Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007978.1 Hibiscus syriacus cultivar Beakdansim tig00110415_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: 1479011
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 7
Found at i:1353 original size:15 final size:15
Alignment explanation
Indices: 1330--1392 Score: 67
Period size: 15 Copynumber: 4.1 Consensus size: 15
1320 AAAAAGAAAA
1330 AAAAT-AATAAATAT
1 AAAATAAATAAATAT
1344 AAAATAAATAAAT-T
1 AAAATAAATAAATAT
1358 AAAAATAAATAAATAGT
1 -AAAATAAATAAATA-T
* *
1375 ATAATAATATATATAT
1 AAAATAA-ATAAATAT
1391 AA
1 AA
1393 CGTTTTCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.15
15 20 0.49
16 8 0.20
17 7 0.17
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
AAAATAAATAAATAT
Found at i:1422 original size:24 final size:23
Alignment explanation
Indices: 1381--1426 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
1371 TAGTATAATA
*
1381 ATATATATATAACGTTTTCAAAAC
1 ATATATATATAACATTTT-AAAAC
1405 ATATAATATATAA-ATTTTAAAA
1 ATAT-ATATATAACATTTTAAAA
1427 TGTTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 8 0.40
25 8 0.40
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATATATATAACATTTTAAAAC
Found at i:1445 original size:36 final size:38
Alignment explanation
Indices: 1400--1489 Score: 104
Period size: 36 Copynumber: 2.6 Consensus size: 38
1390 TAACGTTTTC
1400 AAAAC-ATATAATATATAAATTTT-AAAAT-GTTTTAA
1 AAAACTATATAATATATAAATTTTCAAAATGGTTTTAA
* * *
1435 AAAACTATATATTATAT-ATTTTTCAAAATGGTTTTTA
1 AAAACTATATAATATATAAATTTTCAAAATGGTTTTAA
1472 AAAA-T-TAT-ATATATAAAT
1 AAAACTATATAATATATAAAT
1490 GTTTTCATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
34 5 0.11
35 15 0.33
36 16 0.35
37 10 0.22
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (38 bp):
AAAACTATATAATATATAAATTTTCAAAATGGTTTTAA
Found at i:1577 original size:114 final size:115
Alignment explanation
Indices: 1450--1685 Score: 358
Period size: 115 Copynumber: 2.1 Consensus size: 115
1440 TATATATTAT
1450 ATATTTTTCAAAATGG-TTTTTAAAAAT-TATATATATAAATGTTTTCATAACATTTTCAAAAGT
1 ATATTTTTCAAAATGGTTTTTTAAAAATATAT-TATATAAATGTTTTCATAACATTTTC-AAAGT
1513 ATAT-TATATATTTT-AAA-GTTTTTC-AAAACTATATATATATAATTTCAAAAA
64 ATATATATATATTTTAAAACG-TTTTCAAAAACTATAT-TATATAATTTC-AAAA
* *
1564 ATATTTTTCAAAATGGTTTTTTTAAAATATATTATATAAATGTTTTCATAACGTTTTCAAAGTAT
1 ATATTTTTCAAAATGGTTTTTTAAAAATATATTATATAAATGTTTTCATAACATTTTCAAAGTAT
1629 ATATATATATTTTAAAAACGTTTTCAAAAACTATATTATATAATTTCAAAA
66 ATATATATATTTT-AAAACGTTTTCAAAAACTATATTATATAATTTCAAAA
1680 ATATTT
1 ATATTT
1686 GAAAAACTAT
Statistics
Matches: 113, Mismatches: 2, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
114 25 0.22
115 45 0.40
116 13 0.12
117 19 0.17
118 11 0.10
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (115 bp):
ATATTTTTCAAAATGGTTTTTTAAAAATATATTATATAAATGTTTTCATAACATTTTCAAAGTAT
ATATATATATTTTAAAACGTTTTCAAAAACTATATTATATAATTTCAAAA
Found at i:1664 original size:32 final size:32
Alignment explanation
Indices: 1613--1703 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 32
1603 ATGTTTTCAT
* *
1613 AACGTTTTCAAAGTA-TATATATATATTTTAAA
1 AACGTTTTCAAA-AACTATATATATATTTCAAA
1645 AACGTTTTCAAAAACTATATTATATAATTTCAAA
1 AACGTTTTCAAAAACTATA-TATAT-ATTTCAAA
*
1679 AA--TATTTGAAAAACTATATAATATA
1 AACGT-TTTCAAAAACTATAT-ATATA
1704 CATATTTTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
31 1 0.02
32 19 0.37
33 22 0.43
34 9 0.18
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (32 bp):
AACGTTTTCAAAAACTATATATATATTTCAAA
Found at i:1720 original size:115 final size:115
Alignment explanation
Indices: 1472--1724 Score: 263
Period size: 115 Copynumber: 2.2 Consensus size: 115
1462 ATGGTTTTTA
*
1472 AAAAT-TATATATATAAATGTTTTCATAACATTTTCAAAAGTATATTATATATTTTAAAGTTTTT
1 AAAATATAT-TATAAAAATGTTTTCATAACATTTTCAAAAGTATATTATATATTTTAAAGTTTTT
** * ** *
1536 CAAAACTATATATATATAATTTCAAAAAATATTTTTCAAAATGGTTTTTTT
65 CAAAACTATATATATATAATTTCAAAAAATATTTTGAAAAATGATTAATAT
* *
1587 AAAATATATTATATAAATGTTTTCATAACGTTTTC-AAAGTATATATATATATTTTAAAAACG-T
1 AAAATATATTATAAAAATGTTTTCATAACATTTTCAAAAGTATAT-TATATATTTT--AAA-GTT
1650 TTTCAAAAACTATAT-TATATAATTTC-AAAAATA-TTTGAAAAACT-ATATAATAT
62 TTTC-AAAACTATATATATATAATTTCAAAAAATATTTTGAAAAA-TGAT-TAATAT
* *
1703 -ACATATTTTCA-AAAAATGTTTT
1 AAAATATATT-ATAAAAATGTTTT
1725 TAAACTATAT
Statistics
Matches: 119, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
114 9 0.08
115 65 0.55
116 15 0.13
117 19 0.16
118 11 0.09
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (115 bp):
AAAATATATTATAAAAATGTTTTCATAACATTTTCAAAAGTATATTATATATTTTAAAGTTTTTC
AAAACTATATATATATAATTTCAAAAAATATTTTGAAAAATGATTAATAT
Found at i:1724 original size:72 final size:69
Alignment explanation
Indices: 1629--1775 Score: 154
Period size: 72 Copynumber: 2.1 Consensus size: 69
1619 TTCAAAGTAT
* * *
1629 ATATATATATTTTAAAAACGTTTTCAAAAACTATAT-TATA-TAATTTCAAAAATATTTGAAAAA
1 ATATACATATTTTAAAAACGTTTT--AAAACTATATATATAGTAATTTCAAAAACAATTG-AAAA
*
1692 CTATATA
63 CTACATA
* * * *
1699 ATATACATATTTTCAAAAAATGTTTTTAAACTATATATATATGTATTTTCAAAAACAATTGCAAA
1 ATATACATATTTT--AAAAACGTTTTAAAACTATATATATA-GTAATTTCAAAAACAATTGAAAA
1764 CTACATA
63 CTACATA
1771 ATATA
1 ATATA
1776 TATGTGTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
70 21 0.33
71 4 0.06
72 24 0.38
73 15 0.23
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.39
Consensus pattern (69 bp):
ATATACATATTTTAAAAACGTTTTAAAACTATATATATAGTAATTTCAAAAACAATTGAAAACTA
CATA
Found at i:2518 original size:84 final size:84
Alignment explanation
Indices: 2418--2966 Score: 642
Period size: 84 Copynumber: 6.6 Consensus size: 84
2408 CCAGGGGTCT
* * *
2418 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCATAG
2482 TCGAACTCAAAGGTCTTTTG
65 TCGAACTCAAAGGTCTTTTG
* * * * *
2502 TTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCTTGGAGCTGAGCATAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCATAGT
*
2567 CGAACTCGAAGGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
* * * ** *
2586 TTGGCATATAGCCCTTCTCGACTTAAGCTACACTGGAAATGATGTGCCGTT-GAGCTGAGCATAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCATAG
*
2650 TCGAACTCAAAGGTATTTTG
65 TCGAACTCAAAGGTCTTTTG
* ** * * * * * * * * ** *
2670 ATCACAGCTAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCATAG
* *
2735 TCGAACTTAAGGGTC---T-
65 TCGAACTCAAAGGTCTTTTG
* * * *
2751 TTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCATAGT
* *
2816 CGAACTCGAAGGTCTTGTG
66 CGAACTCAAAGGTCTTTTG
* * * *
2835 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCATAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCATAGT
*
2900 CGAACTCGAAGGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
2919 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
2967 CTCAAAGCTG
Statistics
Matches: 383, Mismatches: 74, Indels: 16
0.81 0.16 0.03
Matches are distributed among these distances:
80 27 0.07
81 33 0.09
82 1 0.00
83 3 0.01
84 294 0.77
85 25 0.07
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (84 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCATAGT
CGAACTCAAAGGTCTTTTG
Found at i:2768 original size:249 final size:249
Alignment explanation
Indices: 2422--3039 Score: 720
Period size: 249 Copynumber: 2.5 Consensus size: 249
2412 GGGTCTTTGG
* * * * * ** * *
2422 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGT-TGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTCAAAGCTGAGTGTAATCGA
* * * * *
2486 ACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCT
66 ACTCAAGGGTC---T-TTGGCAGATAGCCCTTCTAGACTTAAGCTATACTGCAAATGATATGCCT
* * * * *
2551 TGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGTTGGCATATAGCCCTTCTCGACTTAAGCTA
127 TGGAGCTGAGCATAGTCGAACTCGAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGCTA
* *
2616 CACTGGAAATGATGTGCCGTT-GAGCTGAGCATAGTCGAACTCAAAGGTATTTTGATCA
192 CACTGCAAATGATATGCC-TTGGAGCTGAGCATAGTCGAACTCAAAGGTATTTTGATCA
* * * * * **
2674 CAGCTAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTCAAAGCTGAGTGTAATCGA
* * * *
2739 ACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGA
66 ACTCAAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATACTGCAAATGATATGCCTTGGA
* * ***
2804 GCTGAGCGTAGTCGAACTCGAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCT
131 GCTGAGCATAGTCGAACTCGAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGCTACACT
* * * **
2869 GCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGTTGG
196 GCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCAAAGGTATTTTGATCA
* *
2923 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTCAAAGCTGAGTGTAATCGA
** * * *
2988 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTGGCCTTGAGCTA-AGCTGCAAAT
66 ACTCAAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATA-CTGCAAAT
3040 AGTTTGTTTA
Statistics
Matches: 307, Mismatches: 56, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
248 2 0.01
249 245 0.80
250 1 0.00
252 36 0.12
253 23 0.07
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (249 bp):
CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTCAAAGCTGAGTGTAATCGA
ACTCAAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATACTGCAAATGATATGCCTTGGA
GCTGAGCATAGTCGAACTCGAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGCTACACT
GCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCAAAGGTATTTTGATCA
