Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008131.1 Hibiscus syriacus cultivar Beakdansim tig00110686_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: 310772
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1335 original size:8 final size:7
Alignment explanation
Indices: 1317--1460 Score: 64
Period size: 7 Copynumber: 20.0 Consensus size: 7
1307 TTTTCATCTC
1317 TCTTTTT
1 TCTTTTT
1324 TCTTTATT
1 TCTTT-TT
1332 TCTTTCTT
1 TCTTT-TT
*
1340 T-TTCTT
1 TCTTTTT
1346 TC-TTTT
1 TCTTTTT
1352 TCTATCTTT
1 TCT-T-TTT
*
1361 TCTCTTT
1 TCTTTTT
*
1368 TCTTTCT
1 TCTTTTT
*
1375 T-TTTCT
1 TCTTTTT
1381 TCTTCTCTT
1 TCTT-T-TT
1390 TCTATTTT
1 TCT-TTTT
1398 T-TTTTT
1 TCTTTTT
*
1404 ATCTTTTC
1 -TCTTTTT
* *
1412 CCTTTTC
1 TCTTTTT
*
1419 CCTTTTT
1 TCTTTTT
* *
1426 TCATTCT
1 TCTTTTT
1433 TC-TTTT
1 TCTTTTT
*
1439 TCTTTCTA
1 TCTTT-TT
*
1447 TCTTCTT
1 TCTTTTT
1454 TCTTTTT
1 TCTTTTT
1461 CTATCTATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
6 23 0.22
7 47 0.44
8 24 0.23
9 11 0.10
10 1 0.01
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (7 bp):
TCTTTTT
Found at i:1360 original size:32 final size:30
Alignment explanation
Indices: 1289--1503 Score: 112
Period size: 32 Copynumber: 7.0 Consensus size: 30
1279 TTATTTTCTC
*
1289 TCTTCTTTTTTCTCTTCTTTTTCATCTCTCTTT
1 TCTTCTTTTTTCT-TTCTTTTTC-TTTCT-TTT
1322 T-TTCTTTATTTCTTTCTTTTTCTTTCTTTT
1 TCTTCTTT-TTTCTTTCTTTTTCTTTCTTTT
1352 TCTATC--TTTTC--TC-TTTTCTTTCTTTT
1 TCT-TCTTTTTTCTTTCTTTTTCTTTCTTTT
*
1378 TCTTCTTCTCTTTCTATT-TTTTT-TTTATCTTT
1 TCTTCTT-T-TTTCT-TTCTTTTTCTTTCT-TTT
* **
1410 TC-CCTTTTCCCTTT-TTTCATTC-TTCTTTT
1 TCTTCTTTTTTCTTTCTTT--TTCTTTCTTTT
* * *
1439 TCTTTCTATCTTCTTTCTTTTTCTATCTATTT
1 TC-TTCTTTTTTCTTTCTTTTTCTTTCT-TTT
* *
1471 T-TTCTTATTCTCTTCTTCTTTTTCTATCTTTT
1 TCTTCTT-TTTTC-T-TTCTTTTTCTTTCTTTT
1503 T
1 T
1504 ATGAATTTAT
Statistics
Matches: 144, Mismatches: 15, Indels: 47
0.70 0.07 0.23
Matches are distributed among these distances:
25 2 0.01
26 16 0.11
27 2 0.01
28 6 0.04
29 16 0.11
30 18 0.12
31 25 0.17
32 39 0.27
33 20 0.14
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (30 bp):
TCTTCTTTTTTCTTTCTTTTTCTTTCTTTT
Found at i:1361 original size:9 final size:9
Alignment explanation
Indices: 1321--1392 Score: 62
Period size: 9 Copynumber: 8.1 Consensus size: 9
1311 CATCTCTCTT
1321 TTTTCTTT-
1 TTTTCTTTC
*
1329 ATTTCTTTC
1 TTTTCTTTC
1338 TTTTTCTTTC
1 -TTTTCTTTC
*
1348 TTTTTCTATC
1 -TTTTCTTTC
1358 TTTTC--TC
1 TTTTCTTTC
1365 TTTTCTTTC
1 TTTTCTTTC
1374 TTTT-TCTTC
1 TTTTCT-TTC
*
1383 TTCTCTTTC
1 TTTTCTTTC
1392 T
1 T
1393 ATTTTTTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
7 7 0.13
8 8 0.15
9 21 0.39
10 18 0.33
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:1450 original size:14 final size:14
Alignment explanation
Indices: 1282--1503 Score: 61
Period size: 14 Copynumber: 15.3 Consensus size: 14
1272 ACTTGATTTA
*
1282 TTTTCTCTCT-TCT
1 TTTTCTTTCTATCT
*
1295 TTTT-TCTCT-TCT
1 TTTTCTTTCTATCT
* *
1307 TTTTC-ATCTCTCTT
1 TTTTCTTTCTATC-T
* *
1321 TTTTCTTTATTTCT
1 TTTTCTTTCTATCT
*
1335 TTCTT-TTTCTTTCT
1 TT-TTCTTTCTATCT
* *
1349 TTTTCTATCTTTTCT
1 TTTTCTTTC-TATCT
*
1364 CTTTTCTTTCTTTTTCT
1 -TTTTCTTTC--TATCT
1381 TCTTCTCTTTCTAT-T
1 T-TT-TCTTTCTATCT
1396 TTTT-TTT-TATCT
1 TTTTCTTTCTATCT
* **
1408 TTTCCCTTT-TCCCTT
1 TTT-TCTTTCTATC-T
*
1423 TTTTCATTCT-TCT
1 TTTTCTTTCTATCT
1436 TTTTCTTTCTATCT
1 TTTTCTTTCTATCT
1450 TCTTTCTTTTTCTATCT
1 T-TTTC--TTTCTATCT
*
1467 ATTT-TTTCTTATTCT
1 TTTTCTTTC-TA-TCT
1482 CTTCTTCTTTTTCTATCT
1 -TT-TTC--TTTCTATCT
1500 TTTT
1 TTTT
1504 ATGAATTTAT
Statistics
Matches: 165, Mismatches: 17, Indels: 51
0.71 0.07 0.22
Matches are distributed among these distances:
11 3 0.02
12 22 0.13
13 23 0.14
14 39 0.24
15 25 0.15
16 17 0.10
17 21 0.13
18 9 0.05
19 2 0.01
20 4 0.02
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTCTATCT
Found at i:1450 original size:17 final size:16
Alignment explanation
Indices: 1421--1500 Score: 67
Period size: 17 Copynumber: 4.8 Consensus size: 16
1411 CCCTTTTCCC
1421 TTTTTTC-ATTCTTCTT
1 TTTTTTCTA-TCTTCTT
1437 TTTCTTTCTATCTTCTT
1 TTT-TTTCTATCTTCTT
1454 TCTTTTTCTATCTAT-TT
1 T-TTTTTCTATCT-TCTT
*
1471 TTTCTTAT-TCTCTTCTT
1 TTT-TT-TCTATCTTCTT
*
1488 CTTTTTCTATCTT
1 TTTTTTCTATCTT
1501 TTTATGAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
15 1 0.02
16 13 0.25
17 34 0.64
18 5 0.09
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTCTATCTTCTT
Found at i:1456 original size:21 final size:19
Alignment explanation
Indices: 1432--1495 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
1422 TTTTTCATTC
1432 TTCTTTTTCTTTCTATCTTCT
1 TTCTTTTTCTTTCTAT-TT-T
*
1453 TTCTTTTTCTATCTATTTT
1 TTCTTTTTCTTTCTATTTT
*
1472 TTCTTATTCTCTTCT-TCTTT
1 TTCTTTTTCT-TTCTAT-TTT
1492 TTCT
1 TTCT
1496 ATCTTTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 11 0.29
20 12 0.32
21 15 0.39
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (19 bp):
TTCTTTTTCTTTCTATTTT
Found at i:1458 original size:49 final size:48
Alignment explanation
Indices: 1335--1459 Score: 137
Period size: 49 Copynumber: 2.6 Consensus size: 48
1325 CTTTATTTCT
* * **
1335 TTCTTTTTCTTTCTTTTTCTATCTTTTCTCTTTTCTTTCTTTTTCTTC
1 TTCTTTTTCTTTCTTTTTCTTTCTTTTCCCTTTTCCCTCTTTTTCTTC
* *
1383 TTCTCTTTCTATT-TTTTTTTTATCTTTTCCCTTTTCCCT-TTTTTCATTC
1 TTCTTTTTCT-TTCTTTTTCTT-TCTTTTCCCTTTTCCCTCTTTTTC-TTC
*
1432 TTCTTTTTCTTTCTATCTTCTTTCTTTT
1 TTCTTTTTCTTTCT-TTTTCTTTCTTTT
1460 TCTATCTATT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
48 23 0.37
49 35 0.56
50 5 0.08
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (48 bp):
TTCTTTTTCTTTCTTTTTCTTTCTTTTCCCTTTTCCCTCTTTTTCTTC
Found at i:1460 original size:34 final size:33
Alignment explanation
Indices: 1435--1503 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
1425 TTCATTCTTC
1435 TTTTTCTT-TCTATCTTCTTTCTTTTTCTATCTAT
1 TTTTTCTTAT-TATCTTC-TTCTTTTTCTATCTAT
*
1469 TTTTTCTTATTCTCTTCTTCTTTTTCTATCT-T
1 TTTTTCTTATTATCTTCTTCTTTTTCTATCTAT
1501 TTT
1 TTT
1504 ATGAATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 4 0.12
33 14 0.42
34 14 0.42
35 1 0.03
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.72
Consensus pattern (33 bp):
TTTTTCTTATTATCTTCTTCTTTTTCTATCTAT
Found at i:8774 original size:134 final size:134
Alignment explanation
Indices: 8177--8774 Score: 711
Period size: 134 Copynumber: 4.5 Consensus size: 134
8167 ATAAGTGATT
* * * * * * *
8177 TGCTCCACTATTTTTGTAGGGTAGATCAGA-TCGAG-AAACTTTGATTCA-TTCCACTGTTCTTC
1 TGCTCCACTACTCTT-TAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTT-CGCTGCTCTTC
* * * * * * * *
8239 AGGAAAAATTGAATCGGAATCAATTTCCTTCACTACTCTTCAGAAAGACCAAATCTGAAAGAAGA
64 AGGGAAGATTGAATCAGAATCGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAGA
8304 AGAATA
129 AGAATA
* * *
8310 TGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCCGCTTTGCTGGTCTTCA
1 TGCTCCACTACTCTTTAGGGGAGATCAGACTCGAG-AAAATTTTGATCCACTTCGCTGCTCTTCA
* *
8375 GGGAAGATTGAATCAGAATAGATTTGCTTCACTGCTCTTTAGGAAGACCAAATTTGAAAGAAGAA
65 GGGAAGATTGAATCAGAATCGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAGAA
* *
8440 AAATT
130 GAATA
* * * * * *
8445 TGCTCCACTACTCTTTAGGGGAGACCAGACTCGATAAATTTTTTATCCAGTTCGCTGGTCTTCAG
1 TGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCGCTGCTCTTCAG
* * * *
8510 GGAAGATTGAATCAGAATCGATTTGCTTTAATGCTCTTCAGGAAGACCAAATCTGAAAGAACAAG
66 GGAAGATTGAATCAGAATCGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAGAAG
*
8575 AATC
131 AATA
** * * * *
8579 TAATCCACTACTCTTTAGGGGAGATCAGACTCCAGAAAAATTAGATCCACTTCACTGCTCTTCAG
1 TGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCGCTGCTCTTCAG
* *
8644 GGAAGATT-AATTC-GAAATCGATCTGCTTCACTGTTCTTTAGGAAGACCAAATCTGAAAGAAGA
66 GGAAGATTGAA-TCAG-AATCGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAGA
8707 AGAATA
129 AGAATA
* * * *
8713 TGCTCCACTACTCTTTAGAGGAGATCATACTCGAGAAAACTTTGATCCACTTCGCTTCTCTT
1 TGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCGCTGCTCTT
8775 TAGAGATTAT
Statistics
Matches: 395, Mismatches: 64, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
132 13 0.03
133 21 0.05
134 249 0.63
135 110 0.28
136 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (134 bp):
TGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCGCTGCTCTTCAG
GGAAGATTGAATCAGAATCGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAGAAG
AATA
Found at i:9511 original size:9 final size:9
Alignment explanation
Indices: 9497--9530 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
9487 TAAATATCAA
9497 TTTTTTCCT
1 TTTTTTCCT
9506 TTTTTTCCT
1 TTTTTTCCT
9515 TTTTTTCCT
1 TTTTTTCCT
9524 TTTTTTC
1 TTTTTTC
9531 ATCTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTCCT
Found at i:9537 original size:18 final size:18
Alignment explanation
Indices: 9498--9537 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9488 AAATATCAAT
* *
9498 TTTTTCCTTTTTTTCCTT
1 TTTTTCCTTTTTTTCATC
9516 TTTTTCCTTTTTTTCATC
1 TTTTTCCTTTTTTTCATC
9534 TTTT
1 TTTT
9538 CTTTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCCTTTTTTTCATC
Found at i:10980 original size:21 final size:20
Alignment explanation
Indices: 10952--10990 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10942 AATTGCAAGA
*
10952 ATTTATGGCCTCCACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
10972 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCCTCAACAAA
10991 GACCTTGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:17279 original size:20 final size:20
Alignment explanation
Indices: 17254--17305 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
17244 ATTGTTGTGG
*
17254 GTATCGCTACTAAGAGGAAT
1 GTATCGATACTAAGAGGAAT
17274 GTATCGATACTAAGAGGAAT
1 GTATCGATACTAAGAGGAAT
17294 GTATCGATACTA
1 GTATCGATACTA
17306 TGAATTCCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (20 bp):
GTATCGATACTAAGAGGAAT
Found at i:20622 original size:54 final size:54
Alignment explanation
Indices: 20558--21188 Score: 798
Period size: 54 Copynumber: 11.8 Consensus size: 54
20548 TGATTACCAA
*
20558 ACAA-CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAATAACCGT
1 ACAAGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGT
* * * *
20611 ACAAGTACTATGTGTACAACCCAC-GAAAATCATCATATATTGATG---AACCGT
1 ACAAGCACTATGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACAACCGT
*
20662 AC-AGACACTATGTGTACAACCCA-A-ATATTCATCATATGTTGATGAACAACCGT
1 ACAAG-CACTATGTGTGCAACCCACAGA-ATTCATCATATGTTGATGAACAACCGT
* * ** *
20715 ACAAGCAGTATGTGTGCAACCCACGGAATTCATTGTATGTTGATGAACAGCCGT
1 ACAAGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGT
* * * *
20769 ACAAGCACTATGTGTGCAACCCACGGAATTCATCTTATATTGATGAACAACCAT
1 ACAAGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGT
* * * *
20823 ACATGCACTATGTGTGTAACCCACATAATTCATCATATTTTGATGAACAACCGT
1 ACAAGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGT
* * * * *
20877 TCATGCACTATGTGTACAACCCACGGAATTCATCATAAGTTGATGAACAACCGT
1 ACAAGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGT
* *
20931 ACAAGCACTATGTGTGCAACCCACATAATTCATCAAATGTTGATGAACAACCGT
1 ACAAGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGT
* * *
20985 ACAGGCACTATGTGTGCAACCCAC-GAAATTCATCATATATTGATGAACAACCAT
1 ACAAGCACTATGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACAACCGT
* * *
21039 ATATGCACTATGTGTGCAACCCA-GGAATTCATCATATGTTGATGAACAACCGT
1 ACAAGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGT
* * * *
21092 ACATGCACTATGTGTGCAACCTACATAATTCATCAAATGTTGATGAACAACCGT
1 ACAAGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGT
* *
21146 ACATGCACTATGTGTGCAACCCAC-GAAATTCATCATAGGTTGA
1 ACAAGCACTATGTGTGCAACCCACAG-AATTCATCATATGTTGA
21189 CGAAATTCAC
Statistics
Matches: 505, Mismatches: 58, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.00
50 18 0.04
51 25 0.05
53 76 0.15
54 384 0.76
55 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (54 bp):
ACAAGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGT
Found at i:21104 original size:27 final size:27
Alignment explanation
Indices: 21073--21158 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
21063 GAATTCATCA
21073 TATGTTGATGAACAACCGTACATGCAC
1 TATGTTGATGAACAACCGTACATGCAC
*
21100 TATG-TG-TG--CAACC-TACATAATTCATC
1 TATGTTGATGAACAACCGTAC---ATGCA-C
*
21126 AAATGTTGATGAACAACCGTACATGCAC
1 -TATGTTGATGAACAACCGTACATGCAC
21154 TATGT
1 TATGT
21159 GTGCAACCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 20
0.65 0.06 0.29
Matches are distributed among these distances:
22 3 0.07
23 5 0.11
25 6 0.13
26 3 0.07
27 11 0.24
28 3 0.07
29 6 0.13
31 5 0.11
32 3 0.07
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (27 bp):
TATGTTGATGAACAACCGTACATGCAC
Found at i:45048 original size:33 final size:34
Alignment explanation
Indices: 44970--45056 Score: 140
Period size: 35 Copynumber: 2.6 Consensus size: 34
44960 CTCGAAGGTC
* *
44970 TTTGTGTTTCAAGAGGAACATTTTCAAAGGGTTT
1 TTTGTGTTTCAAGAGAAACAATTTCAAAGGGTTT
45004 TCTTGTGTTTCAAGAGAAACAATTTCAAA-GGTTT
1 T-TTGTGTTTCAAGAGAAACAATTTCAAAGGGTTT
45038 TTTGTGTTTCAAGAGAAAC
1 TTTGTGTTTCAAGAGAAAC
45057 TGTCTCCAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
33 18 0.36
34 7 0.14
35 25 0.50
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (34 bp):
TTTGTGTTTCAAGAGAAACAATTTCAAAGGGTTT
Found at i:45101 original size:70 final size:67
Alignment explanation
Indices: 45009--45160 Score: 198
Period size: 67 Copynumber: 2.2 Consensus size: 67
44999 GGTTTTCTTG
* * * *
45009 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTGTGTTTCAAGAGAAACTGTCTCCAGGGAGGCAA
1 TGTTTCAAGAGAAACAATTTCAAAGG---TTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
*
45074 AAGTT
63 AACTT
*
45079 TTTTTCAAGAGAAAC-ATATTCAAAGGTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TGTTTCAAGAGAAACAAT-TTCAAAGGTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
