Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007775.1 Hibiscus syriacus cultivar Beakdansim tig00110056_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: 599510
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:2484 original size:60 final size:60
Alignment explanation
Indices: 2405--2547 Score: 236
Period size: 58 Copynumber: 2.4 Consensus size: 60
2395 TCGAATGACA
* * *
2405 ATTTTTTAACTTTTAATAGTCGAGAAACTCAACAAAATAACTTCATATAGTTGAGAGATT
1 ATTTTATAATTTTTAATAGTCGAGAAACTCAACAAAACAACTTCATATAGTTGAGAGATT
*
2465 ATTTTATAATTTTTAATAGTCG-G-AACTCAACAAAACAACTTCATATAGTTGAGGGATT
1 ATTTTATAATTTTTAATAGTCGAGAAACTCAACAAAACAACTTCATATAGTTGAGAGATT
2523 ATTTTATAATTTTTAATAGTCGAGA
1 ATTTTATAATTTTTAATAGTCGAGA
2548 CTCAATAAAG
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
58 55 0.71
59 2 0.03
60 20 0.26
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (60 bp):
ATTTTATAATTTTTAATAGTCGAGAAACTCAACAAAACAACTTCATATAGTTGAGAGATT
Found at i:11505 original size:20 final size:20
Alignment explanation
Indices: 11482--11532 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
11472 TAAGGAATGT
11482 ACCGATGCACTAAAGAGTGC
1 ACCGATGCACTAAAGAGTGC
11502 ACCGATGCACTAAAGAGTGC
1 ACCGATGCACTAAAGAGTGC
11522 ACCGATGCACT
1 ACCGATGCACT
11533 TCAAAGGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (20 bp):
ACCGATGCACTAAAGAGTGC
Found at i:12263 original size:22 final size:22
Alignment explanation
Indices: 12240--12320 Score: 135
Period size: 22 Copynumber: 3.7 Consensus size: 22
12230 GGATATATAG
* *
12240 TGGTCATTCGGGACATATACAG
1 TGGTCCTTCGGGACATATACAA
12262 TGGTCCTTCGGGACATATACAA
1 TGGTCCTTCGGGACATATACAA
12284 TGGTCCTTCGGGACATATACAA
1 TGGTCCTTCGGGACATATACAA
*
12306 TGGTCTTTCGGGACA
1 TGGTCCTTCGGGACA
12321 AATTTCATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (22 bp):
TGGTCCTTCGGGACATATACAA
Found at i:17609 original size:32 final size:32
Alignment explanation
Indices: 17567--17630 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
17557 GTTGTCCTTC
*
17567 GGTAATCGAAAACACAACCAGGGTAATCTCAA
1 GGTAACCGAAAACACAACCAGGGTAATCTCAA
**
17599 GGTAACCGAAAACACAGTCAGGGTAATCTCAA
1 GGTAACCGAAAACACAACCAGGGTAATCTCAA
17631 CCCACTCGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (32 bp):
GGTAACCGAAAACACAACCAGGGTAATCTCAA
Found at i:27873 original size:2 final size:2
Alignment explanation
Indices: 27866--27892 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27856 ATTATTTACT
27866 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
27893 TACATTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29620 original size:30 final size:30
Alignment explanation
Indices: 29515--29740 Score: 190
Period size: 30 Copynumber: 7.6 Consensus size: 30
29505 TCCCTTAAGT
* * **
29515 TTTTTTGCTATTTTAGTCCTTTGAATGACTA
1 TTTTTT-CTATTTTAGTCCCTTAAATTTCTA
* *
29546 -TTTTACTATTTTAGTCCCTTAAGTTTCTA
1 TTTTTTCTATTTTAGTCCCTTAAATTTCTA
* * * * *
29575 TTTTGT-GAATTTAGTCTCTTAAATGTCTA
1 TTTTTTCTATTTTAGTCCCTTAAATTTCTA
*
29604 TTTTTTCTATTTTAGTCCTTTAAATTTCTA
1 TTTTTTCTATTTTAGTCCCTTAAATTTCTA
* * * * **
29634 TGTATGCTATTTTAATCCCTTATGTTT-TA
1 TTTTTTCTATTTTAGTCCCTTAAATTTCTA
* * *
29663 GTTTTGCTATTTTAGTCCCTTCAATTTCTA
1 TTTTTTCTATTTTAGTCCCTTAAATTTCTA
* *
29693 TTTTTGCTATTTTAGTCCCTTAAGTTTCT-
1 TTTTTTCTATTTTAGTCCCTTAAATTTCTA
*
29722 TTTTTTGCTATTTTGGTCC
1 TTTTTT-CTATTTTAGTCC
29741 TTTTAAATAG
Statistics
Matches: 153, Mismatches: 38, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
29 69 0.45
30 84 0.55
ACGTcount: A:0.18, C:0.15, G:0.10, T:0.57
Consensus pattern (30 bp):
TTTTTTCTATTTTAGTCCCTTAAATTTCTA
Found at i:29634 original size:59 final size:59
Alignment explanation
Indices: 29499--29740 Score: 189
Period size: 59 Copynumber: 4.2 Consensus size: 59
29489 TTGATTTATG
* * * * *
29499 TTTTAGTCCCTT-AAGTT-T-TTTTGCT-ATTTTAGTCCTTTGAATGACTA-TTTTACTA
1 TTTTAGTCCCTTAAATTTCTATTTTG-TGATTTTAGTCCCTTAAATGTCTATTTTTTCTA
* * *
29554 TTTTAGTCCCTTAAGTTTCTATTTTGTGAATTTAGTCTCTTAAATGTCTATTTTTTCTA
1 TTTTAGTCCCTTAAATTTCTATTTTGTGATTTTAGTCCCTTAAATGTCTATTTTTTCTA
* * * * * *
29613 TTTTAGTCCTTTAAATTTCTATGTATGCT-ATTTTAATCCCTT--ATGTTTTAGTTTTGCTA
1 TTTTAGTCCCTTAAATTTCTAT-TTTG-TGATTTTAGTCCCTTAAATG-TCTATTTTTTCTA
* * *
29672 TTTTAGTCCCTTCAATTTCTATTTT-TGCTATTTTAGTCCCTTAAGTTTCT-TTTTTTGCTA
1 TTTTAGTCCCTTAAATTTCTATTTTGTG--ATTTTAGTCCCTTAAATGTCTATTTTTT-CTA
*
29732 TTTTGGTCC
1 TTTTAGTCC
29741 TTTTAAATAG
Statistics
Matches: 146, Mismatches: 27, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
55 12 0.08
56 4 0.03
57 2 0.01
58 27 0.18
59 73 0.50
60 26 0.18
61 2 0.01
ACGTcount: A:0.18, C:0.15, G:0.10, T:0.56
Consensus pattern (59 bp):
TTTTAGTCCCTTAAATTTCTATTTTGTGATTTTAGTCCCTTAAATGTCTATTTTTTCTA
Found at i:29654 original size:89 final size:88
Alignment explanation
Indices: 29500--29735 Score: 250
Period size: 89 Copynumber: 2.7 Consensus size: 88
29490 TGATTTATGT
* * ** * *
29500 TTTAGTCCCTT-AA-GT-T-TTTTTGCTATTTTAGTCCTTTGAATGACTATTTTACTATTTTAGT
1 TTTAGTCCCTTAAATGTCTATTTTTTCTATTTTAGTCCTTTAAATTTCTATTTTGCTATTTTAAT
29561 CCCTTAAGTTTCTA-TTTTG-TGAA
66 CCCTTAAGTTT-TAGTTTTGCT-AA
* *
29584 TTTAGTCTCTTAAATGTCTATTTTTTCTATTTTAGTCCTTTAAATTTCTATGTATGCTATTTTAA