Found at i:2962 original size:333 final size:333
Alignment explanation
Indices: 2350--2966 Score: 1031
Period size: 333 Copynumber: 1.9 Consensus size: 333
2340 ACAAATAGCT
* * * *
2350 CTTCTTGCCTTGAGCTATGTTGTAAATGATATGACCCCGAAGTTGAGTGTAATCGAACCCAGGGG
1 CTTCTAGCCTTGAGCTATGCTGTAAATGATATGACCCCGAAGCTGAGTGTAATCGAACCCAAGGG
2415 TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGT
66 TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGT
*
2480 AGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGAT
131 AGTCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGAT
* *
2545 ATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGTTGGCATATAGCCCTTCTCGACTT
196 ATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTT
*
2610 AAGCTACACTGGAAATGATGTGCCGTTGAGCTGAGCATAGTCGAACTCAAAGGTATTTTGATCAC
261 AAGCTACACTGCAAATGATGTGCCGTTGAGCTGAGCATAGTCGAACTCAAAGGTATTTTGATCAC
2675 AGCTAACC
326 AGCTAACC
* * * **
2683 CTTCTAGCCTTGAGTTATGCTGTAAATGTTATG-CCCTTGAAGCTGAGTGTAATCGAACTTAAGG
1 CTTCTAGCCTTGAGCTATGCTGTAAATGATATGACCC-CGAAGCTGAGTGTAATCGAACCCAAGG
*
2747 GTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCC-TTGGAGCTGAGC
65 GTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGC
* *
2811 GTAGTCGAACTCGAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATG
129 GTAGTCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATG
2876 ATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGAC
194 ATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGAC
* **
2941 TTAAGTTATGCTGCAAATGATGTGCC
259 TTAAGCTACACTGCAAATGATGTGCC
2967 CTCAAAGCTG
Statistics
Matches: 263, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
332 5 0.02
333 258 0.98
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (333 bp):
CTTCTAGCCTTGAGCTATGCTGTAAATGATATGACCCCGAAGCTGAGTGTAATCGAACCCAAGGG
TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGT
AGTCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGAT
ATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTT
AAGCTACACTGCAAATGATGTGCCGTTGAGCTGAGCATAGTCGAACTCAAAGGTATTTTGATCAC
AGCTAACC
Found at i:7954 original size:15 final size:16
Alignment explanation
Indices: 7928--7957 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7918 TTATTACTAA
7928 AAATATTCAAAAAAAG
1 AAATATTCAAAAAAAG
7944 AAATA-TCAAAAAAA
1 AAATATTCAAAAAAA
7958 AATGATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (16 bp):
AAATATTCAAAAAAAG
Found at i:8136 original size:26 final size:26
Alignment explanation
Indices: 8101--8162 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
8091 AAAGAGAAGG
* *
8101 AAATCAAAAATAATAATGATAA-GAAAT
1 AAATGAAAAATAA-AAT-AAAATGAAAT
*
8128 AAATTAAAAATAAAATAAAATGAAAT
1 AAATGAAAAATAAAATAAAATGAAAT
8154 AAATGAAAA
1 AAATGAAAA
8163 CGGGATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.10
26 16 0.52
27 12 0.39
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (26 bp):
AAATGAAAAATAAAATAAAATGAAAT
Found at i:9409 original size:17 final size:16
Alignment explanation
Indices: 9378--9429 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
9368 AAAAGAAAAA
9378 AAAAATAAATAAATAAAT
1 AAAAAT-AAT-AATAAAT
9396 AAAAATAAGTAATAAAT
1 AAAAATAA-TAATAAAT
* *
9413 TAAAATAAAAATAAAT
1 AAAAATAATAATAAAT
9429 A
1 A
9430 GTAATAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 7 0.23
17 16 0.53
18 7 0.23
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (16 bp):
AAAAATAATAATAAAT
Found at i:9418 original size:23 final size:21
Alignment explanation
Indices: 9385--9426 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
9375 AAAAAAAATA
9385 AATAAATAAATAAAAATAAGT
1 AATAAATAAATAAAAATAAGT
9406 AATAAATTAAAATAAAAATAA
1 AATAAA-T-AAATAAAAATAA
9427 ATAGTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
AATAAATAAATAAAAATAAGT
Found at i:9607 original size:26 final size:25
Alignment explanation
Indices: 9576--9642 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
9566 AGTATATATT
9576 ATATATTTTAAAAACGTTTTC-AAAAA
1 ATATATTTTAAAAA--TTTTCAAAAAA
* * *
9602 CTATATATTATATAATTTTCAAAAAA
1 ATATATTTTA-AAAATTTTCAAAAAA
*
9628 ATATATTTTCAAAAT
1 ATATATTTTAAAAAT
9643 GGTTTTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
25 9 0.28
26 20 0.62
27 3 0.09
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.42
Consensus pattern (25 bp):
ATATATTTTAAAAATTTTCAAAAAA
Found at i:9613 original size:35 final size:35
Alignment explanation
Indices: 9447--9626 Score: 150
Period size: 34 Copynumber: 5.1 Consensus size: 35
9437 TATTATATAT
* * *
9447 AACGTTTTCAAAAAC-ATATAATATAAATTTTTAA
1 AACGTTTTCAAAAACTATATATTATATATTTTAAA
* *
9481 AATGTTTTAAAAAACTATATATTATATATATTTCAAA
1 AACGTTTTCAAAAACTATATATTATATAT-TTT-AAA
** * * * * * *
9518 ATGGTTTT-TAAAATTATATTATATAAATGTTTTCAT
1 AACGTTTTCAAAAACTATA-TAT-TATATATTTTAAA
* *
9554 AACATTTTC-AAAAGTATATATTATATATTTTAAA
1 AACGTTTTCAAAAACTATATATTATATATTTTAAA
9588 AACGTTTTCAAAAACTATATATTATATAATTTTCAAA
1 AACGTTTTCAAAAACTATATATTATAT-ATTTT-AAA
9625 AA
1 AA
9627 AATATATTTT
Statistics
Matches: 114, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
34 30 0.26
35 30 0.26
36 30 0.26
37 19 0.17
38 5 0.04
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (35 bp):
AACGTTTTCAAAAACTATATATTATATATTTTAAA
Found at i:9678 original size:128 final size:129
Alignment explanation
Indices: 9522--9756 Score: 429
Period size: 130 Copynumber: 1.8 Consensus size: 129
9512 TTCAAAATGG
9522 TTTTTAAAATTATATTATATAAATGTTTTCATAACATTTTCAAAAGTATATA-T-TATATATTTT
1 TTTTTAAAATTATATTATATAAATGTTTTCATAACATTTTCAAAAGTATATATTATATATATTTT
9585 AAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAAAATATATTTTCAAAATGGTTTT
66 AAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAAAATATATTTTCAAAATGGTTTT
* *
9649 TTTTTAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAGTATATATTATATATATTT
1 TTTTTAAAAT-TATATTATATAAATGTTTTCATAACATTTTCAAAAGTATATATTATATATATTT
9714 TAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
65 TAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
9757 TATTTGAAAA
Statistics
Matches: 103, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
127 9 0.09
128 41 0.40
129 1 0.01
130 52 0.50
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.46
Consensus pattern (129 bp):
TTTTTAAAATTATATTATATAAATGTTTTCATAACATTTTCAAAAGTATATATTATATATATTTT
AAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAAAATATATTTTCAAAATGGTTTT
Found at i:9700 original size:36 final size:36
Alignment explanation
Indices: 9658--9815 Score: 106
Period size: 36 Copynumber: 4.3 Consensus size: 36
9648 TTTTTTAAAT
* * *
9658 TATATATTATATAAATGTTTTCATAACGTTTTCAAAAG
1 TATATA-T-TATAAATATTTTAAAAACGTTTTCAAAAG
* *
9696 TATATATTATATATATTTTAAAAACGTTTTCAAAAAC
1 TATATATTATAAATATTTTAAAAACGTTTTC-AAAAG
* ** ** *
9733 TATATATTATATAAT-TTTCAAAAATATTTGAAAAAC
1 TATATATTATA-AATATTTTAAAAACGTTTTCAAAAG
* * * *
9769 TATATAATATACATATTTTCAAAAAATGTTTT--AAAC
1 TATATATTATAAATATTTT--AAAAACGTTTTCAAAAG
9805 TATATATTATA
1 TATATATTATA
9816 TATGTATTTT
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
35 2 0.02
36 52 0.53
37 27 0.28
38 17 0.17
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.44
Consensus pattern (36 bp):
TATATATTATAAATATTTTAAAAACGTTTTCAAAAG
Found at i:9811 original size:38 final size:37
Alignment explanation
Indices: 9696--9857 Score: 126
Period size: 36 Copynumber: 4.4 Consensus size: 37
9686 TTTTCAAAAG
* *
9696 TATATAT-TATATATATTTT-AAAAACGT-TTTCAAAAAC
1 TATATATATATATATATTTTCAAAAA-ATATTT--GAAAC
9733 TATATAT-TATATA-ATTTTC-AAAAATATTTGAAAAAC
1 TATATATATATATATATTTTCAAAAAATATTTG--AAAC
* * *
9769 TATATA-ATATACATATTTTCAAAAAATGTTTTAAAC
1 TATATATATATATATATTTTCAAAAAATATTTGAAAC
*
9805 TATATATTATATATGTATTTTCAAAAACA-ATTTGTAAAC
1 TATATA-TATATATATATTTTCAAAAA-ATATTTG-AAAC
*
9844 TACATA-ATATATAT
1 TATATATATATATAT
9858 GTGTATATAT
Statistics
Matches: 103, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
35 1 0.01
36 37 0.36
37 26 0.25
38 29 0.28
39 10 0.10
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (37 bp):
TATATATATATATATATTTTCAAAAAATATTTGAAAC
Found at i:9855 original size:39 final size:38
Alignment explanation
Indices: 9729--9859 Score: 130
Period size: 36 Copynumber: 3.5 Consensus size: 38
9719 ACGTTTTCAA
* * *
9729 AAACTATAT-AT-TATAT-AATTTTCAAAAATATTTGAA
1 AAACTATATAATATATATGTATTTTCAAAAAAATTTG-T
* *
9765 AAACTATATAATATACA--TATTTTC-AAAAAATGTTTT
1 AAACTATATAATATATATGTATTTTCAAAAAAAT-TTGT
*
9801 AAACTATATATTATATATGTATTTTCAAAAACAATTTGT
1 AAACTATATAATATATATGTATTTTCAAAAA-AATTTGT
*
9840 AAACTACATAATATATATGT
1 AAACTATATAATATATATGT
9860 GTATATATGT
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
36 30 0.38
37 10 0.13
38 10 0.13
39 25 0.32
40 3 0.04
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (38 bp):
AAACTATATAATATATATGTATTTTCAAAAAAATTTGT
Found at i:13687 original size:60 final size:60
Alignment explanation
Indices: 13566--13702 Score: 136
Period size: 60 Copynumber: 2.3 Consensus size: 60
13556 ATAGTTGGGT
* * * **
13566 GACTATTTTGTAACTGTTAATAGTCGATAGACTCAATAAAACAACTTCCTATAGTTTGGA
1 GACTATTTTGTAACTTTTAATAATCGATAGACTCAATAAAACAACTTCCTATAATCGGGA
* * * *
13626 GACTATTTTGTAACTTTTAATAATCAGGT-GACTCAATAAAGC-ATTATCTTATAATCGGGA
1 GACTATTTTGTAACTTTTAATAATC-GATAGACTCAATAAAACAACT-TCCTATAATCGGGA
*
13686 GACCATTTGTGT-ACTTT
1 GACTATTT-TGTAACTTT
13703 ACTCCATTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
