGA
1 AAATATATATAATATTATATAG-TTTGAAAACAT-TTTGA
* * *
140536 AAACATTTAT-ATATTATATAGTTTTTAAAACATTTTGA
1 AAATATATATAATATTATATAG-TTTGAAAACATTTTGA
* * *
140574 AAATAAATATAATA-TATAT-TTTTTAAAACATTTTGA
1 AAATATATATAATATTATATAGTTTGAAAACATTTTGA
140610 AAATATATATA
1 AAATATATATA
140621 GTTTTTAAAA
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
36 26 0.24
37 10 0.09
38 27 0.25
39 46 0.42
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (38 bp):
AAATATATATAATATTATATAGTTTGAAAACATTTTGA
Found at i:140515 original size:37 final size:38
Alignment explanation
Indices: 140462--140620 Score: 207
Period size: 36 Copynumber: 4.2 Consensus size: 38
140452 TTTTATAAAT
* * * *
140462 ATATATAGATATTATATAG-TTTGAAAACATTTTTAAA
1 ATATATATATAATATATAGTTTTTAAAACATTTTGAAA
*
140499 ATATATATATAATATATAGTTTTAAAAACATGTTTGAAA
1 ATATATATATAATATATAGTTTTTAAAACAT-TTTGAAA
* * *
140538 ACATTTATATATTATATAGTTTTTAAAACATTTTGAAA
1 ATATATATATAATATATAGTTTTTAAAACATTTTGAAA
*
140576 ATA-A-ATATAATATATATTTTTTAAAACATTTTGAAA
1 ATATATATATAATATATAGTTTTTAAAACATTTTGAAA
140612 ATATATATA
1 ATATATATA
140621 GTTTTTAAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
36 33 0.31
37 18 0.17
38 22 0.21
39 33 0.31
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (38 bp):
ATATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:140591 original size:36 final size:36
Alignment explanation
Indices: 140474--140712 Score: 203
Period size: 36 Copynumber: 6.8 Consensus size: 36
140464 ATATAGATAT
* *
140474 TATATAG-TTTGAAAACATTTTTAAAATATATATATAA
1 TATATAGTTTTTAAAACATTTTGAAAATA-A-ATATAA
* ** *
140511 TATATAGTTTTAAAAACATGTTTGAAAACATTTATATAT
1 TATATAGTTTTTAAAACAT-TTTG-AAA-ATAAATATAA
140550 TATATAGTTTTTAAAACATTTTGAAAATAAATATAA
1 TATATAGTTTTTAAAACATTTTGAAAATAAATATAA
*
140586 TATATATTTTTTAAAACATTTTG-----AAA-AT-A
1 TATATAGTTTTTAAAACATTTTGAAAATAAATATAA
* * *
140615 TATATAGTTTTTAAAATATTTTG-AAA-ACATATAT
1 TATATAGTTTTTAAAACATTTTGAAAATAAATATAA
* * *
140649 TATATAGTTTTGAAATCATTTTGAAAACT-TATATAA
1 TATATAGTTTTTAAAACATTTTGAAAA-TAAATATAA
* *
140685 TATATTGTTTTAAAAACATTTTTGAAAA
1 TATATAGTTTTTAAAACA-TTTTGAAAA
140713 CTATATAATT
Statistics
Matches: 167, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
29 22 0.13
30 2 0.01
31 3 0.02
32 2 0.01
33 2 0.01
34 20 0.12
35 3 0.02
36 49 0.29
37 19 0.11
38 14 0.08
39 26 0.16
40 3 0.02
41 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TATATAGTTTTTAAAACATTTTGAAAATAAATATAA
Found at i:140653 original size:63 final size:65
Alignment explanation
Indices: 140549--140683 Score: 186
Period size: 63 Copynumber: 2.1 Consensus size: 65
140539 CATTTATATA
* *
140549 TTATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATATTTTTTAAAACATTTTGAAAA-
1 TTATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTTTTGAAAACATTTTGAAAAC
* * * *
140613 TATATATAGTTTTTAAAATATTTTG-AAA-ACATATATTATATAGTTTTGAAATCATTTTGAAAA
1 T-TATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTTTTGAAAACATTTTGAAAA
140676 C
65 C
140677 TTATATA
1 TTATATA
140684 ATATATTGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
63 36 0.57
64 5 0.08
65 22 0.35
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (65 bp):
TTATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTTTTGAAAACATTTTGAAAAC
Found at i:140669 original size:99 final size:102
Alignment explanation
Indices: 140510--140749 Score: 305
Period size: 99 Copynumber: 2.3 Consensus size: 102