45143 CTT
65 CTT
*
45146 TGTTTCAAGGGAAAC
1 TGTTTCAAGAGAAAC
45161 TGTCTCAAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
67 49 0.67
69 2 0.03
70 22 0.30
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.30
Consensus pattern (67 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
TT
Found at i:45142 original size:67 final size:68
Alignment explanation
Indices: 45009--45507 Score: 207
Period size: 65 Copynumber: 7.2 Consensus size: 68
44999 GGTTTTCTTG
* * * *
45009 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTGTGTTTCAAGAGAAACTGTCTCCAGGGAGGCAA
1 TGTTTCAAGAGAAACAATTTCAAAGG--TTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
*
45074 AAGTT
64 AACTT
*
45079 TTTTTCAAGAGAAAC-ATATTCAAAGG-TTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
1 TGTTTCAAGAGAAACAAT-TTCAAAGGTTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
45142 ACTT
65 ACTT
* ** * * * *
45146 TGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATTT-G-G-TTCAAGAGAAATTGTCGCAAGAG
1 TGTTTCAAGAGAAACAATTTCAA-AG-------GTTTGGTGTTTCAAGAGAAACTGTCTCAAGAG
45208 AGACAAAA-TT
58 AGACAAAACTT
* * ***** * * ** *
45218 TGTTTAAAGAGAAAC-TTTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAGGCTGTCTCAAGGGA
1 TGTTTCAAGAGAAACAATT-TCAA-AG-G---TTTGGT-GTTTCAAGAGAAACTGTCTCAAGAGA
45282 GACAAAA-TT
59 GACAAAACTT
* * *
45291 TGTTTCAAGCA-AAAC-ATATTCAAAGATTT--TGTTTCAAGGGAAACTATCTCAAGAGAGA-AT
1 TGTTTCAAG-AGAAACAAT-TTCAAAGGTTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACA-
45351 AAA-TT
63 AAACTT
* * ** * *
45356 TGTTTCAAGGGAATCTGTCTCAAGAGAGACAAAATTT-G-G-TTCAAGAGAAACTGTTTCAAGAG
1 TGTTTCAAGAGAAACAATTTCAA-AG-G------TTTGGTGTTTCAAGAGAAACTGTCTCAAGAG
45418 AGACAAAA-TT
58 AGACAAAACTT
* * * * *
45428 TGTTTCAAG-GAAA-ACATATTCAAAGATTT--TGTTTAAAGGGAATCTGTCTCAAGAGATACAA
1 TGTTTCAAGAGAAACA-AT-TTCAAAGGTTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
45489 AA-TT
64 AACTT
45493 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
45508 TGTCTCAAGA
Statistics
Matches: 329, Mismatches: 60, Indels: 83
0.70 0.13 0.18
Matches are distributed among these distances:
64 5 0.02
65 79 0.24
66 9 0.03
67 53 0.16
68 3 0.01
69 2 0.01
70 22 0.07
71 7 0.02
72 66 0.20
73 77 0.23
74 3 0.01
75 1 0.00
76 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (68 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
CTT
Found at i:45206 original size:36 final size:36
Alignment explanation
Indices: 45109--45790 Score: 646
Period size: 36 Copynumber: 19.4 Consensus size: 36
45099 CAAAGGTTGG
45109 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
45146 TGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
45182 TGGTTCAAGAGAAATTGTCGCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
45218 TGTTTAAAGAGAAACTTTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * ** *
45255 AGTTCCAAAAGAGGCTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
45291 TGTTTCAAGCA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAG-AGAAAC-TGTCTCAAGAGAGACAAAATT
* *
45320 TGTTTCAAGGGAAACTATCTCAAGAGAGA-ATAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACA-AAATT
* *
45356 TGTTTCAAGGGAATCTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
45392 TGGTTCAAGAGAAACTGTTTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
45428 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* * * *
45457 TGTTTAAAGGGAATCTGTCTCAAGAGATACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
45493 TGTTTCAAGAGAAACTGTCTCAAGAGAGACCAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
45529 TGTTTCAAGAGAAACTGTCTAAAGAGGGAAAAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAG-ACAAAATT
* *
45566 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
45602 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
*
45631 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
45667 TGTTTCAAGGGAAACTGTCTCATGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
45703 TGGTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
45739 TGTTTAAAAAAGAAACTGTTTCAAGGGAGACGAAATT
1 TGTTT-CAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
45776 TGTTTCGAGGGAAAC
1 TGTTTCAAGAGAAAC
45791 AATCTCAAAG
Statistics
Matches: 529, Mismatches: 79, Indels: 75
0.77 0.12 0.11
Matches are distributed among these distances:
28 7 0.01
29 52 0.10
30 5 0.01
31 3 0.01
32 5 0.01
33 6 0.01
34 1 0.00
35 5 0.01
36 316 0.60
37 129 0.24
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:45376 original size:210 final size:212
Alignment explanation
Indices: 45056--45440 Score: 591
Period size: 210 Copynumber: 1.8 Consensus size: 212
45046 TCAAGAGAAA
* * * *
45056 CTGTCTCCAGGGAGGCAAAAGTTTTTTTCAAGAGAAACATATTCAAAGGTTGGTGTTTCAAGAGA
1 CTGTCTCAAGGGAGACAAAAGTTTGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAGAGA
*
45121 AACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATTTGGT
66 AACTATCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATTTGGT
*
45186 TCAAGAGAAATTGTCGCAAGAGAGACAAAATTTGTTTAAAGAGAAACTTTCTCAAGAGAGACAAA
131 TCAAGAGAAACTGTCGCAAGAGAGACAAAATTTGTTTAAAG-GAAACTTTCTCAAGAGAGACAAA
45251 ACTTAGTTCCAAAAGAGG
195 ACTTAGTTCCAAAAGAGG
* *
45269 CTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGCA-AAACATATTCAAAGATT-TTGTTTCAAGGG
1 CTGTCTCAAGGGAGACAAAAGTTTGTTTCAAG-AGAAACATATTCAAAGATTGGTGTTTCAAGAG
* *
45331 AAACTATCTCAAGAGAGA-ATAAA-TTTGTTTCAAGGGAATCTGTCTCAAGAGAGACAAAATTTG
65 AAACTATCTCAAGAGAGACA-AAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATTTG
** *
45394 GTTCAAGAGAAACTGTTTCAAGAGAGACAAAATTTGTTTCAAGGAAA
129 GTTCAAGAGAAACTGTCGCAAGAGAGACAAAATTTGTTTAAAGGAAA
45441 ACATATTCAA
Statistics
Matches: 157, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
209 4 0.03
210 78 0.50
211 30 0.19
212 26 0.17
213 19 0.12
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (212 bp):
CTGTCTCAAGGGAGACAAAAGTTTGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAGAGA
AACTATCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATTTGGT
TCAAGAGAAACTGTCGCAAGAGAGACAAAATTTGTTTAAAGGAAACTTTCTCAAGAGAGACAAAA
CTTAGTTCCAAAAGAGG
Found at i:45433 original size:21 final size:21
Alignment explanation
Indices: 45375--45436 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
45365 GGAATCTGTC
*
45375 TCAAGAGAGACAAAATTTGGT
1 TCAAGAGAGACAAAATTTGTT
*
45396 TC-A-AGAG---AAA-CTGTT
1 TCAAGAGAGACAAAATTTGTT
45411 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
45432 TCAAG
1 TCAAG
45437 GAAAACATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
15 5 0.16
16 4 0.12
17 4 0.12
19 4 0.12
20 4 0.12
21 11 0.34
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:45566 original size:174 final size:173
Alignment explanation
Indices: 45042--45800 Score: 801
Period size: 174 Copynumber: 4.4 Consensus size: 173
45032 AGGTTTTTTG
* * * * *
45042 TGTTTCAAGAGAAACTGTCTCCAGGGAGGCAAAAGTTTTTTTCAA-GAGAAACATATTCAAAGGT
1 TGTTTCAAGAGAAACTGTTTCAAGGGAGACAAAA-TTTGTTTCAAGGA-AAACATATTCAAAGAT
* * *
45106 TGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGA
64 T-TTGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGA
* * *
45171 GA-AACAAAATTTGGTTCAAGAGAAATTGTCGCAAGAGAGACAAAATT
127 GAGAA-AAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * * *
45218 TGTTTAAAGAGAAACT-TTCTCAAGAGAGACAAAACTTAGTTCCAA--AAGAGGC-TGTCTCAAG
1 TGTTTCAAGAGAAACTGTT-TCAAGGGAGACAAAA-TTTGTTTCAAGGAA-A-ACATAT-TCAA-
* * ** * *
45279 GGAGACAAAATTTGTTTCAAGCAAAACATAT-TC-A-A-AG----ATTTTGTTTCAAGGGAAACT
60 --AG----ATTTTGTTTAAAGGGAAAC-TGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACT
* * * *
45336 ATCTCAAGAGAGAATAAATTTGTTTCAAGGGAATCTGTCTCAAGAGAGACAAAATT
118 GTCTCAAGAGAGAAAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
45392 TGGTTCAAGAGAAACTGTTTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATTT
1 TGTTTCAAGAGAAACTGTTTCAAGGGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATTT
* * *
45457 TGTTTAAAGGGAATCTGTCTCAAGAGATACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
66 TGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
** * * *
45522 CCAAATTTGTTTCAAGAGAAACTGTCTAAAGAGGGAAAAAAATT
131 AAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG-ACAAAATT
* *
45566 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATTT
1 TGTTTCAAGAGAAACTGTTTCAAGGGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATTT
* *
45631 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCATGAGAGA
66 TGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
*
45696 AAAAATTTGGTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
131 AAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
45739 TGTTTAAAAAAGAAACTGTTTCAAGGGAGACGAAATTTGTTTCGAGGGAAACA-ATCTCAAAG
1 TGTTT-CAAGAGAAACTGTTTCAAGGGAGACAAAATTTGTTTCAAGGAAAACATAT-TCAAAG
45801 GCGATCGATA
Statistics
Matches: 485, Mismatches: 70, Indels: 58
0.79 0.11 0.09
Matches are distributed among these distances:
165 2 0.00
166 16 0.03
167 1 0.00
168 1 0.00
169 1 0.00
170 2 0.00
173 86 0.18
174 301 0.62
175 12 0.02
176 39 0.08
179 4 0.01
180 1 0.00
181 1 0.00
182 15 0.03
183 3 0.01
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (173 bp):
TGTTTCAAGAGAAACTGTTTCAAGGGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATTT
TGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
AAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:45586 original size:311 final size:311
Alignment explanation
Indices: 45144--45743 Score: 959
Period size: 311 Copynumber: 1.9 Consensus size: 311
45134 GAGACAAAAC
* *
45144 TTTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAATTTGGTTCAAGAGAAATTGTCGCAAGAGA
1 TTTGTTTAAAGGGAAACTGTCTCAAGAGAAACAAAATTTGGTTCAAGAGAAACTGTCGCAAGAGA
* * * * **
45209 GACAAAATTTGTTTAAAGAGAAACTTTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAGGCTGTC
66 GACAAAATTTGTTTAAAGAGAAACTGTCTAAAGAGAGAAAAAAATTAGTTCCAAAAGAAACTGTC
45274 TCAAGGGAGACAAAATTTGTTTCAAGCAAAACATATTCAAAGATTTTGTTTCAAGGGAAACTATC
131 TCAAGGGAGACAAAATTTGTTTCAAGCAAAACATATTCAAAGATTTTGTTTCAAGGGAAACTATC
* *
45339 TCAAGAGAGA-ATAAATTTGTTTCAAGGGAATCTGTCTCAAGAGAGACAAAATTTGGTTCAAGAG
196 TCAAGAGAGACA-AAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATTTGGTTCAAGAG
*
45403 AAACTGTTTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGAT
260 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGAT
* * * *
45455 TTTGTTTAAAGGGAATCTGTCTCAAGAGATACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTAAAGGGAAACTGTCTCAAGAGAAACAAAATTTGGTTCAAGAGAAACTGTCGCAAGAGA
* * * * * **
45520 GACCAAATTTGTTTCAAGAGAAACTGTCTAAAGAGGGAAAAAAATTTGTTTCAAGGGAAACTGTC
66 GACAAAATTTGTTTAAAGAGAAACTGTCTAAAGAGAGAAAAAAATTAGTTCCAAAAGAAACTGTC
* *
45585 TCAAGGGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTC
131 TCAAGGGAGACAAAATTTGTTTCAAGCAAAACATATTCAAAGATTTTGTTTCAAGGGAAACTATC
*
45650 TCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCATGAGAGAAAAAATTTGGTTCAAGAGA
196 TCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATTTGGTTCAAGAGA
45715 AACTGTCTCAAGAGAGACAAAATTTGTTT
261 AACTGTCTCAAGAGAGACAAAATTTGTTT
45744 AAAAAAGAAA
Statistics
Matches: 263, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
311 262 1.00
312 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (311 bp):
TTTGTTTAAAGGGAAACTGTCTCAAGAGAAACAAAATTTGGTTCAAGAGAAACTGTCGCAAGAGA
GACAAAATTTGTTTAAAGAGAAACTGTCTAAAGAGAGAAAAAAATTAGTTCCAAAAGAAACTGTC
TCAAGGGAGACAAAATTTGTTTCAAGCAAAACATATTCAAAGATTTTGTTTCAAGGGAAACTATC
TCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATTTGGTTCAAGAGA
AACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGAT
Found at i:45656 original size:138 final size:137
Alignment explanation
Indices: 45491--45743 Score: 416
Period size: 138 Copynumber: 1.8 Consensus size: 137
45481 AGATACAAAA
* *
45491 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACCAAATTTGTTTCAAGAGAAACTGTCTAAAGAGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTAAAGAGA
* * *
45556 GAAAAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACATAT
66 G-AAAAAATTTGGTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATAT
45621 TCAAAGAT
130 TCAAAGAT
* * * *
45629 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCATGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTAAAGAGA
45694 GAAAAAATTTGGTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT
66 GAAAAAATTTGGTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT
45744 AAAAAAGAAA
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
137 46 0.43
138 60 0.57
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (137 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTAAAGAGA
GAAAAAATTTGGTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATT
CAAAGAT
Found at i:45668 original size:65 final size:68
Alignment explanation
Indices: 45488--45743 Score: 279
Period size: 65 Copynumber: 3.7 Consensus size: 68
45478 AAGAGATACA
* * * *
45488 AAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACCAAATTTGTTTCAA-GAGAAACTGTCTAAA
1 AAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGA-AAACTATCT-CA
*
45552 GAGGGAAAA
64 GA--G--AG
*
45561 AAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACATAT-TCA-
1 AAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAAC-TATCTCAG
45624 A-AG
65 AGAG
* * *
45627 -ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCATG
1 AAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACTATCTCA-G
45691 AGAG
65 AGAG
* *
45695 AAAAAATTTGGTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT
1 ---AAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTT
45744 AAAAAAGAAA
Statistics
Matches: 160, Mismatches: 13, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
64 2 0.01
65 55 0.34
66 1 0.01
67 1 0.01
68 2 0.01
71 1 0.01
72 43 0.27
73 51 0.32
74 4 0.03