59 2 0.03
60 57 0.89
61 5 0.08
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (60 bp):
GACTATTTTGTAACTTTTAATAATCGATAGACTCAATAAAACAACTTCCTATAATCGGGA
Found at i:25688 original size:26 final size:26
Alignment explanation
Indices: 25653--25702 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
25643 ACATTATTCT
25653 TTTTAACCATTAATATGACTTAATCC
1 TTTTAACCATTAATATGACTTAATCC
* * *
25679 TTTTACCCATTGATATTACTTAAT
1 TTTTAACCATTAATATGACTTAAT
25703 AGATTAGAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (26 bp):
TTTTAACCATTAATATGACTTAATCC
Found at i:26793 original size:31 final size:31
Alignment explanation
Indices: 26755--26816 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
26745 TGGCCCAACA
26755 CTTGGTGCTTGTATCCTCCGGTTTTAAATGT
1 CTTGGTGCTTGTATCCTCCGGTTTTAAATGT
26786 CTTGGTGCTTGTATCCTCCGGTTTTAAATGT
1 CTTGGTGCTTGTATCCTCCGGTTTTAAATGT
26817 GTTATACCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (31 bp):
CTTGGTGCTTGTATCCTCCGGTTTTAAATGT
Found at i:32516 original size:60 final size:59
Alignment explanation
Indices: 32407--32539 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 59
32397 GTTATGTGAC
**
32407 CATTTTGTAACTTTTAATAGTCAAAGGACTTAACAAAACAACATTCTATAGTCGGAAGAT
1 CATTTTGTAACTTTTAATAGTCAAAGGACTTAACAAAACAACACCCTATAGTCGG-AGAT
* ** * ** ** *
32467 CATTTTGTAACTTTTAATAGTCGATTGACTTAATAAAGTAGTACCCTATAGTCGGGGAT
1 CATTTTGTAACTTTTAATAGTCAAAGGACTTAACAAAACAACACCCTATAGTCGGAGAT
32526 CA-TTTGTATACTTT
1 CATTTTGTA-ACTTT
32540 ACCCAAATAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
58 6 0.10
59 10 0.16
60 45 0.74
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (59 bp):
CATTTTGTAACTTTTAATAGTCAAAGGACTTAACAAAACAACACCCTATAGTCGGAGAT
Found at i:34211 original size:21 final size:21
Alignment explanation
Indices: 34185--34229 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
34175 GATTTCTGGG
* *
34185 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
34206 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
34227 CAA
1 CAA
34230 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:35972 original size:23 final size:22
Alignment explanation
Indices: 35913--35979 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
35903 TATGGACATC
*
35913 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
35935 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
35957 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
35980 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:39132 original size:21 final size:21
Alignment explanation
Indices: 39106--39150 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
39096 GATTTCTGGG
* *
39106 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
39127 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
39148 CAA
1 CAA
39151 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:40898 original size:23 final size:22
Alignment explanation
Indices: 40839--40905 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
40829 TATGGACATC
*
40839 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
40861 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
40883 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
40906 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:44070 original size:21 final size:21
Alignment explanation
Indices: 44044--44088 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
44034 GATTTCTGGG
* *
44044 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
44065 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
44086 CAA
1 CAA
44089 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:45840 original size:23 final size:22
Alignment explanation
Indices: 45781--45847 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
45771 TATGGACATC
*
45781 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
45803 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
45825 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
45848 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:48381 original size:23 final size:23
Alignment explanation
Indices: 48354--48420 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
48344 ATAAAAAAAT
* *
48354 AAAGATAAATGTGTCATAAAGAC
1 AAAGATAAACGTGTCACAAAGAC
48377 AAAGATAAACGTGTCACAAAGAC
1 AAAGATAAACGTGTCACAAAGAC
*
48400 -AA-AT-AACATGTCACAAAGAC
1 AAAGATAAACGTGTCACAAAGAC
48420 A
1 A
48421 TAAATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
20 15 0.38
21 2 0.05
22 2 0.05
23 21 0.52
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.16
Consensus pattern (23 bp):
AAAGATAAACGTGTCACAAAGAC
Found at i:49131 original size:13 final size:13
Alignment explanation
Indices: 49113--49139 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49103 TTACAGACGC
49113 GCATATGAAGACT
1 GCATATGAAGACT
49126 GCATATGAAGACT
1 GCATATGAAGACT
49139 G
1 G
49140 TTCAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:49486 original size:15 final size:16
Alignment explanation
Indices: 49459--49490 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
49449 ATTGATGATT
49459 TAAATACTTAAAATAA
1 TAAATACTTAAAATAA
49475 TAAATA-TTAAAATAA
1 TAAATACTTAAAATAA
49490 T
1 T
49491 CATTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAATACTTAAAATAA
Found at i:52071 original size:25 final size:25
Alignment explanation
Indices: 52043--52106 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 25
52033 TCCCCAAGCA
52043 TAGGTCGCCACTCCGGGCGACCTTG
1 TAGGTCGCCACTCCGGGCGACCTTG
* *
52068 TAGGTCGCCATACACTCCTGGTGACCTTG
1 TAGGTCG-C---CACTCCGGGCGACCTTG
52097 TAGGTCGCCA
1 TAGGTCGCCA
52107 TGCACTCCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
25 9 0.27
26 1 0.03
28 1 0.03
29 22 0.67
ACGTcount: A:0.16, C:0.33, G:0.28, T:0.23
Consensus pattern (25 bp):
TAGGTCGCCACTCCGGGCGACCTTG
Found at i:52093 original size:29 final size:29
Alignment explanation
Indices: 52051--52114 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
52041 CATAGGTCGC
52051 CACTCCGGGCGACCTTGTAGGTCGCCATA
1 CACTCCGGGCGACCTTGTAGGTCGCCATA
* * *
52080 CACTCCTGGTGACCTTGTAGGTCGCCATG
1 CACTCCGGGCGACCTTGTAGGTCGCCATA
52109 CACTCC
1 CACTCC
52115 CTCCTGCTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.16, C:0.36, G:0.25, T:0.23
Consensus pattern (29 bp):
CACTCCGGGCGACCTTGTAGGTCGCCATA
Found at i:53661 original size:17 final size:17
Alignment explanation
Indices: 53639--53672 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
53629 CAAATATATT
53639 TTTTTTATAAA-ATTTAA
1 TTTTTTA-AAATATTTAA
53656 TTTTTTAAAATATTTAA
1 TTTTTTAAAATATTTAA
53673 AATAATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTTAAAATATTTAA
Found at i:58091 original size:37 final size:36
Alignment explanation
Indices: 58016--58091 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
58006 TTTTTATATT
*
58016 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
58052 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
58089 TTT
1 TTT
58092 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:58273 original size:20 final size:20
Alignment explanation
Indices: 58237--58274 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58227 ATCCTATTCT
**
58237 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTGCATTCCCA
58257 CTGGTAATCTTGCATTCC
1 CTGGTAATCTTGCATTCC
58275 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTGCATTCCCA
Found at i:58675 original size:2 final size:2
Alignment explanation
Indices: 58668--58704 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
58658 AAGAACTCAA
58668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58705 ATTCTCTTGG
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:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:60328 original size:73 final size:73
Alignment explanation
Indices: 60239--60419 Score: 227
Period size: 73 Copynumber: 2.5 Consensus size: 73
60229 ACTTAAATTT
* * * * * *
60239 GTTTAGTACCTAAATTATCAGTTTTTGTTTGTTTTAGTACCTAAAATTTTAATTTTTTCAAAATC
1 GTTTAGTACCTAAATTATCAGTTTTAGCTCGTTTTAGTACCTAAAAATTCAATTTTTTCAAAACC
*
60304 TATCTAAA
66 TACCTAAA
* * *
60312 GTTTAGTGCCTAAATTATCAGTTTTAGCTCGTTTTAGTATCTAAAAATTCAATTTTTTCAAAGCC
1 GTTTAGTACCTAAATTATCAGTTTTAGCTCGTTTTAGTACCTAAAAATTCAATTTTTTCAAAACC
*
60377 TACCTGAA
66 TACCTAAA
** * *
60385 GTTTAGTAATTAAATTATCAGTTTCAGTTCGTTTT
1 GTTTAGTACCTAAATTATCAGTTTTAGCTCGTTTT
60420 GGTAGACAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 92 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (73 bp):
GTTTAGTACCTAAATTATCAGTTTTAGCTCGTTTTAGTACCTAAAAATTCAATTTTTTCAAAACC
TACCTAAA
Found at i:63079 original size:30 final size:31
Alignment explanation
Indices: 63043--63127 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
63033 GGTTCGGGTA
*
63043 TCAGGTCGGGTCATATTGGATCGGTTG-ATT
1 TCAGGTCGGGTCATATTGGATCAGTTGTATT
* *
63073 TCAGGTCGGGTCATATCGGATCAGTTGTTTT
1 TCAGGTCGGGTCATATTGGATCAGTTGTATT
* * *
63104 TTAGGTCTGGTCAATATTCGATCA
1 TCAGGTCGGGTC-ATATTGGATCA
63128 ATAATTTTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
30 25 0.54
31 12 0.26
32 9 0.20
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (31 bp):
TCAGGTCGGGTCATATTGGATCAGTTGTATT
Found at i:63328 original size:21 final size:21
Alignment explanation
Indices: 63304--63377 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
63294 GGTTTCTCTC
*
63304 GGTTCAGGTTACTTTCGGTTT