140500 TATATATATA
* *
140510 ATATATAGTTTTAAAAACATGTTTGAAAACATTTATATATTATATAGTTTTTAAAACATTTTGAA
1 ATATATAGTTTTAAAAATAT-TTTGAAAAC---TATATATTATATAGTTTTGAAAACATTTTGAA
*
140575 AA-TAAATATAATATATAT-TTTTTAAAACA-TTTTGAAAA-T
62 AACT-AATATAATATAT-TGTTTTAAAAACATTTTTGAAAACT
* *
140614 ATATATAGTTTTTAAAATATTTTGAAAAC-ATATATTATATAGTTTTGAAATCATTTTGAAAACT
1 ATATATAGTTTTAAAAATATTTTGAAAACTATATATTATATAGTTTTGAAAACATTTTGAAAACT
*
140678 TATATAATATATTGTTTTAAAAACATTTTTGAAAACT
66 AATATAATATATTGTTTTAAAAACATTTTTGAAAACT
140715 ATATA-A-TTTTAAAAAATATTTTTGAAAACTATATA
1 ATATATAGTTTT-AAAAATA-TTTTGAAAACTATATA
140750 ATTTTAAAAA
Statistics
Matches: 122, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
98 1 0.01
99 56 0.46
100 17 0.14
101 16 0.13
102 5 0.04
103 9 0.07
104 18 0.15
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (102 bp):
ATATATAGTTTTAAAAATATTTTGAAAACTATATATTATATAGTTTTGAAAACATTTTGAAAACT
AATATAATATATTGTTTTAAAAACATTTTTGAAAACT
Found at i:140718 original size:36 final size:34
Alignment explanation
Indices: 140505--140825 Score: 224
Period size: 30 Copynumber: 9.5 Consensus size: 34
140495 TAAAATATAT
140505 ATATAATATATAGTTTTAAAAACATGTTTGAAAAC
1 ATATAATATATAGTTTTAAAAACAT-TTTGAAAAC
* *
140540 ATTTATATATTATATAGTTTTTAAAACATTTTGAAAATAA
1 A--TATA-A-TATATAGTTTTAAAAACATTTTG-AAA-AC
* *
140580 ATATAATATATATTTTTTAAAACATTTTG--AA-
1 ATATAATATATAGTTTTAAAAACATTTTGAAAAC
* *
140611 A-AT-ATATATAGTTTTTAAAATATTTTGAAAAC
1 ATATAATATATAGTTTTAAAAACATTTTGAAAAC
* * *
140643 ATATATTATATAGTTTTGAAATCATTTTGAAAAC
1 ATATAATATATAGTTTTAAAAACATTTTGAAAAC
*
140677 TTATATAATATATTGTTTTAAAAACATTTTTGAAAAC
1 --ATATAATATATAGTTTTAAAAACA-TTTTGAAAAC
* *
140714 -TAT-ATA-AT--TTTAAAAAATATTTTTGAAAAC
1 ATATAATATATAGTTTTAAAAACA-TTTTGAAAAC
* ** *
140744 -TAT-ATA-AT--TTTAAAAAACATTTTTTTAAAT
1 ATATAATATATAGTTTTAAAAACA-TTTTGAAAAC
* * *
140774 ATATAATATATAATTTTAACATAC-TTTTGAAAAT
1 ATATAATATATAGTTTTAA-AAACATTTTGAAAAC
*
140808 ATATATTATATAGGTTTT
1 ATATAATATATA-GTTTT
140826 TGAAAAATAT
Statistics
Matches: 240, Mismatches: 25, Indels: 42
0.78 0.08 0.14
Matches are distributed among these distances:
29 22 0.09
30 48 0.20
31 6 0.03
32 7 0.03
33 8 0.03
34 47 0.20
35 10 0.04
36 45 0.19
37 15 0.06
38 9 0.04
39 21 0.09
40 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (34 bp):
ATATAATATATAGTTTTAAAAACATTTTGAAAAC
Found at i:142156 original size:2 final size:2
Alignment explanation
Indices: 142151--142179 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
142141 TTTTTTTGTT
142151 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
142180 GAGAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:142332 original size:40 final size:40
Alignment explanation
Indices: 142288--142374 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
142278 AACTCCAATT
* * *
142288 TCGCAAC-TCAGTTTCCAAATTTGCAACGCGAATATGTAAA
1 TCGCAACGTCAATCTCCAAA-TCGCAACGCGAATATGTAAA
* ** *
142328 TCGCAACGTGAATCTGTAAATCGCAACGCGAATCTGTAAA
1 TCGCAACGTCAATCTCCAAATCGCAACGCGAATATGTAAA
142368 TCGCAAC
1 TCGCAAC
142375 ACATAAGTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 32 0.82
41 7 0.18
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (40 bp):
TCGCAACGTCAATCTCCAAATCGCAACGCGAATATGTAAA
Found at i:142333 original size:20 final size:20
Alignment explanation
Indices: 142310--142374 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
142300 TTCCAAATTT