1 TTTAGTCCCTTAAATGTCTATTTTTTCTATTTTAGTCCTTTAAATTTCTAT-TTTGCTATTTTAA
* *
29649 TCCCTTATGTTTTAGTTTTGCTAT
65 TCCCTTAAGTTTTAGTTTTGCTAA
* * * * * *
29673 TTTAGTCCCTTCAATTTCTATTTTTGCTATTTTAGTCCCTTAAGTTTCTTTTTTTGCTATTTT
1 TTTAGTCCCTTAAATGTCTATTTTTTCTATTTTAGTCCTTTAAATTTC-TATTTTGCTATTTT
29736 GGTCCTTTTA
Statistics
Matches: 126, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
84 10 0.08
85 2 0.02
86 2 0.02
87 1 0.01
88 29 0.23
89 79 0.63
90 3 0.02
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.57
Consensus pattern (88 bp):
TTTAGTCCCTTAAATGTCTATTTTTTCTATTTTAGTCCTTTAAATTTCTATTTTGCTATTTTAAT
CCCTTAAGTTTTAGTTTTGCTAA
Found at i:32220 original size:37 final size:35
Alignment explanation
Indices: 32072--32521 Score: 313
Period size: 36 Copynumber: 12.6 Consensus size: 35
32062 TATACATATA
* * *
32072 ATATATAATATATAATTTTGAGAACATTTTTCGAAAAT
1 ATATAT-A-ATATAGTTTTGAAAACATTTTT-GAAAAC
32110 ATATATAATATA-TTTT-AAAA-ATTTTT-AAAA-
1 ATATATAATATAGTTTTGAAAACATTTTTGAAAAC
* * *
32140 ATATATATATATGGTTTTAAAAACATTTTTGAAATATAT
1 ATATATA-ATATAGTTTTGAAAACATTTTTG-AA-A-AC
*
32179 ATATATAATATAGTTTTGAAAGCATTTTTTTGAAAAC
1 ATATATAATATAGTTTTGAAAACA--TTTTTGAAAAC
* *
32216 ATATATAATATATAGTTTTAAAAAATATTTTTGAAAAC
1 ATATAT-A-ATATAGTTTT-GAAAACATTTTTGAAAAC
* * * *
32254 ATATA-ATATGTAATTTTGAAAACACTTTTGAAATC
1 ATATATA-ATATAGTTTTGAAAACATTTTTGAAAAC
*
32289 ATATATAATATA-TAATTTAAAAAACATTTTTGAAAAC
1 ATATATAATATAGT--TTT-GAAAACATTTTTGAAAAC
* * *
32326 ATATATATATGTAATTTTGAAAACACTTTTGAAAAC
1 ATATATA-ATATAGTTTTGAAAACATTTTTGAAAAC
*
32362 ATA-ATATTATACCGTTTTGAAAAACATTTTTGAAAAC
1 ATATATAATATA--GTTTTG-AAAACATTTTTGAAAAC
* *
32399 ATATA-ATATATAATTTT--AAATATTTTTGAAAAC
1 ATATATA-ATATAGTTTTGAAAACATTTTTGAAAAC
* *
32432 ATATAT-A-ATAGTTTTTAAAA-ATGTATTTTTAAAA-
1 ATATATAATATAGTTTTGAAAACA--T-TTTTGAAAAC
* ** *
32466 ACATATAATATAGTTTT-TTAATATTTTTGAAAAC
1 ATATATAATATAGTTTTGAAAACATTTTTGAAAAC
*
32500 ATATAGT-ATATAGTTTTTAAAA
1 ATATA-TAATATAGTTTTGAAAA
32522 TGGTTTTTGA
Statistics
Matches: 337, Mismatches: 38, Indels: 77
0.75 0.08 0.17
Matches are distributed among these distances:
30 7 0.02
31 15 0.04
32 6 0.02
33 41 0.12
34 34 0.10
35 44 0.13
36 58 0.17
37 54 0.16
38 48 0.14
39 20 0.06
40 10 0.03
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (35 bp):
ATATATAATATAGTTTTGAAAACATTTTTGAAAAC
Found at i:32292 original size:73 final size:73
Alignment explanation
Indices: 32072--32477 Score: 394
Period size: 73 Copynumber: 5.7 Consensus size: 73
32062 TATACATATA
* * * *
32072 ATATATAATATATAATTTT-GAGAACATTTTTCGAAAATATAT-ATA-ATATATTTT-AAAA-A-
1 ATATATAATATATAGTTTTAAAAAACATTTTT-GAAAACATATAATATATA-ATTTTGAAAACAC
*
32131 TTTTTAAAA-
64 TTTTGAAAAC
* * * *
32140 ATATAT-ATATATGGTTTT-AAAAACATTTTTGAAATATATATATATAATATAGTTTTGAAAGCA
1 ATATATAATATATAGTTTTAAAAAACATTTTTGAAA-ACATATA-AT-ATATAATTTTGAAAACA
*
32203 TTTTTTTGAAAAC
63 --CTTTTGAAAAC
* *
32216 ATATATAATATATAGTTTTAAAAAATATTTTTGAAAACATATAATATGTAATTTTGAAAACACTT
1 ATATATAATATATAGTTTTAAAAAACATTTTTGAAAACATATAATATATAATTTTGAAAACACTT
*
32281 TTGAAATC
66 TTGAAAAC
* *
32289 ATATATAATATATA-ATTTAAAAAACATTTTTGAAAACATATATATATGTAATTTTGAAAACACT
1 ATATATAATATATAGTTTTAAAAAACATTTTTGAAAACATATA-ATATATAATTTTGAAAACACT
32353 TTTGAAAAC
65 TTTGAAAAC
* ** * * *
32362 ATA-ATATTATACCGTTTTGAAAAACATTTTTGAAAACATATAATATATAATTTT--AAATATTT
1 ATATATAATATATAGTTTTAAAAAACATTTTTGAAAACATATAATATATAATTTTGAAAACACTT
32424 TTGAAAAC
66 TTGAAAAC
* ** *
32432 ATATATAATA-GT--TTTTAAAAATGTATTTTTAAAAACATATAATATA
1 ATATATAATATATAGTTTTAAAAA-ACATTTTTGAAAACATATAATATA
32478 GTTTTTTAAT
Statistics
Matches: 288, Mismatches: 33, Indels: 33
0.81 0.09 0.09
Matches are distributed among these distances:
66 4 0.01
67 26 0.09
68 14 0.05
69 23 0.08
70 22 0.08
71 11 0.04
72 45 0.16
73 81 0.28
75 22 0.08
76 8 0.03
77 17 0.06
78 15 0.05
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (73 bp):
ATATATAATATATAGTTTTAAAAAACATTTTTGAAAACATATAATATATAATTTTGAAAACACTT
TTGAAAAC
Found at i:32522 original size:69 final size:68
Alignment explanation
Indices: 32108--32523 Score: 267
Period size: 73 Copynumber: 5.8 Consensus size: 68
32098 TTTTTCGAAA
* * *
32108 ATATATATAATATATTTTAAAAATTTTT-AAAA-ATATATATATATGGTTTTAAAA-ACATTTTT
1 ATATA-AT-ATATATTTTAAATATTTTTGAAAACATATATATATA-GTTTTTAAAATGCATTTTT
* *
32170 GAAATAT
63 -AAAAAC
* *
32177 ATATATATAATATAGTTTTGAAAGCATTTTTTTGAAAACATATATAATATATAGTTTTAAAAAAT
1 ATATA-AT-ATATA-TTTT--AA--ATATTTTTGAAAAC--ATAT-ATATATAGTTTT-TAAAAT
*
32242 --ATTTTTGAAAAC
55 GCATTTTTAAAAAC
* * * * * **
32254 ATATAATATGTAATTTTGAAAACACTTTTGAAATCATATATAATATA-TAATTTAAAAAACATTT
1 ATATAATATAT-ATTTT--AAATATTTTTGAAAACATATAT-ATATAGT-TTTTAAAATGCATTT
*
32318 TTGAAAAC
61 TTAAAAAC
* * * * *
32326 ATATATATATGTAATTTTGAAAACACTTTTGAAAACATA-ATATTATACCGTTTTGAAAA-ACAT
1 ATATA-ATATAT-ATTTT--AAATATTTTTGAAAACATATATA-TATA--GTTTTTAAAATGCAT
*
32389 TTTTGAAAAC
59 TTTTAAAAAC
*
32399 ATATAATATATAATTTTAAATATTTTTGAAAACATATATA-ATAGTTTTTAAAAATGTATTTTTA
1 ATATAATATAT-ATTTTAAATATTTTTGAAAACATATATATATAGTTTTT-AAAATGCATTTTTA
32463 AAAAC
64 AAAAC
*
32468 ATATAATATAGT-TTTTTAATATTTTTGAAAACATATAGTATATAGTTTTTAAAATG
1 ATATAATATA-TATTTTAAATATTTTTGAAAACATATA-TATATAGTTTTTAAAATG
32524 GTTTTTGAAA