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (68 bp):
AAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACTATCTCAGA
GAG
Found at i:47287 original size:95 final size:95
Alignment explanation
Indices: 47034--47287 Score: 316
Period size: 95 Copynumber: 2.6 Consensus size: 95
47024 GGCTAGCTGG
* *
47034 ATCCATAAAGCCGGGGTATTTTAACCAATTGCTCTAGAGGGACAGCTCAA--TATTATTGTATAG
1 ATCCATAAAGCCGGGGCA-TTTAACCAATTGCTCTAGAGGGACAACTCAAGCT-TTATTG--T--
* *
47097 ATATTATAATCACCTTTATCAGGCTAGCTGAATATT
60 ACACTATAATCACCTTTATCAGGCTAGCTGAATATT
* * * *
47133 ATCCATAAAGTCAGGGCGTTTAACCAATTGCTCTATAGGGACAACTCAAGCTTCT-TTGTACACT
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTT-TATTGTACACT
* *
47197 ATAATCGCCTTTATCAGGCTAGCTGAATCTT
65 ATAATCACCTTTATCAGGCTAGCTGAATATT
* *
47228 ATCCATAAAGCCGGGGCATTTAACCAATTGCTTTAGAGGGACACCTCAAGCTTTATTGTA
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTA
47288 TATATATATT
Statistics
Matches: 135, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
94 1 0.01
95 84 0.62
97 1 0.01
98 29 0.21
99 18 0.13
100 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (95 bp):
ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTACACTA
TAATCACCTTTATCAGGCTAGCTGAATATT
Found at i:51080 original size:7 final size:6
Alignment explanation
Indices: 51038--51079 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
51028 TTTATTTGCG
51038 AAAATT AAAATTT AAAATT AAAATTT AAAATT AAAATT AAAA
1 AAAATT AAAA-TT AAAATT AAAA-TT AAAATT AAAATT AAAA
51080 ACCGATTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 22 0.65
7 12 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:51080 original size:13 final size:13
Alignment explanation
Indices: 51038--51079 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
51028 TTTATTTGCG
51038 AAAATTAAAATTT
1 AAAATTAAAATTT
51051 AAAATTAAAATTT
1 AAAATTAAAATTT
51064 AAAATTAAAA-TT
1 AAAATTAAAATTT
51076 AAAA
1 AAAA
51080 ACCGATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 6 0.21
13 23 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:57698 original size:26 final size:26
Alignment explanation
Indices: 57662--57747 Score: 145
Period size: 26 Copynumber: 3.3 Consensus size: 26
57652 AGGACACTAA
*
57662 GTGTATTATGGTAGGCACGACCTTAT
1 GTGTATTATGGTGGGCACGACCTTAT
*
57688 GTGTATTATGGTGGGCACGACTTTAT
1 GTGTATTATGGTGGGCACGACCTTAT
*
57714 GTGTATTATGGTGGGCACAACCTTAT
1 GTGTATTATGGTGGGCACGACCTTAT
57740 GTGTATTA
1 GTGTATTA
57748 AAACTTTGGT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (26 bp):
GTGTATTATGGTGGGCACGACCTTAT
Found at i:66772 original size:13 final size:13
Alignment explanation
Indices: 66735--66774 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
66725 TCTATATTGA
66735 AAAATAAATA-TT
1 AAAATAAATATTT
*
66747 AAAATAATTTATTT
1 AAAATAA-ATATTT
66761 AAAATAAATATTT
1 AAAATAAATATTT
66774 A
1 A
66775 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:68106 original size:3 final size:3
Alignment explanation
Indices: 68098--68172 Score: 105
Period size: 3 Copynumber: 25.0 Consensus size: 3
68088 TTAATGTATT
* *
68098 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
68146 TGA TAA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
68173 ATTAATATGG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:68110 original size:18 final size:17
Alignment explanation
Indices: 68074--68172 Score: 59
Period size: 15 Copynumber: 6.1 Consensus size: 17
68064 ATTTTTTATT
*
68074 ATTATTT-ATAATATTTA
1 ATTATTTAATAATA-ATA
68091 ATGTATTTAATAATAATA
1 AT-TATTTAATAATAATA
*
68109 A-TA-ATAATAATAATA
1 ATTATTTAATAATAATA
* *
68124 ATAATTATAATAATTATA
1 ATTATT-TAATAATAATA
* * *
68142 A-TA-ATGATAATTATA
1 ATTATTTAATAATAATA
68157 ATTA--TAATAATAATA
1 ATTATTTAATAATAATA
68172 A
1 A
68173 ATTAATATGG
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
15 33 0.50
16 5 0.08
17 3 0.05
18 19 0.29
19 6 0.09
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
ATTATTTAATAATAATA
Found at i:68522 original size:39 final size:41
Alignment explanation
Indices: 68426--68531 Score: 180
Period size: 42 Copynumber: 2.6 Consensus size: 41
68416 ATAAGCTCTT
*
68426 GATGAGTTCTTCTCATTATGAACTTCTTCATCCTTCGCTTTT
1 GATGAGTTCTTCTCATTATGAACTTCTTCATCCTTC-CTTTC
68468 GATGAGTTCTTCTCATTATGAACTTCTTCAT-CTT-CTTTC
1 GATGAGTTCTTCTCATTATGAACTTCTTCATCCTTCCTTTC
68507 GATGAGTTCTTCTCATTATGAACTT
1 GATGAGTTCTTCTCATTATGAACTT
68532 TCTCTAGAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
39 29 0.46
41 3 0.05
42 31 0.49
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (41 bp):
GATGAGTTCTTCTCATTATGAACTTCTTCATCCTTCCTTTC
Found at i:68804 original size:113 final size:113
Alignment explanation
Indices: 68582--69005 Score: 620
Period size: 113 Copynumber: 3.8 Consensus size: 113
68572 TAGAATTATG
* ** * ** *
68582 CAAAAAGTTGAACAAGCTCTTCTTATTATGAACTTCTTCTT-CTTC-AGATGACGAGTTCTTCTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTC
* * * * * * *
68645 ATTATGAACTCTAC-CTGGCAATGTTAATCCACCAAATGATGAATTTAAA
65 ATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAA
*
68694 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
68759 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAA
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAA
*
68807 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
68872 TTATGAACTTCCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAA
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAA
*
68920 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTTCAGATGAGTTCTTCTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TTCTTCAGATGAGTTCTTCTC
68985 ATTATGAACTTTCTCTGGAAA
65 ATTATGAACTTTCTCTGGAAA
69006 TGTCAATCTA
Statistics
Matches: 285, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
112 38 0.13
113 207 0.73
114 40 0.14
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAA
Found at i:69890 original size:83 final size:83
Alignment explanation
Indices: 69751--70475 Score: 1330
Period size: 83 Copynumber: 8.8 Consensus size: 83
69741 GTAGTTCCTA
* * *
69751 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
69816 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
69834 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTTCAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
69899 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
69917 CCAAATGAGATCA-ATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTCC-A
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
* *
69980 GTT-AACGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
69997 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
70062 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
70080 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
70145 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
70163 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
70228 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
70246 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
70311 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
70329 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
70394 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
70412 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCA
70476 GTTAAGGTTT
Statistics
Matches: 624, Mismatches: 15, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
80 25 0.04
81 51 0.08
82 50 0.08
83 498 0.80
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (83 bp):
CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:71518 original size:1 final size:1
Alignment explanation
Indices: 71508--71587 Score: 61
Period size: 1 Copynumber: 80.0 Consensus size: 1
71498 TGATCTCCCC
* * * * * * * * * *
71508 TTTTTCTTTTTTCTTTTTCTCTTTTTTTTCTTTTTTCTCTTTTTTTTCTTTTCTTTTTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
71573 TTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTT
71588 CTTCAAGCAT
Statistics
Matches: 57, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:71539 original size:9 final size:9
Alignment explanation
Indices: 71514--71586 Score: 93
Period size: 9 Copynumber: 8.7 Consensus size: 9
71504 CCCCTTTTTC
71514 TTTTTTC-T
1 TTTTTTCTT
*
71522 TTTTCTCTT
1 TTTTTTCTT
71531 TTTTTTCTT
1 TTTTTTCTT
*
71540 TTTTCTCTT
1 TTTTTTCTT
71549 TTTTTTC--
1 TTTTTTCTT
71556 --TTTTCTT
1 TTTTTTCTT
71563 TTTTTTCTT
1 TTTTTTCTT
71572 TTTTTTCTT
1 TTTTTTCTT
71581 TTTTTT
1 TTTTTT
71587 TCTTCAAGCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
5 5 0.09
8 6 0.11
9 45 0.80
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:71542 original size:18 final size:17
Alignment explanation
Indices: 71514--71590 Score: 104
Period size: 18 Copynumber: 4.5 Consensus size: 17
71504 CCCCTTTTTC
71514 TTTTTTCTTTTTCTCTT
1 TTTTTTCTTTTTCTCTT
71531 TTTTTTCTTTTTTCTCTT
1 TTTTTTC-TTTTTCTCTT
*
71549 TTTTTTC-TTTTCTTTT
1 TTTTTTCTTTTTCTCTT
*
71565 TTTTCTTTTTTTTCT-TT
1 TTTT-TTCTTTTTCTCTT
71582 TTTTTTCTT
1 TTTTTTCTT
71591 CAAGCATAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
16 16 0.30
17 15 0.28
18 23 0.43
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTCTTTTTCTCTT
Found at i:71563 original size:32 final size:32
Alignment explanation
Indices: 71515--71586 Score: 83
Period size: 35 Copynumber: 2.2 Consensus size: 32
71505 CCCTTTTTCT
*
71515 TTTTTCTTTTTCTCTTTTTTTTCTTTTTTCTCTTT
1 TTTTTCTTTTT-TC-TTTTTCTCTTTTTT-TCTTT
*
71550 TTTTTCTTTTCTTTTTTTTCT-TTTTTTTCTTT
1 TTTTTCTTTT-TTCTTTTTCTCTTTTTTTCTTT
71582 TTTTT
1 TTTTT
71587 TCTTCAAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 10 0.29
33 6 0.18
34 6 0.18
35 11 0.32
36 1 0.03
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (32 bp):
TTTTTCTTTTTTCTTTTTCTCTTTTTTTCTTT
Found at i:82938 original size:13 final size:13
Alignment explanation
Indices: 82901--82940 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
82891 TCTATATTGA
82901 AAAATAAATA-TT
1 AAAATAAATATTT
*
82913 AAAATAATTTATTT
1 AAAATAA-ATATTT
82927 AAAATAAATATTT
1 AAAATAAATATTT
82940 A
1 A
82941 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:84251 original size:3 final size:3
Alignment explanation
Indices: 84243--84325 Score: 105
Period size: 3 Copynumber: 28.0 Consensus size: 3
84233 TTAATGTATT
* * *
84243 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TTA TTA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
84290 TAA TTA TAA TAA TGA TAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
84326 ATTAATATGG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
2 2 0.03
3 70 0.97
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:87613 original size:75 final size:75
Alignment explanation
Indices: 87518--87700 Score: 226
Period size: 74 Copynumber: 2.5 Consensus size: 75
87508 TATAAATAAA
* *
87518 GTCAAATATCAATACTCAAACCACAATATTAAGTTTAAAATAATAAAATCCATAAACAAA-TAAC
1 GTCAAATCTCAAGACTCAAACCACAATATTAAGTTTAAAATAATAAAATCCATAAACAAACT-AC
87582 AATATTAAAAT
65 AATATTAAAAT
* * * * * *
87593 GTCAAATCTCAAGATTCAAACCACAATATT-ACTTTAGAATAATAAATTCCATAATCAAACTATA
1 GTCAAATCTCAAGACTCAAACCACAATATTAAGTTTAAAATAATAAAATCCATAAACAAACTACA
*
87657 ATATTAAAGT
66 ATATTAAAAT
* * * *
87667 GTCAAATCTTAAGACTGAAAACATAATATTAAGT
1 GTCAAATCTCAAGACTCAAACCACAATATTAAGT
87701 CTAGAAAAAT
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
74 61 0.67
75 30 0.33
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (75 bp):
GTCAAATCTCAAGACTCAAACCACAATATTAAGTTTAAAATAATAAAATCCATAAACAAACTACA
ATATTAAAAT
Found at i:91094 original size:45 final size:45
Alignment explanation
Indices: 91003--91254 Score: 351
Period size: 45 Copynumber: 5.6 Consensus size: 45
90993 CCTCCATTCA
* *
91003 TGTTTATAATGCACCATTATGCATTTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCAATATGCA-TTTCAACTATAGCATACTTTTC
* * * *
91049 TATTGATAATGCACCAATATGCATTGCAACTATAACATATTTTTC
1 TGTTGATAATGCACCAATATGCATTTCAACTATAGCATACTTTTC
* * *
91094 TGTTGATAATGCACCAATATGTATTTCATCTATAACATACTTTTC
1 TGTTGATAATGCACCAATATGCATTTCAACTATAGCATACTTTTC
*
91139 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTTC
1 TGTTGATAATGCACCAATATGCATTTCAACTATAGCATAC-TTTTC
* * *
91185 TATTGATAATGCACCCATATGAATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCAATATGCATTTCAACTATAGCATACTTTTC
* *
91230 TGTAGATAATGCACCCATATGCATT
1 TGTTGATAATGCACCAATATGCATT
91255 ATTATTTTCA
Statistics
Matches: 185, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
45 122 0.66
46 63 0.34
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.39
Consensus pattern (45 bp):
TGTTGATAATGCACCAATATGCATTTCAACTATAGCATACTTTTC
Found at i:91224 original size:91 final size:90
Alignment explanation
Indices: 91008--91254 Score: 361
Period size: 91 Copynumber: 2.7 Consensus size: 90
90998 ATTCATGTTT
* * *
91008 ATAATGCA-CCATTATGCATTTTCAACTATAGCATACTTTTCTATTGATAATGCACCAATATGCA
1 ATAATGCACCCA-TATG-AATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
*
91072 TTGCAACTATAACATATTTTTCTGTTG
64 TTGCAACTATAACATATTTTTCTATTG
* * * *
91099 ATAATGCACCAATATGTATTTCATCTATAACATACTTTTCTGTTGATAATGCACCCATATGCATT
1 ATAATGCACCCATATGAATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATT
* *
91164 TCAACTATAGCATACTTTTTCTATTG
66 GCAACTATAACATA-TTTTTCTATTG
*
91190 ATAATGCACCCATATGAATTTCAACTATAGCATACTTTTCTGTAGATAATGCACCCATATGCATT
1 ATAATGCACCCATATGAATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATT
91255 ATTATTTTCA
Statistics
Matches: 139, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
90 55 0.40
91 82 0.59
92 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (90 bp):
ATAATGCACCCATATGAATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATT
GCAACTATAACATATTTTTCTATTG
Found at i:91229 original size:136 final size:136
Alignment explanation
Indices: 91003--91250 Score: 392
Period size: 136 Copynumber: 1.8 Consensus size: 136