*
142310 GCAACGCGAATATGTAAATC
1 GCAACGCGAATCTGTAAATC
*
142330 GCAACGTGAATCTGTAAATC
1 GCAACGCGAATCTGTAAATC
142350 GCAACGCGAATCTGTAAATC
1 GCAACGCGAATCTGTAAATC
142370 GCAAC
1 GCAAC
142375 ACATAAGTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
GCAACGCGAATCTGTAAATC
Found at i:142412 original size:20 final size:19
Alignment explanation
Indices: 142365--142412 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
142355 GCGAATCTGT
*
142365 AAATCGCAACACATAAGTC
1 AAATCGCAACACAGAAGTC
142384 AAATCGCAACACAGAAGTC
1 AAATCGCAACACAGAAGTC
142403 AAATTCGCAA
1 AAA-TCGCAA
142413 AGCGCGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.48, C:0.25, G:0.12, T:0.15
Consensus pattern (19 bp):
AAATCGCAACACAGAAGTC
Found at i:142597 original size:22 final size:22
Alignment explanation
Indices: 142572--142613 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
142562 ATGACATCCG
142572 TCCCCATCTCCGACGAAATTCA
1 TCCCCATCTCCGACGAAATTCA
* * *
142594 TCCCTATTTCCGGCGAAATT
1 TCCCCATCTCCGACGAAATT
142614 TGTCTATCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.36, G:0.12, T:0.29
Consensus pattern (22 bp):
TCCCCATCTCCGACGAAATTCA
Found at i:143063 original size:20 final size:21
Alignment explanation
Indices: 143006--143070 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
142996 CGCAACTCAG
*
143006 TTTCCAAATTCGCATTGCGAT
1 TTTCCAAATTCGCGTTGCGAT
143027 TTTCCAAATTCGCGTTGCGAT
1 TTTCCAAATTCGCGTTGCGAT
** *
143048 TTT-CATTTTCGTGTTGCGAT
1 TTTCCAAATTCGCGTTGCGAT
143068 TTT
1 TTT
143071 AAATTTCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 17 0.43
21 23 0.57
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (21 bp):
TTTCCAAATTCGCGTTGCGAT
Found at i:143077 original size:20 final size:20
Alignment explanation
Indices: 143014--143077 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
143004 AGTTTCCAAA
*
143014 TTCGCATTGCGATTTTCCAAA-
1 TTCGCGTTGCGATTTT--AAAT
* *
143035 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTAAAT
*
143055 TTCGTGTTGCGATTTTAAAT
1 TTCGCGTTGCGATTTTAAAT
143075 TTC
1 TTC
143078 ATAAACTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.03
20 20 0.56
21 15 0.42
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTAAAT
Found at i:144669 original size:2 final size:2
Alignment explanation
Indices: 144650--144693 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
144640 TGGTCATTTT
* *
144650 TA TA TA T- TA TG TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
144691 TA T
1 TA T
144694 TTCCTCTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:144719 original size:4 final size:4
Alignment explanation
Indices: 144710--144748 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
144700 TTAATTTACC
*
144710 ATTT ATTT ATTT ATTT ATTTT TTTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT AT
144749 GTAGTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:144739 original size:25 final size:25
Alignment explanation
Indices: 144710--144758 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
144700 TTAATTTACC
* *
144710 ATTTATTTATTTATTTATTTTTTTT
1 ATTTATTTATTTATGTAGTTTTTTT
144735 ATTTATTTATTTATGTAGTTTTTT
1 ATTTATTTATTTATGTAGTTTTTT
144759 CTCTAACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (25 bp):
ATTTATTTATTTATGTAGTTTTTTT
Found at i:148383 original size:95 final size:94
Alignment explanation
Indices: 148191--148373 Score: 260