Statistics
Matches: 293, Mismatches: 26, Indels: 56
0.78 0.07 0.15
Matches are distributed among these distances:
67 5 0.02
68 28 0.10
69 46 0.16
70 38 0.13
71 15 0.05
72 36 0.12
73 61 0.21
74 12 0.04
75 16 0.05
76 3 0.01
77 8 0.03
78 14 0.05
79 11 0.04
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (68 bp):
ATATAATATATATTTTAAATATTTTTGAAAACATATATATATAGTTTTTAAAATGCATTTTTAAA
AAC
Found at i:32567 original size:11 final size:11
Alignment explanation
Indices: 32548--32610 Score: 64
Period size: 11 Copynumber: 5.9 Consensus size: 11
32538 AATAAATTAA
32548 TATACTATTATT
1 TATA-TATTATT
32560 TATATATTATT
1 TATATATTATT
32571 TATATA-TA--
1 TATATATTATT
32579 TATATA-TATT
1 TATATATTATT
32589 TAT-TATATATT
1 TATATAT-TATT
32600 TATTATATTAT
1 TA-TATATTAT
32611 ATTGTTATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
8 8 0.18
9 2 0.04
10 5 0.11
11 19 0.42
12 8 0.18
13 3 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATT
Found at i:32627 original size:25 final size:24
Alignment explanation
Indices: 32543--32628 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 24
32533 AATACAATAA
*
32543 ATTAATATACTATTAT-TTATATATT
1 ATTAATAT--TATTATATTATATTTT
*
32568 ATTTATA-TA-TATA-TATATATTT
1 ATTAATATTATTATATTATAT-TTT
32590 ATTATATATTTATTATATTATATTGTT
1 ATTA-ATA-TTATTATATTATATT-TT
32617 ATTAATATTATT
1 ATTAATATTATT
32629 TTTCATTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
21 8 0.16
22 7 0.14
23 3 0.06
25 13 0.26
26 8 0.16
27 11 0.22
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (24 bp):
ATTAATATTATTATATTATATTTT
Found at i:35374 original size:165 final size:163
Alignment explanation
Indices: 35095--35412 Score: 593
Period size: 165 Copynumber: 1.9 Consensus size: 163
35085 CTTTTCCTTT
35095 CATTTTTGTTTTCTTTTACTTTATTTTTTATTATTTACATCATTCAAAGAGGTGTTAATTCACAA
1 CATTTTTGTTTTCTTTTACTTTATTTTTTATTATTTACATCATTCAAAGAGGTGTTAATTCACAA
35160 AAATGTTCGTTAACATAGTTAATTTGCATTAATGGACAAAGGGGTTGTAATGCAAAAGG-GAAAA
66 AAATGTTCGTTAACATAGTTAATTTGCATTAATGGACAAAGGGGTTGTAATGCAAAAGGTGAAAA
35224 AAGCAAAGTTTTGACTATGGTTAAGGGAAAAAA
131 AAGCAAAGTTTTGACTATGGTTAAGGGAAAAAA
35257 CATTTTTGTTTTCTTTTACTTTATTTTTTATTATTTACATCATTCAAAAGAGGTGTTAATTCACA
1 CATTTTTGTTTTCTTTTACTTTATTTTTTATTATTTACATCATTC-AAAGAGGTGTTAATTCAC-
35322 AAAACATGTTCGTTAACATAGTTAATTTGCATTAATGGACAAAGGGGTTGTAATGCAAAAGGTGA
64 AAAA-ATGTTCGTTAACATAGTTAATTTGCATTAATGGACAAAGGGGTTGTAATGCAAAAGGTGA
*
35387 AAAACGCAAAGTTTTGACTATGGTTA
128 AAAAAGCAAAGTTTTGACTATGGTTA
35413 GAAAAGACTC
Statistics
Matches: 151, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
162 45 0.30
163 18 0.12
164 4 0.03
165 57 0.38
166 27 0.18
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (163 bp):
CATTTTTGTTTTCTTTTACTTTATTTTTTATTATTTACATCATTCAAAGAGGTGTTAATTCACAA
AAATGTTCGTTAACATAGTTAATTTGCATTAATGGACAAAGGGGTTGTAATGCAAAAGGTGAAAA
AAGCAAAGTTTTGACTATGGTTAAGGGAAAAAA
Found at i:41353 original size:200 final size:200
Alignment explanation
Indices: 40871--41363 Score: 533
Period size: 201 Copynumber: 2.5 Consensus size: 200
40861 CGCAGTATAG
* * * *
40871 CTCAAGGCGAGAAGGGTTATCTATCAA-CAACAACTTTCGAGTTCGGTTCCATTCAGCTCGAGGG
1 CTCAAGGCGAGAAGGGTTATCTGTCAATGAA-AACTTTCGAGTTCGATTCTATTCAGCTCGAGGG
* * * * **
40935 TGTATCAACCACATGGTAGCAGCGAGGAACTATTTTTCGTTTGAAGTTTAAATTAAGGTCTTTAA
65 TATATCAACCACATGGTAGCAGCGAGG-ACTACTTTCCGGTTGAAGTTTAAACCAAGGTCTTTAA
* * * * * *
41000 GTCAAGAAGAAGACCTAGGTTGTAAGCGATTTAGCAACAAAGAACTATCTCCCAACTAAATTTAC
129 GCCAAGAAGAAGACCTAGGTCGGAAGCGATCTAGCAACAAAGAACTACCTCCCAACCAAATTTAC
* **
41065 ATCATGG
194 AGCATAA
* * * **
41072 CTCAAGGCGAGAAGAGTTATCTGTCAATGAAAACTTTTGAGTTCAATT-TCATTCAGCTCGATAG
1 CTCAAGGCGAGAAGGGTTATCTGTCAATGAAAACTTTCGAGTTCGATTCT-ATTCAGCTCGAGGG
* * *
41136 TATATCAGCCACATGGTAGTAGCGAGGACTACTTTCCGGTTGAAGTTTTAAGCCAAGGTCTTTAA
65 TATATCAACCACATGGTAGCAGCGAGGACTACTTTCCGGTTGAAG-TTTAAACCAAGGTCTTTAA
* ** * * * * *
41201 GCCTAGAAGAAGACCTAGGTCGGCTGCTATCTAGCAAC-AAGAACTACCTCTCAGCCGAATTTAT
129 GCCAAGAAGAAGACCTAGGTCGGAAGCGATCTAGCAACAAAGAACTACCTCCCAACCAAATTTAC
41265 AGCATAA
194 AGCATAA
* * * * *
41272 CTCAAGGCGAGAAGGGATATCTGTTAATGAAAACTTTCAAGTTCGATTCTATTCAACTCGAGGGC
1 CTCAAGGCGAGAAGGGTTATCTGTCAATGAAAACTTTCGAGTTCGATTCTATTCAGCTCGAGGGT
*** *
41337 ATATCAATTGCATGGTAGCATCGAGGA
66 ATATCAACCACATGGTAGCAGCGAGGA
41364 AATATCTTCT
Statistics
Matches: 237, Mismatches: 51, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
200 113 0.48
201 122 0.51
202 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (200 bp):
CTCAAGGCGAGAAGGGTTATCTGTCAATGAAAACTTTCGAGTTCGATTCTATTCAGCTCGAGGGT
ATATCAACCACATGGTAGCAGCGAGGACTACTTTCCGGTTGAAGTTTAAACCAAGGTCTTTAAGC
CAAGAAGAAGACCTAGGTCGGAAGCGATCTAGCAACAAAGAACTACCTCCCAACCAAATTTACAG
CATAA
Found at i:42031 original size:37 final size:37
Alignment explanation
Indices: 41802--42223 Score: 371
Period size: 38 Copynumber: 11.2 Consensus size: 37
41792 ATATACATAT
41802 AACATATATAATATATAATTTTGAGAGAACATTTTTTGAATA
1 AACATATATAATATATAATTTTGA-A-AACA-TTTTTG-A-A
* * *
41844 ATATATATATAATATATAGTTTT-AAAA-ATGTTTTTAA
1 A-ACATATATAATATATAATTTTGAAAACAT-TTTTGAA
** *
41881 AA-ATTATATAATATATGGTTTTAAAAACATTTTTGAA
1 AACA-TATATAATATATAATTTTGAAAACATTTTTGAA
* * *
