Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_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: 3296903
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 19
Found at i:118 original size:20 final size:20
Alignment explanation
Indices: 93--150 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
83 ATTCATTTGA
93 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
113 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
133 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
151 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:210 original size:19 final size:19
Alignment explanation
Indices: 188--321 Score: 199
Period size: 19 Copynumber: 7.4 Consensus size: 19
178 GATTTTCTCG
188 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
207 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
226 TTGCGATTTTC---TCG--
1 TTGCGATTTTCATTTCGCA
240 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
259 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
277 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* * *
296 TTGCGAATTCCATTTCGCG
1 TTGCGATTTTCATTTCGCA
315 TTGCGAT
1 TTGCGAT
322 AGTCTGTTTT
Statistics
Matches: 105, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
14 11 0.10
16 3 0.03
17 3 0.03
18 18 0.17
19 70 0.67
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:225 original size:52 final size:51
Alignment explanation
Indices: 169--287 Score: 220
Period size: 52 Copynumber: 2.3 Consensus size: 51
159 GAAATGAAAA
*
169 TCGCATTACGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGA-TTTCATT
221 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTCATT
272 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
288 ATTTCGCATT
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
51 23 0.35
52 43 0.65
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (51 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTCATT
Found at i:2321 original size:20 final size:19
Alignment explanation
Indices: 2286--2352 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
2276 GAAACTTAAA
2286 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
2305 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
2325 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
2344 ATCGCAACG
1 ATCGCAACG
2353 ATAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:2360 original size:14 final size:14
Alignment explanation
Indices: 2341--2398 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
2331 ATGCGAAATG
2341 AAAATCGCAACGAT
1 AAAATCGCAACGAT
2355 AAAATCGCAACACGAAAT
1 AAAATCGC-A-ACG--AT
* *
2373 GAAATCGCAACGAC
1 AAAATCGCAACGAT
2387 AAAATCGCAACG
1 AAAATCGCAACG
2399 CGAAACACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
15 1 0.03
16 6 0.16
17 1 0.03
18 9 0.24
ACGTcount: A:0.50, C:0.24, G:0.16, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAT
Found at i:2383 original size:32 final size:33
Alignment explanation
Indices: 2325--2403 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
2315 GGAAATGGCT
* *
2325 ATCGCAATGCGAAATGAAAATCGCAACGATAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
2358 ATCGCAACACGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2390 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
2404 CACAAATCGC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 28 0.67
33 14 0.33
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:2432 original size:19 final size:17
Alignment explanation
Indices: 2410--2505 Score: 69
Period size: 19 Copynumber: 5.6 Consensus size: 17
2400 GAAACACAAA
2410 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
2429 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
2445 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
2461 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
2477 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
*
2494 TCACATTGCGAT
1 TCGC-TTGCGAT
2506 AGCCATTTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 3 0.05
18 13 0.21
19 16 0.26
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:2451 original size:14 final size:14
Alignment explanation
Indices: 2432--2489 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2422 TTTCATTTCG
2432 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2446 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2462 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
2478 CGTTGCGATTTT
1 CGTTGCGATTTT
2490 CATTTCACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2503 original size:33 final size:33
Alignment explanation
Indices: 2415--2505 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
2405 ACAAATCGCA
2415 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
2448 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
* *
2480 TTGCGATTTTCATTTCACATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
2506 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 32 0.58
33 23 0.42
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:2512 original size:19 final size:19
Alignment explanation
Indices: 2490--2534 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
2480 TTGCGATTTT
2490 CATTTCACATTGCGATAGC
1 CATTTCACATTGCGATAGC
* * *
2509 CATTTCCGCGTTGCGATAGT
1 CATTT-CACATTGCGATAGC
2529 CATTTC
1 CATTTC
2535 GTGTTGCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (19 bp):
CATTTCACATTGCGATAGC
Found at i:2542 original size:19 final size:20
Alignment explanation
Indices: 2499--2543 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2489 TCATTTCACA
2499 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* *
2519 TTGCGATAGTCATTT-CGTG
1 TTGCGATAGCCATTTCCGCG
2538 TTGCGA
1 TTGCGA
2544 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.36
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:3042 original size:18 final size:18
Alignment explanation
Indices: 3016--3060 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
3006 GTCGATCAGA
* *
3016 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
3034 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
3052 TGATGGCTC
1 TGATGGCTC
3061 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:4404 original size:20 final size:20
Alignment explanation
Indices: 4379--4416 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4369 AATAGTTTCT
4379 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
4399 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
4417 GAGAGAATCG
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:4704 original size:22 final size:22
Alignment explanation
Indices: 4679--4722 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4669 GATTTAGATA
4679 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
4701 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
4723 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:5003 original size:20 final size:20
Alignment explanation
Indices: 4890--5003 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
4880 CGCTTTGAAA
4890 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
4910 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
4930 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * ** * *
4950 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTAAGT
4971 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
4991 ATCGCATTGCGAT
1 ATCGCATTGCGAT
5004 TTTCCCAATT
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
18 3 0.04
19 1 0.01
20 58 0.77
21 13 0.17
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:5021 original size:21 final size:21
Alignment explanation
Indices: 4992--5084 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
4982 ATAGTAAGTA
4992 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
5013 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
5033 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
5054 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
5074 TCGCATTGCGA
1 TCGCATTGCGA
5085 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:5022 original size:41 final size:41
Alignment explanation
Indices: 4931--5065 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
4921 AAAGTCAGTA
* * * ** *
4931 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
4971 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
5013 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
5054 TCGCGTTGCGAT
1 TCGCGTTGCGAT
5066 TTACTTATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:5066 original size:41 final size:41
Alignment explanation
Indices: 4992--5084 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
4982 ATAGTAAGTA
4992 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
5033 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
5074 TCGCATTGCGA
1 TCGCATTGCGA
5085 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:11343 original size:69 final size:69
Alignment explanation
Indices: 11268--11665 Score: 634
Period size: 69 Copynumber: 5.8 Consensus size: 69
11258 AGAGCCCTTC
** *
11268 CCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAATGGAATCTGTAAACAAGGATGAACT
1 CCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAACAAGGATGAACT
11333 CTGA
66 CTGA
* * * *
11337 CTCTTGAACATATTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCATACAAGGAGGAACT
1 CCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAACAAGGATGAACT
11402 CTGA
66 CTGA
* * *
11406 CCCTTGAACATGTTATCCGCATAGGCAGGAGTACTCGGAACAGAGTCTGCAAACAAGGATGAACT
1 CCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAACAAGGATGAACT
11471 CTGA
66 CTGA
11475 CCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAACAAGGATGAACT
1 CCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAACAAGGATGAACT
*
11540 CTGT
66 CTGA
*
11544 CCCTTGAACATGTTATCTGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAACAAGGATGAACT
1 CCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAACAAGGATGAACT
**
11609 CTTC
66 CTGA
* * * *
11613 CCCTTGAACATGTTATCTGCATAAGCAGGGGTGCTTGGAACAGAGTCTGCAAA
1 CCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAA
11666 AATAGATAAG
Statistics
Matches: 305, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 305 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (69 bp):
CCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAACAAGGATGAACT
CTGA
Found at i:11710 original size:138 final size:135
Alignment explanation
Indices: 11268--11728 Score: 573
Period size: 138 Copynumber: 3.3 Consensus size: 135
11258 AGAGCCCTTC
* ** *
11268 CCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAATGGAATCTGTAAACAAGGATGAACT