Period size: 95 Copynumber: 1.9 Consensus size: 94
148181 TATAATATTA
* * * *
148191 TATATATATAATAAAGCTAGAGTTATCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTATGGA
1 TATATATACAATAAAGCTAGAGCTATCCCTCTAAAGCAATTGGTTAAACACCCCGGATTTATGGA
* * *
148256 TAATATTCAGCTAGCCTGATAAAGATAAT
66 TAAGATTCAGCTAACATGATAAAGATAAT
* *
148285 TATACTATACAATAAAGCTTGAGCTGTCCCTCT-AAGTCAATTGGTTAAACACCCCGGATTTATG
1 TATA-TATACAATAAAGCTAGAGCTATCCCTCTAAAG-CAATTGGTTAAACACCCCGGATTTATG
148349 GATAAGATTCAGCTAACATGATAAA
64 GATAAGATTCAGCTAACATGATAAA
148374 TGTGTTTATA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
94 7 0.09
95 71 0.91
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (94 bp):
TATATATACAATAAAGCTAGAGCTATCCCTCTAAAGCAATTGGTTAAACACCCCGGATTTATGGA
TAAGATTCAGCTAACATGATAAAGATAAT
Found at i:149817 original size:165 final size:164
Alignment explanation
Indices: 149540--150607 Score: 879
Period size: 165 Copynumber: 6.4 Consensus size: 164
149530 TAAAGAAACT
* * * * *
149540 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGATTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* * * *
149605 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCAACCAAAGACCC
66 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCAACCAAAGACCC
* * * *
149670 TCGAGTTCAATTA-GACTCAGCTTCGAGGGCACATA
131 TCGAGTTCGATTACG-CTCAGC-TCCAAGGCACATC
* * * * *
149705 ATTTACAGCATAACTCAAGGCTATAAGAGTTATTTATCACCAAAAGACCTTCAAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* * *
149770 CTCAGCTCCAAGGCATATCATTTGCAACACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAA
66 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTA--T--CAACCAAAG
* * *
149835 ACCATCGAGTTCGACTATGCTCAGCTCCAAGGCACATC
127 ACCCTCGAGTTCGATTACGCTCAGCTCCAAGGCACATC
** * * * * * * * *
149873 ATTTGTAGCATAGCTTAA-GTTGAGAAGGGCTATC--T-ACC-AAATACCCTCGAGTTTGATTAC
1 ATTTACAGCATAACTCAAGGCT-AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* * * * * * * * *
149933 ACTCAGCT-TAGAGGGC-TCATTATTTACAACATAACTCAAGGT-TATAAGGGTTATCTGTCACC
65 GCTCAGCTCCA-A-GGCAT-ATCATTTGCAGCATAACTTAA-GTCGAGAAGGGTTATC---AACC
* * *
149995 AAAAGACCTTCGAGTTCGATTACGCGCAGCTCCAAGGCATATC
123 -AAAGACCCTCGAGTTCGATTACGCTCAGCTCCAAGGCACATC
* * * *
150038 ATTTACAGTATAACTTAAGTCGAGAAGGGTTATCTGTCAACC-AAAGACCTTCGAGTTCGACTAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTAC
* * * **
150102 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACC
65 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCAACCAAAGACC
* * * *
150167 CTTGAGTTCGATTACACTCAGCTTCGAGGGCACATC
130 CTCGAGTTCGATTACGCTCAGC-TCCAAGGCACATC
* * *
150203 ATTTACAGCATAATTCAAGGCTAGAAGGGTTATATGTCACCAAAAGACCTTCGAGTTCGACAACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* *
150268 CTCAGCTCCAAGACATATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
66 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTA--T--CAACCAAAG
* * * * *
150333 ACCTTTGAGTTTGACTACGCTCAGCTCCAATGCACATC
127 ACCCTCGAGTTCGATTACGCTCAGCTCCAAGGCACATC
* * * * * * * * *
150371 ATTTGCAGCATATCTTAAGTCGAGAAGGGCTATCTG---CC-AAAGACCCTCGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* * * * * * * * *
150432 CTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTCTCACCAAAA
66 CTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTA--TC-AACC-AAA
* *
150497 GACCATCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
126 GACCCTCGAGTTCGATTACGCTCAGCTCCAAGGCACATC