41918 ATATATATATAATATATAGTTTTGAAAGCATTTTTTGAA
1 A-ACATATATAATATATAATTTTGAAAACA-TTTTTGAA
* *
41957 AACATATATAATATATAGTTTTAAAAAACATTTTTGAA
1 AACATATATAATATATAATTTT-GAAAACATTTTTGAA
* * *
41995 AACACATATAATATCTAATTTTGAAAACACTTTTGAA
1 AACATATATAATATATAATTTTGAAAACATTTTTGAA
* *
42032 AACATATATAATATGTAATTTTGAAAACACTTTTGAA
1 AACATATATAATATATAATTTTGAAAACATTTTTGAA
* * * *
42069 AACATATATATTGTACAGTTTTGAAAAACATTTTTGAA
1 AACATATATAATATATAATTTTG-AAAACATTTTTGAA
*
42107 AAC--ATATAATATATAATTTT-AAAATATTTTTGAA
1 AACATATATAATATATAATTTTGAAAACATTTTTGAA
*
42141 AACGTATATATAATATAGT--TTTTGAAAACATATTTTTTTAA
1 AAC--ATATATAATATA-TAATTTTGAAAAC--A-TTTTTGAA
* * * *
42182 AA-ACATATACTATATAGTTTT--AAATATTTTTGAA
1 AACATATATAATATATAATTTTGAAAACATTTTTGAA
42216 AACATATA
1 AACATATA
42224 GTATATAGTT
Statistics
Matches: 322, Mismatches: 36, Indels: 51
0.79 0.09 0.12
Matches are distributed among these distances:
34 25 0.08
35 6 0.02
36 31 0.10
37 87 0.27
38 114 0.35
39 25 0.08
40 3 0.01
41 10 0.03
42 2 0.01
43 19 0.06
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (37 bp):
AACATATATAATATATAATTTTGAAAACATTTTTGAA
Found at i:42184 original size:16 final size:16
Alignment explanation
Indices: 42159--42189 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42149 TATAATATAG
*
42159 TTTTTGAAAACATATT
1 TTTTTAAAAACATATT
42175 TTTTTAAAAACATAT
1 TTTTTAAAAACATAT
42190 ACTATATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (16 bp):
TTTTTAAAAACATATT
Found at i:42298 original size:7 final size:7
Alignment explanation
Indices: 42273--42326 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
42263 TTAGTATACA
42273 TATTATT
1 TATTATT
*
42280 TA-TATA
1 TATTATT
42286 TATTATT
1 TATTATT
42293 TATTATT
1 TATTATT
*
42300 TATTATA
1 TATTATT
42307 TATTTATT
1 TA-TTATT
42315 ATATTATAT
1 -TATTAT-T
42324 TAT
1 TAT
42327 ATTGTTGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 5 0.13
7 20 0.51
8 11 0.28
9 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
TATTATT
Found at i:42327 original size:21 final size:22
Alignment explanation
Indices: 42272--42328 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
42262 TTTAGTATAC
42272 ATATTAT-TTATATATATTATT
1 ATATTATATTATATATATTATT
42293 -TATTAT-TTATTATATATTTATT
1 ATATTATATTA-TATATA-TTATT
42315 ATATTATATTATAT
1 ATATTATATTATAT
42329 TGTTGTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.28
21 6 0.19
22 5 0.16
23 9 0.28
24 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATATTATATTATATATATTATT
Found at i:43660 original size:6 final size:7
Alignment explanation
Indices: 43642--43668 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
43632 CATTTTCTTC
43642 ATTTTTT
1 ATTTTTT
43649 ATTTTTT
1 ATTTTTT
43656 ATTTTTT
1 ATTTTTT
43663 ATTTTT
1 ATTTTT
43669 CTCTTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:48406 original size:34 final size:30
Alignment explanation
Indices: 48368--48436 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
48358 TTGATATAAC
48368 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
48402 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
48431 AATTTA
1 AATTTA
48437 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:48447 original size:29 final size:30
Alignment explanation
Indices: 48377--48436 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
48367 CAATTTAAGG
48377 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
48408 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
48437 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:48542 original size:21 final size:20
Alignment explanation
Indices: 48516--48614 Score: 128
Period size: 21 Copynumber: 4.8 Consensus size: 20
48506 AGGGTGTCAA
48516 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCA-CCCTGC
48537 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCA-CCCTGC
48558 AGTGCATCCATGCA-CCTGCAC
1 AGTGCATCCATGCACCCTG--C
* *
48579 TAGTGCATCGATGCACCATGC
1 -AGTGCATCCATGCACCCTGC
48600 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
48615 TCAAACACCG
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.06
20 14 0.20
21 36 0.51
22 13 0.19
23 3 0.04
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.21
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTGC
Found at i:48550 original size:13 final size:14
Alignment explanation
Indices: 48547--48614 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 14
48537 AGTGCATCCA
*
48547 TGCATCCCTGCA-G
1 TGCATCCATGCACG
*
48560 TGCATCCATGCACC
1 TGCATCCATGCACG
*
48574 TGCA-CTAGTGCATCG
1 TGCATCCA-TGCA-CG
48589 ATGCA-CCATGCA-G
1 -TGCATCCATGCACG
48602 TGCATCCATGCAC
1 TGCATCCATGCAC
48615 TCAAACACCG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
12 4 0.09
13 21 0.48
14 8 0.18
15 5 0.11
16 6 0.14
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (14 bp):
TGCATCCATGCACG
Found at i:50011 original size:19 final size:20
Alignment explanation
Indices: 49987--50034 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
49977 AACGATTTTC
*
49987 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
50006 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
50026 TTTTGAAAA
1 TTTTGAAAA