90993 CCTCCATTCA
*
91003 TGTTTATAATGCACCATTATGCATTTTCAACTATAGCATACTTTTCTATTGATAATGCACCAATA
1 TGTTGATAATGCACCATTATGCATTTTCAACTATAGCATACTTTTCTATTGATAATGCACCAATA
* * *
91068 TGCATTGCAACTATAACATATTTTTCTGTTGATAATGCACCAATATGTATTTCATCTATAACATA
66 TGAATTGCAACTATAACATACTTTTCTGTAGATAATGCACCAATATGTATTTCATCTATAACATA
91133 CTTTTC
131 CTTTTC
*
91139 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTTTCTATTGATAATGCACCCA
1 TGTTGATAATGCA-CCATTATGCATTTTCAACTATAGCATAC-TTTTCTATTGATAATGCACCAA
* * *
91202 TATGAATTTCAACTATAGCATACTTTTCTGTAGATAATGCACCCATATG
64 TATGAATTGCAACTATAACATACTTTTCTGTAGATAATGCACCAATATG
91251 CATTATTATT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
135 17 0.17
136 82 0.80
137 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.39
Consensus pattern (136 bp):
TGTTGATAATGCACCATTATGCATTTTCAACTATAGCATACTTTTCTATTGATAATGCACCAATA
TGAATTGCAACTATAACATACTTTTCTGTAGATAATGCACCAATATGTATTTCATCTATAACATA
CTTTTC
Found at i:91825 original size:94 final size:95
Alignment explanation
Indices: 91685--91878 Score: 228
Period size: 94 Copynumber: 2.1 Consensus size: 95
91675 TACTACCCTA
* * ** * * *
91685 GTATCGATACTTCAAAACTATGGTACCGATACTTCCTCAGGGTATCGATACC-AAATTGGGTTCG
1 GTATCGATACTACAAAACTATGGTACCAATACCCCCTCACGGTATCGATACCAAAATTAGATTCG
* *
91749 ATGTTGCCTAGTATCGATCCCCTTACCATG
66 ATGTTGCCTAGTATAGATACCCTTACCATG
* * * * *
91779 GTATCGATACTACCATACTATGGTACCAATACCCCCTTACGTTATCGATACCAAAATTAGATTTG
1 GTATCGATACTACAAAACTATGGTACCAATACCCCCTCACGGTATCGATACCAAAATTAGATTCG
* * *
91844 ATGTTTCTTGGTATAGATACCCTTACCATG
66 ATGTTGCCTAGTATAGATACCCTTACCATG
91874 GTATC
1 GTATC
91879 AATATTGCCT
Statistics
Matches: 82, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
94 43 0.52
95 39 0.48
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (95 bp):
GTATCGATACTACAAAACTATGGTACCAATACCCCCTCACGGTATCGATACCAAAATTAGATTCG
ATGTTGCCTAGTATAGATACCCTTACCATG
Found at i:96018 original size:9 final size:9
Alignment explanation
Indices: 95968--96029 Score: 52
Period size: 9 Copynumber: 6.3 Consensus size: 9
95958 TAGCAAAAAG
95968 AAAAAGAAA
1 AAAAAGAAA
95977 AAAAGAGAGAA
1 AAAA-AGA-AA
*
95988 AAAAATTAAA
1 AAAAA-GAAA
*
95998 AAAATTAAAAA
1 AAAA--AGAAA
96009 AAAAAGAAA
1 AAAAAGAAA
*
96018 AAAAGGAAA
1 AAAAAGAAA
96027 AAA
1 AAA
96030 TACTTCAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
9 19 0.43
10 10 0.23
11 14 0.32
12 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.06
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:98189 original size:55 final size:55
Alignment explanation
Indices: 98085--98267 Score: 226
Period size: 54 Copynumber: 3.4 Consensus size: 55
98075 TCGGTTAATG
* * * *
98085 TGAGTTTTTAAAGAAACTAAGTCCGATTTT-GGAAGTTTCTTGATTATTTTTAAA
1 TGAGCTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATAATTTTTAAA
* * * *
98139 TGAGCTTTCAAAGAAACTAAGTCTGCTTTTCAGACGTTTCTTGATGA-TTTTAAA
1 TGAGCTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATAATTTTTAAA
** * * * *
98193 TGAATTTTTAAAGAAATTGAGTATGATTTTCAGAAGTTTCTTGACAATTTTTAAA
1 TGAGCTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATAATTTTTAAA
98248 TGAGCTTTTAAAGAAACTAA
1 TGAGCTTTTAAAGAAACTAA
98268 ATTCGATTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
54 70 0.66
55 36 0.34
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (55 bp):
TGAGCTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATAATTTTTAAA
Found at i:98315 original size:109 final size:108
Alignment explanation
Indices: 98089--98346 Score: 263
Period size: 109 Copynumber: 2.4 Consensus size: 108
98079 TTAATGTGAG
* * * **
98089 TTTTTAAAGAAACTAAGTCCGATTTT-GGAAGTTTCTTGATTATTTTTAAATGAGCTTTCAAAGA
1 TTTTCAAAGAAACTAAGT-TGATTTTCAGAAGTTTCTTGACAATTTTTAAATGAGCTTTCAAAGA
* *
98153 AACTAAGTCTGCTTTTCAGACGTTTCTTGATGATTTTAAATGAA
65 AACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTAAATGAA
* * * *
98197 TTTTTAAAGAAATTGAGTATGATTTTCAGAAGTTTCTTGACAATTTTTAAATGAGCTTTTAAAGA
1 TTTTCAAAGAAACTAAGT-TGATTTTCAGAAGTTTCTTGACAATTTTTAAATGAGCTTTCAAAGA
* ** * * *
98262 AACTAAAT-TCGATTTTTGGAAGTTTTTTTTATG-TTTTCAAGTGAA
65 AACTAAGTCT-GATTTTCAGAAG-TTTCTTGATGATTTT-AAATGAA
* * *
98307 -TTTCAAAGAAGCTAAGTTGGTTTTCAGATGTTTCTTGACA
1 TTTTCAAAGAAACTAAGTTGATTTTCAGAAGTTTCTTGACA
98347 TGATGAATTT
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
108 44 0.35
109 66 0.53
110 14 0.11
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (108 bp):
TTTTCAAAGAAACTAAGTTGATTTTCAGAAGTTTCTTGACAATTTTTAAATGAGCTTTCAAAGAA
ACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTAAATGAA
Found at i:98494 original size:53 final size:53
Alignment explanation
Indices: 98407--98808 Score: 414
Period size: 53 Copynumber: 7.6 Consensus size: 53
98397 TTTTCAAATG
* *
98407 AAGAAGCTAAGCCTAATTTTTAGGGGTTTATTGATGTTTTCAAATGAATTTGA
1 AAGAAGCTAAGCCTAATTTTTAGGAGTTTCTTGATGTTTTCAAATGAATTTGA
* * * * * * *
98460 AAAAAGGTAAGCCTGATTTTCATGAGTGTCTTGATGTTTTCAAATGAATTTTA
1 AAGAAGCTAAGCCTAATTTTTAGGAGTTTCTTGATGTTTTCAAATGAATTTGA
* * * *
98513 AAGAAGCTAAGCCTAATTTTTAGGGGTTTTTTTTCATGTTTTTTCAGATGAATTTGA
1 AAGAAGCTAAGCCTAATTTTTAGGAG--TTTCTTGATG--TTTTCAAATGAATTTGA
98570 AAGAAGCTAAGCCTAATTTTTAGGAGTTTCTTGATGTTTTCAAATGAATTT--
1 AAGAAGCTAAGCCTAATTTTTAGGAGTTTCTTGATGTTTTCAAATGAATTTGA
98621 ------CTAAGCCTAATTTTTA-GAGGTTTCTTGATGTTTTCAAATGAATTTGA
1 AAGAAGCTAAGCCTAATTTTTAGGA-GTTTCTTGATGTTTTCAAATGAATTTGA
** * *
98668 AA-AATGCTAAGTGTGAA-TTTTAGGAGTTTCTTGATGTTTTCAACT-AAGTTTTTA
1 AAGAA-GCTAAGCCT-AATTTTTAGGAGTTTCTTGATGTTTTCAAATGAA--TTTGA
* * * * *
98722 AAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATAAATTTTTA
1 AAGAAGCTAAGCCTAATTTTTAGGAGTTTCTTGATGTTTTCAAATGAA-TTTGA
* *
98776 AAGAAGCGAAGCCTAATTTTTAGGGGTTTCTTG
1 AAGAAGCTAAGCCTAATTTTTAGGAGTTTCTTG
98809 GTGATAATTG
Statistics
Matches: 292, Mismatches: 37, Indels: 39
0.79 0.10 0.11
Matches are distributed among these distances:
44 2 0.01
45 42 0.14
52 2 0.01
53 109 0.37
54 78 0.27
55 19 0.07
57 40 0.14
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (53 bp):
AAGAAGCTAAGCCTAATTTTTAGGAGTTTCTTGATGTTTTCAAATGAATTTGA
Found at i:98625 original size:45 final size:45
Alignment explanation
Indices: 98576--98665 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
98566 TTGAAAGAAG
98576 CTAAGCCTAATTTTTAG-GAGTTTCTTGATGTTTTCAAATGAATTT
1 CTAAGCCTAATTTTTAGAG-GTTTCTTGATGTTTTCAAATGAATTT
98621 CTAAGCCTAATTTTTAGAGGTTTCTTGATGTTTTCAAATGAATTT
1 CTAAGCCTAATTTTTAGAGGTTTCTTGATGTTTTCAAATGAATTT
98666 GAAAAATGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 43 0.98
46 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.47
Consensus pattern (45 bp):
CTAAGCCTAATTTTTAGAGGTTTCTTGATGTTTTCAAATGAATTT
Found at i:98692 original size:98 final size:100
Alignment explanation
Indices: 98519--98710 Score: 266
Period size: 98 Copynumber: 1.9 Consensus size: 100
98509 TTTAAAGAAG
* * *
98519 CTAAGCCTAATTTTTAGGGGTTTTTTTTCATGTTTTTTCAGATGAATTTGAAAGAAGCTAAGCCT
1 CTAAGCCTAATTTTTAGAGG-TTTTCTTCATG-TTTTTCAAATGAATTTGAAAGAAGCTAAGCCT
98584 AATTTTTAGGAGTTTCTTGATGTTTTCAAATGAATTT
64 AATTTTTAGGAGTTTCTTGATGTTTTCAAATGAATTT
* **
98621 CTAAGCCTAATTTTTAGAGG-TTTCTTGATG-TTTTCAAATGAATTTGAAA-AATGCTAAGTGTG
1 CTAAGCCTAATTTTTAGAGGTTTTCTTCATGTTTTTCAAATGAATTTGAAAGAA-GCTAAGCCT-
98683 AA-TTTTAGGAGTTTCTTGATGTTTTCAA
64 AATTTTTAGGAGTTTCTTGATGTTTTCAA
98711 CTAAGTTTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
97 2 0.02
98 51 0.62
99 2 0.02
100 8 0.10
102 19 0.23
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (100 bp):
CTAAGCCTAATTTTTAGAGGTTTTCTTCATGTTTTTCAAATGAATTTGAAAGAAGCTAAGCCTAA
TTTTTAGGAGTTTCTTGATGTTTTCAAATGAATTT
Found at i:98702 original size:208 final size:206
Alignment explanation
Indices: 98355--98808 Score: 610
Period size: 209 Copynumber: 2.2 Consensus size: 206
98345 CATGATGAAT
* *
98355 TTTTGAAATAAGCTAAGCCTGATTTTTAGGGGTTTCTTGATGTTTTCAAATGAAGAAGCTAAGCC
1 TTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAAGAAGCTAAGCC
* * *
98420 TAATTTTTAGGGGTTTATTGATGTTTTCAAATGAATTTGAAAAAAGGTAAGCCTGATTTTCATGA
66 TAATTTTTAGAGGTTTATTGATGTTTTCAAATGAATTTGAAAAAAGCTAAGCCTGATTTTCAGGA
* *
98485 GTGTCTTGATGTTTTCAAATGAA-TTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTTTTTTCA
131 GTGTCTTGATGTTTTCAAAT-AAGTTTTAAAGAAGCTAAGCCTAATTTTCAGGGG--TTTCTTCA
* *
98549 TGTTTTTTCAGATGAA
193 TG--TTTTCAAATAAA
* ***
98565 -TTTGAAAGAAGCTAAGCCTAATTTTTAGGAGTTTCTTGATGTTTTCAAATGAA-TTTCTAAGCC
1 TTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAAGAAGCTAAGCC
* * **
98628 TAATTTTTAGAGGTTTCTTGATGTTTTCAAATGAATTTGAAAAATGCTAAGTGTGAATTTT-AGG
66 TAATTTTTAGAGGTTTATTGATGTTTTCAAATGAATTTGAAAAAAGCTAAGCCTG-ATTTTCAGG
* * * *
98692 AGTTTCTTGATGTTTTCAACTAAGTTTTTAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGAT
130 AGTGTCTTGATGTTTTCAAATAAG-TTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTCAT
98757 GTTTTCAAATAAA
194 GTTTTCAAATAAA
* *
98770 TTTTTAAAGAAGCGAAGCCTAATTTTTAGGGGTTTCTTG
1 TTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
98809 GTGATAATTG
Statistics
Matches: 216, Mismatches: 24, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
205 10 0.05
206 35 0.16
207 10 0.05
208 77 0.36
209 84 0.39
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (206 bp):
TTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAAGAAGCTAAGCC
TAATTTTTAGAGGTTTATTGATGTTTTCAAATGAATTTGAAAAAAGCTAAGCCTGATTTTCAGGA
GTGTCTTGATGTTTTCAAATAAGTTTTAAAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTCATGT
TTTCAAATAAA
Found at i:98756 original size:54 final size:53
Alignment explanation
Indices: 98621--98808 Score: 229
Period size: 54 Copynumber: 3.5 Consensus size: 53
98611 AAATGAATTT
* *
98621 CTAAGCCTAATTTTTAGAGGTTTCTTGATGTTTTCAAATGAA-TTTGAAA-AATG
1 CTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAAT-AATTTTTAAAGAA-G
** * *
98674 CTAAGTGTGAA-TTTTAGGAGTTTCTTGATGTTTTCAACTAAGTTTTTAAAGAAG
1 CTAAGCCT-AATTTTTAGGGGTTTCTTGATGTTTTCAAATAA-TTTTTAAAGAAG
* *
98728 CTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATAAATTTTTAAAGAAG
1 CTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAAT-AATTTTTAAAGAAG
*
98782 CGAAGCCTAATTTTTAGGGGTTTCTTG
1 CTAAGCCTAATTTTTAGGGGTTTCTTG
98809 GTGATAATTG
Statistics
Matches: 114, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 32 0.28
54 76 0.67
55 4 0.04
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (53 bp):
CTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATAATTTTTAAAGAAG
Found at i:98937 original size:42 final size:41
Alignment explanation
Indices: 98875--98989 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 41
98865 GATGAGTAAG
*
98875 TCCTTCGGGCCATCAATAAATCTTTCAAGCATGCTGCTTAAA
1 TCCTTCGGGCCATC-ATAAATCTTTCAAGCATGATGCTTAAA
*
98917 TCCTTTGGGCCATCAGTAAATCTTTCAAGCATGATGCTTAAA
1 TCCTTCGGGCCATCA-TAAATCTTTCAAGCATGATGCTTAAA
* * *
98959 TCCTTCGGGTCATCTATAAGTCTTTCGAGCA
1 TCCTTCGGGCCATC-ATAAATCTTTCAAGCA
98990 AAATGATAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (41 bp):
TCCTTCGGGCCATCATAAATCTTTCAAGCATGATGCTTAAA
Found at i:98958 original size:22 final size:22
Alignment explanation
Indices: 98891--98960 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
98881 GGGCCATCAA
*
98891 TAAATCTTTCAAGCATGCTGCT
1 TAAATCTTTCAAGCATGATGCT
** *
98913 TAAATCCTTT-GGGCCATCA-G--
1 TAAAT-CTTTCAAG-CATGATGCT
98933 TAAATCTTTCAAGCATGATGCT
1 TAAATCTTTCAAGCATGATGCT
98955 TAAATC
1 TAAATC
98961 CTTCGGGTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
19 8 0.23
20 7 0.20
22 13 0.37
23 7 0.20
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (22 bp):
TAAATCTTTCAAGCATGATGCT
Found at i:99921 original size:30 final size:30
Alignment explanation
Indices: 99885--99943 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
99875 ACTAAATAGT
*
99885 AAAAATAGAAAGTTACA-AGACTAAAATGGA
1 AAAAATAGAAAATTA-AGAGACTAAAATGGA
*
99915 AAAAATAGAAAATTAAGGGACTAAAATGG
1 AAAAATAGAAAATTAAGAGACTAAAATGG
99944 TATTAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.59, C:0.05, G:0.19, T:0.17
Consensus pattern (30 bp):
AAAAATAGAAAATTAAGAGACTAAAATGGA
Found at i:101284 original size:3 final size:3
Alignment explanation
Indices: 101276--101354 Score: 74
Period size: 3 Copynumber: 26.7 Consensus size: 3
101266 ATATTTTTGT
* * * * *
101276 TAA TAA TAA -AA TAA TAA TAG TAG TAA TAG TAG TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
101323 TAA TAAA TAAA TAA T-A TAA T-A TAA TAA TAA TA
1 TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA TA
101355 TTTTTGGTTG
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 6 0.09
3 55 0.81
4 7 0.10
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:101904 original size:129 final size:131
Alignment explanation
Indices: 101647--101906 Score: 296
Period size: 129 Copynumber: 2.0 Consensus size: 131
101637 TAGGAAGGGC
* * *
101647 GATAACACAGTTCCTACGCGATGATGACGACTGATTATCTAGGGGTGACACGTCTCCTACGTGAT
1 GATAACACAGTTCCTACGCGATGAGGACGACTGATTATCTAGGGGTAACACGGCTCCTACGTGAT
* * * * *
101712 GAGGAGGTTTGGTCGGGAGATGACCCGATTCTAATATTATGAGGATGACACGCCATCTTTAGGGA
66 GAGGAGGTCTGGTCAGGAGATGACACGATTCTAACATGATGAGGATGACACGCCATCTTTAGGGA
101777 T
131 T
* * * * * *
101778 GATAACACAGTTTCTACGTGATGAGGATGACTGGTTATCTA-GGGTAATATGGCTCCT-CGTGAT
1 GATAACACAGTTCCTACGCGATGAGGACGACTGATTATCTAGGGGTAACACGGCTCCTACGTGAT
* * * *
101841 GAGGAGGTCTGGTCTAGG-GATGACATGGTTCCT-ACATGATGATGATGGCA-GACCATCTTTAG
66 GAGGAGGTCTGGTC-AGGAGATGACACGATT-CTAACATGATGAGGATGACACG-CCATCTTTAG
101903 GGAT
128 GGAT
101907 TTTGGTTTCA
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
128 1 0.01
129 55 0.51
130 16 0.15
131 36 0.33
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (131 bp):
GATAACACAGTTCCTACGCGATGAGGACGACTGATTATCTAGGGGTAACACGGCTCCTACGTGAT
GAGGAGGTCTGGTCAGGAGATGACACGATTCTAACATGATGAGGATGACACGCCATCTTTAGGGA
T
Found at i:103393 original size:18 final size:18