** * * * * * * * * *
150536 ATTTTTAGCATAGCTTAAGTCGAGAATGGCTATCTGCTAACC-GAAGACCTTCGAGTTCGATTAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TCACCAAAAGACCTTCGAGTTCGACTAC
*
150600 ACTCAGCT
65 GCTCAGCT
150608 TAGAGGCTAA
Statistics
Matches: 729, Mismatches: 139, Indels: 67
0.78 0.15 0.07
Matches are distributed among these distances:
161 1 0.00
163 3 0.00
164 84 0.12
165 416 0.57
166 3 0.00
167 7 0.01
168 100 0.14
169 113 0.16
170 2 0.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (164 bp):
ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCAACCAAAGACCC
TCGAGTTCGATTACGCTCAGCTCCAAGGCACATC
Found at i:149996 original size:249 final size:249
Alignment explanation
Indices: 149540--150607 Score: 1587
Period size: 249 Copynumber: 4.3 Consensus size: 249
149530 TAAAGAAACT
* * * * * *
149540 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGATTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
149605 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCAACCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCC
* * * * *
149670 TCGAGTTCAATTAGACTCAGCTTCGAGGGCACATAATTTACAGCATAACTCAAGGCTATAAGAGT
131 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
* * *
149735 TATTTATCACCAAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCATATC
196 TATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* * * * *
149789 ATTTGCAACACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAAACCATCGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * *
149854 CTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTTGAGAAGGGCTATCTACCAAATACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCC
* * * * * * *
149919 TCGAGTTTGATTACACTCAGCTTAGAGGGCTCATTATTTACAACATAACTCAAGGTTATAAGGGT
131 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
* *
149984 TATCTGTCACCAAAAGACCTTCGAGTTCGATTACGCGCAGCTCCAAGGCATATC
196 TATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* * *
150038 ATTTACAGTATAACTTAAGTCGAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
150103 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCC
* *
150168 TTGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAATTCAAGGCTAGAAGGGT
131 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
* * *
150233 TATATGTCACCAAAAGACCTTCGAGTTCGACAACGCTCAGCTCCAAGACATATC
196 TATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* * *
150287 ATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * *
150352 CTCAGCTCCAATGCACATCATTTGCAGCATATCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCC
*
150417 TCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
131 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
* * *
150482 TATCTCTCACCAAAAGACCATCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
196 TATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
** * * * * * * *
150536 ATTTTTAGCATAGCTTAAGTCGAGAATGGCTATCTGCTAACCGAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
150601 CTCAGCT
66 CTCAGCT
150608 TAGAGGCTAA
Statistics
Matches: 735, Mismatches: 84, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
249 735 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (249 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCC
TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
TATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
Found at i:151400 original size:64 final size:66