50035 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:51333 original size:34 final size:30
Alignment explanation
Indices: 51295--51363 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
51285 TTGATATAAC
51295 AATTTAAGGCAAAATGATTTTTGGACTTGAATTG
1 AATTTAA--CAAAATG-TTTTTGGACTT-AATTG
51329 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
51358 AATTTA
1 AATTTA
51364 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 11 0.32
31 7 0.21
33 1 0.03
34 5 0.15
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:51374 original size:29 final size:30
Alignment explanation
Indices: 51304--51363 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
51294 CAATTTAAGG
51304 CAAAATGATTTTTGGACTTGAATTGAATTTA
1 CAAAATG-TTTTTGGACTTGAATTGAATTTA
51335 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
51364 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:51472 original size:21 final size:21
Alignment explanation
Indices: 51443--51500 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
51433 AGGGTGTCAA
*
51443 AGTGTATCCATGCACCCCTAC
1 AGTGCATCCATGCACCCCTAC
* *
51464 AGTGCATCCATACATCCCTAC
1 AGTGCATCCATGCACCCCTAC
51485 AGTGCATCCATGCACC
1 AGTGCATCCATGCACC
51501 TGCACTAGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:51522 original size:22 final size:23
Alignment explanation
Indices: 51485--51527 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
51475 ACATCCCTAC
51485 AGTGCATCCATGCACC-TGCACT
1 AGTGCATCCATGCACCATGCACT
* *
51507 AGTGCATCGATTCACCATGCA
1 AGTGCATCCATGCACCATGCA
51528 TGCATCCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.23
Consensus pattern (23 bp):
AGTGCATCCATGCACCATGCACT
Found at i:52001 original size:34 final size:32
Alignment explanation
Indices: 51962--52031 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
51952 TTTTGTAAAG
* *
51962 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
51996 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
52028 GGGA
1 GGGA
52032 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:52837 original size:14 final size:14
Alignment explanation
Indices: 52818--52845 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52808 TCAGTTGATT
52818 GTGAGAAAGAACAA
1 GTGAGAAAGAACAA
52832 GTGAGAAAGAACAA
1 GTGAGAAAGAACAA
52846 TTCAACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.29, T:0.07
Consensus pattern (14 bp):
GTGAGAAAGAACAA
Found at i:53123 original size:42 final size:42
Alignment explanation
Indices: 53076--53196 Score: 199
Period size: 42 Copynumber: 2.9 Consensus size: 42
53066 GTTAAACCTT
*
53076 TAATAAT-CTGATTGGAAATTCCAATGATTAACCTAATACTTC
1 TAATAATACT-ATTGGAAATTCCAATGATTCACCTAATACTTC
*
53118 TAATAATACTATTGGAAATTTCAATGATTCACCTAATACTTC
1 TAATAATACTATTGGAAATTCCAATGATTCACCTAATACTTC
*
53160 TAATAATCCTATTGGAAATTCCAATGATTCACCTAAT
1 TAATAATACTATTGGAAATTCCAATGATTCACCTAAT
53197 GATTCGGTTG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
42 72 0.97
43 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.36
Consensus pattern (42 bp):
TAATAATACTATTGGAAATTCCAATGATTCACCTAATACTTC
Found at i:56227 original size:2 final size:2
Alignment explanation
Indices: 56214--56247 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
56204 TTTGATGTAA
*
56214 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56248 TGTATTGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:57915 original size:24 final size:24
Alignment explanation
Indices: 57864--57910 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
57854 TAGGGAATGT
*
57864 TTGGTTCATGAAAAGGTCATATTC
1 TTGGTTCATGAAAAGGTAATATTC
*
57888 TTGGTTCATGTAAAGTGTAATAT
1 TTGGTTCATGAAAAG-GTAATAT
57911 GTTGGGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (24 bp):
TTGGTTCATGAAAAGGTAATATTC
Found at i:58589 original size:23 final size:24
Alignment explanation
Indices: 58559--58605 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
58549 ATGGTATCGA
* *
58559 TACTATACATA-TGGTATCGATAC
1 TACTATACAAAGTAGTATCGATAC
58582 TACTATACAAAGTAGTATCGATAC
1 TACTATACAAAGTAGTATCGATAC
58606 CCCTTTAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (24 bp):
TACTATACAAAGTAGTATCGATAC
Found at i:60704 original size:28 final size:29
Alignment explanation
Indices: 60647--60708 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
60637 TGGCTAAGAT
60647 AGAACCAAAAACCTTTACAAAGGATAAAA
1 AGAACCAAAAACCTTTACAAAGGATAAAA
*
60676 AGAACCAAAACCCTTTACAAAGGATAAAA
1 AGAACCAAAAACCTTTACAAAGGATAAAA
60705 AGAA
1 AGAA
60709 GTAAACAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.58, C:0.18, G:0.11, T:0.13
Consensus pattern (29 bp):
AGAACCAAAAACCTTTACAAAGGATAAAA
Found at i:61114 original size:18 final size:18
Alignment explanation
Indices: 61091--61137 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
61081 ATACAAAGTA
61091 GTATCGGTACCCCTTTGG
1 GTATCGGTACCCCTTTGG
*
61109 GTATCGATACCCCTTTGG
1 GTATCGGTACCCCTTTGG
61127 GTATCGGTACC
1 GTATCGGTACC
61138 ATTTATGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.28, G:0.26, T:0.32
Consensus pattern (18 bp):
GTATCGGTACCCCTTTGG
Found at i:73452 original size:60 final size:60
Alignment explanation
Indices: 73323--73452 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 60