1 CCCTTGAACATGTTA-CCGCATAGGCAGGAGTGCTCGGAACAGAATCTGCAAACAAGGATGAACT
* * * *
11333 CTGACTCTTGAACATATTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCATACAAGGAGG
65 CTGACCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCA-AAAAGGA-T
*
11398 AACTCTGA
128 AACTCTGT
* *
11406 CCCTTGAACATGTTATCCGCATAGGCAGGAGTACTCGGAACAGAGTCTGCAAACAAGGATGAACT
1 CCCTTGAACATGTTA-CCGCATAGGCAGGAGTGCTCGGAACAGAATCTGCAAACAAGGATGAACT
11471 CTGACCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAACAAGGATG
65 CTGACCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAA-AAGGAT-
11536 AACTCTGT
128 AACTCTGT
* *
11544 CCCTTGAACATGTTATCTGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAACAAGGATGAACT
1 CCCTTGAACATGTTA-CCGCATAGGCAGGAGTGCTCGGAACAGAATCTGCAAACAAGGATGAACT
** * * * * *
11609 CTTCCCCTTGAACATGTTATCTGCATAAGCAGGGGTGCTTGGAACAGAGTCTGCAAAAATAGATA
65 CTGACCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAAAA-GGATA
11674 AGCTCT-T
129 A-CTCTGT
* * * * ** *
11681 CCCATGGATCATGTCACCAGCGTTTGCAGGGGTGCTCGGAACAGAATC
1 CCC-TTGAACATGTTACC-GCATAGGCAGGAGTGCTCGGAACAGAATC
11729 AAAAACAATC
Statistics
Matches: 286, Mismatches: 31, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
137 10 0.03
138 276 0.97
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.23
Consensus pattern (135 bp):
CCCTTGAACATGTTACCGCATAGGCAGGAGTGCTCGGAACAGAATCTGCAAACAAGGATGAACTC
TGACCCTTGAACATGTTATCCGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAAAAGGATAAC
TCTGT
Found at i:19909 original size:28 final size:27
Alignment explanation
Indices: 19872--19928 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
19862 TCCATTAATA
* * *
19872 TTATTTTATATAATATATATTTTTTTAT
1 TTATATTATATAATAT-TATTATTTCAT
19900 TTATATTATATAATATTATTATTTCAT
1 TTATATTATATAATATTATTATTTCAT
19927 TT
1 TT
19929 GGTTCCATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
TTATATTATATAATATTATTATTTCAT
Found at i:21011 original size:17 final size:17
Alignment explanation
Indices: 20991--21040 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
20981 TAATTTTTAC
20991 TTATTTTTT-TGTATATA
1 TTATTTTTTAT-TATATA
21008 TTATTTTTTATTATATA
1 TTATTTTTTATTATATA
*
21025 -TATATTATTATTATAT
1 TTAT-TTTTTATTATAT
21041 GTATATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 3 0.10
17 26 0.87
18 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTATTTTTTATTATATA
Found at i:21024 original size:2 final size:2
Alignment explanation
Indices: 21019--21068 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
21009 TATTTTTTAT
*
21019 TA TA TA TA TA T- TA T- TA T- TA TA TG 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
21058 TA TA TA TA TA T
1 TA TA TA TA TA T
21069 TTATTTGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:21201 original size:22 final size:21
Alignment explanation
Indices: 21171--21213 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
21161 GTTTACTATT
*
21171 ACTTGCATTTTTTTATTATTTC
1 ACTTGCATTTATTTATT-TTTC
*
21193 ACTTTCATTTATTTATTTTTC
1 ACTTGCATTTATTTATTTTTC
21214 TTTTTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.19, C:0.14, G:0.02, T:0.65
Consensus pattern (21 bp):
ACTTGCATTTATTTATTTTTC
Found at i:22084 original size:24 final size:24
Alignment explanation
Indices: 22056--22105 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
22046 CATGTGAATT
22056 TATTCACCGCACATGTCTAGCAAG
1 TATTCACCGCACATGTCTAGCAAG
22080 TATTCACCGCACATGTCTAGCAAG
1 TATTCACCGCACATGTCTAGCAAG
22104 TA
1 TA
22106 GCCTTCGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (24 bp):
TATTCACCGCACATGTCTAGCAAG
Found at i:25452 original size:95 final size:95
Alignment explanation
Indices: 25288--25527 Score: 342
Period size: 95 Copynumber: 2.7 Consensus size: 95
25278 ATATTTTGTA
*
25288 TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAT
1 TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
25353 ATTCAGCTAACCTGATAAAGGTGATTATAC
66 ATTCAGCTAACCTGATAAAGGTGATTATAC
*
25383 TATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
1 TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
*
25448 ATTCAGCTAACCTGATAATGGTG----T--
66 ATTCAGCTAACCTGATAAAGGTGATTATAC
* **
25472 T-TAC-AT--A--TTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTAGCTTTATGGAT
1 TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
25528 TCAGCTAGCC
Statistics
Matches: 138, Mismatches: 7, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
83 45 0.33
85 1 0.01
87 2 0.01
88 3 0.02
89 1 0.01
91 1 0.01
95 85 0.62
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATAC
Found at i:26878 original size:37 final size:35
Alignment explanation
Indices: 26837--26956 Score: 127
Period size: 36 Copynumber: 3.3 Consensus size: 35
26827 ACAATGGGGC
* *
26837 GTCTCGCTTGAAACTAATTTACTCAAAACAAAGTTTT
1 GTCTCTCTTGAAAC-AATTTACTCGAAACAAA-TTTT
*
26874 GTCTCTCTTGAGACAATTT-CTCTTGAAACAAATTTT
1 GTCTCTCTTGAAACAATTTACTC--GAAACAAATTTT
* *
26910 GTCTCTCTT-AAGACAGTTTCACTTGAAACAAATTTT
1 GTCTCTCTTGAA-ACAATTT-ACTCGAAACAAATTTT
26946 GTCTCTCTTGA
1 GTCTCTCTTGA
26957 GACAGTTTCT
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
35 4 0.06
36 45 0.63
37 20 0.28
38 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (35 bp):
GTCTCTCTTGAAACAATTTACTCGAAACAAATTTT
Found at i:26910 original size:36 final size:36
Alignment explanation
Indices: 26862--27148 Score: 333
Period size: 36 Copynumber: 8.1 Consensus size: 36
26852 AATTTACTCA
*
26862 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
26899 AAACAAATTTTGTCTCTCTTAAGACAGTTTCACTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
26935 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
26971 AAACAAA------ATCT-TTGA-ATATGTTT-TACATT-
1 AAACAAATTTTGTCTCTCTTGAGACA-GTTTCT-C-TTG
* *
27000 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
27036 GAACTAAGTTTTGGTCTCTCTTGAGACAGTTTCTCTTG
1 AAAC-AAATTTT-GTCTCTCTTGAGACAGTTTCTCTTG
* *
27074 AAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
27110 AAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
27146 AAA
1 AAA
27149 TAAAATCTTT
Statistics
Matches: 216, Mismatches: 19, Indels: 31
0.81 0.07 0.12
Matches are distributed among these distances:
28 3 0.01
29 16 0.07
30 5 0.02
35 4 0.02
36 140 0.65
37 22 0.10
38 26 0.12
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:27078 original size:139 final size:138
Alignment explanation
Indices: 26862--27116 Score: 404
Period size: 139 Copynumber: 1.8 Consensus size: 138
26852 AATTTACTCA
*
26862 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTAAGACAGT
1 AAACAAAGTTTTGTCTCCCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTAAGACAGT
* *
26927 TTCACTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAATATGT
66 TTCACTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTTGAATATGT
26992 TTTACATT
131 TTTACATT
* * * * *
27000 AAACAAA-TTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGGTCTCTCTTGAGACA
1 AAACAAAGTTTTGTCTCCCTTGAGACAATTTCTCTTGAAAC-AAATTTT-GTCTCTCTTAAGACA
*
27064 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAA
64 GTTTCACTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAA
27117 TTTTGTCTCT
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
137 29 0.27
138 13 0.12
139 64 0.60
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (138 bp):
AAACAAAGTTTTGTCTCCCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTAAGACAGT
TTCACTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTTGAATATGT
TTTACATT
Found at i:27092 original size:21 final size:21
Alignment explanation
Indices: 27067--27136 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
27057 TGAGACAGTT
27067 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
*
27088 TCTCTTGAGAC-AA--TT-TC
1 TCTCTTGAAACAAATTTTGTC
27105 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
*
27124 TCTCTTGAGACAA
1 TCTCTTGAAACAA
27137 TTTCCCTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
15 7 0.17
16 3 0.08
17 2 0.05
18 4 0.10
19 2 0.05
20 3 0.08
21 19 0.47
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:27165 original size:175 final size:174
Alignment explanation
Indices: 26867--27332 Score: 727
Period size: 175 Copynumber: 2.6 Consensus size: 174
26857 ACTCAAAACA
* *
26867 AAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTAAGACAGTTTCAC
1 AAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCAC
* *
26932 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAATATGTTTTAC
66 TTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTTGAATATGTTTT-C
*
26997 ATT-AAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACT
130 ATTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACT
* *
27041 AAGTTTTGGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCC
1 AAGTTTT-GTCTCTCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCA
*
27106 CTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAAATCTTTGAATATGTTTTC
65 CTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTTGAATATGTTTTC
*
27171 CTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACT
130 ATTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACT
** * *
27216 AAGTTTCATCTCTCTAGGGACAATTTCTCTTGAAACAAATTTTGTCTTTGTCTCTCTTGAGACAA
1 AAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAA-----T-TTTGTCTCTCTTGAGACAA
*
27281 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAA
60 TTTCACTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAA
27333 TTTTGTCTCT
Statistics
Matches: 268, Mismatches: 16, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
174 38 0.14
175 160 0.60
179 1 0.00
180 69 0.26
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (174 bp):
AAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCAC
TTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTTGAATATGTTTTCA
TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACT
Found at i:27181 original size:65 final size:67
Alignment explanation
Indices: 27105--27421 Score: 218
Period size: 65 Copynumber: 4.5 Consensus size: 67
27095 AGACAATTTC
27105 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAAATCT-TTGA-ATATGTT
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAAATCTCTTGACATATGTT
27168 TT
66 TT
* * * ** * *
27170 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTCATCTCTCTAGGG
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTT-GAAATAA----AATCTCT-T---G
*
27235 ACA-AT-TTCT
57 ACATATGTTTT
* * *
27244 -CTTGAAACAAATTTTGTCTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTC
1 CCTTGAAACAAA-----T-TTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAA------ATCTC
* * * *
27308 TTGAGACA-ATTTC
54 TTGACATATGTTTT
27321 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAAATCT-TTGA-ATATGTT
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAAATCTCTTGACATATGTT
27384 TT
66 TT
** * *
27386 CCTTGAAACAAATTTCATCTCCCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
27422 TTTTGGAACT
Statistics
Matches: 196, Mismatches: 29, Indels: 54
0.70 0.10 0.19
Matches are distributed among these distances:
64 2 0.01
65 74 0.38
66 9 0.05
70 4 0.02
71 1 0.01
72 34 0.17
73 12 0.06
74 3 0.02
75 4 0.02
76 4 0.02
77 3 0.02
78 17 0.09
79 24 0.12
80 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (67 bp):
CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAAATCTCTTGACATATGTT
TT
Found at i:27302 original size:36 final size:36
Alignment explanation
Indices: 27170--27364 Score: 210
Period size: 36 Copynumber: 5.2 Consensus size: 36
27160 AATATGTTTT
* * *
27170 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
** * * ** * *
27206 TTTTGGAACTAAGTTTCATCTCTCTAGGGACAATTTC
1 CCTTGAAAC-AAATTTTGTCTCTCTTGAGACAATTTC
*
27243 TCTTGAAACAAATTTTGTCTTTGTCTCTCTTGAGACAATTTC
1 CCTTGAAACAAA-----T-TTTGTCTCTCTTGAGACAATTTC
*
27285 TCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
27321 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
27357 CCTTGAAA
1 CCTTGAAA
27365 TAAAATCTTT
Statistics
Matches: 135, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
36 74 0.55
37 29 0.21
41 1 0.01
42 31 0.23
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (36 bp):
CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTC
Found at i:27308 original size:21 final size:21
Alignment explanation
Indices: 27283--27352 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
27273 TGAGACAATT
27283 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
*
27304 TCTCTTGAGAC-AA--TT-TC
1 TCTCTTGAAACAAATTTTGTC
27321 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
*
27340 TCTCTTGAGACAA
1 TCTCTTGAAACAA
27353 TTTCCCTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
15 7 0.17
16 3 0.08
17 2 0.05
18 4 0.10
19 2 0.05
20 3 0.08
21 19 0.47
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:27315 original size:216 final size:216
Alignment explanation
Indices: 27049--27541 Score: 932
Period size: 216 Copynumber: 2.3 Consensus size: 216
27039 CTAAGTTTTG
27049 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAC
27114 AAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAAATCTTTGAATATGTTTTCCTTGAAAC
66 AAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAAATCTTTGAATATGTTTTCCTTGAAAC
*
27179 AAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTCATCTCTCTAGGGACAATTTCT
131 AAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTCATCTCTCTAGGGACAATTTCT
27244 CTTGAAACAAATTTTGTCTTT
196 CTTGAAACAAATTTTGTCTTT
*
27265 GTCTCTCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAC
27330 AAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAAATCTTTGAATATGTTTTCCTTGAAAC
66 AAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAAATCTTTGAATATGTTTTCCTTGAAAC
* * *
27395 AAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTCGTCTCTCTTGGGACAGTTTCT
131 AAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTCATCTCTCTAGGGACAATTTCT
27460 CTTGAAACAAATTTTGTCTTT
196 CTTGAAACAAATTTTGTCTTT
*
27481 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTG
27542 CAGCATAGCT
Statistics
Matches: 270, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 270 1.00
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.41
Consensus pattern (216 bp):
GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAC
AAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAATAAAATCTTTGAATATGTTTTCCTTGAAAC
AAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTCATCTCTCTAGGGACAATTTCT
CTTGAAACAAATTTTGTCTTT
Found at i:27326 original size:78 final size:79
Alignment explanation
Indices: 27186--27541 Score: 272
Period size: 78 Copynumber: 4.8 Consensus size: 79
27176 AACAAATTTC
* * * * * *
27186 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTCATCTCTCTAGGGACAATTTCTCTTGAAA
1 GTCTCCCTTGAGACAATTTCTCTTGAAACTAAATTTCATCTCTCTAGAGACAATTTCCCTTGAAA
27251 CAAATTTTGTCTTT
66 CAAATTTTGTCTTT
* ** *
27265 GTCTCTCTTGAGACAATTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAA
1 GTCTCCCTTGAGACAATTTCTCTTGAAACTAAATTTCATCTCTCTAGAGACAATTTCCCTTGAAA
27329 CAAATTTTGTC---
66 CAAATTTTGTCTTT
* * * *
27340 -TCT--CTTGAGACAATTTCCCTTGAAA-TAAA----ATCT-T-T-GA-ATATGTTTTCCTTGAA
1 GTCTCCCTTGAGACAATTTCTCTTGAAACTAAATTTCATCTCTCTAGAGACA-ATTTCCCTTGAA
27393 ACAAA--TT-TC---
65 ACAAATTTTGTCTTT
* * * * * * * * * *
27402 ATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTCGTCTCTCTTGGGACAGTTTCTCTTGAAA
1 GTCTCCCTTGAGACAATTTCTCTTGAAACTAAATTTCATCTCTCTAGAGACAATTTCCCTTGAAA
27467 CAAATTTTGTCTTT
66 CAAATTTTGTCTTT
* * ** * *
27481 GTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 GTCTCCCTTGAGACAATTTCTCTTGAAACTAAATTTCATCTCTCTAGAGACAATTTCCCTTG
27542 CAGCATAGCT
Statistics
Matches: 224, Mismatches: 33, Indels: 41
0.75 0.11 0.14
Matches are distributed among these distances:
62 2 0.01
63 5 0.02
64 2 0.01
65 35 0.16
66 4 0.02
67 1 0.00
68 3 0.01
70 3 0.01
71 1 0.00
72 25 0.11
73 16 0.07
74 5 0.02
75 2 0.01
76 2 0.01
78 68 0.30
79 50 0.22
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (79 bp):
GTCTCCCTTGAGACAATTTCTCTTGAAACTAAATTTCATCTCTCTAGAGACAATTTCCCTTGAAA
CAAATTTTGTCTTT
Found at i:27414 original size:101 final size:103
Alignment explanation
Indices: 27281--27466 Score: 250
Period size: 101 Copynumber: 1.8 Consensus size: 103
27271 CTTGAGACAA
** * *
27281 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAC-AAATTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTCATCTCCCTTGAGACAATTTCCCTTGAAACTAAATTTCGTCTCTCT
27345 TGAGACAATTTCCCTTGAAATAAAATCTTTGAATATGT
66 TGAGACAATTTCCCTTGAAATAAAATCTTTGAATATGT
* ** * *
27383 TTTC-CTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTCGTCTCTCT
1 TTTCTCTTGAAACAAATTTCATCTCCCTTGAGACAATTTCCCTTGAAACTAAATTTCGTCTCTCT
* * *
27447 TGGGACAGTTTCTCTTGAAA
66 TGAGACAATTTCCCTTGAAA
27467 CAAATTTTGT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
101 37 0.52
102 34 0.48
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (103 bp):
TTTCTCTTGAAACAAATTTCATCTCCCTTGAGACAATTTCCCTTGAAACTAAATTTCGTCTCTCT
TGAGACAATTTCCCTTGAAATAAAATCTTTGAATATGT
Found at i:27498 original size:42 final size:42
Alignment explanation
Indices: 27439--27520 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
27429 ACTAAGTTTC
*
27439 GTCTCTCTTGGGACAGTTTCTCTTGAAACAAATTTTGTCTTT
1 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTTT
27481 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCT
1 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCT
27521 CTCTTGAGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.44
Consensus pattern (42 bp):
GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTTT
Found at i:27518 original size:36 final size:36
Alignment explanation
Indices: 27383--27541 Score: 176
Period size: 36 Copynumber: 4.2 Consensus size: 36
27373 TTGAATATGT
* *
27383 TTTC-CTTGAAACAAATTTCATCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * * *
27418 TTTCTTTTGGAACTAAGTTTCGTCTCTCTTGGGACAG
1 TTTCTCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
27455 TTTCTCTTGAAACAAATTTTGTCTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAA--TT-TC---GTCTCTCTTGAGACAG
*
27497 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
27533 TTTCCCTTG
1 TTTCTCTTG
27542 CAGCATAGCT
Statistics
Matches: 104, Mismatches: 12, Indels: 15
0.79 0.09 0.11
Matches are distributed among these distances:
35 4 0.04
36 32 0.31
37 30 0.29
38 2 0.02
39 3 0.03
40 2 0.02
42 31 0.30
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.42
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:27729 original size:79 final size:81
Alignment explanation
Indices: 27578--27735 Score: 205
Period size: 79 Copynumber: 2.0 Consensus size: 81
27568 ATCTGCCAAA
* ** **
27578 CAAAGACCTTCGAGTTAGATTACACTCAGCTCAAAGGCACTATCATTTGCAGTATAGCTCAAGGC
1 CAAAGACCTTCAAGTTAGATTACACTCAGCTCAAAGGCACTATCATTCACAACATAGCTCAAGGC
*
27643 TAAAAGGGTTATATGC
66 TAAAAGGGCTATATGC
* * *
27659 CAAAGACCTTCAAGTTTGATTCCATTCAGCTC-AAGGCA-TATCATTCACAACATAGCTCAAGGC
1 CAAAGACCTTCAAGTTAGATTACACTCAGCTCAAAGGCACTATCATTCACAACATAGCTCAAGGC
27722 -AAGAAGGGCTATAT
66 TAA-AAGGGCTATAT
27736 ATCAATAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 2 0.03
79 31 0.46
80 6 0.09
81 28 0.42
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.25
Consensus pattern (81 bp):
CAAAGACCTTCAAGTTAGATTACACTCAGCTCAAAGGCACTATCATTCACAACATAGCTCAAGGC
TAAAAGGGCTATATGC
Found at i:29610 original size:18 final size:19
Alignment explanation
Indices: 29574--29662 Score: 80
Period size: 18 Copynumber: 4.8 Consensus size: 19
29564 TATATTACGC
29574 TTTATTATATATATA--TA
1 TTTATTATATATATATTTA
*
29591 -TTATTATATGTATATTTA
1 TTTATTATATATATATTTA
* *
29609 TTTATT-TATTTCTATTTA
1 TTTATTATATATATATTTA
* *
29627 TTTGTTTTATTATATATTTGA
1 TTTATTATA-TATATATTT-A
29648 -TTATTATATATATAT
1 TTTATTATATATATAT
29663 ATTTATTTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
16 13 0.22
18 17 0.29
19 14 0.24
20 13 0.22
21 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTATTATATATATATTTA
Found at i:29918 original size:23 final size:23
Alignment explanation
Indices: 29892--29951 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
29882 CTTATATCAT
29892 TTATT-TATTTATTCTACCTTTTG
1 TTATTCTATTTATT-TACCTTTTG
*
29915 TTATTCTGTTTATTTA-CTTTT-
1 TTATTCTATTTATTTACCTTTTG
29936 TT-TCTCTATTTTATTT
1 TTAT-TCTA-TTTATTT
29952 TCATTCTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 1 0.03
21 5 0.16
22 12 0.38
23 7 0.22
24 7 0.22
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.70
Consensus pattern (23 bp):
TTATTCTATTTATTTACCTTTTG
Found at i:29996 original size:20 final size:20
Alignment explanation
Indices: 29955--30003 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
29945 TTTATTTTCA
* *
29955 TTCTTATTTCCTTTATTTTT
1 TTCTTATTTACTTTATTATT
29975 TTCTT-TTTACTTTATTCATT
1 TTCTTATTTACTTTATT-ATT
*
29995 TTCGTATTT
1 TTCTTATTT
30004 TAAACGTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.42
20 11 0.46
21 3 0.12
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (20 bp):
TTCTTATTTACTTTATTATT
Found at i:31044 original size:22 final size:22
Alignment explanation
Indices: 31019--31087 Score: 138