Alignment explanation
Indices: 103349--103417 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
103339 TGTTTTTTTG
* *
103349 TTTATTTTCTCTTTTCTC
1 TTTATTTTTTCTTTGCTC
*
103367 TTTGTTTTTTCTTTGCTC
1 TTTATTTTTTCTTTGCTC
*
103385 TTTATTTTTAT-TTTGCCC
1 TTTATTTTT-TCTTTGCTC
*
103403 TTTTTCTTTTTCTTT
1 TTTAT-TTTTTCTTT
103418 TGATTGGATC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
18 34 0.81
19 8 0.19
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTATTTTTTCTTTGCTC
Found at i:108246 original size:57 final size:57
Alignment explanation
Indices: 108158--108276 Score: 147
Period size: 59 Copynumber: 2.1 Consensus size: 57
108148 TGAAGGGCTA
*
108158 AAATAGCTAAAACATAAATTTAAAAGGCTAAACA-AAAAAATAGAAACTTAAAGG-ACT
1 AAATAGCTAAAACATAAAGTTAAAAGGCTAAA-AGAAAAAATAGAAACTT-AAGGAACT
108215 AAATAG-TAAACACATAAAGTT-AAAGGACTAAAATGGAAAAAATAGAAACTTAAGGAACT
1 AAATAGCTAAA-ACATAAAGTTAAAAGG-CTAAAA--GAAAAAATAGAAACTTAAGGAACT
108274 AAA
1 AAA
108277 ATGGTATTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
56 10 0.18
57 20 0.36
58 4 0.07
59 21 0.38
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.18
Consensus pattern (57 bp):
AAATAGCTAAAACATAAAGTTAAAAGGCTAAAAGAAAAAATAGAAACTTAAGGAACT
Found at i:108275 original size:30 final size:30
Alignment explanation
Indices: 108192--108280 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
108182 AGGCTAAACA
*
108192 AAAAAATAGAAACTTAAAGGACT-AAATAG
1 AAAAAATAGAAACTTAAAGGACTAAAATGG
* * * * *
108221 TAAACACATAAAGTTAAAGGACTAAAATGG
1 AAAAAATAGAAACTTAAAGGACTAAAATGG
108251 AAAAAATAGAAACTT-AAGGAACTAAAATGG
1 AAAAAATAGAAACTTAAAGG-ACTAAAATGG
108281 TATTAATAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
29 22 0.47
30 25 0.53
ACGTcount: A:0.58, C:0.08, G:0.16, T:0.18
Consensus pattern (30 bp):
AAAAAATAGAAACTTAAAGGACTAAAATGG
Found at i:108294 original size:30 final size:29
Alignment explanation
Indices: 108192--108294 Score: 73
Period size: 30 Copynumber: 3.5 Consensus size: 29
108182 AGGCTAAACA
* *
108192 AAAAAATAGAAACTTAAAGGACT-AAATAG
1 AAAAAATAAAAACTT-AAGGACTAAAATGG
* * * * *
108221 TAAACACATAAAGTTAAAGGACTAAAATGG
1 AAAAAATAAAAACTT-AAGGACTAAAATGG
*
108251 AAAAAATAGAAACTTAAGGAACTAAAATGG
1 AAAAAATAAAAACTTAAGG-ACTAAAATGG
* **
108281 TATTAATAAAAACT
1 AAAAAATAAAAACT
108295 AAAAAGGCTA
Statistics
Matches: 57, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
29 22 0.39
30 35 0.61
ACGTcount: A:0.58, C:0.08, G:0.14, T:0.20
Consensus pattern (29 bp):
AAAAAATAAAAACTTAAGGACTAAAATGG
Found at i:110251 original size:239 final size:240
Alignment explanation
Indices: 109829--110346 Score: 648
Period size: 239 Copynumber: 2.2 Consensus size: 240
109819 AAATAATTTT
* * * * * ** * *
109829 CAAAGTTTCTTACTTATTAATTTCTTCGAGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATC
1 CAAAGTTTCTTACATAGTAAGTCCTTCGGGCCATCTGTATGTCTTTCGAGCATGATGCTTAAAAC
* * * ** *
109894 CTTCAGGTCATCTATAAGTCTTTCGAACAAGATGATAAGTCTTTCGATTCATCCATAAGACCTTC
66 CTTCAGGTCATATATAAGTCTTTAGAACAAGATGATAAGTCCTTCGAGCCATCCAGAAGACCTTC
* * *
109959 GGGCATGATGTTTTCATATGATTTTCAAAAATGAGAAAGTGATTTCTAAAGTTTCTC-GTTAAAT
131 GGGCAGGATGTTTTCACATGATTTTCAAAAATGAGAAAGCGATTTCTAAAGTTTCTCAGTTAAAT
* * *
110023 CTTTTCTGAAAGTTAAATTTTCTTGAAAAGTAAGAAAACGAATT-C
196 CTTTTCTAAAAATTAAATTTTCTTGAAAAGTAAAAAAACG-ATTAC
*
110068 CAAAGTTTCTTAGATAGTAAGTCCTTCGGGCCATCTGTATGTCTTTCGAGCATGATG-TATAAAA
1 CAAAGTTTCTTACATAGTAAGTCCTTCGGGCCATCTGTATGTCTTTCGAGCATGATGCT-TAAAA
** * ** *
110132 CCTTTGGGTTATATATAAGTCTTTAGAGGAAGATGATAAGTCCTTCGGGCCATCCAGAAGACCTT
65 CCTTCAGGTCATATATAAGTCTTTAGAACAAGATGATAAGTCCTTCGAGCCATCCAGAAGACCTT
* *
110197 CGGGCAGGATGTTTTCACATGATTTTCGAAAAATGAGAAAGCGATTTC-AAAGTTTCTCATTTGA
130 CGGGCAGGATGTTTTCACATGATTTTC-AAAAATGAGAAAGCGATTTCTAAAGTTTCTCAGTTAA
* * ** *
110261 ATCTTTTCTAAAAATTGAGTTTTCTTGACGAGTAAAAAAATGATTAC
194 ATCTTTTCTAAAAATTAAATTTTCTTGAAAAGTAAAAAAACGATTAC
* *
110308 CAAAGTTTCTTACTTAGTAAGTCCTTCGTGCCATCTGTA
1 CAAAGTTTCTTACATAGTAAGTCCTTCGGGCCATCTGTA
110347 AGACCTTCGG
Statistics
Matches: 237, Mismatches: 38, Indels: 7
0.84 0.13 0.02
Matches are distributed among these distances:
238 1 0.00
239 143 0.60
240 93 0.39
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (240 bp):
CAAAGTTTCTTACATAGTAAGTCCTTCGGGCCATCTGTATGTCTTTCGAGCATGATGCTTAAAAC
CTTCAGGTCATATATAAGTCTTTAGAACAAGATGATAAGTCCTTCGAGCCATCCAGAAGACCTTC
GGGCAGGATGTTTTCACATGATTTTCAAAAATGAGAAAGCGATTTCTAAAGTTTCTCAGTTAAAT
CTTTTCTAAAAATTAAATTTTCTTGAAAAGTAAAAAAACGATTAC
Found at i:111638 original size:23 final size:23
Alignment explanation
Indices: 111608--111656 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
111598 TTGTGGTTGG
111608 TTTAATGG-ATATTTAGACTTTAT
1 TTTAATGGTATATTTA-ACTTTAT
*
111631 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
111654 TTT
1 TTT
111657 GGTTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:112166 original size:11 final size:11
Alignment explanation
Indices: 112152--112176 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
112142 TTTCATTTTT
112152 TTTTCTGTTTA
1 TTTTCTGTTTA
112163 TTTTCTGTTTA
1 TTTTCTGTTTA
112174 TTT
1 TTT
112177 ACCATCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTCTGTTTA
Found at i:124068 original size:19 final size:19
Alignment explanation
Indices: 124021--124068 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
124011 CATTATTCGT
*
124021 AATATTTTAAGTAAAACCGA
1 AATATTTT-AGTAAAAACGA
* *
124041 AA-ATGTTAGTAAAAATGA
1 AATATTTTAGTAAAAACGA
124059 AATATTTTAG
1 AATATTTTAG
124069 GTTGCGTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 11 0.48
19 10 0.43
20 2 0.09
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.33
Consensus pattern (19 bp):
AATATTTTAGTAAAAACGA
Found at i:125813 original size:20 final size:20
Alignment explanation
Indices: 125788--125838 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
125778 GTAAAGAATA
125788 TGACAAAACCGATTGAAAAT
1 TGACAAAACCGATTGAAAAT
* **
125808 TGACAAAACCGGTTGAAGTT
1 TGACAAAACCGATTGAAAAT
*
125828 TCACAAAACCG
1 TGACAAAACCG
125839 GATTTAACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (20 bp):
TGACAAAACCGATTGAAAAT
Found at i:126261 original size:196 final size:197
Alignment explanation
Indices: 125830--126727 Score: 1101
Period size: 197 Copynumber: 4.6 Consensus size: 197
125820 TTGAAGTTTC
* * * *
125830 ACAAAACCGGATTT-AACTTGAAAAAATC-AGTAAAGAGCTACCGGAATTGTTGAAATTTGTATC
1 ACAAAACCGG-TTTCAATTTGACAAAACCGA-TAAAGAGCTACCAGAATTGTTGAAATTTGTATC
* * * *
125893 CATACATTTATAAGTATATGTACCAAAGTATCGATA-TTGTAGGAATATAAAAGAATTGCAATAA
64 GATACGTTTATAAGTATATGTACCAAAGTATCGGTACTT-TAGGAATTTAAAAGAATTGCAATAA
* * * *
125957 TAGCGGCTATAAAGTATCGATACCTTACACACATGTATCGATACATGACAATATAAGAAGTTCAA
128 TAGTGGCTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACAAGTTTAA
126022 ATTTG
193 ATTTG
*** * * *
126027 ACAAAATTAGTTTCAATTTGACAAAACATG-TAAAGAGCTAACAAAATTGTTGAAATTTGTATCG
1 ACAAAACCGGTTTCAATTTGACAAAAC-CGATAAAGAGCTACCAGAATTGTTGAAATTTGTATCG
* * * *
126091 ATACGTTTATAAGTATATGTACCAAAGCATCGGTACTTAAGGAATTTAAAATAATTACAATAATA
65 ATACGTTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGCAATAATA
* *
126156 GTGGCTATAAAGTATC-ATACCTTAGACACATGTATCGATACATGATAATATAACATGTTTAAAT
130 GTGGCTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACAAGTTTAAAT
126220 TTG
195 TTG
* * * * *
126223 ACAAAACCAGTTTCAATTTGACAAAATCGATAAAGAGCTTCCGGAA-TGATTGAAATTTGTGTCG
1 ACAAAACCGGTTTCAATTTGACAAAACCGATAAAGAGCTACCAGAATTG-TTGAAATTTGTATCG
* **
126287 ATACTTTTATAAGTATATGTACCAAAGTATCAATACTTTAGGAATTTAAAAGAATTGC-AT--TA
65 ATACGTTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGCAATAATA
* * *
126349 CT---TATAAAGTATCGATACCTTAGACACATGTATCGATACATAACAATATAACAGGTTTAAAT
130 GTGGCTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACAAGTTTAAAT
126411 TTG
195 TTG
* * *
126414 AAAAAAAACCGGTTTCAATTTGACAAAACCAATAAAGAGCTACCAGAATGGTTGAAATTTGTATC
1 --ACAAAACCGGTTTCAATTTGACAAAACCGATAAAGAGCTACCAGAATTGTTGAAATTTGTATC
* * * *
126479 GATACTTTTATAAGTATATGTACCAAAGTATTGGTAATTTAGGAATTTAAACGAATTGCAATAAT
64 GATACGTTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGCAATAAT
* * * * * *
126544 AGTGCCTATAATGTATTGATACCTTAGACACGTGTATCAATACATGACAATATAACAAGTTGAAA
129 AGTGGCTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACAAGTTTAAA
126609 TTTG
194 TTTG
* * * * *
126613 ACAAAACTGGCTTCAATTTGACAAAACCGGTAAA-ACGCTATCAGAATTGTTGAAA--T-TATCA
1 ACAAAACCGGTTTCAATTTGACAAAACCGATAAAGA-GCTACCAGAATTGTTGAAATTTGTATCG
* *
126674 ATATGTTTATAAGTATATGTACCATAA-TATCGGTACTTTAGGAGTTTAAAAGAA
65 ATACGTTTATAAGTATATGTACCA-AAGTATCGGTACTTTAGGAATTTAAAAGAA
126728 ATGAAAAAAG
Statistics
Matches: 604, Mismatches: 79, Indels: 39
0.84 0.11 0.05
Matches are distributed among these distances:
190 11 0.02
191 48 0.08
193 110 0.18
194 52 0.09
195 8 0.01
196 154 0.25
197 163 0.27
198 2 0.00
199 56 0.09
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (197 bp):
ACAAAACCGGTTTCAATTTGACAAAACCGATAAAGAGCTACCAGAATTGTTGAAATTTGTATCGA
TACGTTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGCAATAATAG
TGGCTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACAAGTTTAAATT
TG
Found at i:128837 original size:12 final size:12
Alignment explanation
Indices: 128820--128858 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
128810 AAGGAGAAAG
128820 AGGAAGAAGAGA
1 AGGAAGAAGAGA
128832 AGGAAGAAGAGA
1 AGGAAGAAGAGA
* * *
128844 AAGTAGAAGATA
1 AGGAAGAAGAGA
128856 AGG
1 AGG
128859 TAGTAGGGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (12 bp):
AGGAAGAAGAGA
Found at i:128852 original size:15 final size:14
Alignment explanation
Indices: 128813--128853 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 14
128803 TATTTGTAAG
128813 GAGAAAGAGGAAGAA
1 GAGAAAGA-GAAGAA
128828 GAG-AAG-GAAGAA
1 GAGAAAGAGAAGAA
128840 GAGAAAGTAGAAGA
1 GAGAAAG-AGAAGA
128854 TAAGGTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 9 0.39
13 3 0.13
14 3 0.13
15 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (14 bp):
GAGAAAGAGAAGAA
Found at i:137024 original size:24 final size:24
Alignment explanation
Indices: 136994--137048 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
136984 AGGTGATTTA
136994 TTCATCAAGACTTGTAAAAAACAT
1 TTCATCAAGACTTGTAAAAAACAT
137018 TTCATCAAGACTTGTAAAAAACAT
1 TTCATCAAGACTTGTAAAAAACAT
137042 TTCATCA
1 TTCATCA
137049 CCCACTCGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (24 bp):
TTCATCAAGACTTGTAAAAAACAT
Found at i:138645 original size:198 final size:198
Alignment explanation
Indices: 138331--139317 Score: 1256
Period size: 198 Copynumber: 5.0 Consensus size: 198
138321 TATGTACACA
* * *
138331 TTTATTCCAATATGATTCTCAAACAATTTGCA-TGCAAAATGTATCGATACACATATATAAAGTA
1 TTTATTCTAGTATGTTTCTCAAACAATTTGCACT-CAAAATGTATCGAT-CACATATATAAAGTA
* * *
138395 TCGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATATAAATGGTA
64 TCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTA
* * *
138460 AAAGTC-AATCAGTATAATGATAATAGGCGTAAATACCAAGTATCGATACTCTTTATATATGTAT
129 AAAGTCTACT-AGTATATTGATAATAGGCGTAAATACCAAGTATCGATACT-TTTATATAGGTAT
*
138524 GGATACT
192 CGATACT
* * * * * * * *
138531 TATATTCCAATATGCTTCTTAAACAATTTGCACTCAAAATGAATTGAT-ACATGTATAAAGTATC
1 TTTATTCTAGTATGTTTCTCAAACAATTTGCACTCAAAATGTATCGATCACATATATAAAGTATC
* * * * * * *
138595 GATACTTTGAATTTCGAAACCTACTACTTTAATGTAATAGGTATATTAACAATGTGAATGATAAA
66 GATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAA
* * * *
138660 AGTCTACCTATGTA-A-TAATAATAGGCATAAATACCAAGTATCGATACTTTTATATAGGCATGG
131 AGTCTA-CTA-GTATATTGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGTATCG
*
138723 ATAGT
194 ATACT
* * *
138728 TTTATTCTAGTATGTTTCTCAAACTATTTGCACGCAAAATGTATCGATACACATATATATAGTAT
1 TTTATTCTAGTATGTTTCTCAAACAATTTGCACTCAAAATGTATCGAT-CACATATATAAAGTAT
* * * * * *
138793 CGATACTTGGAATTTCAAAACATATTACTTTAAAGTAATATGTAAATTAATAATGTAAGCAGTAA
65 CGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAA
* * *
138858 ACGTCTACTGGTATATTGATAATAGGTC-TAAATACCAAGTATCGATACTTTTATATAGGTATCA
130 AAGTCTACTAGTATATTGATAATAGG-CGTAAATACCAAGTATCGATACTTTTATATAGGTATCG
138922 ATAC-
194 ATACT
*
138926 TTTATTCTAGTATGTTTCTCAAACAATTTGCACGCAAAATGTATCGATGCACATATATAAAGTAT
1 TTTATTCTAGTATGTTTCTCAAACAATTTGCACTCAAAATGTATCGAT-CACATATATAAAGTAT
*
138991 TGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAA
65 CGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAA
* *
139056 AAGTCTACTAGTATATTGATAACAGGCGTAAATACCAAGTATCGATACTTTTATATATAGGTATT
130 AAGTCTACTAGTATATTGATAATAGGCGTAAATACCAAGTATCGATAC-TTT-TATATAGGTATC
139121 GATACT
193 GATACT
139127 TTTATTCTAGTATGTTTCTCAAAC-A-TT----T-----TGTATCGATACACATATATAAAGTAT
1 TTTATTCTAGTATGTTTCTCAAACAATTTGCACTCAAAATGTATCGAT-CACATATATAAAGTAT
* * * *
139181 CGATACTTGAAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTATCAATGTAGACGGTAA
65 CGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAA
* *
139246 AAGTCTA-TTGATATATTGATAATAGGCGTAAATACCAAGTATCTATACTTTTATATAGGTATCG
130 AAGTCTACTAG-TATATTGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGTATCG
139310 ATACT
194 ATACT
139315 TTT
1 TTT
139318 GATCTAAACA
Statistics
Matches: 696, Mismatches: 77, Indels: 40
0.86 0.09 0.05
Matches are distributed among these distances:
188 20 0.03
189 5 0.01
190 127 0.18
197 60 0.09
198 273 0.39
199 124 0.18
200 62 0.09
201 25 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (198 bp):
TTTATTCTAGTATGTTTCTCAAACAATTTGCACTCAAAATGTATCGATCACATATATAAAGTATC
GATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAA
AGTCTACTAGTATATTGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGTATCGAT
ACT
Found at i:139090 original size:397 final size:395
Alignment explanation
Indices: 138331--139316 Score: 1313
Period size: 397 Copynumber: 2.5 Consensus size: 395
138321 TATGTACACA
* * *
138331 TTTATTCCAATATGATTCTCAAACAATTTGCATGCAAAATGTATCGATACACATATATAAAGTAT