73313 ACATATGAAG
* * *
73323 AATCGAGTGATCT-TTTTATAACTTTTAATAGTCAGGGGACTCAACAAAGCAACGCCCTAT
1 AATCGAGGGAT-TATTTTATAACTTTTAATAGTCAGAGGACTCAACAAAGCAACACCCTAT
* * * * *
73383 AATCTAGGGATTATTTTGTAACTTTTAATAGTC-GAAGGACTCAACAAAGTAATACCTTAT
1 AATCGAGGGATTATTTTATAACTTTTAATAGTCAG-AGGACTCAACAAAGCAACACCCTAT
*
73443 AGTCGAGGGA
1 AATCGAGGGA
73453 CCATTTGTGT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
59 2 0.03
60 56 0.97
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (60 bp):
AATCGAGGGATTATTTTATAACTTTTAATAGTCAGAGGACTCAACAAAGCAACACCCTAT
Found at i:73467 original size:60 final size:60
Alignment explanation
Indices: 73336--73467 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 60
73326 CGAGTGATCT
* * * * **
73336 TTTTATAACTTTTAATAGTCAGGGGACTCAACAAAGCAACGCCCTATAATCTAGGGATTA
1 TTTTGTAACTTTTAATAGTCAGAGGACTCAACAAAGCAACACCCTATAATCGAGGGACCA
* * * *
73396 TTTTGTAACTTTTAATAGTC-GAAGGACTCAACAAAGTAATACCTTATAGTCGAGGGACCA
1 TTTTGTAACTTTTAATAGTCAG-AGGACTCAACAAAGCAACACCCTATAATCGAGGGACCA
73456 TTTGTGT-ACTTT
1 TTT-TGTAACTTT
73468 ACCCTTTTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 1 0.02
60 56 0.93
61 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (60 bp):
TTTTGTAACTTTTAATAGTCAGAGGACTCAACAAAGCAACACCCTATAATCGAGGGACCA
Found at i:88449 original size:18 final size:18
Alignment explanation
Indices: 88426--88493 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
88416 GGAATGTTTC
88426 TGAGGGAATTAGAATCTG
1 TGAGGGAATTAGAATCTG
* *
88444 TGAGGGAATTAAAATCTA
1 TGAGGGAATTAGAATCTG
*
88462 TGAAGGAATTAGAATCTG
1 TGAGGGAATTAGAATCTG
* *
88480 TCA-GGAATTGGAAT
1 TGAGGGAATTAGAAT
88494 TCAATTCCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
17 10 0.23
18 33 0.77
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (18 bp):
TGAGGGAATTAGAATCTG
Found at i:88925 original size:2 final size:2
Alignment explanation
Indices: 88918--88946 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
88908 TTAATTGAAA
88918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88947 GAGGGTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89208 original size:37 final size:37
Alignment explanation
Indices: 89155--89259 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
89145 CATTTTCGTC
89155 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
89192 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
89229 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
89260 CCACAAACAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:89795 original size:17 final size:17
Alignment explanation
Indices: 89744--89795 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
89734 CGTTATATTA
89744 TATTATTTTTCTATTATTAT
1 TATTATTTTT-T-TTA-TAT
* * *
89764 TATTATATATATTATAT
1 TATTATTTTTTTTATAT
89781 TATTATTTTTTTTAT
1 TATTATTTTTTTTAT
89796 CTATGTTTAC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
17 15 0.58
18 3 0.12
20 8 0.31
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTTTTTTTATAT
Found at i:89993 original size:24 final size:22
Alignment explanation
Indices: 89963--90018 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
89953 CTATTTAGTA
89963 TTTTATTATATTATACATACATT
1 TTTTATTAT-TTATACATACATT
* *
89986 TTTATATT-TTTATATATATATT
1 TTT-TATTATTTATACATACATT
90008 TTTTATTATTT
1 TTTTATTATTT
90019 TATTTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 4 0.14
22 17 0.59
23 4 0.14
24 4 0.14
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTATTATTTATACATACATT
Found at i:90005 original size:14 final size:13
Alignment explanation
Indices: 89987--90054 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 13
89977 ACATACATTT
89987 TTATATTTTTATA
1 TTATATTTTTATA
90000 TATATATTTTT-TA
1 T-TATATTTTTATA
*
90013 TTATTTTATTTATA
1 TTATATT-TTTATA
*
90027 TTATTTATTTATTTTCA
1 TTA--TATTT-TTAT-A
90044 TTATATTTTTA
1 TTATATTTTTA
90055 GTTTCTTTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
12 5 0.11
13 7 0.16
14 16 0.36
15 6 0.14
16 6 0.14
17 4 0.09
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATATTTTTATA
Found at i:90014 original size:21 final size:19
Alignment explanation
Indices: 89983--90053 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 19
89973 TTATACATAC
89983 ATTTTTATATTTTTATATATAT
1 ATTTTT-TATTTTT-TAT-TAT
90005 ATTTTTTATTATTTTATTTAT
1 ATTTTTTATT-TTTTA-TTAT
*
90026 ATTATTTATTTATTTTCATTAT
1 ATTTTTTA-TT-TTTT-ATTAT
90048 ATTTTT
1 ATTTTT
90054 AGTTTCTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 16 0.37
22 26 0.60
23 1 0.02
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTTTATTTTTTATTAT
Found at i:90047 original size:13 final size:13
Alignment explanation
Indices: 89986--90038 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
89976 TACATACATT
89986 TTTATATT-TTTA
1 TTTATATTATTTA
*
89998 TATATA-TA-TT-
1 TTTATATTATTTA
90008 TTT-TATTATTTTA
1 TTTATATTA-TTTA
90021 TTTATATTATTTA
1 TTTATATTATTTA
90034 TTTAT
1 TTTAT
90039 TTTCATTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
9 2 0.06
10 4 0.12
11 3 0.09
12 7 0.21
13 12 0.36
14 5 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATATTATTTA
Found at i:90181 original size:22 final size:24