Period size: 22 Copynumber: 3.1 Consensus size: 22
31009 ATAATTGGAA
31019 AAGACTCGTATTCAATAGTTGC
1 AAGACTCGTATTCAATAGTTGC
31041 AAGACTCGTATTCAATAGTTGC
1 AAGACTCGTATTCAATAGTTGC
31063 AAGACTCGTATTCAATAGTTGC
1 AAGACTCGTATTCAATAGTTGC
31085 AAG
1 AAG
31088 CGTTTGTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (22 bp):
AAGACTCGTATTCAATAGTTGC
Found at i:36179 original size:2 final size:2
Alignment explanation
Indices: 36172--36240 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
36162 ATACTCTTCT
36172 TA TA TA TA TA TA 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
36214 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 T
36241 CTATGGAGGA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:41007 original size:15 final size:17
Alignment explanation
Indices: 40985--41022 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
40975 GATCTTACCA
40985 TGAATTGAT-ATCTAAT
1 TGAATTGATCATCTAAT
*
41001 T-AATTGATCGTCTAAT
1 TGAATTGATCATCTAAT
41017 TGAATT
1 TGAATT
41023 TATGAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 8 0.42
17 4 0.21
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (17 bp):
TGAATTGATCATCTAAT
Found at i:43610 original size:29 final size:28
Alignment explanation
Indices: 43578--43633 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
43568 TACAACATTG
43578 AATTATAA-TATTATATATTTGAAAATTAT
1 AATTATAATTATT-TATATTT-AAAATTAT
*
43607 AATTATAATTATTTTTATTTAAAATTA
1 AATTATAATTATTTATATTTAAAATTA
43634 ATTTTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 14 0.56
30 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
AATTATAATTATTTATATTTAAAATTAT
Found at i:50545 original size:15 final size:15
Alignment explanation
Indices: 50525--50559 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
50515 AGGATCATGA
50525 GTTTCCTCATTTTTC
1 GTTTCCTCATTTTTC
50540 GTTTCCTCATTTTTC
1 GTTTCCTCATTTTTC
50555 GTTTC
1 GTTTC
50560 TTCCTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.06, C:0.26, G:0.09, T:0.60
Consensus pattern (15 bp):
GTTTCCTCATTTTTC
Found at i:55604 original size:48 final size:48
Alignment explanation
Indices: 55533--55628 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
55523 CTGTTATACT
55533 TAACCAACAAGGGATACCCAATTTAAGCAATGTTAACACTATGACCCA
1 TAACCAACAAGGGATACCCAATTTAAGCAATGTTAACACTATGACCCA
55581 TAACCAACAAGGGATACCCAATTTAAGCAATGTTAACACTATGACCCA
1 TAACCAACAAGGGATACCCAATTTAAGCAATGTTAACACTATGACCCA
55629 AGGGGCGGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.21
Consensus pattern (48 bp):
TAACCAACAAGGGATACCCAATTTAAGCAATGTTAACACTATGACCCA
Found at i:57915 original size:6 final size:6
Alignment explanation
Indices: 57904--57928 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57894 GACACGTATT
57904 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
57929 GCCGAGCCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:66132 original size:16 final size:17
Alignment explanation
Indices: 66111--66143 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
66101 CGGATATCCG
66111 ATCCGAA-ATTTCGGAT
1 ATCCGAATATTTCGGAT
*
66127 ATCCGAATTTTTCGGAT
1 ATCCGAATATTTCGGAT
66144 CGGAAACGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (17 bp):
ATCCGAATATTTCGGAT
Found at i:66447 original size:2 final size:2
Alignment explanation
Indices: 66440--66471 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
66430 TATCTTACAA
66440 AT 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 AT
66472 GTTCGTCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67112 original size:15 final size:15
Alignment explanation
Indices: 67073--67117 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
67063 CACAATATTT
*
67073 TATATTAAAAATACA
1 TATATTAAAAATATA
*
67088 T-TTTTAAAAAATATA
1 TATATT-AAAAATATA
67103 TATATTAAAAATATA
1 TATATTAAAAATATA
67118 AAAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 3 0.12
15 19 0.76
16 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
TATATTAAAAATATA
Found at i:67496 original size:11 final size:11
Alignment explanation
Indices: 67480--67542 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
67470 AAAATTACAT
67480 TATTAAAAATA
1 TATTAAAAATA
67491 TATTAAAAATA
1 TATTAAAAATA
* * ***
67502 CACTATTGATA
1 TATTAAAAATA
67513 -ATTATAAAAT-
1 TATTA-AAAATA
67523 T-TTAAAAATA
1 TATTAAAAATA
67533 TATTAAAAAT
1 TATTAAAAAT
67543 TCTATAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:68081 original size:21 final size:22
Alignment explanation
Indices: 68035--68087 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
68025 TCTTTGTAAT
* *
68035 GAACCTTGAATCCTAAACTTTA
1 GAACCTTAAACCCTAAACTTTA
68057 -AACCTTAAACCCTAAAC-TTA
1 GAACCTTAAACCCTAAACTTTA
*
68077 GAACCCTAAAC
1 GAACCTTAAAC
68088 TTTGTAACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.42, C:0.28, G:0.06, T:0.25
Consensus pattern (22 bp):
GAACCTTAAACCCTAAACTTTA
Found at i:68088 original size:14 final size:13
Alignment explanation
Indices: 68055--68089 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
68045 TCCTAAACTT
68055 TAAACCTTAAACCC
1 TAAA-CTTAAACCC
68069 TAAACTTAGAACCC
1 TAAACTTA-AACCC
68083 TAAACTT
1 TAAACTT
68090 TGTAACACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.43, C:0.29, G:0.03, T:0.26
Consensus pattern (13 bp):
TAAACTTAAACCC
Found at i:69086 original size:2 final size:2
Alignment explanation
Indices: 69076--69112 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
69066 AAATAAATGA
*
69076 AT AT A- AT AT AT AT AT AT AT AT AT AT A- AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
69113 AAAATAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:69193 original size:21 final size:23
Alignment explanation
Indices: 69161--69236 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 23
69151 AAATGTTTTA
**
69161 AATAATAATAAATTTAAAAAGAT
1 AATAATAATAAACATAAAAAGAT
*
69184 AA-AA-AATAAACATATAAAGAT
1 AATAATAATAAACATAAAAAGAT
* * *
69205 AATAATAATAAA-ATGAATATAT
1 AATAATAATAAACATAAAAAGAT
69227 AATAATAATA
1 AATAATAATA
69237 TACGAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 16 0.36
22 20 0.45
23 8 0.18
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (23 bp):
AATAATAATAAACATAAAAAGAT
Found at i:69226 original size:28 final size:27
Alignment explanation
Indices: 69182--69236 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
69172 ATTTAAAAAG
69182 ATAAAAAATAAACATATAA-AGATAATA
1 ATAAAAAATAAACATATAATA-ATAATA
* *
69209 ATAATAAAATGAATATATAATAATAATA
1 ATAA-AAAATAAACATATAATAATAATA
69237 TACGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.17
28 19 0.79
29 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (27 bp):
ATAAAAAATAAACATATAATAATAATA
Found at i:69702 original size:37 final size:37
Alignment explanation
Indices: 69596--69703 Score: 198
Period size: 37 Copynumber: 2.9 Consensus size: 37
69586 TTATGGATCA
* *
69596 TATTTTTAGGAGTTTGAATCTTAGTAAAACTCCATCC
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCC
69633 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCC
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCC
69670 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
69704 ACGTTATATT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCC
Found at i:70464 original size:84 final size:84
Alignment explanation
Indices: 70313--70939 Score: 548
Period size: 84 Copynumber: 7.5 Consensus size: 84
70303 ATTTTATTAA
* * * *
70313 CAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAATTTGGTTTTCCTCTG-AGCTGAGTGTAATC
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAA--TGATGTTCCT-TGAAGCTGAGTGTAATC
* **
70377 GAACTCTAAGGTCTTCGGTTGG
63 GAACTCGAAGGTCTTTTGTTGG
* * ** *
70399 CAGATAACCATTCTAGCCTTGAGTTATGCTGCAAATGATGTTCCTTGAAGCTGAGCATAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTTCCTTGAAGCTGAGTGTAATCGAA
* *
70464 CGCGAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * * * * * *
70483 CAGATAGCCCTTATCGACTTAAGCTATGTTGCAAATGATGTGT-TTATG-AGCTGAGTGTAATCG
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGT-TCCT-TGAAGCTGAGTGTAATCG
* *
70546 AACTCAAAGGTC-TTTGTTGA
64 AACTCGAAGGTCTTTTGTTGG
* * ** ** * ** *
70566 CAGATAAACCTTCTAGCCTTGAGTTATGCTATAAATGATGCGCCTTGGAGCTGAGCATAATCAAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTTCCTTGAAGCTGAGTGTAATCGAA
* * *
70631 CTCGAAGGTATTTAGTTGT
66 CTCGAAGGTCTTTTGTTGG
* * * * * * *
70650 CAAATAGCCTTTCTCGACTTAAGCTATGCTGCAAATGATGTTCCTTTGAA-CTGAGTGTAATTGA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTTCC-TTGAAGCTGAGTGTAATCGA
* *
70714 ACTTGAAGGTC-TTTGTTGA
65 ACTCGAAGGTCTTTTGTTGG
* * * * * * * *
70733 CAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTGCAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTTCCTTGAAGCTGAGTGTAATCGAA
* * *
70798 CTCGAAGGTTTTTTTTTTTG
66 CTCGAAGG-TCTTTTGTTGG
* * * * * *
70818 CAGATAAACCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTT-AGAGCTGAGTGTAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTTCCTTGA-AGCTGAGTGTAATCGA
70882 ACTCGAAGGTCTTTTGTTGG
65 ACTCGAAGGTCTTTTGTTGG
* * *
70902 CAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGA
70940 ACACGATATC
Statistics
Matches: 431, Mismatches: 99, Indels: 24
0.78 0.18 0.04
Matches are distributed among these distances:
82 6 0.01
83 121 0.28
84 193 0.45
85 80 0.19
86 31 0.07
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (84 bp):
CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTTCCTTGAAGCTGAGTGTAATCGAA
CTCGAAGGTCTTTTGTTGG
Found at i:70639 original size:167 final size:167
Alignment explanation
Indices: 70361--70939 Score: 644
Period size: 167 Copynumber: 3.4 Consensus size: 167
70351 GGTTTTCCTC
* * * *
70361 TGAGCTGAGTGTAATCGAACTCTAAGGTCTTCGGTTGGCAGAT-AACCATTCTAGCCTTGAGTTA
1 TGAGCTGAGTGTAATCGAACTCGAAGGTCTT-TGTTGACAAATAAACC-TTCTAGCCTTGAGTTA
* * * * *
70425 TGCTGCAAATGATGTTCCTTGAAGCTGAGCATAGTCGAACGCGAAGGTCTTTGGTTGGCAGATAG
64 TGCTGTAAATGATGTGCCTTGAAGCTGAGCATAGTCGAACTCGAAGGTATTTAGTTGGCAGATAG
*
70490 CCCTTATCGACTTAAGCTATGTTGCAAATGATGTGTTTA
129 CCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGTTTA
* *
70529 TGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGTTGACAGATAAACCTTCTAGCCTTGAGTTATG
1 TGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAAATAAACCTTCTAGCCTTGAGTTATG
* * * * * * *
70594 CTATAAATGATGCGCCTTGGAGCTGAGCATAATCAAACTCGAAGGTATTTAGTTGTCAAATAGCC
66 CTGTAAATGATGTGCCTTGAAGCTGAGCATAGTCGAACTCGAAGGTATTTAGTTGGCAGATAGCC
* *
70659 TTTCTCGACTTAAGCTATGCTGCAAATGATGT-TCCTT-
131 CTTCTCGACTTAAGCTATGTTGCAAATGATGTGT--TTA
* * * *