1 GGTTAAGGTTACTTTCGGTTT
** *
63325 GGTTAAATTGGAATTGGTTTCGATTT
1 GGTT-AA--GG--TTACTTTCGGTTT
63351 GGTTAAGGTTACTTTCGGTTT
1 GGTTAAGGTTACTTTCGGTTT
63372 GGTTAA
1 GGTTAA
63378 ATTGGAATTG
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
21 20 0.49
22 1 0.02
23 2 0.05
24 2 0.05
25 2 0.05
26 14 0.34
ACGTcount: A:0.18, C:0.08, G:0.28, T:0.46
Consensus pattern (21 bp):
GGTTAAGGTTACTTTCGGTTT
Found at i:63345 original size:26 final size:26
Alignment explanation
Indices: 63316--63401 Score: 101
Period size: 26 Copynumber: 3.5 Consensus size: 26
63306 TTCAGGTTAC
63316 TTTCGGTTTGGTTAAATTGGAATTGG
1 TTTCGGTTTGGTTAAATTGGAATTGG
* **
63342 TTTCGATTTGGTT-AA--GG--TTAC
1 TTTCGGTTTGGTTAAATTGGAATTGG
63363 TTTCGGTTTGGTTAAATTGGAATTGG
1 TTTCGGTTTGGTTAAATTGGAATTGG
*
63389 TTTTGGTTTGGTT
1 TTTCGGTTTGGTT
63402 CGGGTTACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
21 14 0.29
22 2 0.04
23 2 0.04
24 2 0.04
25 2 0.04
26 26 0.54
ACGTcount: A:0.16, C:0.05, G:0.29, T:0.50
Consensus pattern (26 bp):
TTTCGGTTTGGTTAAATTGGAATTGG
Found at i:63362 original size:47 final size:47
Alignment explanation
Indices: 63304--63425 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
63294 GGTTTCTCTC
63304 GGTTCAGGTTACTTTCGGTTTGGTTAAATTGGAATTGGTTTCGATTT
1 GGTTCAGGTTACTTTCGGTTTGGTTAAATTGGAATTGGTTTCGATTT
* * *
63351 GGTTAAGGTTACTTTCGGTTTGGTTAAATTGGAATTGGTTTTGGTTT
1 GGTTCAGGTTACTTTCGGTTTGGTTAAATTGGAATTGGTTTCGATTT
* *
63398 GGTTCGGGTTACTTTCGGTTTGGCTAAA
1 GGTTCAGGTTACTTTCGGTTTGGTTAAA
63426 ATTTGGGTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.16, C:0.08, G:0.30, T:0.46
Consensus pattern (47 bp):
GGTTCAGGTTACTTTCGGTTTGGTTAAATTGGAATTGGTTTCGATTT
Found at i:71113 original size:7 final size:7
Alignment explanation
Indices: 71103--71162 Score: 66
Period size: 7 Copynumber: 8.6 Consensus size: 7
71093 TTTTTATAAA
71103 TTTAGGG
1 TTTAGGG
*
71110 TTTAGAG
1 TTTAGGG
* *
71117 TTTATGA
1 TTTAGGG
71124 TTTAGGG
1 TTTAGGG
71131 TTTAGGG
1 TTTAGGG
*
71138 TTTAGAG
1 TTTAGGG
*
71145 TTTAAGG
1 TTTAGGG
*
71152 TTTAGAG
1 TTTAGGG
71159 TTTA
1 TTTA
71163 AGAGTTAGAA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:71127 original size:14 final size:14
Alignment explanation
Indices: 71103--71164 Score: 79
Period size: 14 Copynumber: 4.4 Consensus size: 14
71093 TTTTTATAAA
*
71103 TTTAGGGTTTAGAG
1 TTTAAGGTTTAGAG
* * *
71117 TTTATGATTTAGGG
1 TTTAAGGTTTAGAG
*
71131 TTTAGGGTTTAGAG
1 TTTAAGGTTTAGAG
71145 TTTAAGGTTTAGAG
1 TTTAAGGTTTAGAG
71159 TTTAAG
1 TTTAAG
71165 AGTTAGAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (14 bp):
TTTAAGGTTTAGAG
Found at i:71127 original size:21 final size:20
Alignment explanation
Indices: 71102--71162 Score: 86
Period size: 21 Copynumber: 3.0 Consensus size: 20
71092 TTTTTTATAA
71102 ATTTAGGGTTTAGAGTTTATG
1 ATTTAGGGTTTAGAGTTTA-G
*
71123 ATTTAGGGTTTAGGGTTTAG
1 ATTTAGGGTTTAGAGTTTAG
*
71143 AGTTTAAGGTTTAGAGTTTA
1 A-TTTAGGGTTTAGAGTTTA
71163 AGAGTTAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 2 0.06
21 34 0.94
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (20 bp):
ATTTAGGGTTTAGAGTTTAG
Found at i:81521 original size:21 final size:20
Alignment explanation
Indices: 81470--81523 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
81460 TAAGATTTTA
*
81470 ATATTTTATATTAATTAATT
1 ATATTTTAAATTAATTAATT
* * *
81490 A-ATTCTAAATTCATATAGTT
1 ATATTTTAAATTAAT-TAATT
81510 ATATTTTAAATTAA
1 ATATTTTAAATTAA
81524 ATTATAATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 10 0.38
20 6 0.23
21 10 0.38
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTTTAAATTAATTAATT
Found at i:82697 original size:37 final size:38
Alignment explanation
Indices: 82656--82729 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 38
82646 TTGACGTTAA
* *
82656 ATTTTGAACG-GATATACTAAAATGAAACAAAAACTAC
1 ATTTTGAACGACATATACTAAAATAAAACAAAAACTAC
* * *
82693 ATTTTTAACGACATGTACTATAATAAAACAAAAACTA
1 ATTTTGAACGACATATACTAAAATAAAACAAAAACTA
82730 AACTTTAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 9 0.29
38 22 0.71
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (38 bp):
ATTTTGAACGACATATACTAAAATAAAACAAAAACTAC
Found at i:83972 original size:52 final size:52
Alignment explanation
Indices: 83893--83996 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
83883 GTCGGGTGAC
* *
83893 CATTTTGTAACTTTTGATAGTCGAGGGACTCAACAAAGCAACACTCTATAGT
1 CATTTTGTAACTTTTAATAGTCAAGGGACTCAACAAAGCAACACTCTATAGT
* *
83945 CATTTTGTAACTTTTAATAGTCAAGGGACTTAATAAAGCAACACTCTATAGT
1 CATTTTGTAACTTTTAATAGTCAAGGGACTCAACAAAGCAACACTCTATAGT
83997 TGAGGGATCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (52 bp):
CATTTTGTAACTTTTAATAGTCAAGGGACTCAACAAAGCAACACTCTATAGT
Found at i:84872 original size:2 final size:2
Alignment explanation
Indices: 84865--84904 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
84855 AATTTGATTA
84865 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84905 AAATGTAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87446 original size:21 final size:21
Alignment explanation
Indices: 87403--87447 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
87393 ATGTTGAAAC
*
87403 AAAAATGAAAGTTTAGGTACT
1 AAAAATGAAAGTTTAGATACT
* * *
87424 AAAACTGATAGTTTAGATGCT
1 AAAAATGAAAGTTTAGATACT
87445 AAA
1 AAA
87448 TACGTACTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.29
Consensus pattern (21 bp):
AAAAATGAAAGTTTAGATACT
Found at i:87642 original size:10 final size:10
Alignment explanation
Indices: 87627--87674 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
87617 TGTGTATGTA
87627 TATATATAGG
1 TATATATAGG
*
87637 TATATATATG
1 TATATATAGG
** *
87647 TATAGGTATG
1 TATATATAGG
87657 TATATATAGG
1 TATATATAGG
87667 TATATATA
1 TATATATA
87675 TATAGACTGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.44
Consensus pattern (10 bp):
TATATATAGG
Found at i:87644 original size:14 final size:14
Alignment explanation
Indices: 87625--87679 Score: 83
Period size: 14 Copynumber: 3.8 Consensus size: 14
87615 TGTGTGTATG
87625 TATATATATAGGTA
1 TATATATATAGGTA
87639 TATATATGTATAGGTA
1 TATATA--TATAGGTA
*
87655 TGTATATATAGGTA
1 TATATATATAGGTA
87669 TATATATATAG
1 TATATATATAG
87680 ACTGGCGTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 24 0.65
16 13 0.35
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (14 bp):
TATATATATAGGTA
Found at i:87644 original size:16 final size:16
Alignment explanation
Indices: 87620--87678 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
87610 AGTACTGTGT
*
87620 GTATGTATATATATAG
1 GTATATATATATATAG
*
87636 GTATATATATGTATAG
1 GTATATATATATATAG
*
87652 G--TATGTATATATAG
1 GTATATATATATATAG
87666 GTATATATATATA
1 GTATATATATATA
87679 GACTGGCGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 12 0.33
16 24 0.67
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (16 bp):
GTATATATATATATAG
Found at i:99972 original size:2 final size:2
Alignment explanation
Indices: 99961--99992 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
99951 GAACATTAAT
99961 TA TA -A 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 TA TA T
99993 CATTAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:103701 original size:2 final size:2
Alignment explanation
Indices: 103696--103720 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
103686 TTATTTTTTA
103696 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
103721 AATTCTAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107809 original size:31 final size:29
Alignment explanation
Indices: 107754--107811 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
107744 GTGTAATTTT
*
107754 GAAACAAATGAAAGTTTAGGTACTAAAAC
1 GAAACAAATGAAAGTTAAGGTACTAAAAC
*
107783 GAAACAAAATTGATAGTTAAGGTACTAAA
1 GAAAC-AAA-TGAAAGTTAAGGTACTAAA
107812 CGTGTAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 3 0.12
31 17 0.68
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (29 bp):
GAAACAAATGAAAGTTAAGGTACTAAAAC
Found at i:117140 original size:2 final size:2
Alignment explanation
Indices: 117133--117169 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
117123 AGTTAGAGCC
117133 TA TA TA TA 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 TA TA TA TA T
117170 CCAATAAAAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:124246 original size:2 final size:2
Alignment explanation
Indices: 124241--124269 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
124231 ACACACATAC
124241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
124270 GACACGCACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131857 original size:18 final size:19
Alignment explanation
Indices: 131823--131858 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
131813 ATAATTTTAA
*
131823 TGATAATTTTGTAATAATT
1 TGATAAATTTGTAATAATT
131842 TGATAAATTT-TAATAAT
1 TGATAAATTTGTAATAAT
131859 GATTCAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (19 bp):
TGATAAATTTGTAATAATT
Found at i:145039 original size:21 final size:19
Alignment explanation
Indices: 145014--145074 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
145004 ATTTTGTTAG
145014 TATTTTATTTAATTATTGTAT
1 TATTTTATTTAATT-TT-TAT
*
145035 TA-TTTAATT--TTTTTAT
1 TATTTTATTTAATTTTTAT
*
145051 TATTTTATTTAATTTTTTT
1 TATTTTATTTAATTTTTAT
145070 TATTT
1 TATTT
145075 GTTTGCAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 5 0.15