1 TTTATTCTAGTATGTTTCTCAAAC-ATTTGCA-GCAAAATGTATCGATACACATATATAAAGTAT
* * **
138396 CGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATATAAATGGTAA
64 CGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAATAATGTAAGCGGTAA
* * * *
138461 AAGTC-AATCAGTATAATGATAATAGGCGTAAATACCAAGTATCGATACTCTTTATATATGTATG
129 AAGTCTAAT-GGTATATTGATAATAGGCGTAAATACCAAGTATCGATACT-TTTATATAGGTATC
* * * *
138525 GATACTTATATTCCAATATGCTTCTTAAACAATTTGCACTCAAAATGAATTGATACATGTATAAA
192 GATACTT-TATTCCAATATGCTTCTCAAACAATTTGCACGCAAAATGAATCGATACATATATAAA
* * * * *
138590 GTATCGATACTTTGAATTTCGAAACCTACTACTTTAATGTAATAGGTATATTAACAATGTGAATG
256 GTATCGATACTTGGAATTTCGAAACCTACTACTTTAAAGTAATAGGTAAATTAACAATGTAAACG
*
138655 ATAAAAGTCTACCTATGTAATAATAATAGGCATAAATACCAAGTATCGATAC-TTT-TATATAGG
321 ATAAAAGTCTACCTATGTAATAATAACAGGCATAAATACCAAGTATCGATACTTTTATATATAGG
*
138718 CATGGATAGT
386 CATGGATACT
*
138728 TTTATTCTAGTATGTTTCTCAAACTATTTGCACGCAAAATGTATCGATACACATATATATAGTAT
1 TTTATTCTAGTATGTTTCTCAAAC-ATTTGCA-GCAAAATGTATCGATACACATATATAAAGTAT
* * *
138793 CGATACTTGGAATTTCAAAACATATTACTTTAAAGTAATATGTAAATTAATAATGTAAGCAGTAA
64 CGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAATAATGTAAGCGGTAA
* * *
138858 ACGTCTACTGGTATATTGATAATAGGTC-TAAATACCAAGTATCGATACTTTTATATAGGTATCA
129 AAGTCTAATGGTATATTGATAATAGG-CGTAAATACCAAGTATCGATACTTTTATATAGGTATCG
* * * *
138922 ATACTTTATTCTAGTATGTTTCTCAAACAATTTGCACGCAAAATGTATCGATGCACATATATAAA
193 ATACTTTATTCCAATATGCTTCTCAAACAATTTGCACGCAAAATGAATCGAT--ACATATATAAA
* *
138987 GTATTGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACG
256 GTATCGATACTTGGAATTTCGAAACCTACTACTTTAAAGTAATAGGTAAATTAACAATGTAAACG
* * *
139052 GTAAAAGTCTA-CTA-GTATATTGATAACAGGCGTAAATACCAAGTATCGATACTTTTATATATA
321 ATAAAAGTCTACCTATGTA-A-TAATAACAGGCATAAATACCAAGTATCGATACTTTTATATATA
* *
139115 GGTATTGATACT
384 GGCATGGATACT
139127 TTTATTCTAGTATGTTTCTCAAACATTT---------TGTATCGATACACATATATAAAGTATCG
1 TTTATTCTAGTATGTTTCTCAAACATTTGCAGCAAAATGTATCGATACACATATATAAAGTATCG
* **
139183 ATACTTGAAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATT-ATCAATGT-AGACGGTAA
66 ATACTTGGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAAT-AATGTAAG-CGGTAA
* * *
139246 AAGTCTATTGATATATTGATAATAGGCGTAAATACCAAGTATCTATACTTTTATATAGGTATCGA
129 AAGTCTAATGGTATATTGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGTATCGA
139311 TACTTT
194 TACTTT
139317 TGATCTAAAC
Statistics
Matches: 524, Mismatches: 54, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
387 5 0.01
388 142 0.27
395 42 0.08
396 22 0.04
397 264 0.50
398 10 0.02
399 39 0.07
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (395 bp):
TTTATTCTAGTATGTTTCTCAAACATTTGCAGCAAAATGTATCGATACACATATATAAAGTATCG
ATACTTGGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAATAATGTAAGCGGTAAAA
GTCTAATGGTATATTGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGTATCGATA
CTTTATTCCAATATGCTTCTCAAACAATTTGCACGCAAAATGAATCGATACATATATAAAGTATC
GATACTTGGAATTTCGAAACCTACTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGATAAA
AGTCTACCTATGTAATAATAACAGGCATAAATACCAAGTATCGATACTTTTATATATAGGCATGG
ATACT
Found at i:139879 original size:18 final size:18
Alignment explanation
Indices: 139820--139867 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
139810 ACGTAGTTCA
** *
139820 TCTCAACCAAAACCTTCT
1 TCTCAACCAAGGCCATCT
139838 TCTCAACCAAGGCCATCT
1 TCTCAACCAAGGCCATCT
*
139856 TATCAACCAAGG
1 TCTCAACCAAGG
139868 TCTCTTTCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.35, G:0.08, T:0.23
Consensus pattern (18 bp):
TCTCAACCAAGGCCATCT
Found at i:143686 original size:19 final size:19
Alignment explanation
Indices: 143662--143704 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
143652 ATTCACTTAG
143662 TGAGGCATAATATAATAAA
1 TGAGGCATAATATAATAAA
143681 TGAGGCATAATATAATAAA
1 TGAGGCATAATATAATAAA
143700 TGAGG
1 TGAGG
143705 AATATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.05, G:0.21, T:0.26
Consensus pattern (19 bp):
TGAGGCATAATATAATAAA
Found at i:145570 original size:27 final size:27
Alignment explanation
Indices: 145540--145599 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
145530 TTAATTTAAC
*
145540 ATTTATTTAAGCTTAAATGAATAAAAT
1 ATTTATTTAAGCTTAAATAAATAAAAT
145567 ATTTATTTAAGCTTAAATAAATAAAAT
1 ATTTATTTAAGCTTAAATAAATAAAAT
145594 ATTTAT
1 ATTTAT
145600 CTAATGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (27 bp):
ATTTATTTAAGCTTAAATAAATAAAAT
Found at i:145611 original size:27 final size:27
Alignment explanation
Indices: 145540--145611 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
145530 TTAATTTAAC
* ** *
145540 ATTTATTTAAGCTTAAATGAATAAAAT
1 ATTTATCTAAGCAGAAATAAATAAAAT
* **
145567 ATTTATTTAAGCTTAAATAAATAAAAT
1 ATTTATCTAAGCAGAAATAAATAAAAT
145594 ATTTATCTAATG-AGAAAT
1 ATTTATCTAA-GCAGAAAT
145612 GTCCATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (27 bp):
ATTTATCTAAGCAGAAATAAATAAAAT
Found at i:148679 original size:199 final size:198
Alignment explanation
Indices: 148322--148694 Score: 534
Period size: 199 Copynumber: 1.9 Consensus size: 198
148312 TTATTTTCTT
** * * * ** *
148322 GCGTAAATACCAAGTATTGATACTTTTATATAGGTATAGATACTTTTATTCTATTATGCTTCTTA
1 GCGTAAATACCAAGTATCAATACTTATATATAGATATAGATACTTTTATTCCAAAATGCTTCTCA
* * *
148387 AACAATTTGCACGCAAATGTATCAATACATATATATAAAGTATCAATACTTGGAATTTCGAAACC
66 AACAATTTGCACACAAATGTATCAATACACATATATAAAGTATCAATACTTAGAATTTCGAAACC
*
148452 TATTACTTTAAAGTAATAGGTTAATTAACAATGTAAACGGTAAAAGTATATTGATATATTGATAA
131 TATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTATATTGATATATTGATAA
148517 TAG
196 TAG
*
148520 GCGTAAATACCAAGTATCAATACTTATATATAGATAT-GAATACTTTTATTCCAAAATGTTTCTC
1 GCGTAAATACCAAGTATCAATACTTATATATAGATATAG-ATACTTTTATTCCAAAATGCTTCTC
** * *
148584 AAACAATTTGCACACAAAATGTATTGATACACATATATAAAGTATCGATACTTATAATTTC-AAT
65 AAACAATTTGCACAC-AAATGTATCAATACACATATATAAAGTATCAATACTTAGAATTTCGAA-
* *
148648 ACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACATGGTAAA
128 ACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAA
148695 CATTTCTACC
Statistics
Matches: 153, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
197 1 0.01
198 69 0.45
199 83 0.54
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (198 bp):
GCGTAAATACCAAGTATCAATACTTATATATAGATATAGATACTTTTATTCCAAAATGCTTCTCA
AACAATTTGCACACAAATGTATCAATACACATATATAAAGTATCAATACTTAGAATTTCGAAACC
TATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTATATTGATATATTGATAA
TAG
Found at i:148786 original size:130 final size:130
Alignment explanation
Indices: 148618--148934 Score: 460
Period size: 130 Copynumber: 2.4 Consensus size: 130
148608 TGATACACAT
* * *
148618 ATATA-AAGTATCGATACTTATAATTTCAATACCTATTACTTTAAAGTAATAGGTAAATTAACAA
1 ATATACAAGTATCAATACTTATAATTTTAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAA
* *
148682 TGTACATGGTAAACATTTCTAC-CGTATAATGAAAATAGGCATAAATGTCCAAGTATCGATACTC
66 TGTACATGGTAAACATTTCTACTCGTATAATGAAAATAGACATAAATGTACAAGTATCGATACTC
*
148746 ATATACAACGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACA
1 ATATACAA-GTATCAATACTTATAATTTTAAAACCTATTACTTTAAAGTAATAGGTAAATTAACA
* * * ** *
148811 ATGTACATGTTAAACGTTTCTACTGGTATAATGAAAATAGATGTAAATGTACAAGTATCAATACT
65 ATGTACATGGTAAACATTTCTACTCGTATAATGAAAATAGACATAAATGTACAAGTATCGATACT
148876 -
130 C
* *
148876 ATCATACAAGTATCAATATTTTATAATTTTAAAACCTATTACTTTAAAGTAATAAGTAA
1 AT-ATACAAGTATCAATA-CTTATAATTTTAAAACCTATTACTTTAAAGTAATAGGTAA
148935 TATGTTGATA
Statistics
Matches: 169, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
128 5 0.03
129 2 0.01
130 84 0.50
131 78 0.46
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (130 bp):
ATATACAAGTATCAATACTTATAATTTTAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAA
TGTACATGGTAAACATTTCTACTCGTATAATGAAAATAGACATAAATGTACAAGTATCGATACTC
Found at i:150055 original size:60 final size:60
Alignment explanation
Indices: 149882--150095 Score: 297
Period size: 60 Copynumber: 3.6 Consensus size: 60
149872 TGTTACTTTC
** * *
149882 TTGAGTCATTTGATTATTAAAAGTTACAAAATGGT-CCCCACCTACAAGACATTGTTTTG
1 TTGAGTCATCCGACTATTAAAAGTTACAAAATGGTCCCCCAACTACAAGACATTGTTTTG
* * * *
149941 TTGAGTCCTCCG-CTATTAAAAGTTACAAAATGGTCTCCCGACTACAATACATTGTTTTG
1 TTGAGTCATCCGACTATTAAAAGTTACAAAATGGTCCCCCAACTACAAGACATTGTTTTG
* ** *
150000 TTGAGTCATCCGACTATTAAAAGTTACATAATGGTCCCCCAACTATTAGAAATTGTTTTG
1 TTGAGTCATCCGACTATTAAAAGTTACAAAATGGTCCCCCAACTACAAGACATTGTTTTG
*
150060 TTGAGTCATCCGACTCTTAAAAGTTACAAAATGGTC
1 TTGAGTCATCCGACTATTAAAAGTTACAAAATGGTC
150096 ACATTGATAT
Statistics
Matches: 135, Mismatches: 18, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
58 21 0.16
59 40 0.30
60 74 0.55
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (60 bp):
TTGAGTCATCCGACTATTAAAAGTTACAAAATGGTCCCCCAACTACAAGACATTGTTTTG
Found at i:150957 original size:6 final size:6
Alignment explanation
Indices: 150938--150987 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
150928 AAAAAATAAT
150938 TATTTA TA--TA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
150984 TATT
1 TATT
150988 CTAATAATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.10
6 38 0.90
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATTTA
Found at i:151259 original size:20 final size:20
Alignment explanation
Indices: 151212--151260 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
151202 ATGTCATAAA
*
151212 ACATATAGCTCAAAATATAG
1 ACATATATCTCAAAATATAG
151232 ACATATATCTCAAAATATAG
1 ACATATATCTCAAAATATAG
151252 ACATATATC
1 ACATATATC
151261 ACCAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (20 bp):
ACATATATCTCAAAATATAG
Found at i:152034 original size:25 final size:25
Alignment explanation
Indices: 152006--152067 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
151996 ATCTAACTTT
* *
152006 AAATCAGATAAATCATTCAGAAGTC
1 AAATCAGATAAATCAGTCACAAGTC
* * **
152031 AAATCAGATTAGTCAGTCACATTTC
1 AAATCAGATAAATCAGTCACAAGTC
152056 AAATCAGATAAA
1 AAATCAGATAAA
152068 ATAGTCATGT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (25 bp):
AAATCAGATAAATCAGTCACAAGTC
Found at i:156557 original size:135 final size:136
Alignment explanation
Indices: 156298--156569 Score: 537
Period size: 135 Copynumber: 2.0 Consensus size: 136
156288 CAGACGTGTC
156298 ACAGAGCCCTTATGCTAAACTATTATCTCAGCAACAATTATTTTAAGCCCATAATGAATTATTAT
1 ACAGAGCCCTTATGCTAAACTATTATCTCAGCAACAATTATTTTAAGCCCATAATGAATTATTAT
156363 GACTCACTAAACTGCCCGACAGGATTACTAGGTATTCTTAGATGGTTGCTATGGCAATACCTCTG
66 GACTCACTAAACTGCCCGACAGGATTACTAGGTATTCTTAGATGGTTGCTATGGCAATACCTCTG
156428 GGCGTT
131 GGCGTT
156434 ACAGAGCCCTTATGCT-AACTATTATCTCAGCAACAATTATTTTAAGCCCATAATGAATTATTAT
1 ACAGAGCCCTTATGCTAAACTATTATCTCAGCAACAATTATTTTAAGCCCATAATGAATTATTAT
156498 GACTCACTAAACTGCCCGACAGGATTACTAGGTATTCTTAGATGGTTGCTATGGCAATACCTCTG
66 GACTCACTAAACTGCCCGACAGGATTACTAGGTATTCTTAGATGGTTGCTATGGCAATACCTCTG
156563 GGCGTT
131 GGCGTT
156569 A
1 A
156570 ACTATAGACA
Statistics
Matches: 136, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
135 120 0.88
136 16 0.12
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (136 bp):
ACAGAGCCCTTATGCTAAACTATTATCTCAGCAACAATTATTTTAAGCCCATAATGAATTATTAT
GACTCACTAAACTGCCCGACAGGATTACTAGGTATTCTTAGATGGTTGCTATGGCAATACCTCTG
GGCGTT
Found at i:158705 original size:16 final size:16
Alignment explanation
Indices: 158686--158717 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
158676 ACTAAATGTT
158686 GCTATATGCAAATGCG
1 GCTATATGCAAATGCG
158702 GCTATATGCAAATGCG
1 GCTATATGCAAATGCG
158718 AAAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (16 bp):
GCTATATGCAAATGCG
Found at i:166238 original size:21 final size:19
Alignment explanation
Indices: 166200--166245 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
166190 AATTAATTCT
166200 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
166220 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
166241 A-TAAT
1 ACTAAT
166246 GATTCTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:179579 original size:47 final size:46
Alignment explanation
Indices: 179492--179585 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 46
179482 TTTACAAGAG
*
179492 CCTCCAACAAACTTCCAAAGGGTTCGATGCTCCGAAGCAAGCTCAC
1 CCTCCAACAAACTTCCAAAGGGTTCGACGCTCCGAAGCAAGCTCAC
* * * *
179538 CCTCCAAACAAATTTCCAAATGGTTTGACGCTTCC-AGGCAAGCTCAC
1 CCTCC-AACAAACTTCCAAAGGGTTCGACGC-TCCGAAGCAAGCTCAC
179585 C
1 C
179586 ATAAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
46 5 0.12
47 33 0.80
48 3 0.07
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (46 bp):
CCTCCAACAAACTTCCAAAGGGTTCGACGCTCCGAAGCAAGCTCAC
Found at i:179809 original size:47 final size:47
Alignment explanation
Indices: 179589--179928 Score: 204
Period size: 47 Copynumber: 7.2 Consensus size: 47
179579 GCTCACCATA
** * *
179589 AAAGAAATCTCTAAAGGGTTCAATACTCACAAGCGAGCTTG-TCCTCC
1 AAAGAAATCTCTAAAGGGTTCAACGCTCCCAAGCGAGCTCGCT-CTCC
* ** ** * *
179636 AAAGAAACCTCTAAAGGGTTCAACGCTCCCAAGAAAATTCACACTCC
1 AAAGAAATCTCTAAAGGGTTCAACGCTCCCAAGCGAGCTCGCTCTCC
* * * * *
179683 AAAGAAATCTTTAAAGGGCTCAACGCTCCCAAAC-ATGCTCGCCCTCT
1 AAAGAAATCTCTAAAGGGTTCAACGCTCCCAAGCGA-GCTCGCTCTCC
* * * * * *
179730 AAAAAAATCT-TCGAAGGGTTTAAAGCTACCAAGCGAGCTCGCTCTCT
1 AAAGAAATCTCT-AAAGGGTTCAACGCTCCCAAGCGAGCTCGCTCTCC
* * * * * *
179777 AAAGAAATCTCTAGAGGGTTCGACTCTCCCAAGTGAGCTCAAC-CTAC
1 AAAGAAATCTCTAAAGGGTTCAACGCTCCCAAGCGAGCTC-GCTCTCC
* * *** * *
179824 AAAGAAA-CTTTCAAAGGGTTCAATGCTCTTTAGCGAGCTCACCCTCC
1 AAAGAAATCTCT-AAAGGGTTCAACGCTCCCAAGCGAGCTCGCTCTCC
* * * * * * * * *
179871 AAATAAAACTCCAAAGGGTTCAACGTTTCGAAGTGAGCTTGCCCTCC
1 AAAGAAATCTCTAAAGGGTTCAACGCTCCCAAGCGAGCTCGCTCTCC
179918 AAAGAAATCTC
1 AAAGAAATCTC
179929 CAATTGATTC
Statistics
Matches: 219, Mismatches: 65, Indels: 18
0.73 0.22 0.06
Matches are distributed among these distances:
46 7 0.03
47 207 0.95
48 5 0.02
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (47 bp):
AAAGAAATCTCTAAAGGGTTCAACGCTCCCAAGCGAGCTCGCTCTCC
Found at i:179930 original size:47 final size:47
Alignment explanation
Indices: 179858--180028 Score: 144
Period size: 47 Copynumber: 3.6 Consensus size: 47
179848 GCTCTTTAGC
* * * * ** * *
179858 GAGCTCACCCTCCAAATAAAACTCCAAAGGGTTCAACGTTTCGAAGT
1 GAGCTTACCCTCCAAAGAAATCTCCAAAGGATTCAACACTTCCAAGA
* ** **
179905 GAGCTTGCCCTCCAAAGAAATCTCCAATTGATTCGGCACTTCCAAGA
1 GAGCTTACCCTCCAAAGAAATCTCCAAAGGATTCAACACTTCCAAGA
* ** *
179952 GAGCTTACCCTTCAAAGAAATCTCCAAAGGATTCAATGCTTCCAAGC
1 GAGCTTACCCTCCAAAGAAATCTCCAAAGGATTCAACACTTCCAAGA
* * * * *
179999 TAGCTCACCCTCGAAATAAATATCCAAAGG
1 GAGCTTACCCTCCAAAGAAATCTCCAAAGG
180029 GCTTGACTTT
Statistics
Matches: 96, Mismatches: 28, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
47 96 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (47 bp):
GAGCTTACCCTCCAAAGAAATCTCCAAAGGATTCAACACTTCCAAGA
Found at i:180225 original size:63 final size:63
Alignment explanation
Indices: 180074--180364 Score: 271
Period size: 63 Copynumber: 4.7 Consensus size: 63
180064 TAAAAACTCA
* * * * * * *
180074 CAAATTAAAGTGTACTCAC-AAAGAATTGCCACTTT-AAAGTTAAGTGTGCTAAAATATACTCT-
1 CAAATTAAAGTATGCTCACAAAACAATCGCCA-TTTCCAAGTTAAGTGCGCTAAAAAATACT-TG
* *
180136 CAAAATTAAAGTATGCTCATAAAACAACCGCCATTTCCAAGTTAAGTGCGCTAAAAAATACTTG
1 C-AAATTAAAGTATGCTCACAAAACAATCGCCATTTCCAAGTTAAGTGCGCTAAAAAATACTTG
* * * * *
180200 CAAATTAAAGTATGCTTACAAAACAATCACCACTTT-CAAGTTAAGTGAGCTAAGAAATACTCG
1 CAAATTAAAGTATGCTCACAAAACAATCGCCA-TTTCCAAGTTAAGTGCGCTAAAAAATACTTG
* * * * *
180263 CAAATTAAAGTATACTCACAAAACAATCTCCACTTCC-----AAGTGCGCTAAAAGATA-TTCA
1 CAAATTAAAGTATGCTCACAAAACAATCGCCATTTCCAAGTTAAGTGCGCTAAAAAATACTT-G
* *
180321 CAAATTAAAGTATGCTCAC-AAACAATAGTCATTTCCAAGTTAAG
1 CAAATTAAAGTATGCTCACAAAACAATCGCCATTTCCAAGTTAAG
180365 CACACTCAAA
Statistics
Matches: 187, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
57 14 0.07
58 32 0.17
62 6 0.03
63 100 0.53
64 35 0.19
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (63 bp):
CAAATTAAAGTATGCTCACAAAACAATCGCCATTTCCAAGTTAAGTGCGCTAAAAAATACTTG
Found at i:180519 original size:67 final size:68
Alignment explanation
Indices: 180398--180599 Score: 230
Period size: 67 Copynumber: 3.0 Consensus size: 68
180388 GCTAATAAAT
** * ** * *
180398 ATTCACCATTTTAAAGTAAAGTGCACTCACAAATATTTTTCACTTTAAAGTAAAGTGTGCTCACA
1 ATTCACCCCTTTAAAGTAAAGTGCACTCACAAACATTAGTCACCTCAAAGTAAAGTGTGCTCACA
180463 AAC
66 AAC
* * * * *
180466 ATTTA-CCTTTTCAAAGT-AAGTGCGCTCACAAACATTA-TCCACCTCGAAGTAAAGTATGCTCA
1 ATTCACCCCTTT-AAAGTAAAGTGCACTCACAAACATTAGT-CACCTCAAAGTAAAGTGTGCTCA
180528 CAAAC
64 CAAAC
* * *
180533 ATTCACCCCTTTAAAGTAAAGTGCACTCACAAACATTAGTCACTTCAAAGTATAGTGTTCTCACA
1 ATTCACCCCTTTAAAGTAAAGTGCACTCACAAACATTAGTCACCTCAAAGTAAAGTGTGCTCACA
180598 AA
66 AA
180600 AATATACCAC
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
66 1 0.01
67 55 0.49
68 55 0.49
69 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (68 bp):
ATTCACCCCTTTAAAGTAAAGTGCACTCACAAACATTAGTCACCTCAAAGTAAAGTGTGCTCACA
AAC
Found at i:180611 original size:34 final size:33
Alignment explanation
Indices: 180410--180612 Score: 165
Period size: 34 Copynumber: 6.0 Consensus size: 33
180400 TCACCATTTT
** * ** *
180410 AAAGTAAAGTGCACTCACAAATATTTTTCACTTT
1 AAAGTAAAGTGTGCTCACAAACA-TTACCACTTC
**
180444 AAAGTAAAGTGTGCTCACAAACATTTACCTTTTC
1 AAAGTAAAGTGTGCTCACAAACA-TTACCACTTC
* *
180478 AAAGT-AAGTGCGCTCACAAACATTATCCACCTC
1 AAAGTAAAGTGTGCTCACAAACATTA-CCACTTC
* * * *
180511 GAAGTAAAGTATGCTCACAAACATTCACCCCTTT
1 AAAGTAAAGTGTGCTCACAAACATT-ACCACTTC
** *
180545 AAAGTAAAGTGCACTCACAAACATTAGTCACTTC
1 AAAGTAAAGTGTGCTCACAAACATTA-CCACTTC
* * *
180579 AAAGTATAGTGTTCTCACAAAAATATACCACTTC
1 AAAGTAAAGTGTGCTCACAAACAT-TACCACTTC
180613 CAACAAAAGA
Statistics
Matches: 134, Mismatches: 30, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
32 3 0.02
33 25 0.19
34 103 0.77
35 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (33 bp):
AAAGTAAAGTGTGCTCACAAACATTACCACTTC
Found at i:193866 original size:13 final size:13
Alignment explanation
Indices: 193848--193890 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
193838 TTGTCCATGT
*
193848 TAATATTAATATA
1 TAATATTATTATA
*
193861 TAATATTATTATT
1 TAATATTATTATA
193874 TAA-ATTATTTATA
1 TAATATTA-TTATA
193887 TAAT
1 TAAT
193891 TAATTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:205478 original size:178 final size:180
Alignment explanation
Indices: 205118--205480 Score: 667
Period size: 178 Copynumber: 2.0 Consensus size: 180
205108 AGTGGATGAC
205118 GAACTCAAGTAGGTCATAAAGCACGATATGTAACATCCGATTGAGTCAAGTGCCACTACTTTAAA
1 GAACTCAAGTAGGTCA-AAAGCACGATATGTAACATCCGATTGAGTCAAGTGCCACTACTTTAAA
205183 TGAGTAATGGGGCATCCAAATTATGAAGAGATCATATCATTCAATTAAGATTATATTTTTTAAAT
65 TGAGTAATGGGGCATCCAAATTATGAAGAG---A-ATCATTCAATTAAGATTATATTTTTTAAAT
205248 AACAAAGCATGTTTGGGTAGAAATATTATAAAAGCATGTCAGGATAGATACCATG
126 AACAAAGCATGTTTGGGTAGAAATATTATAAAAGCATGTCAGGATAGATACCATG
205303 GAACTCAAGTAGGTC-AAAGCACGATATGTAACATCCGATTGAGTCAAGTGCCACTACTTTAAAT
1 GAACTCAAGTAGGTCAAAAGCACGATATGTAACATCCGATTGAGTCAAGTGCCACTACTTTAAAT
205367 GAGTAATGGGGCATCCAAATTATGAAGAG-ATCATTCAATTAAGATTATATTTTTTAAATAACAA
66 GAGTAATGGGGCATCCAAATTATGAAGAGAATCATTCAATTAAGATTATATTTTTTAAATAACAA
205431 AGCATGTTTGGGTAGAAATATTATAAAAGCATGTCAGGATAGATACCATG
131 AGCATGTTTGGGTAGAAATATTATAAAAGCATGTCAGGATAGATACCATG
205481 TTGGGTAGGA
Statistics
Matches: 178, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
178 85 0.48
183 78 0.44
185 15 0.08
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (180 bp):
GAACTCAAGTAGGTCAAAAGCACGATATGTAACATCCGATTGAGTCAAGTGCCACTACTTTAAAT
GAGTAATGGGGCATCCAAATTATGAAGAGAATCATTCAATTAAGATTATATTTTTTAAATAACAA
AGCATGTTTGGGTAGAAATATTATAAAAGCATGTCAGGATAGATACCATG
Found at i:212363 original size:13 final size:13
Alignment explanation
Indices: 212345--212369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
212335 TATTTTGAAT
212345 TTTTTCAAAATTC
1 TTTTTCAAAATTC
212358 TTTTTCAAAATT
1 TTTTTCAAAATT
212370 TAAAAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTCAAAATTC
Found at i:213829 original size:20 final size:20
Alignment explanation
Indices: 213804--213858 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
213794 TCCAAAATTG
213804 GTAAGTCCTTCGAGCCATCA
1 GTAAGTCCTTCGAGCCATCA
213824 GTAAGTCCTTCGAGCCATCA
1 GTAAGTCCTTCGAGCCATCA
*
213844 GTAAGTCTTTCGAGC
1 GTAAGTCCTTCGAGC
213859 ATGATGCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (20 bp):
GTAAGTCCTTCGAGCCATCA
Found at i:214053 original size:277 final size:276
Alignment explanation
Indices: 213548--214115 Score: 825
Period size: 277 Copynumber: 2.1 Consensus size: 276
213538 TCCAAAATTG
* * ** *
213548 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGACGCTCAAATCCTTCGGGTCGTCTGAA
1 GTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGACGCTCAAATCATTCAAGTCATCTGAA
* **
213613 ACCCTTTCGAGCGAGATGATAAGTTCTTTGGGCCACCGTAAGACCTTTGGGTAGGATGTTTTCAC
66 ACCCTTTCAAGAAAGATGATAAGTTCTTTGGGCCACCGTAAGACCTTTGGGTAGGATGTTTTCAC
* * *
213678 ATGAATTTGAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAGATCAAAT
131 ATGAATTTGAAAAATAAGAAAGTGATTTCCAAAGTTTCTCAATTAGTATTTTCAGAAAATCAAAT
** *
213743 TTTTGAAAAGTAAGAAATTGATTTCCTAAGTTTCTTACCTAGTAAACTATTTCC-AAAATTGGTA
196 TTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACC-AGTAAACTATTTCCAAAAATTGGTA
*
213807 AGTCCTTCGAGCCATCA
260 AGTCCTTCGAGCAATCA
* * * * *
213824 GTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATTTAAGTCATTTGTA
1 GTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGACGCTCAAATCATTCAAGTCATCTGAA
* *
213889 AGCCTTTCAAGAAAGATGATAAGTTCTTTGGGCCATCCGTCAGACCTTTGGGTAGGATGTTTTCA
66 ACCCTTTCAAGAAAGATGATAAGTTCTTTGGGCCA-CCGTAAGACCTTTGGGTAGGATGTTTTCA
* * *
213954 CATGAATTTGAAAAATAAGAAAGTGATTTCCAAATTTTCTCAATTAGTATTTTCTGAAAATGAAA
130 CATGAATTTGAAAAATAAGAAAGTGATTTCCAAAGTTTCTCAATTAGTATTTTCAGAAAATCAAA
* *
214019 CTTTTT-AAAAGTAAGAAAGCGATTTTCAAAGTTTCTTACCAGTAAACTATTTCCAAAAATTTGT
195 -TTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCAGTAAACTATTTCCAAAAATTGGT
*
214083 AAGTCCTTCGGGCAATCA
259 AAGTCCTTCGAGCAATCA
* *
214101 TTAAGTCTTTCGAGC
1 GTAAGTCCTTCGAGC
214116 ATGATGATTA
Statistics
Matches: 259, Mismatches: 30, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
276 100 0.39
277 154 0.59
278 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (276 bp):
GTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGACGCTCAAATCATTCAAGTCATCTGAA
ACCCTTTCAAGAAAGATGATAAGTTCTTTGGGCCACCGTAAGACCTTTGGGTAGGATGTTTTCAC
ATGAATTTGAAAAATAAGAAAGTGATTTCCAAAGTTTCTCAATTAGTATTTTCAGAAAATCAAAT
TTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCAGTAAACTATTTCCAAAAATTGGTAA
GTCCTTCGAGCAATCA
Found at i:214107 original size:20 final size:21
Alignment explanation
Indices: 214082--214136 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
214072 CAAAAATTTG
214082 TAAGTCCTTCGGGCA-ATCAT
1 TAAGTCCTTCGGGCAGATCAT
* * *
214102 TAAGTCTTTCGAGCATGATGAT
1 TAAGTCCTTCGGGCA-GATCAT
*
214124 TAAATCCTTCGGG
1 TAAGTCCTTCGGG
214137 TCATCTTTCT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 13 0.48
22 14 0.52
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (21 bp):
TAAGTCCTTCGGGCAGATCAT
Found at i:214151 original size:42 final size:41
Alignment explanation
Indices: 214105--214183 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
214095 CAATCATTAA
* * *
214105 GTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTTTCT
1 GTCTTTCGAGCAAGATGA-TAAATCCTTCAGGCCATCTTTCT
* *
214147 GTCTTTTGAGCAAGATGATAAGTCCTTCAGGCCATCT
1 GTCTTTCGAGCAAGATGATAAATCCTTCAGGCCATCT
214184 ATAAGACCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 16 0.50
42 16 0.50
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (41 bp):
GTCTTTCGAGCAAGATGATAAATCCTTCAGGCCATCTTTCT
Found at i:214378 original size:258 final size:257
Alignment explanation
Indices: 213824--214736 Score: 876
Period size: 257 Copynumber: 3.7 Consensus size: 257
213814 CGAGCCATCA
* * * * ***
213824 GTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATTTAAGTCAT-TTGT
1 GTAAGTCCTTCGGGCCAT-TGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTT-T
* * * * * * * * *
213888 AAGCCTTTCAAGAAAGATGATAAGTTCTTTGGGCCATCCGTCAGACCTTTGGGTAGGATGTTTTC
64 AAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTCGGTAAGATGTTTCC
* * * * * **
213953 ACATGAATTTGAAAAATAAGAAAGTGATTTCCAAATTTTCTCAATT-AGTATTTTCTGAAAATGA
129 ACATGAATTTAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCAATTAAATATTTTCAAAAAATGA
* *
214017 AACTTTTTAAAAGTAAGAAAGCGATTTTCAAAGTTTCTTACC-AGTAAACTATTTCCAAAAATTT
194 AATTTTTTAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCC-AAAATTT
*
214081 GTAAGTCCTTCGGGCAATCAT-TAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTTT
1 GTAAGTCCTTCGGGCCAT--TGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTTT
** * * * *
214145 CTGTCTTTTGAGCAAGATGATAAGTCCTTCAGGCCATCTATAAGACC-TTCGGTCAAGATGTTTC
64 AAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTCGGT-AAGATGTTTC
* *
214209 CACATGATTTTCAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCAAAAAAT
128 CACATGAATTT-AAAAAATGAGAAAGCGATTTCCAAAGTTTCTCAATTAAATATTTTCAAAAAAT
* * * * *
214274 GAAATTTTTTTAAAGTAAGAAAGCGACTTCCAAAGGTTGTT-CCTAGTAAATTATTTCCAAAATT
192 GAAATTTTTTAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATT
*
214338 A
257 T
* **
214339 CTAAGTCCTTCGGGCCATTTGTAAGTCTTTCGAGCATGATGATTAAATTGTTCGGGTCA----T-
1 GTAAGTCCTTCGGGCCA-TTGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTTTA
* * *
214399 ---C-TT---------T--T-AGTCTTTCGGGCCATCTATAAGACC-TTCGGGCAAGATGTTTCC
65 AGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTC-GGTAAGATGTTTCC
* * * *
214447 ACATGATTTTCGAAAAAT-AAAAAGCGATTTCCAAAGTTTCTCAATTAAATCTTTTCAAAAAATG
129 ACATGAATTT-AAAAAATGAGAAAGCGATTTCCAAAGTTTCTCAATTAAATATTTTCAAAAAATG
* * *
214511 AAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAACTATTTCCAAAATTT
193 AAATTTTTTAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTT
* * * * *
214576 GTAAGACCAT-----CA--GTAAATCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
1 GTAAGTCCTTCGGGCCATTGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTTTAA
* * * * * *
214634 GCCTTTCGAGCGATATGATAAGTCCTTCGGGCCA-CCGTAAGACCTTTGGGTAGGATGTTTTCAC
66 GCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTCGGTAAGATGTTTCCAC
*
214698 ATGAATTTAAAAAATGAGAAAGTC-TTTTCCAAAGTTTCT
131 ATGAATTTAAAAAATGAGAAAG-CGATTTCCAAAGTTTCT
214737 TACCTAGTAA
Statistics
Matches: 543, Mismatches: 79, Indels: 76
0.78 0.11 0.11
Matches are distributed among these distances:
229 35 0.06
232 2 0.00
233 1 0.00
236 77 0.14
237 83 0.15
238 5 0.01
240 1 0.00
247 1 0.00
248 6 0.01
249 50 0.09
250 17 0.03
254 1 0.00
256 5 0.01
257 105 0.19
258 92 0.17
259 62 0.11
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (257 bp):
GTAAGTCCTTCGGGCCATTGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTTTAA
GCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTCGGTAAGATGTTTCCAC
ATGAATTTAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCAATTAAATATTTTCAAAAAATGAAA
TTTTTTAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTT
Found at i:214761 original size:187 final size:189
Alignment explanation
Indices: 214527--214932 Score: 555
Period size: 195 Copynumber: 2.1 Consensus size: 189
214517 TTGAAAAGTA
* *
214527 AGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAACTATTTCCAAAATTTGTAA-GACCATCAGTA
1 AGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAACGACCATCAGTA
* * * * * * *
214591 AATCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCGATATGATAAG
66 AATCTTTCAAGCATGATGCTTAAATCATTCGAGTCATCTATAACCCTTTCAAGCGAGATGATAAG