70696 TGAACTGAGTGTAATTGAACTTGAAGGTCTTTGTTGACAAATAACCCTTCTAGCCTTGAGTTATG
1 TGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAAATAAACCTTCTAGCCTTGAGTTATG
* * * * ** * **
70761 TTGTAAATGATGTGCCTTGCAGCTGAGCGTAGTCGAACTCGAAGGTTTTTTTTTTTGCAGATAAA
66 CTGTAAATGATGTGCCTTGAAGCTGAGCATAGTCGAACTCGAAGG-TATTTAGTTGGCAGATAGC
* * * * * *
70826 CCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTA
130 CCTTCTCGACTTAAGCTATGTTGCAAATGATGTG-TTTA
* * * * *
70865 -GAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTAT
1 TGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAAATAAACCTTCTAGCCTTGAGTTAT
* *
70929 GTTGCAAATGA
65 GCTGTAAATGA
70940 ACACGATATC
Statistics
Matches: 348, Mismatches: 55, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
166 1 0.00
167 206 0.59
168 99 0.28
169 42 0.12
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (167 bp):
TGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAAATAAACCTTCTAGCCTTGAGTTATG
CTGTAAATGATGTGCCTTGAAGCTGAGCATAGTCGAACTCGAAGGTATTTAGTTGGCAGATAGCC
CTTCTCGACTTAAGCTATGTTGCAAATGATGTGTTTA
Found at i:71240 original size:124 final size:123
Alignment explanation
Indices: 71021--71274 Score: 427
Period size: 124 Copynumber: 2.1 Consensus size: 123
71011 ATATCATTCG
* *
71021 CCAAGCTGAAGACGATTGTTACTGGAGAGCACGATTCCCTTGTCGTGAAGTTGAAACCGTGGATG
1 CCAAGCTGAAGACGAATGCTACTGGAGAGCACGATTCCCTTGTCGTGAAGTTGAAACCGTGGATG
* * *
71086 GCCCCTTCATTGTGAAGTTGAGCCTTAACTTGAATATCCTTCATCGTGAAGTTGAAAT
66 ACCCATTCATTGTAAAGTTGAGCCTTAACTTGAATATCCTTCATCGTGAAGTTGAAAT
* *
71144 CCAAGTTGAAGATGAATGCTACTGGAGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGAT
1 CCAAGCTGAAGACGAATGCTACTGGAGAGCACGATTCCCTT-GTCGTGAAGTTGAAACCGTGGAT
*
71209 GACCCATTCGTTGTAAAGTTGAGCCTTAACTTGAATATCCTTCATCGTGAAGTTGAAAT
65 GACCCATTCATTGTAAAGTTGAGCCTTAACTTGAATATCCTTCATCGTGAAGTTGAAAT
71268 CCAAGCT
1 CCAAGCT
71275 TGTATTGTTT
Statistics
Matches: 121, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
123 37 0.31
124 84 0.69
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (123 bp):
CCAAGCTGAAGACGAATGCTACTGGAGAGCACGATTCCCTTGTCGTGAAGTTGAAACCGTGGATG
ACCCATTCATTGTAAAGTTGAGCCTTAACTTGAATATCCTTCATCGTGAAGTTGAAAT
Found at i:73341 original size:35 final size:36
Alignment explanation
Indices: 73295--73362 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
73285 ATGTCCTTAT
*
73295 AAAAAGAAATATGTCAAAGTTC-AAAAACAAGTTAC
1 AAAAAGAAATATGACAAAGTTCAAAAAACAAGTTAC
* *
73330 AAAAAGAAATATGAGAATGTTCAAAAAACAAGT
1 AAAAAGAAATATGACAAAGTTCAAAAAACAAGT
73363 CTAAACAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 19 0.66
36 10 0.34
ACGTcount: A:0.59, C:0.09, G:0.13, T:0.19
Consensus pattern (36 bp):
AAAAAGAAATATGACAAAGTTCAAAAAACAAGTTAC
Found at i:77504 original size:11 final size:11
Alignment explanation
Indices: 77488--77520 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
77478 ATCAGTTCAC
77488 ATAGTCACTAT
1 ATAGTCACTAT
77499 ATAGTCACTAT
1 ATAGTCACTAT
77510 ATAGTCACTAT
1 ATAGTCACTAT
77521 CAATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (11 bp):
ATAGTCACTAT
Found at i:77596 original size:16 final size:16
Alignment explanation
Indices: 77566--77626 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
77556 TACGTTTTTT
* *
77566 ATTTTAATAAAATTAA
1 ATTTTAATTATATTAA
77582 ATTTTAATTATATTAA
1 ATTTTAATTATATTAA
77598 A----ACATT-TATTAA
1 ATTTTA-ATTATATTAA
77610 ATTTTAATTATATTAA
1 ATTTTAATTATATTAA
77626 A
1 A
77627 ACAACATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
12 8 0.22
13 3 0.08
15 3 0.08
16 23 0.62
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTAATTATATTAA
Found at i:78665 original size:20 final size:19
Alignment explanation
Indices: 78642--78693 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
78632 GAACTCCAAT
78642 TTCGCAACACAGTTTCTAAA
1 TTCGCAACACAGTTTCT-AA
* * *
78662 TTCGCAACGCGAATTTGTAA
1 TTCGCAACAC-AGTTTCTAA
78682 TTCGCAACACAG
1 TTCGCAACACAG
78694 AAGTCAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 20 0.77
21 5 0.19
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (19 bp):
TTCGCAACACAGTTTCTAA
Found at i:78703 original size:40 final size:40
Alignment explanation
Indices: 78618--78708 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
78608 AAATGACCAA
**
78618 TAAATTCGCAACGCGAACTCCAATTTCGCAACACAGTTTC
1 TAAATTCGCAACGCGAACTCCAATTTCGCAACACAGAGTC
* **
78658 TAAATTCGCAACGCGAATTTGTAA-TTCGCAACACAGAAGTC
1 TAAATTCGCAACGCGAA-CTCCAATTTCGCAACACAG-AGTC
78699 -AAATTCGCAA
1 TAAATTCGCAA
78709 AGCGCGTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
40 39 0.89
41 5 0.11
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.24
Consensus pattern (40 bp):
TAAATTCGCAACGCGAACTCCAATTTCGCAACACAGAGTC
Found at i:78892 original size:22 final size:22
Alignment explanation
Indices: 78867--78913 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
78857 GACGACATCT
78867 GTCCCCATCTCCAGCGAAATCC
1 GTCCCCATCTCCAGCGAAATCC
** *
78889 GTCCCCATCTCTGGCGAAGTCC
1 GTCCCCATCTCCAGCGAAATCC
78911 GTC
1 GTC
78914 TATCTCCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.43, G:0.19, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCAGCGAAATCC
Found at i:79262 original size:20 final size:20
Alignment explanation
Indices: 79239--79277 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
79229 TTTGAAACTT
*
79239 AAATTCGCAATACGAAAATG
1 AAATTCGCAACACGAAAATG
79259 AAATTCGCAACACGAAAAT
1 AAATTCGCAACACGAAAAT
79278 CGCAACCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:79280 original size:14 final size:14
Alignment explanation
Indices: 79258--79291 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
79248 ATACGAAAAT
*
79258 GAAATTCGCAACAC
1 GAAAATCGCAACAC
*
79272 GAAAATCGCAACCC
1 GAAAATCGCAACAC
79286 GAAAAT
1 GAAAAT
79292 GAAAATCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.26, G:0.15, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAACAC
Found at i:79323 original size:14 final size:14
Alignment explanation
Indices: 79304--79335 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
79294 AAATCACAAC
79304 GCGATTTTTGCGTT
1 GCGATTTTTGCGTT
79318 GCGATTTTTGCGTT
1 GCGATTTTTGCGTT
79332 GCGA
1 GCGA
79336 ATTCAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.16, G:0.31, T:0.44
Consensus pattern (14 bp):
GCGATTTTTGCGTT
Found at i:80644 original size:42 final size:42
Alignment explanation
Indices: 80555--80650 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
80545 CCCCCACTTC
* * * * **
80555 GAGAGCCATCACCTGATCGAGCCGATTCTACAGCTCGACACC
1 GAGAGCCATCACCCGATCGAGCCGATTATACACCTCCACAAA
* *
80597 CAGAGCCATCACCCGATCGAGCCGATTATATACCTCCACAAA
1 GAGAGCCATCACCCGATCGAGCCGATTATACACCTCCACAAA
80639 GAGAGCCATCAC
1 GAGAGCCATCAC
80651 ATATTCTATC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.35, G:0.19, T:0.16
Consensus pattern (42 bp):
GAGAGCCATCACCCGATCGAGCCGATTATACACCTCCACAAA
Found at i:80857 original size:21 final size:22
Alignment explanation
Indices: 80767--80928 Score: 90
Period size: 21 Copynumber: 7.7 Consensus size: 22
80757 GTTAGGCGAG
*
80767 TTACGTGATGAGGT-CAGTGCT
1 TTACGTGATGAGGTACGGTGCT
*
80788 TTACGTGATGAGGT-CGGTACT
1 TTACGTGATGAGGTACGGTGCT
* * *
80809 TTACGTGACGA--TAATGGTGCA
1 TTACGTGATGAGGT-ACGGTGCT
**
80830 TGGCGTGATGAGGTACGGT-CT
1 TTACGTGATGAGGTACGGTGCT
* * *
80851 TTACGTGGTGAGGTA-GATGTT
1 TTACGTGATGAGGTACGGTGCT
* ** * *
80872 TTACGCGATGA-AAATGGTGTT
1 TTACGTGATGAGGTACGGTGCT
* *
80893 TTACGTGGTGAGGTATC--TACT
1 TTACGTGATGAGGTA-CGGTGCT
80914 TTACGTGATGAGGTA
1 TTACGTGATGAGGTA
80929 GCCGCTCTAC
Statistics
Matches: 104, Mismatches: 29, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
19 1 0.01
20 3 0.03
21 94 0.90
22 5 0.05
23 1 0.01
ACGTcount: A:0.22, C:0.12, G:0.33, T:0.33
Consensus pattern (22 bp):
TTACGTGATGAGGTACGGTGCT
Found at i:80875 original size:63 final size:63
Alignment explanation
Indices: 80770--80890 Score: 145
Period size: 63 Copynumber: 1.9 Consensus size: 63
80760 AGGCGAGTTA
* * * *
80770 CGTGATGAGGTCAGTGCTTTACGTGATGAGGTCGGTACTTTACGTGACGATAATGGTGCATGG
1 CGTGATGAGGTCAGTGCTTTACGTGATGAGGTAGATACTTTACGCGACGAAAATGGTGCATGG
* * ** *
80833 CGTGATGAGGTACGGT-CTTTACGTGGTGAGGTAGATGTTTTACGCGATGAAAATGGTG
1 CGTGATGAGGT-CAGTGCTTTACGTGATGAGGTAGATACTTTACGCGACGAAAATGGTG
80891 TTTTACGTGG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
63 45 0.94
64 3 0.06
ACGTcount: A:0.21, C:0.12, G:0.36, T:0.31
Consensus pattern (63 bp):
CGTGATGAGGTCAGTGCTTTACGTGATGAGGTAGATACTTTACGCGACGAAAATGGTGCATGG
Found at i:81048 original size:4 final size:4
Alignment explanation
Indices: 81039--81076 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
81029 TTTTTCGGCA
* *
81039 TTAT TTAT TTAT TTAT TTAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
81077 TTAGCGGCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:81251 original size:21 final size:21
Alignment explanation
Indices: 81223--81339 Score: 105
Period size: 21 Copynumber: 5.6 Consensus size: 21
81213 TTCACCTGTC
81223 ATCGTTCAAGAGGCCCCTCCT
1 ATCGTTCAAGAGGCCCCTCCT
* * *
81244 ATCATTCAAGAGG-CCATTCT
1 ATCGTTCAAGAGGCCCCTCCT
*
81264 CATCGTTCAAGAGGCCCCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
**
81286 A-CTGTTCAAGAGG-CCCTTGT
1 ATC-GTTCAAGAGGCCCCTCCT
* * *
81306 CATCGTTTAAGAGGTCCCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
81328 ATCGTTCAAGAG
1 ATCGTTCAAGAG
81340 CCCGATTCAC
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
20 10 0.13
21 56 0.75
22 9 0.12
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:81268 original size:42 final size:42
Alignment explanation
Indices: 81221--81339 Score: 168
Period size: 42 Copynumber: 2.8 Consensus size: 42
81211 GATTCACCTG
* *
81221 TCATCGTTCAAGAGGCCCCTCCTATCATTCAAGAGGCCATTC
1 TCATCGTTCAAGAGGCCCCTCCCATCGTTCAAGAGGCCATTC
* *
81263 TCATCGTTCAAGAGGCCCCTCCCA-CTGTTCAAGAGGCCCTTG
1 TCATCGTTCAAGAGGCCCCTCCCATC-GTTCAAGAGGCCATTC
* *
81305 TCATCGTTTAAGAGGTCCCTCCCATCGTTCAAGAG
1 TCATCGTTCAAGAGGCCCCTCCCATCGTTCAAGAG
81340 CCCGATTCAC
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 67 0.97
43 1 0.01
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCCTCCCATCGTTCAAGAGGCCATTC
Found at i:83073 original size:14 final size:15
Alignment explanation
Indices: 83054--83085 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
83044 CGAGGGTTCT
83054 GTAGTCCTTC-GGAC
1 GTAGTCCTTCGGGAC
83068 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
83083 GTA
1 GTA
83086 ATGGTCCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.28
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:89043 original size:14 final size:15