17 8 0.24
18 2 0.06
19 11 0.32
20 6 0.18
21 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TATTTTATTTAATTTTTAT
Found at i:145060 original size:16 final size:16
Alignment explanation
Indices: 145018--145060 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
145008 TGTTAGTATT
*
145018 TTATTTAATTATTGTA
1 TTATTTAATTTTTGTA
*
145034 TTATTTAATTTTTTTA
1 TTATTTAATTTTTGTA
*
145050 TTATTTTATTT
1 TTATTTAATTT
145061 AATTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTATTTAATTTTTGTA
Found at i:145993 original size:29 final size:29
Alignment explanation
Indices: 145951--146039 Score: 124
Period size: 29 Copynumber: 3.1 Consensus size: 29
145941 ACCGGGGGGT
*
145951 AGGTCGCCATGCACGCCCGGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
***
145980 AGGTCGCCATGCACGCCCAGCGACCTGGT
1 AGGTCGCCATGCACGCCCAGCGACCTACC
* *
146009 AGGTCGCCATGCATGCCCTGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
146038 AG
1 AG
146040 CCAACGACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.18, C:0.40, G:0.28, T:0.13
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:146069 original size:10 final size:10
Alignment explanation
Indices: 146054--146130 Score: 59
Period size: 10 Copynumber: 7.6 Consensus size: 10
146044 CGACCTCCAT
146054 GCCCATGCAC
1 GCCCATGCAC
146064 GCCCATGCAC
1 GCCCATGCAC
*
146074 GCCCAT-CTC
1 GCCCATGCAC
* * **
146083 GCCAAAGGTC
1 GCCCATGCAC
*
146093 -ACCATGCACC
1 GCCCATGCA-C
146103 ATGCCCATGCAC
1 --GCCCATGCAC
146115 GCCCATGCAC
1 GCCCATGCAC
146125 GCCCAT
1 GCCCAT
146131 CTCGCCAAAG
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
9 9 0.17
10 35 0.67
12 1 0.02
13 7 0.13
ACGTcount: A:0.22, C:0.47, G:0.18, T:0.13
Consensus pattern (10 bp):
GCCCATGCAC
Found at i:146105 original size:51 final size:51
Alignment explanation
Indices: 146050--146151 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
146040 CCAACGACCT
146050 CCATGCCCATGCACGCCCATGCACGCCCATCTCGCCAAAGGTCACCATGCA
1 CCATGCCCATGCACGCCCATGCACGCCCATCTCGCCAAAGGTCACCATGCA
146101 CCATGCCCATGCACGCCCATGCACGCCCATCTCGCCAAAGGTCACCATGCA
1 CCATGCCCATGCACGCCCATGCACGCCCATCTCGCCAAAGGTCACCATGCA
146152 ATGCACGTCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.14
Consensus pattern (51 bp):
CCATGCCCATGCACGCCCATGCACGCCCATCTCGCCAAAGGTCACCATGCA
Found at i:146168 original size:33 final size:33
Alignment explanation
Indices: 146119--146184 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
146109 ATGCACGCCC
*
146119 ATGCACGCCCATCTCGCCAAAGGTCACCATGCA
1 ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
*
146152 ATGCACGTCCAGCTCGCCAAAGGTCACCATGCA
1 ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
146185 GTCCATGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.38, G:0.20, T:0.15
Consensus pattern (33 bp):
ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
Found at i:146395 original size:12 final size:11
Alignment explanation
Indices: 146375--146410 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
146365 GAAATCAACT
146375 GCATTATTGCA
1 GCATTATTGCA
*
146386 GCACTTATTGCT
1 GCA-TTATTGCA
146398 GCATTATTGCA
1 GCATTATTGCA
146409 GC
1 GC
146411 CCGTGAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:146737 original size:28 final size:25
Alignment explanation
Indices: 146698--146759 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 25
146688 ATATTAAAAA
146698 AATAATTAATTAGTGTGTTAGTTAGTCT
1 AATAATTAATTAGTGTG-TAG-TAGT-T
* *
146726 AATATTTAATTAGTTTGTAGTAGTT
1 AATAATTAATTAGTGTGTAGTAGTT
*
146751 AATAGTTAA
1 AATAATTAA
146760 GTTATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.29
26 4 0.13
27 3 0.10
28 15 0.48
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (25 bp):
AATAATTAATTAGTGTGTAGTAGTT
Found at i:146974 original size:21 final size:21
Alignment explanation
Indices: 146949--146988 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
146939 GTTAATTAGT
146949 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
146970 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
146989 CATATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:147231 original size:30 final size:30
Alignment explanation
Indices: 147163--147236 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 30
147153 ATGAGTTAAT
* *
147163 TAGTTTTTTAGTAGTAAATTATAATTAAAAA
1 TAGTTTATTAGT-TTAAATTATAATTAAAAA
*
147194 TCA-TTTATTAGTTTAATTTAT-ATTAAAGAA
1 T-AGTTTATTAGTTTAAATTATAATTAAA-AA
147224 TAGTTTATTAGTT
1 TAGTTTATTAGTT
147237 GTTTAAGGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
29 7 0.19
30 20 0.54
31 9 0.24
32 1 0.03
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.50
Consensus pattern (30 bp):
TAGTTTATTAGTTTAAATTATAATTAAAAA
Found at i:149558 original size:14 final size:14
Alignment explanation
Indices: 149539--149576 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
149529 TTCAAGTCGT
*
149539 AAATCATTACTATC
1 AAATCATTAATATC
149553 AAATCATTAATATC
1 AAATCATTAATATC
149567 AAATCATTAA
1 AAATCATTAA
149577 ATATTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATCATTAATATC
Found at i:149582 original size:21 final size:22
Alignment explanation
Indices: 149553--149633 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 22
149543 CATTACTATC
149553 AAATCATTAATATCAAATCATT
1 AAATCATTAATATCAAATCATT
* *
149575 AAAT-ATTAATAATAAATTATTATT
1 AAATCATTAAT-ATCAA--ATCATT
*
149599 ACTAATCATTACTATCAAATCATT
1 A--AATCATTAATATCAAATCATT
*
149623 AAA-AATTAATA
1 AAATCATTAATA
149634 ATAATTTCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
21 12 0.26
22 10 0.22
24 12 0.26
26 7 0.15
27 5 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATCATTAATATCAAATCATT
Found at i:149690 original size:60 final size:60
Alignment explanation
Indices: 149538--150024 Score: 695
Period size: 60 Copynumber: 8.1 Consensus size: 60
149528 GTTCAAGTCG
* * * * * * * *
149538 TAAATCATTACTATCAAATCATTAAT-ATCAAATCATTAAATATTAATAATAAATTATTATTAC
1 TAAATCATTACTATCAAATCATTAATAAT-TAAT-AAT-AAT-TTCATTATTACTAATCATTAC
*
149601 T-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 TAAATCATTACTATCAAATCATTAATAATTAATAATAATTTCATTATTACTAATCATTAC
149660 TAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATCATTAC
1 TAAATCATTACTATCAAATCATTA-ATAATTAATAATAATTTCATTATTACTAATCATTAC
*
149720 TAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 TAAATCATTACTATCAAATCATTAATAATTAATAATAATTTCATTATTACTAATCATTAC
*
149780 TAAGTCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATCATTAC
1 TAAATCATTACTATCAAATCATTA-ATAATTAATAATAATTTCATTATTACTAATCATTAC
*
149840 TAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 TAAATCATTACTATCAAATCATTAATAATTAATAATAATTTCATTATTACTAATCATTAC
149900 TAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATCATTAC
1 TAAATCATTACTATCAAATCATTA-ATAATTAATAATAATTTCATTATTACTAATCATTAC
* *
149960 T--ATCAAATTACTATTAAATCATTAA-ATATTAATAATAA-TTCATCATTACTAATCATTAC
1 TAAATC--ATTACTATCAAATCATTAATA-ATTAATAATAATTTCATTATTACTAATCATTAC
150019 TAAATC
1 TAAATC
150025 TTATAAATAC
Statistics
Matches: 393, Mismatches: 18, Indels: 28
0.90 0.04 0.06
Matches are distributed among these distances:
58 3 0.01
59 44 0.11
60 306 0.78
61 11 0.03
62 26 0.07
63 3 0.01
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (60 bp):
TAAATCATTACTATCAAATCATTAATAATTAATAATAATTTCATTATTACTAATCATTAC
Found at i:149753 original size:120 final size:119
Alignment explanation
Indices: 149596--150024 Score: 772
Period size: 120 Copynumber: 3.6 Consensus size: 119
149586 ATAAATTATT
149596 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
149661 AAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
66 AAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
149715 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
*
149780 TAAGTCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
65 TAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
149835 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
149900 TAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
65 TAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
* * *
149955 ATTACT-ATCAAATTACTATTAAATCATTAAATATTAATAATAA-TTCATCATTACTAATCATTA
1 ATTACTAATC--ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTA
150018 CTAAATC
64 CTAAATC
150025 TTATAAATAC
Statistics
Matches: 302, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
118 3 0.01
119 32 0.11
120 267 0.88
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (119 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
AAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
Found at i:153096 original size:23 final size:24
Alignment explanation
Indices: 153065--153118 Score: 83
Period size: 23 Copynumber: 2.2 Consensus size: 24
153055 TTTTATATAT
153065 CTAATATATAACTTAAA-AACAAA
1 CTAATATATAACTTAAACAACAAA
*
153088 TTAATATATAACTTAAACTAACAAA
1 CTAATATATAACTTAAAC-AACAAA
153113 CTAATA
1 CTAATA
153119 ATTTATACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 16 0.59
25 11 0.41
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (24 bp):
CTAATATATAACTTAAACAACAAA
Found at i:153119 original size:21 final size:21
Alignment explanation
Indices: 153095--153143 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
153085 AAATTAATAT
153095 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
153116 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