*
214656 TCCTTCGGGCCA-CCGTAAGACCTTTGGGTAGGATGTTTTCACATGAATTTAAAAAATG
131 TCCTTCGGGCAATCCGTAAGACCTTTGGGTAGGATGTTTTCACATGAATTTAAAAAATG
** * *
214714 AGAAAGTCTTTTCCAAAGTTTCTTACCTAGTAAACTATTTTCAAAATTGGTAAGTCCTTCGGGCC
1 AGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAA------C-GACC
* *
214779 ATCAGTAAGTCTTTCAAGCATGATGCTTAAATCATTTGAGTCATCTATAACCCTTTCAAGCGAGA
59 ATCAGTAAATCTTTCAAGCATGATGCTTAAATCATTCGAGTCATCTATAACCCTTTCAAGCGAGA
* * *
214844 TGATAAGTTCTTCGGGCAATCCGTAAGACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAATT
124 TGATAAGTCCTTCGGGCAATCCGTAAGACCTTTGGGTAGGATGTTTTCACATGAATTTAAAAAAT
214909 G
189 G
*
214910 AGAAAGGGATTTCCAAAGTTTCT
1 AGAAAGTGATTTCCAAAGTTTCT
214933 CAATTAGTAT
Statistics
Matches: 188, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
187 48 0.26
195 76 0.40
196 64 0.34
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (189 bp):
AGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAACGACCATCAGTA
AATCTTTCAAGCATGATGCTTAAATCATTCGAGTCATCTATAACCCTTTCAAGCGAGATGATAAG
TCCTTCGGGCAATCCGTAAGACCTTTGGGTAGGATGTTTTCACATGAATTTAAAAAATG
Found at i:215491 original size:259 final size:260
Alignment explanation
Indices: 214714--215639 Score: 1179
Period size: 258 Copynumber: 3.6 Consensus size: 260
214704 TTAAAAAATG
** * * *
214714 AGAAAGTCTTTTCCAAAGTTTCTTACCTAGTAAACTATTTTCAAAATTGGTAAGTCCTTCGGGCC
1 AGAAAGTAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCC
* * * * * * ** *
214779 ATCAGTAAGTCTTTCAAGCATGATGCTTAAATCATTTGAGTCATCTATAACCCTTTCAAGCGAGA
66 ATCAGTAAGTCTTTCGAGAATGATGATTAAATCCTTCGAGTCATCTTTAAGTCTTTCAAGCAAGA
* ** * * *
214844 TGATAAGT-TCTTCGGGCAATCCGTAAGACCTTTGGGTAGGATGTTTTCACATGAA-TTT-G-AA
131 TGATAAGTCT-TTCGGGCCATCTATAAGACCTTAGGGCAGGATGTTTCCACAT-AATTTTCGAAA
* * * * * *
214905 AATTGAGAAAGGGATTTCCAAAGTTTCTCAATT-AGTATTTTCTGAAAATGAAATTTTTGAAAAG
194 AAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCAGAAAATGAAATTTTTGAAAAG
214969 TA
259 TA
* * * *
214971 TGAAAGTTATTTCCAAAGTTTCTTACCCAGTAAACTATTTCAAAAAATTTGTAAGTCCTTCGGGG
1 AGAAAGTAATTTCCAAAGTTTCTTACCCAGTAAACTATTTC-CAAAATTTGTAAGTCCTTCGGGC
* * *
215036 CATCATTAAGTCTTTCGA-ACATGATGATTAAATCCTTCAAGTCATCTTTCAA-TCTTTCGAGCA
65 CATCAGTAAGTCTTTCGAGA-ATGATGATTAAATCCTTCGAGTCATCTTT-AAGTCTTTCAAGCA
* * * *
215099 AGATGATAAGTCCTTCGGGCCATCTATAAGACCTTATGTCAGGATGTTTCCACATGATTTTC-AA
128 AGATGATAAGTCTTTCGGGCCATCTATAAGACCTTAGGGCAGGATGTTTCCACATAATTTTCGAA
215163 AAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCAGAAAATGAAATTTTTGAAAA
193 AAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCAGAAAATGAAATTTTTGAAAA
215228 GTA
258 GTA
* * * ** *
215231 AGAAAGCAACTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTACTAAGTCCTT-TGGCC
1 AGAAAGTAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCC
* * * * * * *
215295 ATTAGTAAGTCTTTTGAGAATGATGATTAAATCGTTTGGGTCATCTTTGAGTCTTTCGAGCAAGA
66 ATCAGTAAGTCTTTCGAGAATGATGATTAAATCCTTCGAGTCATCTTTAAGTCTTTCAAGCAAGA
*
215360 TGATAAGTCTTTCGGGCCATCTATAAGACCTTCGGGCAGGATGTTTCCACATAATTTTCGAAAAA
131 TGATAAGTCTTTCGGGCCATCTATAAGACCTTAGGGCAGGATGTTTCCACATAATTTTCGAAAAA
*
215425 ATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCAGAAAATGAATTTTTTGAAAAGTA
196 ATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCAGAAAATGAAATTTTTGAAAAGTA
* * * *
215490 AGAAAGTGATTTCCAAATTTTCTTACCCAATAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCT
1 AGAAAGTAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCC
* * * * *
215555 ATCAGTAACTCTTTCGAGCATGATGCTTAAATCCTTCGAGTTATCTTTAAGTCTTTTAAGCAAGA
66 ATCAGTAAGTCTTTCGAGAATGATGATTAAATCCTTCGAGTCATCTTTAAGTCTTTCAAGCAAGA
*
215620 TGATAAGTC-CTCGGGCCATC
131 TGATAAGTCTTTCGGGCCATC
215640 GGTAAGTCTT
Statistics
Matches: 575, Mismatches: 82, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
257 38 0.07
258 226 0.39
259 180 0.31
260 131 0.23
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (260 bp):
AGAAAGTAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCC
ATCAGTAAGTCTTTCGAGAATGATGATTAAATCCTTCGAGTCATCTTTAAGTCTTTCAAGCAAGA
TGATAAGTCTTTCGGGCCATCTATAAGACCTTAGGGCAGGATGTTTCCACATAATTTTCGAAAAA
ATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCAGAAAATGAAATTTTTGAAAAGTA
Found at i:216413 original size:33 final size:32
Alignment explanation
Indices: 216358--216426 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
216348 CCTTTACAAC
*
216358 TCCCTAGTTTTTACGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTCACGGGCTAAACTAGAACCTT
*
216390 TCCCTAGCTTTTCACGGGTTAAACTAGAACCTT
1 TCCCTAG-TTTTCACGGGCTAAACTAGAACCTT
216423 TCCC
1 TCCC
216427 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTCACGGGCTAAACTAGAACCTT
Found at i:216861 original size:19 final size:19
Alignment explanation
Indices: 216837--216873 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
216827 ACTTTGCACT
216837 ATGGTATCGGTACCCTTTC
1 ATGGTATCGGTACCCTTTC
216856 ATGGTATCGGTACCCTTT
1 ATGGTATCGGTACCCTTT
216874 TTGCATTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (19 bp):
ATGGTATCGGTACCCTTTC
Found at i:216919 original size:22 final size:22
Alignment explanation
Indices: 216894--216972 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
216884 TGTTTGAGCC
*
216894 TTCATAGGGGTATTGATACTCA
1 TTCATAGGGGTATTGATACCCA
* *
216916 TTCATAGGGGTATCGGTACCCA
1 TTCATAGGGGTATTGATACCCA
216938 TTCATAGGGGTATTGATACCCA
1 TTCATAGGGGTATTGATACCCA
216960 TTCATAGGGGTAT
1 TTCATAGGGGTAT
216973 CGGTACCTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (22 bp):
TTCATAGGGGTATTGATACCCA
Found at i:216944 original size:44 final size:44
Alignment explanation
Indices: 216894--216979 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
216884 TGTTTGAGCC
*
216894 TTCATAGGGGTATTGATACTCATTCATAGGGGTATCGGTACCCA
1 TTCATAGGGGTATTGATACCCATTCATAGGGGTATCGGTACCCA
216938 TTCATAGGGGTATTGATACCCATTCATAGGGGTATCGGTACC
1 TTCATAGGGGTATTGATACCCATTCATAGGGGTATCGGTACC
216980 TCTTAATATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (44 bp):
TTCATAGGGGTATTGATACCCATTCATAGGGGTATCGGTACCCA
Found at i:217237 original size:18 final size:18
Alignment explanation
Indices: 217190--217247 Score: 80
Period size: 18 Copynumber: 3.1 Consensus size: 18
217180 ATGTTTAATG
*
217190 AAAAAGATACTAATTGTTT
1 AAAAAGATACCAATTG-TT
217209 ACAAAAGGATACCAATTGTT
1 A-AAAA-GATACCAATTGTT
217229 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
217247 A
1 A
217248 CCAATTGGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 14 0.39
19 5 0.14
20 7 0.19
21 10 0.28
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.29
Consensus pattern (18 bp):
AAAAAGATACCAATTGTT
Found at i:220391 original size:19 final size:19
Alignment explanation
Indices: 220355--220391 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
220345 ACTTTGCACT
*
220355 ATGGTATCGATACGCTTTC
1 ATGGTATCGATACCCTTTC
*
220374 ATGGTATCGGTACCCTTT
1 ATGGTATCGATACCCTTT
220392 TTGCATTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (19 bp):
ATGGTATCGATACCCTTTC
Found at i:220491 original size:22 final size:22
Alignment explanation
Indices: 220412--220490 Score: 124
Period size: 22 Copynumber: 3.6 Consensus size: 22
220402 TGTTTGAGCC
*
220412 TTCATAGGGGTATTGATACACA
1 TTCATAGGGGTATTGATACCCA
220434 TTCATAGGGGTATTGATACCCA
1 TTCATAGGGGTATTGATACCCA
*
220456 TTCATAGGGGTA-TCAGTACCCA
1 TTCATAGGGGTATTGA-TACCCA
220478 TTCATAGGGGTAT
1 TTCATAGGGGTAT
220491 CGGTACCTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
21 2 0.04
22 51 0.96
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (22 bp):
TTCATAGGGGTATTGATACCCA
Found at i:221643 original size:29 final size:29
Alignment explanation
Indices: 221605--221794 Score: 158
Period size: 29 Copynumber: 6.6 Consensus size: 29
221595 AATTAAATAT
** *
221605 TTTTTATAAATTACATTTAAGGACAAATA
1 TTTTTATAAATTACAAATAAGGACAAATC
221634 TTTTTATAAATTA-AAATAATGGACAAATC
1 TTTTTATAAATTACAAATAA-GGACAAATC
* * *
221663 TTTTT-TAAAATTA-TAATAGAAGATAAATC
1 TTTTTAT-AAATTACAAATA-AGGACAAATC
*
221692 TTCTTATAAATTAC-AATAAAGGACAAATC
1 TTTTTATAAATTACAAAT-AAGGACAAATC
* * **
221721 CTTTTATAATTTA-AAATATAAAACAAATC
1 TTTTTATAAATTACAAATA-AGGACAAATC
* *
221750 TTTTTATAAATTA-AAATAATGACATATAC
1 TTTTTATAAATTACAAATAAGGACAAAT-C
*
221779 TTTTTACAAATTACAA
1 TTTTTATAAATTACAA
221795 TAATAACTCA
Statistics
Matches: 131, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
28 12 0.09
29 114 0.87
30 5 0.04
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (29 bp):
TTTTTATAAATTACAAATAAGGACAAATC
Found at i:221699 original size:58 final size:58
Alignment explanation
Indices: 221627--221796 Score: 182
Period size: 58 Copynumber: 2.9 Consensus size: 58
221617 ACATTTAAGG
* * * *
221627 ACAAATATTTTTATAAATTAAAATAATGGACAAATCTTTTTTA-AAATTATAATAGAAG
1 ACAAATCTTCTTATAAATTAAAATAATGGACAAATC-TTTTTACAAATTAAAATAGAAA
* * * * * * *
221685 ATAAATCTTCTTATAAATTACAATAAAGGACAAATCCTTTTATAATTTAAAATATAAA
1 ACAAATCTTCTTATAAATTAAAATAATGGACAAATCTTTTTACAAATTAAAATAGAAA
* * *
221743 ACAAATCTTTTTATAAATTAAAATAAT-GACATATACTTTTTACAAATTACAATA
1 ACAAATCTTCTTATAAATTAAAATAATGGACAAAT-CTTTTTACAAATTAAAATA
221797 ATAACTCATA
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
57 11 0.12
58 80 0.88
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (58 bp):
ACAAATCTTCTTATAAATTAAAATAATGGACAAATCTTTTTACAAATTAAAATAGAAA
Found at i:221790 original size:87 final size:87
Alignment explanation
Indices: 221605--221797 Score: 221
Period size: 87 Copynumber: 2.2 Consensus size: 87
221595 AATTAAATAT
* * * **
221605 TTTTTATAAATTACATTTAAGGACAAATATTTTTATAAATTAAAATAATGGACAAATCTTTTTTA
1 TTTTTATAAATTACAATAAAGGACAAATACTTTTATAAATTAAAATAATAAACAAATCTTTTTTA
* *
221670 AAATTATAATAGAAGATAAATC
66 AAATTAAAATAGAAGACAAATC
* * *
221692 TTCTTATAAATTACAATAAAGGACAAATCCTTTTATAATTTAAAAT-ATAAAACAAATC-TTTTT
1 TTTTTATAAATTACAATAAAGGACAAATACTTTTATAAATTAAAATAAT-AAACAAATCTTTTTT
* *
221755 ATAAATTAAAATA-ATGACATATAC
65 A-AAATTAAAATAGAAGACAAAT-C
*
221779 TTTTTACAAATTACAATAA
1 TTTTTATAAATTACAATAA
221798 TAACTCATAT
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
86 14 0.16
87 75 0.84
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (87 bp):
TTTTTATAAATTACAATAAAGGACAAATACTTTTATAAATTAAAATAATAAACAAATCTTTTTTA
AAATTAAAATAGAAGACAAATC
Found at i:221796 original size:29 final size:29
Alignment explanation
Indices: 221749--221814 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
221739 TAAAACAAAT
* *
221749 CTTTTTATAAATTAAAATAATGACAT-ATA
1 CTTTTTACAAATTAAAATAATAAC-TCATA
*
221778 CTTTTTACAAATTACAATAATAACTCATA
1 CTTTTTACAAATTAAAATAATAACTCATA
221807 -TTTTTACA
1 CTTTTTACA
221815 TTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (29 bp):
CTTTTTACAAATTAAAATAATAACTCATA
Found at i:221820 original size:28 final size:28
Alignment explanation
Indices: 221774--221843 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
221764 AATAATGACA
* *
221774 TATACTTTTTACAAATTACAATAATAA-C
1 TATA-TTTTTACAAATTACAAAAACAACC
**
221802 TCATATTTTTACATTTTACAAAAACAACC
1 T-ATATTTTTACAAATTACAAAAACAACC
221831 TATATTTTTACAA
1 TATATTTTTACAA
221844 TCACTACATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 30 0.86
29 5 0.14
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (28 bp):
TATATTTTTACAAATTACAAAAACAACC
Found at i:222734 original size:24 final size:24
Alignment explanation
Indices: 222707--222782 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
222697 TATATCAAAA
222707 ATCAAAACATAAAT-CAGGTCAAGT
1 ATCAAAACA-AAATCCAGGTCAAGT
* *
222731 ATCATATCAAAATCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * * *
222755 ATCAGATCAGAATCCAAGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
222779 ATCA
1 ATCA
222783 GATCAGAATC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.09
24 42 0.91
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:222783 original size:24 final size:24
Alignment explanation
Indices: 222724--222839 Score: 171
Period size: 24 Copynumber: 4.8 Consensus size: 24
222714 CATAAATCAG
* * *
222724 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAGAATCCAT
*
222748 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
*
222772 GTCAAGTATCAGATCAGAATCTAT
1 GTCAAGTATCAGATCAGAATCCAT
222796 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
222820 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
222840 TCAAATCGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:224403 original size:27 final size:27
Alignment explanation
Indices: 224373--224430 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
224363 AATTCTTGTC
* * *
224373 ATTTTACTACATAGGGGTATTTTCATA
1 ATTTTACCACATAGGAGTATTCTCATA
* *
224400 ATTTTACCATATCGGAGTATTCTCATA
1 ATTTTACCACATAGGAGTATTCTCATA
224427 ATTT
1 ATTT
224431 CTCATCCAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (27 bp):
ATTTTACCACATAGGAGTATTCTCATA
Found at i:225108 original size:15 final size:15
Alignment explanation
Indices: 225088--225134 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
225078 GGTCAACGCC
225088 GGTCAACGGTCAATG
1 GGTCAACGGTCAATG
*
225103 GGTCAACGGTCAACG
1 GGTCAACGGTCAATG
*
225118 GGTC--GGGTCAATG
1 GGTCAACGGTCAATG
225131 GGTC
1 GGTC
225135 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 11 0.38
15 18 0.62
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.19
Consensus pattern (15 bp):
GGTCAACGGTCAATG
Found at i:225139 original size:18 final size:18
Alignment explanation
Indices: 225116--225161 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
225106 CAACGGTCAA
*
225116 CGGGTCGGGTCAATGGGT
1 CGGGTCGGGTCAACGGGT
225134 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
225152 CGGGTCGGGT
1 CGGGTCGGGT
225162 TGTGACCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.09, C:0.20, G:0.52, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Done.