Alignment explanation
Indices: 89026--89054 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89016 TATATGATAT
89026 GCATA-AACATAAGA
1 GCATATAACATAAGA
89040 GCATATAACATAAGA
1 GCATATAACATAAGA
89055 TATGTGATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.17
Consensus pattern (15 bp):
GCATATAACATAAGA
Found at i:89329 original size:14 final size:15
Alignment explanation
Indices: 89299--89330 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
89289 CGAGGGTTCT
89299 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
89314 GTAGTCCTTC-GGAC
1 GTAGTCCTTCGGGAC
89328 GTA
1 GTA
89331 ATGGTCCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.28
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:91227 original size:207 final size:206
Alignment explanation
Indices: 90864--91266 Score: 632
Period size: 207 Copynumber: 1.9 Consensus size: 206
90854 GTACTGAAAG
*
90864 TGTGCATAAACAACCATTTGTTATTGGTAAGTTTGAGCAAGTGTTGTTAACATATATACTCTTTG
1 TGTGCATAAACAACCAATTGTTATTGGTAAGTTTGAGCAAGTGTTGTTAACATATATAC-CTTTG
90929 TTGGTTTGAAAATGTTTGGTTAAGTACCTAGAATTCAATAATTTGTTATTTGTTGGTTTTAGATG
65 TTGGTTTGAAAATGTTTGGTTAAGTACCTAGAATTCAATAATTTGTTATTTGTTGGTTTTAGATG
** * * *
90994 TGTAGAAAGTGTTGTTTGAGCAAATGTTTGGTTTCTGCAGGTAAATCCTGAAGTGAGCTGTGTGA
130 TGTAGAAAGTGTCATTTGAACAAATGTTAGGTTTCTGCAGGTAAATCCTGAAGTGAGCTGCGTGA
91059 AATTGATGTATT
195 AATTGATGTATT
* *
91071 TGTGTATAAACAACCAATTGTTATTGGTAAGTTT-ATGCAAGTGTTGTTAACTGTTATATA-C-T
1 TGTGCATAAACAACCAATTGTTATTGGTAAGTTTGA-GCAAGTGTTGTTAAC--ATATATACCTT
* *
91133 TGTTGGTTTGAAAATGTTTGGTTTAAGTACCTAGAATTCAATAATTTGTTGTTTGTTGGTTTTAT
63 TGTTGGTTTGAAAATGTTTGG-TTAAGTACCTAGAATTCAATAATTTGTTATTTGTTGGTTTTAG
* *
91198 ATGTGTAGAAAGTGTCATTTGAACAAATGTTAGGTTTCTGCAGGTTAATCCTGAAGTGAGTTGCG
127 ATGTGTAGAAAGTGTCATTTGAACAAATGTTAGGTTTCTGCAGGTAAATCCTGAAGTGAGCTGCG
91263 TGAA
192 TGAA
91267 TGTAAGCTCC
Statistics
Matches: 180, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
206 23 0.13
207 151 0.84
209 6 0.03
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (206 bp):
TGTGCATAAACAACCAATTGTTATTGGTAAGTTTGAGCAAGTGTTGTTAACATATATACCTTTGT
TGGTTTGAAAATGTTTGGTTAAGTACCTAGAATTCAATAATTTGTTATTTGTTGGTTTTAGATGT
GTAGAAAGTGTCATTTGAACAAATGTTAGGTTTCTGCAGGTAAATCCTGAAGTGAGCTGCGTGAA
ATTGATGTATT
Found at i:91496 original size:20 final size:20
Alignment explanation
Indices: 91471--91509 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
91461 GTACACTTTC
91471 GCAACGCAAAAGTCAAATTT
1 GCAACGCAAAAGTCAAATTT
*
91491 GCAACGCGAAAGTCAAATT
1 GCAACGCAAAAGTCAAATT
91510 CACGTTGCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (20 bp):
GCAACGCAAAAGTCAAATTT
Found at i:94164 original size:24 final size:24
Alignment explanation
Indices: 94113--94164 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
94103 ATCCGAGTAT
** *
94113 TGACCAAGATCAAAGTCTGGGTAT
1 TGACCAAGATCAAAGTCTGAATAC
* *
94137 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAAGTCTGAATAC
94161 TGAC
1 TGAC
94165 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCTGAATAC
Found at i:95366 original size:22 final size:22
Alignment explanation
Indices: 95341--95382 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
95331 CAATTCATTT
95341 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
95363 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
95383 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:101993 original size:22 final size:22
Alignment explanation
Indices: 101968--102009 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
101958 CAATTCATTT
101968 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
101990 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
102010 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:102684 original size:14 final size:15
Alignment explanation
Indices: 102648--102685 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
102638 GAAATCATTG
102648 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
102663 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
102678 AAAAATTA
1 AAAAATTA
102686 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:102885 original size:20 final size:19
Alignment explanation
Indices: 102842--102931 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 19
102832 AATAAAACCC
*
102842 GTTGCGAAATT-AAAATTCGT
1 GTTGC-AAATTCAAAA-TCGA
102862 GTTGCAAATTCGAAAATCGA
1 GTTGCAAATTC-AAAATCGA
* *
102882 GTTGCGAAAAT-AAAATTCGC
1 GTTGC-AAATTCAAAA-TCGA
*
102902 GTTGCGAATTCAGAAATCGA
1 GTTGCAAATTCA-AAATCGA
102922 GTTGCAAATT
1 GTTGCAAATT
102932 TGAAATTCAG
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
19 12 0.21
20 34 0.60
21 11 0.19
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (19 bp):
GTTGCAAATTCAAAATCGA
Found at i:102927 original size:60 final size:58
Alignment explanation
Indices: 102824--102936 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 58
102814 AAATATTTGT
*
102824 GTTGCGAAAATAAAACCCGTTGCGAAATTAAAATTCGTGTTGCAAATTCGAAAATCGA
1 GTTGCGAAAATAAAACCCGTTGCGAAATTAAAATTCGAGTTGCAAATTCGAAAATCGA
* *
102882 GTTGCGAAAATAAAATTCGCGTTGCG-AATTCAGAAA-TCGAGTTGCAAATTTGAAA
1 GTTGCGAAAATAAAA--CCCGTTGCGAAATT-A-AAATTCGAGTTGCAAATTCGAAA
102937 TTCAGTATTG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
58 15 0.31
59 4 0.08
60 26 0.54
61 3 0.06
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (58 bp):
GTTGCGAAAATAAAACCCGTTGCGAAATTAAAATTCGAGTTGCAAATTCGAAAATCGA
Found at i:102938 original size:40 final size:40
Alignment explanation
Indices: 102842--102966 Score: 137
Period size: 40 Copynumber: 3.1 Consensus size: 40
102832 AATAAAACCC
* *
102842 GTTGCGAAATTAAAATTCGTGTTGCAAATTC-GAAAATCGA
1 GTTGCGAAAATAAAATTCGTGTTGCGAATTCAG-AAATCGA
*
102882 GTTGCGAAAATAAAATTCGCGTTGCGAATTCAGAAATCGA
1 GTTGCGAAAATAAAATTCGTGTTGCGAATTCAGAAATCGA
* * * * *
102922 GTTGC-AAATTTGAAATTCAGTATTGCGAATTTAGAAATCGC
1 GTTGCGAAA-ATAAAATTC-GTGTTGCGAATTCAGAAATCGA
102963 GTTG
1 GTTG
102967 TGAATTTGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.04
40 47 0.64
41 23 0.32
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (40 bp):
GTTGCGAAAATAAAATTCGTGTTGCGAATTCAGAAATCGA
Found at i:102973 original size:20 final size:20
Alignment explanation
Indices: 102875--102973 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 20
102865 GCAAATTCGA
* **
102875 AAATCGAGTTGCGAAAATA-
1 AAATCGCGTTGCGAATTTAG
*
102894 AAATTCGCGTTGCGAATTCAG
1 AAA-TCGCGTTGCGAATTTAG
* *
102915 AAATCGAGTTGCAAATTT-G
1 AAATCGCGTTGCGAATTTAG
**
102934 AAATTCAGTATTGCGAATTTAG
1 AAA-TC-GCGTTGCGAATTTAG
*
102956 AAATCGCGTTGTGAATTT
1 AAATCGCGTTGCGAATTT
102974 GTTGGTCATT
Statistics
Matches: 62, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
19 7 0.11
20 36 0.58
21 15 0.24
22 4 0.06
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (20 bp):
AAATCGCGTTGCGAATTTAG
Found at i:106970 original size:22 final size:22
Alignment explanation
Indices: 106942--106987 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
106932 ATGGAGTGTT
106942 AATGCT-GAATTTTAATATTAGA
1 AATGCTGGAATTTTAA-ATTAGA
*
106964 AATGCTGGAATTTTAAGTTAGA
1 AATGCTGGAATTTTAAATTAGA
106986 AA
1 AA
106988 GTTGATTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.37
Consensus pattern (22 bp):
AATGCTGGAATTTTAAATTAGA
Found at i:112683 original size:24 final size:24
Alignment explanation
Indices: 112656--112719 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
112646 GCTTGAATCA
112656 AGCTTCAATCGAGCTCAAGTCTCG
1 AGCTTCAATCGAGCTCAAGTCTCG
* *
112680 AGCTTCAATGGAGCTCGAGTCTCG
1 AGCTTCAATCGAGCTCAAGTCTCG
112704 AGCTTCAATCGAGCTC
1 AGCTTCAATCGAGCTC
112720 TTGGAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (24 bp):
AGCTTCAATCGAGCTCAAGTCTCG
Found at i:113383 original size:12 final size:12
Alignment explanation
Indices: 113353--113401 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
113343 CGCTATAAGG
113353 TAATTTTTTAAC
1 TAATTTTTTAAC
*
113365 TTCATTTTTTAAC
1 -TAATTTTTTAAC
113378 TAATTTTTTAA-
1 TAATTTTTTAAC
113389 TATATTTATTTAA
1 TA-ATTT-TTTAA
113402 TTTTTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 2 0.06
12 14 0.44
13 16 0.50
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (12 bp):
TAATTTTTTAAC
Found at i:113421 original size:21 final size:21
Alignment explanation
Indices: 113397--113441 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
113387 AATATATTTA
113397 TTTAAT-TTTTT-TTTATCTATT
1 TTTAATATTTTTATTT-T-TATT
113418 TTTAATATTTTTATTTTTATT
1 TTTAATATTTTTATTTTTATT
113439 TTT
1 TTT
113442 TTAGATGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 13 0.59
22 6 0.27
23 3 0.14
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTAATATTTTTATTTTTATT
Found at i:116095 original size:258 final size:259
Alignment explanation
Indices: 115550--116093 Score: 773
Period size: 257 Copynumber: 2.1 Consensus size: 259
115540 CTTATTCATA
* *
115550 TATTGAATAAAAATATTTTTTTATTATTTCAGGTCGA-----GTCGGGTTTCTAATTCATATATT
1 TATTAAATAAAAATA-ATTTTTATTATTTCAGGTCGATTCGGGTCGGGTTTCTAATTCATATATT
* *
115610 CAGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGATCGGGTCGGTTTTTTTAAGTGTGATATTCA
65 C--GTC-GGTCGGGTCAAACTTTATTTTGGTCGGATCGGGTCGGTTTTTTAAAGTGTGATATTCA
* *
115675 GGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACCCGAATATATATATAATTTT
127 GGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACCCGAAAAAATATATAATTTT
* *
115740 ACCTTATATATTTAGGAATAATTATAATAATACCCTTTATATTTTTTTTTAAATTAAATCATTGT
192 ACCTTATATATTTAGGAATAATTACAATAATACCCTTTATATTTTTTTTTAAATTAAATCACTGT
115805 TTT
257 TTT
115808 TATTAAATAAAAATAATTTTTTATTATTTCAGGTCGATTCGGGTCGGGTTTCTAATTCATATATT
1 TATTAAATAAAAATAA-TTTTTATTATTTCAGGTCGATTCGGGTCGGGTTTCTAATTCATATATT
*
115873 C-T-GGTCGGGTCAAACTTTATTTTGGTCGGGTCGGGTC-GTTTTTTAAAGTGTGATATTCAGGT
65 CGTCGGTCGGGTCAAACTTTATTTTGGTCGGATCGGGTCGGTTTTTTAAAGTGTGATATTCAGGT
* * *
115935 CGGGTCGGGTTCGGGTTTAGGGTGAAAAATACTCGACCCGACTC-AAAAAATATATAATTTTACC
130 CGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACCCGAAAAAATATATAATTTTACC
* *
115999 TTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTTCCAATTAAGTCAC
195 TTATATATTTAGGAATAATTACAATAATA-CCCT-T-TATAT--TTTTTTTT-AAATTAAATCAC
116064 TGTTTT
254 TGTTTT
* * *
116070 TATTGAATAAAAGTATTTTTTATT
1 TATTAAATAAAAATAATTTTTATT
116094 TCGAGTCGGG
Statistics
Matches: 257, Mismatches: 17, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
256 46 0.18
257 69 0.27
258 68 0.26
259 5 0.02
260 1 0.00
261 16 0.06
262 28 0.11
263 24 0.09
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (259 bp):