Alignment explanation
Indices: 90136--90182 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
90126 ATATTTTATC
* *
90136 TTCATTTATTTTATTTTATTCAAT
1 TTCATTTATTTTATTTCATCCAAT
90160 TTCATTT-TTTT-TTTCATCCAAT
1 TTCATTTATTTTATTTCATCCAAT
90182 T
1 T
90183 ATTTTATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 4 0.19
24 7 0.33
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (24 bp):
TTCATTTATTTTATTTCATCCAAT
Found at i:91176 original size:4 final size:4
Alignment explanation
Indices: 91167--91194 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
91157 GCCTTTCGTC
91167 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
91195 TACTAACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:94437 original size:106 final size:106
Alignment explanation
Indices: 94168--94607 Score: 666
Period size: 106 Copynumber: 4.2 Consensus size: 106
94158 ATATCGTGCC
* * * * *
94168 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
94233 AAATTCAGAGCCAATTTGAACTTCACAGCGAAGGATATT-G
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
94273 ACTCCAGACAACACAAGTTCAACTTCACGACAAAGGGAACGCTGGTTGTCAACAAACAACATCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
94338 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
94379 ACTCCAGACAACGCAAGTTCATCTTCACGACGAAGGGACCGCTAGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
94444 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
94485 ACTCAAGACAATGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
94550 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
94591 ACTCCAGACAACGCAAG
1 ACTCCAGACAACGCAAG
94608 GACCGCTGGT
Statistics
Matches: 303, Mismatches: 31, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
105 93 0.31
106 210 0.69
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:94587 original size:212 final size:212
Alignment explanation
Indices: 94168--95423 Score: 1757
Period size: 212 Copynumber: 6.0 Consensus size: 212
94158 ATATCGTGCC
* * * *
94168 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
94233 AAATTCAGAGCCAATTTGAACTTCACAGCGAAGGATATT-GACTCCAGACAACACAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * * *
94297 TCACGACAAAGGGAACGCTGGTTGTCAACAAACAACATCTCAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
94362 ACAACGAAGGATATTGG
196 ACAACGAAGGATATTGG
* * * * *
94379 ACTCCAGACAACGCAAGTTCATCTTCACGACGAAGGGACCGCTAGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
94444 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * *
94509 TCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTTAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
94574 ACAACGAAGGATATTGG
196 ACAACGAAGGATATTGG
*
94591 ACTCCAG--------A---C-A----ACG-C-AA-GGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
94637 AATTTCAGAGCCAATTTCAACTTCTCAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * * *
94702 TTACGACAAATGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
94767 A-AAGCGAAGGATATTGG
196 ACAA-CGAAGGATATTGG
* * *
94784 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * *
94849 AATTTCGGAGCCAATTTCAACTTCGCAGCGAAAGATATTGGACTTCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * ** * *
94914 TCACGATGAAGGGACCACTGGTTGTCAACAAACAGTTTCTCAATTTCGGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* *
94979 ACAGCGAAGGATATTAG
196 ACAACGAAGGATATTGG
94996 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
95061 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
*
95126 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTT
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
*
95191 ACAGCGAAGGATATTGG
196 ACAACGAAGGATATTGG
* * *
95208 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
95273 AACTTT-GGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCGAGACAACACAAGTTCAAC
66 AA-TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* * * *
95337 TTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCCGATTCCAGAGCCAATTTCAACT
130 TTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACT
* * *
95401 TCACGATGGAGGATATTGG
194 TCACAACGAAGGATATTGG
95420 ACTC
1 ACTC
95424 GGAACAATGC
Statistics
Matches: 930, Mismatches: 91, Indels: 47
0.87 0.09 0.04
Matches are distributed among these distances:
192 2 0.00
193 164 0.18
194 2 0.00
195 1 0.00
196 3 0.00
201 2 0.00
204 2 0.00
205 1 0.00
209 3 0.00
210 1 0.00
211 97 0.10
212 648 0.70
213 4 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (212 bp):
ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
ACAACGAAGGATATTGG
Found at i:94666 original size:87 final size:87
Alignment explanation
Indices: 94520--94694 Score: 305
Period size: 87 Copynumber: 2.0 Consensus size: 87
94510 CATGACGAAG
* *
94520 GGACCGCTGGTTGTCAATAAACAACTTCCCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGA
1 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
*
94585 TATTGGACTCCAGACAACGCAA
66 TATTAGACTCCAGACAACGCAA
* *
94607 GGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCTCAACGAAGGA
1 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
94672 TATTAGACTCCAGACAACGCAA
66 TATTAGACTCCAGACAACGCAA
94694 G
1 G