153137 ATTAACT
1 A-TAACT
153144 AAATTTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:153820 original size:30 final size:30
Alignment explanation
Indices: 153784--153941 Score: 181
Period size: 30 Copynumber: 5.0 Consensus size: 30
153774 GCGAGCTGGA
153784 CGTGCATGGAGGTCGTTGGGCGTGCATGGC
1 CGTGCATGGAGGTCGTTGGGCGTGCATGGC
* * *
153814 CGTGCATGGAGGTCGTTGGACGTGCCTGGG
1 CGTGCATGGAGGTCGTTGGGCGTGCATGGC
*
153844 CATGCATGGAGGTCGTTGGGCGTGCATGGGC
1 CGTGCATGGAGGTCGTTGGGCGTGCAT-GGC
* *
153875 GTGCATGGAGGTCATGGAGGTCGTTGGGCGTGCATGGG
1 ---C---G-TG-CATGGAGGTCGTTGGGCGTGCATGGC
153913 CGTGCATGGAGGTCGTTGGGCGTGCATGG
1 CGTGCATGGAGGTCGTTGGGCGTGCATGG
153942 GCGTTGGCTG
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
30 76 0.70
31 3 0.03
32 1 0.01
34 1 0.01
35 1 0.01
38 3 0.03
39 23 0.21
ACGTcount: A:0.11, C:0.18, G:0.47, T:0.23
Consensus pattern (30 bp):
CGTGCATGGAGGTCGTTGGGCGTGCATGGC
Found at i:153875 original size:10 final size:10
Alignment explanation
Indices: 153860--153945 Score: 67
Period size: 10 Copynumber: 8.7 Consensus size: 10
153850 TGGAGGTCGT
153860 TGGGCGTGCA
1 TGGGCGTGCA
153870 TGGGCGTGCA
1 TGGGCGTGCA
153880 TGGAG-GT-CA
1 TGG-GCGTGCA
*
153889 TGGAG-GT-CGT
1 TGG-GCGTGC-A
153899 TGGGCGTGCA
1 TGGGCGTGCA
153909 TGGGCGTGCA
1 TGGGCGTGCA
*
153919 TGGAG-GT-CGT
1 TGG-GCGTGC-A
153929 TGGGCGTGCA
1 TGGGCGTGCA
153939 TGGGCGT
1 TGGGCGT
153946 TGGCTGGTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
9 13 0.20
10 47 0.73
11 4 0.06
ACGTcount: A:0.10, C:0.16, G:0.50, T:0.23
Consensus pattern (10 bp):
TGGGCGTGCA
Found at i:153892 original size:39 final size:39
Alignment explanation
Indices: 153848--153926 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
153838 CCTGGGCATG
153848 CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGT
1 CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGT
153887 CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGT
1 CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGT
153926 C
1 C
153927 GTTGGGCGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.13, C:0.16, G:0.48, T:0.23
Consensus pattern (39 bp):
CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGT
Found at i:153913 original size:69 final size:70
Alignment explanation
Indices: 153800--153945 Score: 240
Period size: 69 Copynumber: 2.1 Consensus size: 70
153790 TGGAGGTCGT
* *
153800 TGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGCCTGGGCATGCATGGAGGTCGTTGGGC
1 TGGGCGTGCATGGACGTGCATGGAGGTCGTTGGACGTGCATGGGCATGCATGGAGGTCGTTGGGC
153865 GTGCA
66 GTGCA
* * *
153870 TGGGCGTGCATGGAGGT-CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGTCGTTGGGC
1 TGGGCGTGCATGGACGTGCATGGAGGTCGTTGGACGTGCATGGGCATGCATGGAGGTCGTTGGGC
153934 GTGCA
66 GTGCA
153939 TGGGCGT
1 TGGGCGT
153946 TGGCTGGTAG
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
69 56 0.79
70 15 0.21
ACGTcount: A:0.11, C:0.18, G:0.48, T:0.23
Consensus pattern (70 bp):
TGGGCGTGCATGGACGTGCATGGAGGTCGTTGGACGTGCATGGGCATGCATGGAGGTCGTTGGGC
GTGCA
Found at i:154028 original size:57 final size:60
Alignment explanation
Indices: 153922--154039 Score: 170
Period size: 57 Copynumber: 2.0 Consensus size: 60
153912 GCGTGCATGG
**
153922 AGGTCGTTGGGCGTGCATGGGCGTTGGCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
1 AGGTCGTTGGGCGTGCATGGGCG-TACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
* *
153983 AGGTCG-TGGGCGTGCAT-GGCG-ACCTGGTAGGTCGCCGGGCGTGCATGGCGACCTACC
1 AGGTCGTTGGGCGTGCATGGGCGTACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
154040 CCCGGTACTG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
57 32 0.60
59 4 0.08
60 11 0.21
61 6 0.11
ACGTcount: A:0.13, C:0.25, G:0.42, T:0.19
Consensus pattern (60 bp):
AGGTCGTTGGGCGTGCATGGGCGTACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
Found at i:154032 original size:29 final size:29
Alignment explanation
Indices: 153949--154036 Score: 115
Period size: 29 Copynumber: 3.1 Consensus size: 29
153939 TGGGCGTTGG
*
153949 CTGGTAGGTCGCAGGGCATGCATGGCGAC
1 CTGGTAGGTCGCAGGGCGTGCATGGCGAC
*** *
153978 CTACCAGGTCG-TGGGCGTGCATGGCGAC
1 CTGGTAGGTCGCAGGGCGTGCATGGCGAC
*
154006 CTGGTAGGTCGCCGGGCGTGCATGGCGAC
1 CTGGTAGGTCGCAGGGCGTGCATGGCGAC
154035 CT
1 CT
154037 ACCCCCGGTA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 23 0.47
29 26 0.53
ACGTcount: A:0.14, C:0.27, G:0.41, T:0.18
Consensus pattern (29 bp):
CTGGTAGGTCGCAGGGCGTGCATGGCGAC
Found at i:155209 original size:30 final size:30
Alignment explanation
Indices: 155175--155266 Score: 75
Period size: 30 Copynumber: 3.1 Consensus size: 30
155165 CGACGGCGGC
155175 GGAGATAAGTATGGATAAATTGGTGGTGGA
1 GGAGATAAGTATGGATAAATTGGTGGTGGA
* * * * *
155205 GGAGAGTGAA--CTGG--AAGTGGTGGCGGCGGT
1 GGAGA-T-AAGTATGGATAAAT--TGGTGGTGGA
155235 GGAGATAAGTATGGATAAATTGGTGGTGGA
1 GGAGATAAGTATGGATAAATTGGTGGTGGA
155265 GG
1 GG
155267 TGAATGTGGT
Statistics
Matches: 44, Mismatches: 10, Indels: 16
0.63 0.14 0.23
Matches are distributed among these distances:
28 5 0.11
29 1 0.02
30 32 0.73
31 1 0.02
32 5 0.11
ACGTcount: A:0.28, C:0.03, G:0.46, T:0.23
Consensus pattern (30 bp):
GGAGATAAGTATGGATAAATTGGTGGTGGA
Found at i:155218 original size:60 final size:60
Alignment explanation
Indices: 155136--155266 Score: 217
Period size: 60 Copynumber: 2.2 Consensus size: 60
155126 AGGAGGAGAG
* *
155136 GGTGGTGGTGGATAGTGAACTGGAAGTGGCGACGGCGGCGGAGATAAGTATGGATAAATT
1 GGTGGTGGAGGAGAGTGAACTGGAAGTGGCGACGGCGGCGGAGATAAGTATGGATAAATT
* * *
155196 GGTGGTGGAGGAGAGTGAACTGGAAGTGGTGGCGGCGGTGGAGATAAGTATGGATAAATT
1 GGTGGTGGAGGAGAGTGAACTGGAAGTGGCGACGGCGGCGGAGATAAGTATGGATAAATT
155256 GGTGGTGGAGG
1 GGTGGTGGAGG
155267 TGAATGTGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.25, C:0.06, G:0.47, T:0.21
Consensus pattern (60 bp):
GGTGGTGGAGGAGAGTGAACTGGAAGTGGCGACGGCGGCGGAGATAAGTATGGATAAATT
Found at i:159323 original size:2 final size:2
Alignment explanation
Indices: 159316--159345 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
159306 ATGATTAATA
159316 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
159346 TTAATTTTTA
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:161797 original size:29 final size:28
Alignment explanation
Indices: 161755--161839 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 28
161745 AACCCAACCA
*
161755 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACGCCC-GCGACCTCC
* **
161784 TAGGTCGCCATGCACGCCCGACGACATGG
1 TAGGTCGCCATGCACGCCCG-CGACCTCC
161813 TAGGTCGCCATGCACGCCCCGCGACCT
1 TAGGTCGCCATGCACG-CCCGCGACCT
161840 TGTCTTTGGC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 1 0.02
29 44 0.90
30 4 0.08
ACGTcount: A:0.18, C:0.41, G:0.26, T:0.15
Consensus pattern (28 bp):
TAGGTCGCCATGCACGCCCGCGACCTCC
Found at i:162069 original size:29 final size:29
Alignment explanation
Indices: 162037--162117 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
162027 GTCGCCCCGA
*
162037 GTGCATGGCGACCTCCTTGGTCATTGGGC
1 GTGCATGGCGACCTCTTTGGTCATTGGGC
** *
162066 GTGCATGGCGATTTCTTTGGTCGTTGGGC
1 GTGCATGGCGACCTCTTTGGTCATTGGGC
162095 GTGCATGGCGACCTCTTTGGTCA
1 GTGCATGGCGACCTCTTTGGTCA
162118 CTGTACAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.10, C:0.23, G:0.35, T:0.32
Consensus pattern (29 bp):
GTGCATGGCGACCTCTTTGGTCATTGGGC
Found at i:163120 original size:21 final size:20
Alignment explanation
Indices: 163083--163131 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
163073 AAATTTATAA
163083 TTTTATATTCTTCATAATAT
1 TTTTATATTCTTCATAATAT
* *
163103 TTTTATTATTTTTTATAATAT
1 TTTTA-TATTCTTCATAATAT
163124 TTTT-TATT
1 TTTTATATT
163132 GAGTCCCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 5 0.19
21 17 0.65
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATATTCTTCATAATAT
Found at i:169678 original size:25 final size:25
Alignment explanation
Indices: 169648--169702 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
169638 GGGAGACCTC
169648 TCAAAGTTAAATCTAAGATTGCTCT
1 TCAAAGTTAAATCTAAGATTGCTCT
169673 TCAAAGTTAAATCTAAGATTGCTCT
1 TCAAAGTTAAATCTAAGATTGCTCT
169698 T-AAAG
1 TCAAAG
169703 GTTCAGCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (25 bp):
TCAAAGTTAAATCTAAGATTGCTCT
Found at i:175277 original size:17 final size:17
Alignment explanation
Indices: 175255--175288 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
175245 GAGAGCAAGC
175255 AATTAGAGGATAATTGT
1 AATTAGAGGATAATTGT
175272 AATTAGAGGATAATTGT
1 AATTAGAGGATAATTGT
175289 GGGGTCAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (17 bp):
AATTAGAGGATAATTGT
Found at i:175835 original size:2 final size:2
Alignment explanation
Indices: 175830--175855 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
175820 AAATAACTTA
175830 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
175856 TATTTTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:176028 original size:51 final size:51
Alignment explanation
Indices: 175962--176156 Score: 212
Period size: 51 Copynumber: 3.8 Consensus size: 51
175952 AGATGTACAT
* * *
175962 ACTTACATCGGTGTAAATATGTGTTAAGTGCTACACTTTTTTATTTTATTT
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* * * * * *
176013 ACTTACACCGTTGTAAGTACGCGTTAAATGTTACACTTTTTTATTCTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* * ** *
176064 ACTTACTCCGGTGT-AGTATGTGTTAATTATTACACTTTTTTGTTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* * * *