Alignment explanation
Indices: 151249--151580 Score: 279
Period size: 64 Copynumber: 4.8 Consensus size: 66
151239 TAATATATAT
*
151249 ATATAATATATAGTTTTGAAAACATGTTTGAAAATATTTATATATTATATAGTTTTTAAAACATT
1 ATATAATATATAGTTTTTAAAACAT-TTTG-AAA-A--TATATATTATATAGTTTTTAAAACATT
151314 TTGAAAATAA
61 TTG---A-AA
151324 ATATAATATATAGTTTTTAAAACATTTTGAAAATATATATTATATAGTTTTTAAAAACATTTTG-
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATATATATTATATAGTTTTT-AAAACATTTTGA
151388 AA
65 AA
* * * * *
151390 A-ATAA-ATATAGTTTTTAAAATATTTTGAAAACATATATTATATAGTTTTGAAATCATTTTAAA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATATATATTATATAGTTTTTAAAACATTTT--G
151453 AAA
64 AAA
* * ** *
151456 TTATATAATATATAGTTTTAAAAACATTTTTGAAAA-CTATA-TA-AT--TTTAAAAAATATTTT
1 --ATATAATATATAGTTTTTAAAACA-TTTTGAAAATATATATTATATAGTTTTTAAAACA--TT
*
151516 TTAAAA
61 TTGAAA
*
151522 TATATAATATATA-ATTTTAACATAC-TTTTGAAAATATATATTATATAGGTTTTTGAAAA
1 -ATATAATATATAGTTTTTAA-A-ACATTTTGAAAATATATATTATATA-GTTTTT-AAAA
151581 ATATTTTTTT
Statistics
Matches: 219, Mismatches: 18, Indels: 44
0.78 0.06 0.16
Matches are distributed among these distances:
63 9 0.04
64 56 0.26
65 22 0.10
66 20 0.09
67 2 0.01
68 7 0.03
69 6 0.03
70 41 0.19
71 24 0.11
72 1 0.00
73 3 0.01
74 4 0.02
75 24 0.11
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (66 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAATATATATTATATAGTTTTTAAAACATTTTGAA
A
Found at i:151404 original size:100 final size:98
Alignment explanation
Indices: 151294--151587 Score: 330
Period size: 100 Copynumber: 2.9 Consensus size: 98
151284 ATTTATATAT
*
151294 TATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTTTTTAAAACATTTTGAAAATA
1 TATATAGTTTTTAAAATATTTTGAAAAT-AATATAATATATAGTTTTTAAAACATTTTGAAAATA
151359 TATATTATATAGTTTTTAAAAACATTTTGAAAA-
65 TATATTATATAGTTTTTAAAAACATTTTGAAAAC
* * * * *
151392 TAAATATAGTTTTTAAAATATTTTGAAAA-CATATATTATATAGTTTTGAAATCATTTTAAAAAA
1 T--ATATAGTTTTTAAAATATTTTGAAAATAATATAATATATAGTTTTTAAAACATTTT-GAAAA
*
151456 TTATATAATATATAG-TTTTAAAAACATTTTTGAAAAC
63 -TATATATTATATAGTTTTTAAAAACA-TTTTGAAAAC
* * * *
151493 TATATAATTTTAAAAAATATTTTTTAAAAT-ATATAATATATA-ATTTTAACATAC-TTTTGAAA
1 TATATAGTTTT-TAAAATA-TTTTGAAAATAATATAATATATAGTTTTTAA-A-ACATTTTGAAA
*
151555 ATATATATTATATAGGTTTTTGAAAAATATTTT
62 ATATATATTATATA-GTTTTT-AAAAACATTTT
151588 TTTATATAAT
Statistics
Matches: 165, Mismatches: 17, Indels: 25
0.80 0.08 0.12
Matches are distributed among these distances:
98 26 0.16
99 36 0.22
100 63 0.38
101 33 0.20
102 7 0.04
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (98 bp):
TATATAGTTTTTAAAATATTTTGAAAATAATATAATATATAGTTTTTAAAACATTTTGAAAATAT
ATATTATATAGTTTTTAAAAACATTTTGAAAAC
Found at i:151496 original size:29 final size:29
Alignment explanation
Indices: 151462--151529 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
151452 AAAATTATAT
*
151462 AATATATAGTTTT-AAAAACATTTTTGAA
1 AATATATAATTTTAAAAAACATTTTTGAA
* *
151490 AACTATATAATTTTAAAAAATATTTTTTAA
1 AA-TATATAATTTTAAAAAACATTTTTGAA
151520 AATATATAAT
1 AATATATAAT
151530 ATATAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 2 0.06
29 18 0.51
30 15 0.43
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AATATATAATTTTAAAAAACATTTTTGAA
Found at i:151497 original size:36 final size:35
Alignment explanation
Indices: 151218--151588 Score: 281
Period size: 36 Copynumber: 10.7 Consensus size: 35