TATTAAATAAAAATAATTTTTATTATTTCAGGTCGATTCGGGTCGGGTTTCTAATTCATATATTC
GTCGGTCGGGTCAAACTTTATTTTGGTCGGATCGGGTCGGTTTTTTAAAGTGTGATATTCAGGTC
GGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACCCGAAAAAATATATAATTTTACCT
TATATATTTAGGAATAATTACAATAATACCCTTTATATTTTTTTTTAAATTAAATCACTGTTTT
Found at i:116340 original size:7 final size:7
Alignment explanation
Indices: 116325--116354 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
116315 AAAATTAAAA
*
116325 TTAAAAT
1 TTAATAT
116332 TTAATAT
1 TTAATAT
116339 TTAATAT
1 TTAATAT
116346 TTAATAT
1 TTAATAT
116353 TT
1 TT
116355 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTAATAT
Found at i:119634 original size:60 final size:62
Alignment explanation
Indices: 119570--119707 Score: 144
Period size: 60 Copynumber: 2.3 Consensus size: 62
119560 AATGTTCCAT
* * * **
119570 TTTCATTACT-AAATTATAACTATCATTCTAAATTGATC-CTCAAAC-TTTTGAACATTTTAA
1 TTTCATTACTCAAACTATAACTATCATTATAAATCGATCACT-AAACTTTTTGAACATTACAA
* * * *
119630 TTTCA-TCCTCAAACTATAACTTTCATTATAGATCGATCACTAAACTTTTTGAGCATTACAA
1 TTTCATTACTCAAACTATAACTATCATTATAAATCGATCACTAAACTTTTTGAACATTACAA
119691 TTTCA-T-CTCAAACTATA
1 TTTCATTACTCAAACTATA
119708 CATAGATACT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
59 3 0.05
60 43 0.65
61 20 0.30
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.41
Consensus pattern (62 bp):
TTTCATTACTCAAACTATAACTATCATTATAAATCGATCACTAAACTTTTTGAACATTACAA
Found at i:122427 original size:181 final size:180
Alignment explanation
Indices: 122107--122580 Score: 648
Period size: 181 Copynumber: 2.6 Consensus size: 180
122097 TCGATCCAAA
* * * *
122107 TTAAAAATGTGTCGATCCAAAACGATATAACAAGTAAAACTATGACAAAACCGGTAT-AGAAATG
1 TTAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCA-AAATG
* * * * *
122171 ATAAAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACA
65 AT-AAAACCGGTAAA-AGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACA
* *
122236 CTTCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTT
128 CTTCGTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTT
* * * * *
122289 TTAAAAATGTATCGATCCAAAATGATATACCAGGTAAAAATATGATAAAATCAGTATCAAAACGA
1 TTAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGA
122354 TAAAACCGGTAAAAGATTACCGGATATATTAAAAAGTGTCGATACTTT-ATATAAGGATCGACAC
66 TAAAACCGGTAAAAGA-TACCGGATATATT-AAAAGTGTCGATACTTTAATATAAGGATCGACAC
* ** *
122418 TTTGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAATGTGTCGATACTT
129 TTCGTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTT
* ** *
122470 TAAAAAAAATATCGATCCACAACGATATAACAGGTAAAAATATGAT-AAACCGGTATCAAAATGA
1 TTAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGA
*
122534 TAAAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 TAAAACCGGTAAAA-GATACCGGATATATTAAAAGTGTCGATACTTT
122581 CGTAAGTACG
Statistics
Matches: 258, Mismatches: 30, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
179 16 0.06
180 43 0.17
181 128 0.50
182 70 0.27
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (180 bp):
TTAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGA
TAAAACCGGTAAAAGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
CGTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTT
Found at i:124787 original size:21 final size:21
Alignment explanation
Indices: 124763--124806 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
124753 AAGATAATCA
124763 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
124784 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
124805 AG
1 AG
124807 CATAAGGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:124880 original size:33 final size:33
Alignment explanation
Indices: 124838--124903 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
124828 AAATAGATGG
*
124838 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
124871 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
124904 TATTAAGATG
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:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:125787 original size:172 final size:172
Alignment explanation
Indices: 125501--125845 Score: 690
Period size: 172 Copynumber: 2.0 Consensus size: 172
125491 CTAGTGTATA
125501 CGACGTTGCAACGTTGAAGCCTACGGAATGGGTTGGCGGTGTGGTAAGTAGAAAGTAGAAAATGT
1 CGACGTTGCAACGTTGAAGCCTACGGAATGGGTTGGCGGTGTGGTAAGTAGAAAGTAGAAAATGT
125566 TAAAACTTATTGAATATGTTCTGATTGTGTAATTAATTTTGTTAGGTTATTGATTTGCTCGCCTG
66 TAAAACTTATTGAATATGTTCTGATTGTGTAATTAATTTTGTTAGGTTATTGATTTGCTCGCCTG
125631 GACAGTATGCTACGATTCTCAGAAGTCACTCCGGAGGATTGG
131 GACAGTATGCTACGATTCTCAGAAGTCACTCCGGAGGATTGG
125673 CGACGTTGCAACGTTGAAGCCTACGGAATGGGTTGGCGGTGTGGTAAGTAGAAAGTAGAAAATGT
1 CGACGTTGCAACGTTGAAGCCTACGGAATGGGTTGGCGGTGTGGTAAGTAGAAAGTAGAAAATGT
125738 TAAAACTTATTGAATATGTTCTGATTGTGTAATTAATTTTGTTAGGTTATTGATTTGCTCGCCTG
66 TAAAACTTATTGAATATGTTCTGATTGTGTAATTAATTTTGTTAGGTTATTGATTTGCTCGCCTG
125803 GACAGTATGCTACGATTCTCAGAAGTCACTCCGGAGGATTGG
131 GACAGTATGCTACGATTCTCAGAAGTCACTCCGGAGGATTGG
125845 C
1 C
125846 TACCTTCCAT
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 173 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (172 bp):
CGACGTTGCAACGTTGAAGCCTACGGAATGGGTTGGCGGTGTGGTAAGTAGAAAGTAGAAAATGT
TAAAACTTATTGAATATGTTCTGATTGTGTAATTAATTTTGTTAGGTTATTGATTTGCTCGCCTG
GACAGTATGCTACGATTCTCAGAAGTCACTCCGGAGGATTGG
Found at i:126879 original size:19 final size:19
Alignment explanation
Indices: 126855--126903 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
126845 AATGTAGGGT
126855 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
126874 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
126893 TATTTTTGTAT
1 TAATTTTGTAT
126904 GTGAATATAA
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:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:127605 original size:199 final size:199
Alignment explanation
Indices: 127022--127976 Score: 1686
Period size: 199 Copynumber: 4.8 Consensus size: 199
127012 CAATATGGCC
*
127022 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
127087 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* ****
127152 GAATATGTCTAAATAATGTGTCGACACT-TGTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
130 GAATATGTCTAAATAATGTGTCGACACTAT-TTAAAAAAGTGTCGATATTTTTGGTCCAGAATGA
127216 ATGGAA
194 ATGGAA
*
127222 AACAGGGTGCAACCATAAAGTGTCGATCCATATGTAAAAAGTGTCGATCCC-AAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
127286 C-AAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
127348 AATATGTCTAAATAATGTGTCGACACTATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
127413 GGAA
196 GGAA
* * * *
127417 AACAGGGTGCAACCATAAAATGTCGATCTATATATAAAAGGTGTCGATCCTAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
127482 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
127547 AATATGTCTAAATAATGTGTCGACACTATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
127612 GGAA
196 GGAA
*
127616 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCTAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
* *
127681 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGCATACTGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
127746 AATATGTCTAAATAATGTGTCGACACCATTTAAAACAGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
127811 GGAA
196 GGAA
* *
127815 AACAGTGTGCAACCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
127880 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
127945 AATATGTCTAAATAATGTGTCGACACTTTTTA
131 AATATGTCTAAATAATGTGTCGACACTATTTA
127977 GTTTGTGTCG
Statistics
Matches: 724, Mismatches: 26, Indels: 11
0.95 0.03 0.01
Matches are distributed among these distances:
195 118 0.16
196 45 0.06
197 42 0.06
198 35 0.05
199 435 0.60
200 49 0.07
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (199 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
GGAA
Found at i:129456 original size:6 final size:6
Alignment explanation
Indices: 129445--129508 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
129435 CAAGCGGTCA
* * * * *
129445 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
129493 CTGACG ATGAAG ATGA
1 ATGAAG ATGAAG ATGA
129509 TGACGACGAT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.39, C:0.09, G:0.33, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:129466 original size:18 final size:18
Alignment explanation
Indices: 129445--129526 Score: 94
Period size: 18 Copynumber: 4.6 Consensus size: 18
129435 CAAGCGGTCA
129445 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
* * *
129463 ATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACG
*
129481 ATGACGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
*
129499 ATGAAGATGATGAC-GACG
1 ATGAAGATGAAG-CTGACG
*
129517 ATGATGATGA
1 ATGAAGATGA
129527 TCCAAACAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
18 52 0.98
19 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.33, T:0.20
Consensus pattern (18 bp):
ATGAAGATGAAGCTGACG
Found at i:129467 original size:12 final size:12
Alignment explanation
Indices: 129445--129508 Score: 92
Period size: 12 Copynumber: 5.3 Consensus size: 12
129435 CAAGCGGTCA
*
129445 ATGAAGATGAAG
1 ATGACGATGAAG
*
129457 CTGACGATGAAG
1 ATGACGATGAAG
*
129469 ATGACGATGATG
1 ATGACGATGAAG
129481 ATGACGATGAAG
1 ATGACGATGAAG
*
129493 CTGACGATGAAG
1 ATGACGATGAAG
129505 ATGA
1 ATGA
129509 TGACGACGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.39, C:0.09, G:0.33, T:0.19
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:129477 original size:24 final size:24
Alignment explanation
Indices: 129445--129526 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
129435 CAAGCGGTCA
* *
129445 ATGAAGATGAAGCTGACGATGAAG
1 ATGACGATGAAGATGACGATGAAG
*
129469 ATGACGATGATGATGACGATGAAG
1 ATGACGATGAAGATGACGATGAAG
* * * *
129493 CTGACGATGAAGATGATGACGACG
1 ATGACGATGAAGATGACGATGAAG
*
129517 ATGATGATGA
1 ATGACGATGA
129527 TCCAAACAAG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.38, C:0.10, G:0.33, T:0.20
Consensus pattern (24 bp):
ATGACGATGAAGATGACGATGAAG
Found at i:129527 original size:6 final size:6
Alignment explanation
Indices: 129458--129526 Score: 66
Period size: 6 Copynumber: 11.5 Consensus size: 6
129448 AAGATGAAGC
* * * * *
129458 TGACGA TGAAGA TGACGA TGATGA TGACGA TGAAGC TGACGA TGAAGA
1 TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA
* * *
129506 TGATGA CGACGA TGATGA TGA
1 TGACGA TGACGA TGACGA TGA
129527 TCCAAACAAG
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.20
Consensus pattern (6 bp):
TGACGA
Found at i:130736 original size:16 final size:16
Alignment explanation