176114 AGTTACACCGGTATAAGTATTGTGTTAAGTGCTATATTTTTTT
1 ACTTACACCGGTGTAAGTA-TGTGTTAAGTGCTACACTTTTTT
176157 GTAGCATGAA
Statistics
Matches: 117, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 41 0.35
51 58 0.50
52 18 0.15
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (51 bp):
ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
Found at i:183251 original size:3 final size:3
Alignment explanation
Indices: 183243--183274 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
183233 ATGAACGCAA
183243 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
183275 AAGGATCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:187271 original size:2 final size:2
Alignment explanation
Indices: 187264--187302 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
187254 TGTCATTACT
187264 TA TA TA TA TA 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 TA TA TA TA TA T
187303 GATAATGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:190172 original size:226 final size:223
Alignment explanation
Indices: 189778--190227 Score: 695
Period size: 226 Copynumber: 2.0 Consensus size: 223
189768 AATTTTGGGG
* *
189778 ATTAATGATATTTTAGTTAAATTCGGACACTATAATGAATTTTTAATTAAAGTTGAGTCCAAATC
1 ATTAATGAAATTTTAGTTAAATTCGGACACTATAATGAATTATTAATTAAAGTTGAGTCCAAATC
* *
189843 AGAAAGTTTCAAAAGTTGGAGGACCAATGACATGATTTTATCATTTTCCTTATGGGTGGGTTTAA
66 AGAAAGTTTCAAAAGTTGGAGGACCAACGACATGATTTTACCATTTTCCTTATGGGTGGGTTTAA
*
189908 AACCCCCAGAAACAGCGGGTTTCATTTCTAGAAACCAAAATCCCCCTCTCTTCCTCTCAAGCTTT
131 AACCCACAGAAACAGCGGGTTTCATTTCTAGAAACCAAAAT-CCCCTCTC--CCTCTCAAGCTTT
189973 CCATTTTTAGAAACTTTATCGAGAAAACTTT
193 CCATTTTTAGAAACTTTATCGAGAAAACTTT
* * ** *
190004 ATTAATGAAATTTTGGTTAAATTTGGGGACTATAATGAATTATTAATTAAAGTTGAGTCTAAATC
1 ATTAATGAAATTTTAGTTAAATTCGGACACTATAATGAATTATTAATTAAAGTTGAGTCCAAATC
* * *
190069 ATAAAGTTTCAAAAGTTTGAGGACCAACGACATGCTTTTACCATTTTCCTTATGGGTGGGTTTAA
66 AGAAAGTTTCAAAAGTTGGAGGACCAACGACATGATTTTACCATTTTCCTTATGGGTGGGTTTAA
** *
190134 AACCCACA-ATGTCAGCGGGTTTCATTTCTATAAACCAAAATCCCCTCTCCCTCTCAAGCTTTCC
131 AACCCACAGA-AACAGCGGGTTTCATTTCTAGAAACCAAAATCCCCTCTCCCTCTCAAGCTTTCC
* *
190198 ATTTTTAGAAACTTTCTCGAGAAAATTTT
195 ATTTTTAGAAACTTTATCGAGAAAACTTT
190227 A
1 A
190228 AACGATGCTT
Statistics
Matches: 205, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
223 43 0.21
225 9 0.04
226 153 0.75
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (223 bp):
ATTAATGAAATTTTAGTTAAATTCGGACACTATAATGAATTATTAATTAAAGTTGAGTCCAAATC
AGAAAGTTTCAAAAGTTGGAGGACCAACGACATGATTTTACCATTTTCCTTATGGGTGGGTTTAA
AACCCACAGAAACAGCGGGTTTCATTTCTAGAAACCAAAATCCCCTCTCCCTCTCAAGCTTTCCA
TTTTTAGAAACTTTATCGAGAAAACTTT
Found at i:191608 original size:23 final size:23
Alignment explanation
Indices: 191582--191629 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
191572 ATAAAGTACA
*
191582 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
191605 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
191628 AT
1 AT
191630 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:192046 original size:23 final size:23
Alignment explanation
Indices: 192020--192082 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
192010 ATATAACCAC
192020 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
192043 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
192066 TACCTATTACATCATAT
1 TACCTATTACATTATAT
192083 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:192471 original size:23 final size:23
Alignment explanation
Indices: 192445--192507 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
192435 ATATAACCAC
192445 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
192468 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
192491 TACCTATTACATCATAT
1 TACCTATTACATTATAT
192508 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:192535 original size:425 final size:423
Alignment explanation
Indices: 191741--192788 Score: 1963
Period size: 425 Copynumber: 2.5 Consensus size: 423
191731 GGATCGATAC
191741 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
191806 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAA-TT--TAATAATATATATC
*
191871 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACTCAA
128 GTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
191936 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAGGATAGA
192 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAGGATAGA
192001 CACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGC
257 CACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGC
192066 TACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCG
322 TACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATCG
192131 ATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTT
386 ATAC-TTTTTTAAAAGTTATGTAATTTATGTTTCAATTT
*
192170 TTTAACAGTGTTTCATGCTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
192235 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTA
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTA
192300 ACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
131 ACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
192365 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAGGATAGACACT
196 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAGGATAGACACT
192430 TTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACC
261 TTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACC
192495 TATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACT
326 TATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACT
192560 TTTTTAAAAGTTATGTAATTTATGTTTCAATTT
391 TTTTTAAAAGTTATGTAATTTATGTTTCAATTT
*
192593 TTTAACA-TGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
* * *
192657 AGTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATACCGT
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT-ATATATCGT
*
192722 AACATAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
130 AACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
192787 AT
195 AT
192789 GTATATACCT
Statistics
Matches: 610, Mismatches: 8, Indels: 8
0.97 0.01 0.01
Matches are distributed among these distances:
422 108 0.18
423 115 0.19
424 14 0.02
425 240 0.39
426 21 0.03
428 2 0.00
429 110 0.18
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (423 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTA
ACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAGGATAGACACT
TTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACC
TATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACT
TTTTTAAAAGTTATGTAATTTATGTTTCAATTT
Found at i:192844 original size:25 final size:25
Alignment explanation
Indices: 192787--192852 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
192777 CACTCAAAAG
*
192787 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
192812 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
192837 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
192853 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:197118 original size:3 final size:3
Alignment explanation
Indices: 197110--197187 Score: 66
Period size: 3 Copynumber: 26.0 Consensus size: 3
197100 ACTTGTTTGG
* * * ** * *
197110 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
197158 GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
197188 GTCAGCTTCA
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:197170 original size:42 final size:42
Alignment explanation
Indices: 197111--197199 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
197101 CTTGTTTGGA
* *
197111 TCATCATCTTCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
197153 TCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCATCATCTTCATCGCCAGCT
197195 TCATC
1 TCATC
197200 TTCTGCGACC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (42 bp):
TCATCATCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:197186 original size:18 final size:18
Alignment explanation
Indices: 197110--197187 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
197100 ACTTGTTTGG
* *
197110 ATCATCATCTTCATCATC
1 ATCATCATCATCGTCATC
* *
197128 ATCGTCATCATCTTCATC
1 ATCATCATCATCGTCATC
** * *
197146 GCCAGCTTCATCGTCATC
1 ATCATCATCATCGTCATC
197164 ATCATCATCATCGTCATC
1 ATCATCATCATCGTCATC
*
197182 TTCATC
1 ATCATC
197188 GTCAGCTTCA
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (18 bp):
ATCATCATCATCGTCATC
Found at i:197198 original size:18 final size:18
Alignment explanation
Indices: 197118--197202 Score: 59
Period size: 21 Copynumber: 4.6 Consensus size: 18
197108 GGATCATCAT
*
197118 CTTCATCATCATCGTCA-
1 CTTCATCTTCATCGTCAG
*
197135 --TCATCTTCATCGCCAG
1 CTTCATCTTCATCGTCAG
* *
197151 CTTCATCGTCATCATCATCAT
1 CTTCATC-T--TCATCGTCAG
197172 CATCGTCATCTTCATCGTCAG
1 C-T--TCATCTTCATCGTCAG
197193 CTTCATCTTC
1 CTTCATCTTC
197203 TGCGACCGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 17
0.68 0.09 0.22
Matches are distributed among these distances:
15 13 0.25
18 13 0.25
19 1 0.02
20 1 0.02
21 17 0.33
22 1 0.02
23 1 0.02
24 5 0.10
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.36
Consensus pattern (18 bp):
CTTCATCTTCATCGTCAG
Found at i:197202 original size:6 final size:6
Alignment explanation
Indices: 197114--197202 Score: 61
Period size: 6 Copynumber: 14.3 Consensus size: 6