151208 ATATAGATAT
* *
151218 TATATAG-TTTGAAAACATTTTTAATATATATATATAA
1 TATATAGTTTTAAAAACATTTTTGA-A-A-ATATATAA
* *
151255 TATATAGTTTTGAAAACATGTTTGAAAATATTTATATA
1 TATATAGTTTTAAAAACATTTTTGAAAATA--TATA-A
*
151293 TTATATAGTTTTTAAAACA-TTTTGAAAATAAATATAA
1 -TATATAGTTTTAAAAACATTTTTGAAAAT--ATATAA
* *
151330 TATATAGTTTTTAAAACA-TTTTGAAAATATATAT
1 TATATAGTTTTAAAAACATTTTTGAAAATATATAA
151364 TATATAGTTTTTAAAAACA-TTTTG--AA-A-ATAA
1 TATATAG-TTTTAAAAACATTTTTGAAAATATATAA
* * * *
151395 -ATATAGTTTTTAAAATA-TTTTGAAAACATATAT
1 TATATAGTTTTAAAAACATTTTTGAAAATATATAA
* * **
151428 TATATAGTTTTGAAATCATTTTAAAAAATTATATAA
1 TATATAGTTTTAAAAACATTTTTGAAAA-TATATAA
*
151464 TATATAGTTTTAAAAACATTTTTGAAAA-CTAT-A
1 TATATAGTTTTAAAAACATTTTTGAAAATATATAA
* * *
151497 TA-AT--TTTAAAAAATATTTTTTAAAATATATAA
1 TATATAGTTTTAAAAACATTTTTGAAAATATATAA
* * *
151529 TATATAATTTTAACATAC--TTTTGAAAATATATAT
1 TATATAGTTTTAA-AAACATTTTTGAAAATATATAA
*
151563 TATATAGGTTTTTGAAAAATATTTTT
1 TATATA-G-TTTT-AAAAACATTTTT
151589 TTATATAATA
Statistics
Matches: 274, Mismatches: 34, Indels: 51
0.76 0.09 0.14
Matches are distributed among these distances:
29 14 0.05
30 24 0.09
31 8 0.03
32 7 0.03
33 10 0.04
34 49 0.18
35 30 0.11
36 66 0.24
37 15 0.05
38 33 0.12
39 17 0.06
40 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (35 bp):
TATATAGTTTTAAAAACATTTTTGAAAATATATAA
Found at i:152883 original size:15 final size:14
Alignment explanation
Indices: 152847--152889 Score: 68
Period size: 14 Copynumber: 3.0 Consensus size: 14
152837 CTTATATATA
*
152847 TATTCTATTTATTC
1 TATTTTATTTATTC
152861 TATTTTATTTATTC
1 TATTTTATTTATTC
152875 TATTTTTATTTATTC
1 TA-TTTTATTTATTC
152890 CTTTCCTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTATTTATTC
Found at i:152995 original size:2 final size:2
Alignment explanation
Indices: 152990--153019 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
152980 ATTTATGTAC
152990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
153020 TCCTCTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:158477 original size:2 final size:2
Alignment explanation
Indices: 158470--158575 Score: 182
Period size: 2 Copynumber: 54.5 Consensus size: 2
158460 CATTAAGTAT
158470 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
158511 TA TA TA -A TA TA TA TA -A TA TA TC TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
158551 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
158576 TGTAACACTC
Statistics
Matches: 99, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
1 3 0.03
2 96 0.97
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:158637 original size:17 final size:19
Alignment explanation
Indices: 158612--158649 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
158602 TAAAAAATTA
158612 TTTATTTATGATT-ATTTT
1 TTTATTTATGATTAATTTT
*
158630 TTTA-TTATTATTAATTTT
1 TTTATTTATGATTAATTTT
158648 TT
1 TT
158650 CCTTTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTATTTATGATTAATTTT
Found at i:158638 original size:11 final size:14
Alignment explanation
Indices: 158608--158646 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
158598 ATTTTAAAAA
158608 ATTATTTATTTATG
1 ATTATTTATTTATG
* *
158622 ATTATTTTTTTATT
1 ATTATTTATTTATG
*
158636 ATTATTAATTT
1 ATTATTTATTT
158647 TTTCCTTTTT
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:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
ATTATTTATTTATG
Done.