Indices: 130715--130748 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
130705 TATCCACAAC
*
130715 AAAGTGTCGATTTAAA
1 AAAGTGTCGATTGAAA
130731 AAAGTGTCGATTGAAA
1 AAAGTGTCGATTGAAA
130747 AA
1 AA
130749 TGTAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (16 bp):
AAAGTGTCGATTGAAA
Found at i:131138 original size:23 final size:22
Alignment explanation
Indices: 131112--131180 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
131102 AAAATATGAT
131112 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATAT-ATG
* *
131135 TAATAGGTATCGTTTATATATG
1 TAATAGGTAGCGCTTATATATG
* *
131157 TAATAGGTAGTGGTTATAT-TG
1 TAATAGGTAGCGCTTATATATG
131178 TAA
1 TAA
131181 AGTATCTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
21 5 0.12
22 19 0.46
23 17 0.41
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (22 bp):
TAATAGGTAGCGCTTATATATG
Found at i:131455 original size:23 final size:23
Alignment explanation
Indices: 131428--131495 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
131418 GGAAAACATG
131428 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
131451 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
131474 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTAGCGCTTATAT
131496 TGTAAAGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:131705 original size:320 final size:316
Alignment explanation
Indices: 131102--131746 Score: 1154
Period size: 320 Copynumber: 2.0 Consensus size: 316
131092 TATAATAGGT
*
131102 AAAATATGATTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATATGTAATAGGTAG
1 AAAACATGATTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATATGTAATAGGTAG
131167 TGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAAC
66 TGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAAC
131232 ATAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATG
131 ATAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATG
131297 ATTTCTTTTTTACGTTACGATATATATTATATTAAATAAAAAATTCTAAATATTATTTATAAAAT
196 ATTTCTTTTTTACGTTACGATATATATTATATTAAATAAAAAATTCTAAATATTATTTATAAAAT
*
131362 ATCAAAACAATCAATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGG
261 ATCAAAACAATCAATAATTTTTGTGCAAATAAAATTATT-AATTAATA-TGTAGGTGG
131420 AAAACATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGT
1 AAAACATGAT-TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT-ATGTAATAGGT
131485 AGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAA
64 AGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAA
131550 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
129 ACA-TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
* *
131615 ATGATTTTTTTTTTACGTTACG--ATATATTATTATTAAATAAAAAATTCT-AATATT-TTTTTA
193 ATGATTTCTTTTTTACGTTACGATATATATTA-TATTAAATAAAAAATTCTAAATATTATTTATA
131676 AAATATCAAAACAATCAAATAATTTTTTGTGCAAATAAAATTATTAATTAATATGTAGGTGG
257 AAATATCAAAACAATC-AATAA-TTTTTGTGCAAATAAAATTATTAATTAATATGTAGGTGG
131738 AAAACATGA
1 AAAACATGA
131747 AACACTATTA
Statistics
Matches: 317, Mismatches: 4, Indels: 12
0.95 0.01 0.04
Matches are distributed among these distances:
318 48 0.15
319 69 0.22
320 118 0.37
321 82 0.26
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (316 bp):
AAAACATGATTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATATGTAATAGGTAG
TGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAAC
ATAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATG
ATTTCTTTTTTACGTTACGATATATATTATATTAAATAAAAAATTCTAAATATTATTTATAAAAT
ATCAAAACAATCAATAATTTTTGTGCAAATAAAATTATTAATTAATATGTAGGTGG
Found at i:131874 original size:22 final size:23
Alignment explanation
Indices: 131844--131905 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
131834 AATAGGTAAA
*
131844 ATATGATGTAATAGGTA-CGCTT
1 ATATAATGTAATAGGTATCGCTT
*
131866 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGCTT
*
131889 ATATAATGTAATTGGTA
1 ATATAATGTAATAGGTA
131906 GTGGTTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:131913 original size:23 final size:23
Alignment explanation
Indices: 131844--131915 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
131834 AATAGGTAAA
* *
131844 ATATGATGTAATAGGTA-CGCTT
1 ATATAATGTAATAGGTATCGGTT
*
131866 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
*
131889 ATATAATGTAATTGGTAGT-GGTT
1 ATATAATGTAATAGGTA-TCGGTT
131912 ATAT
1 ATAT
131916 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
22 16 0.36
23 27 0.61
24 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:135195 original size:23 final size:22
Alignment explanation
Indices: 135164--135220 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 22
135154 AGGTAAAAAT
135164 ATGTATAGGTAGCGCTTATATA
1 ATGTATAGGTAGCGCTTATATA
* *
135186 ATGTAATAGGTATCGTTTATATA
1 ATGT-ATAGGTAGCGCTTATATA
135209 ATGTATAGGTAG
1 ATGTATAGGTAG
135221 TGGTTATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (22 bp):
ATGTATAGGTAGCGCTTATATA
Found at i:135227 original size:22 final size:22
Alignment explanation
Indices: 135164--135227 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
135154 AGGTAAAAAT
*
135164 ATGTATAGGTAGCGCTTATATA
1 ATGTATAGGTAGTGCTTATATA
*
135186 ATGTAATAGGTA-TCGTTTATATA
1 ATGT-ATAGGTAGT-GCTTATATA
*
135209 ATGTATAGGTAGTGGTTAT
1 ATGTATAGGTAGTGCTTAT
135228 TGTAAAGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (22 bp):
ATGTATAGGTAGTGCTTATATA
Found at i:135645 original size:23 final size:23
Alignment explanation
Indices: 135576--135647 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
135566 AATAGGTAAA
* *
135576 ATATGATGTAATA-GTAGCGCTT
1 ATATAATGTAATAGGTAGTGCTT
* * *
135598 ATATAATGTAATAGATATTGTTT
1 ATATAATGTAATAGGTAGTGCTT
*
135621 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
135644 ATAT
1 ATAT
135648 TGTAAATTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 12 0.29
23 29 0.71
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:136015 original size:415 final size:420
Alignment explanation
Indices: 134896--136224 Score: 2228
Period size: 414 Copynumber: 3.2 Consensus size: 420
134886 ATACATCTTT
134896 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTACGTTACGATATA
1 TGAGTTTTAAGA-ATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTACGTTACGATATA
134961 TATTATTATT-AATTAAAATTCTAAATATTATTTTAT-AAATATCAAAACAATCAAATAA-TTTT
65 TATTATTATTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTT
*
135023 TGTGCAAATGAAATTATTAAATTAATATTGTAG-GGAAAACATGAAACACTATTAAAAAAATTGA
130 TGTG-TAATGAAATTATTAAATTAATATTGTAGTGGAAAACATGAAACACTATTAAAAAAATTGA
135087 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTC-A-
194 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTAT-AAAAGTATGGACACTTTCAAT
135150 ATAA-AGGTAAAA-AT-ATGT-ATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAT
258 ATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAT
*
135211 GT-ATAGGTAGTGG-T-TATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCA
323 GTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATAC-TTTTTCA
135273 CTGTGGAAAACATTAATTTAAGGTTATC-TTTGAG
387 CTGTGGAAAACA-TAATTTAAGGTTATCTTTTGAG
*
135307 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTACGTTATG--AT
1 TGAGTTTTAAGA-ATTAATTTAGTAATTATAGGCGTCTAATGATTTC-TTTTTACGTTACGATAT
135370 ATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATC-AATAATTT
64 ATATTATTATTAAATT-AAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
135434 TTTGTGTAAATGAAATTATTAAATTAATA-TGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
128 TTTGTGT-AATGAAATTATTAAATTAATATTGTA-GTGGAAAACATGAAACACTATTAAAAAAAT
135498 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTT-TAAAAGTATGGACACTTTCA
191 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTATAAAAGTATGGACACTTTCA
* *
135562 ATATAATAGGTAAAATATGATGTAATA-GTAGCGCTTATATAATGTAATAGATATTGTTTATATA
256 ATATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
*
135626 ATGTAATAGGTAGTGGTTATATTGTAAATTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTC
321 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTC
135691 ACTGT-GAAAACATAATTTAAGGTTATCTTTTGAG
386 ACTGTGGAAAACATAATTTAAGGTTATCTTTTGAG
*
135725 TGAGTTTTAAG-ATTAATTTAGTAATTATAGGCGTCAAATGATTTCTTTTTACGTTACGATATAT
1 TGAGTTTTAAGAATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTACGTTACGATATAT
*
135789 A-TATTATTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAA-TATCAAATAATTTTTT
66 ATTATTATTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTT
135852 GTGTAATGAAATTATTAAATTAATATTGTAGTGGAAAACAT-AAACACTATTAAAAAAATTGAAA
131 GTGTAATGAAATTATTAAATTAATATTGTAGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
135916 CAT-AATTACATAACTTTAAACA-AAGTATCGATCCTTTTTATAAAAGTATGGACACTTTCAATA
196 CATAAATTACATAACTTTAAA-AGAAGTATCGATCC-TTTTATAAAAGTATGGACACTTTCAATA
135979 TAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA-ATAATG
259 TAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
*
136043 TAATAGGTAGTGGTTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCTATACTTTTTCACT
324 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTCACT
136108 GTGGAAAACATAATTTAAGGTTATCTTTTGAG
389 GTGGAAAACATAATTTAAGGTTATCTTTTGAG
* * *
136140 TGAGTTTTAAGATATTAATTTAATAATTATAGGCGTTTAATGATTTATTTTTTACGTTACGATAT
1 TGAGTTTTAAGA-ATTAATTTAGTAATTATAGGCGTCTAATGATTT-CTTTTTACGTTACGATAT
136205 ATATTATTATTAAATTAAAA
64 ATATTATTATTAAATTAAAA
136225 CAATAAAAAT
Statistics
Matches: 870, Mismatches: 17, Indels: 54
0.92 0.02 0.06
Matches are distributed among these distances:
410 13 0.01
411 51 0.06
412 90 0.10
413 79 0.09
414 229 0.26
415 144 0.17
416 47 0.05
417 93 0.11
418 58 0.07
419 28 0.03
420 38 0.04
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (420 bp):
TGAGTTTTAAGAATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTACGTTACGATATAT
ATTATTATTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTT
GTGTAATGAAATTATTAAATTAATATTGTAGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTATAAAAGTATGGACACTTTCAATATA
ATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTCACTGT
GGAAAACATAATTTAAGGTTATCTTTTGAG
Found at i:136043 original size:22 final size:23
Alignment explanation
Indices: 135990--136061 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
135980 AATAGGTAAA
*
135990 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
136013 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
136036 A-ATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
136058 ATAT
1 ATAT
136062 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 19 0.45
23 23 0.55
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Done.