197104 GTTTGGATCA
* * * * * *
197114 TCATCT TCATCA TCATCGT CATCATCT TCATCG CCAGCT TCATCG TCATCA
1 TCATCT TCATCT TCATC-T --TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
197165 TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
197203 TGCGACCGCT
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
6 58 0.91
8 1 0.02
9 5 0.08
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:198993 original size:198 final size:198
Alignment explanation
Indices: 198653--200215 Score: 2954
Period size: 198 Copynumber: 7.9 Consensus size: 198
198643 TTTAAATTAG
198653 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
198718 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
198783 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT-GGAAA
198847 AAAA
195 AAAA
198851 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
198916 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
198980 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
199045 AAA
196 AAA
199048 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
199113 ATTGTACCGGTTAGATAGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
199178 CGACACTTTTTATATATGGATCAACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AAA
199243 AAAA
195 AAAA
199247 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
199312 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
199377 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
199441 AAA
196 AAA
199444 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
199509 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
199574 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
199639 AAA
196 AAA
199642 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
199707 ATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
199772 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
199837 AAA
196 AAA
199840 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
199905 ATTGTACCGGTTAGATTG-AAAATTACTTATTACAATATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
199969 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AAA
200034 AAAA
195 AAAA
200038 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
200103 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
200168 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
200216 GGCCATATTG
Statistics
Matches: 1343, Mismatches: 14, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
197 418 0.31
198 672 0.50
199 193 0.14
200 21 0.02
201 39 0.03
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
AAA
Found at i:200380 original size:19 final size:19
Alignment explanation
Indices: 200334--200382 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
200324 TTATATTCAC
*
200334 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
200353 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
200372 ATACAAAATTA
1 ATACAAAATTA
200383 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:202208 original size:33 final size:33
Alignment explanation
Indices: 202171--202236 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
202161 CATCTTAATA
*
202171 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
202204 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
202237 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:202310 original size:21 final size:21
Alignment explanation
Indices: 202270--202334 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
202260 CCCCTTATGC
* *
202270 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
202291 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
202312 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
202333 CT
1 CT
202335 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:204580 original size:17 final size:17
Alignment explanation
Indices: 204558--204603 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 17
204548 ATATATCCGG
204558 TATCATTTTACCGGTTT
1 TATCATTTTACCGGTTT
204575 TATCATTTTGTTACCGGTTT
1 TATCA--TT-TTACCGGTTT
204595 TATCATTTT
1 TATCATTTT
204604 TTACCTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.27
18 2 0.08
19 2 0.08
20 15 0.58
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (17 bp):
TATCATTTTACCGGTTT
Found at i:204617 original size:19 final size:19
Alignment explanation
Indices: 204563--204608 Score: 83
Period size: 20 Copynumber: 2.4 Consensus size: 19
204553 TCCGGTATCA
204563 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
204582 TTGTTACCGGTTTTATCATT
1 TT-TTACCGGTTTTATCATT
204602 TTTTACC
1 TTTTACC
204609 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.15, C:0.17, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:204756 original size:20 final size:20
Alignment explanation
Indices: 204730--204775 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
204720 CACTTTTAAA
204730 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
204749 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
204770 TTTACC
1 TTTACC
204776 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:205256 original size:227 final size:226
Alignment explanation
Indices: 204841--205287 Score: 790
Period size: 227 Copynumber: 2.0 Consensus size: 226
204831 TTAAAACTGG
204841 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
**
204906 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
* *
204971 TTAGAATTTAAATTTAACAATATTAACCAAATAATTAATAAATATGTTTTCAACAGTGAAATAAG
131 TTAGAATTTAAATTTAACAATATTAACAAAATAATTAATAAATATATTTTCAACAGTGAAATAAG
*
205036 TATGGACACTTTTATAAAAATGATATATACT
196 TATGGACACTTTTATAAAAAGGATATATACT
*
205067 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
205132 ATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
65 ATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
*
205197 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAA-TAATAAATATATTTTC-ACAGTGAAAT
130 TTTAGAATTTAAATTTAACAATATTAAC-AAA-ATAATTAATAAATATATTTTCAACAGTGAAAT
205260 AAGTATGGACACTTTTATAAAAAGGATA
193 AAGTATGGACACTTTTATAAAAAGGATA
205288 GATAATTTAC
Statistics
Matches: 211, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
226 4 0.02
227 186 0.88
228 17 0.08
229 4 0.02
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (226 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
TTAGAATTTAAATTTAACAATATTAACAAAATAATTAATAAATATATTTTCAACAGTGAAATAAG
TATGGACACTTTTATAAAAAGGATATATACT
Found at i:208499 original size:32 final size:32
Alignment explanation
Indices: 208420--208499 Score: 142
Period size: 32 Copynumber: 2.5 Consensus size: 32
208410 TGGTGGGTAC
*
208420 AAATTTTCAAATCCACACCCGCCCACGCGGGT
1 AAATTTTCAAATCCATACCCGCCCACGCGGGT
*
208452 ACATTTTCAAATCCATACCCGCCCACGCGGGT
1 AAATTTTCAAATCCATACCCGCCCACGCGGGT
208484 AAATTTTCAAATCCAT
1 AAATTTTCAAATCCAT
208500 CCCCACACCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.24
Consensus pattern (32 bp):
AAATTTTCAAATCCATACCCGCCCACGCGGGT
Found at i:209055 original size:15 final size:15
Alignment explanation
Indices: 209035--209067 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
209025 ATATTTAGCT
*
209035 GGGTGGGCGGATGTG
1 GGGTGGGCGGATGCG
209050 GGGTGGGCGGATGCG
1 GGGTGGGCGGATGCG
209065 GGG
1 GGG
209068 CGGGTAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.09, G:0.70, T:0.15
Consensus pattern (15 bp):
GGGTGGGCGGATGCG
Found at i:221888 original size:26 final size:26
Alignment explanation
Indices: 221850--221904 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
221840 GCTAAGATTG
221850 TTTCTTAAATTGAGTTCGAAACAAGT
1 TTTCTTAAATTGAGTTCGAAACAAGT
* * *
221876 TTTCTTAATTTGAGTTTGAAACAGGT
1 TTTCTTAAATTGAGTTCGAAACAAGT
221902 TTT
1 TTT
221905 GTGAAGGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.45
Consensus pattern (26 bp):
TTTCTTAAATTGAGTTCGAAACAAGT
Found at i:224452 original size:14 final size:15
Alignment explanation
Indices: 224433--224461 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
224423 GAAACGAATT
224433 ACATTTTCT-GAAAA
1 ACATTTTCTGGAAAA
224447 ACATTTTCTGGAAAA
1 ACATTTTCTGGAAAA
224462 TGTTTTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (15 bp):
ACATTTTCTGGAAAA
Found at i:224590 original size:22 final size:23
Alignment explanation
Indices: 224556--224598 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
224546 ATATAATAAA
*
224556 TAATATTATTTATTATAAAAACT
1 TAATATCATTTATTATAAAAACT
*
224579 TAATATCA-TTATTTTAAAAA
1 TAATATCATTTATTATAAAAA
224599 TATTAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATATCATTTATTATAAAAACT
Found at i:224906 original size:17 final size:18
Alignment explanation
Indices: 224884--225005 Score: 54
Period size: 17 Copynumber: 7.4 Consensus size: 18
224874 GAAATTAATA
*
224884 AATAATATA-ATTTTATT
1 AATAATATATATATTATT
*
224901 AATAATGTATATATTATT
1 AATAATATATATATTATT
*
224919 AA-AATA-AGA-A-TA-T
1 AATAATATATATATTATT
* *
224932 AATAAT-CATATATCATT
1 AATAATATATATATTATT
* *
224949 -ATAATATA-AT-TGAGT
1 AATAATATATATATTATT
*
224964 ATATATTATA-ATATTATT
1 A-ATAATATATATATTATT
*
224982 -ATTATAT-TATATTATT
1 AATAATATATATATTATT
*
224998 AAAAATAT
1 AATAATAT
225006 TAATAAATAA
Statistics
Matches: 77, Mismatches: 16, Indels: 24
0.66 0.14 0.21
Matches are distributed among these distances:
13 3 0.04
14 7 0.09
15 5 0.06
16 23 0.30
17 27 0.35
18 12 0.16
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (18 bp):
AATAATATATATATTATT
Done.