94695 TTCAACTTTA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (87 bp):
GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
TATTAGACTCCAGACAACGCAA
Found at i:95424 original size:106 final size:106
Alignment explanation
Indices: 94607--95423 Score: 1219
Period size: 106 Copynumber: 7.7 Consensus size: 106
94597 GACAACGCAA
* * *
94607 GGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCTCAACGAAGGA
1 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
* * * *
94672 TATTAGACTCCAGACAACGCAAGTTCAACTTTACGACAAAT
66 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
94713 GGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCAAAGCGAAGGA
1 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
*
94778 TATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAG
66 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
94819 GGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCGCAGCGAAAGA
1 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
* *
94884 TATTGGACTTCAGACAACGCAAGTTCAACTTCACGATGAAG
66 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* ** * *
94925 GGACCACTGGTTGTCAACAAACAGTTTCTCAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGA
1 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
* *
94990 TATTAGACTCCAGACAACACAAGTTCAACTTCACGACGAAG
66 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
95031 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
1 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
*
95096 TATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAG
66 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
95137 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTTACAGCGAAGGA
1 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
* *
95202 TATTGGACTCGAGACAACACAAGTTCAACTTCACGACGAAG
66 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * * *
95243 GGACCGCTGTTTGTCAACAAACAATTTCCCAACTTT-GGAGCCAATTTCAACTTCACAACAAAGG
1 GGACCGCTGGTTGTCAACAAACAACTTCCCAA-TTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* * *
95307 ATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
65 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
95349 GGA-CGACTGGTTGTCAACAAACAATTTCCCGATTCCAGAGCCAATTTCAACTTCACGATG-G-A
1 GGACCG-CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCAC-A-GCGAA
95411 GGATATTGGACTC
63 GGATATTGGACTC
95424 GGAACAATGC
Statistics
Matches: 653, Mismatches: 53, Indels: 10
0.91 0.07 0.01
Matches are distributed among these distances:
105 4 0.01
106 645 0.99
107 4 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
Found at i:96675 original size:15 final size:14
Alignment explanation
Indices: 96655--96697 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 14
96645 TATATGTATA
96655 TATTTAATTATATTT
1 TATTT-ATTATATTT
96670 TATTTATT-TA-TT
1 TATTTATTATATTT
96682 TATTTATTATAATTT
1 TATTTATTAT-ATTT
96697 T
1 T
96698 TTTTCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 4 0.16
15 8 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTATTATATTT
Found at i:96929 original size:10 final size:11
Alignment explanation
Indices: 96902--96926 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
96892 TTATATGTAT
96902 ATTTATTTTTC
1 ATTTATTTTTC
96913 ATTTATTTTTC
1 ATTTATTTTTC
96924 ATT
1 ATT
96927 ATTATTACTA
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:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTATTTTTC
Found at i:96974 original size:24 final size:24
Alignment explanation
Indices: 96947--97001 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
96937 TTTAGTATTT
96947 TATTATATTATACATACAT-TTTTA
1 TATTAT-TTATACATACATATTTTA
* * *
96971 TATT-TTTATATATATATATTTTT
1 TATTATTTATACATACATATTTTA
96994 TATTATTT
1 TATTATTT
97002 TATTTATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 10 0.38
23 9 0.35
24 7 0.27
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TATTATTTATACATACATATTTTA
Found at i:97002 original size:25 final size:25
Alignment explanation
Indices: 96944--97022 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
96934 CTATTTAGTA
* * *
96944 TTTTATTATATTATACATACAT-TT
1 TTTTATTATTTTATATATATATATT
*
96968 TTATA-T-TTTTATATATATATATT
1 TTTTATTATTTTATATATATATATT
96991 TTTTATTATTTTAT-T-TATACTATT
1 TTTTATTATTTTATATATATA-TATT
97015 TATTTATT
1 T-TTTATT
97023 TTCATTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
22 11 0.24
23 11 0.24
24 11 0.24
25 12 0.27
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTATTATTTTATATATATATATT
Found at i:97147 original size:20 final size:19
Alignment explanation
Indices: 97120--97175 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
97110 TTTTATCTTC
97120 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
97139 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
97159 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
97176 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:97879 original size:21 final size:21
Alignment explanation
Indices: 97853--97907 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
97843 GACCCGAAAT
97853 AATAAAAAAATATTTTTATTC
1 AATAAAAAAATATTTTTATTC
97874 AATAAAAAAATATTTTTATTC
1 AATAAAAAAATATTTTTATTC
*
97895 AATATATAAAATA
1 AATA-AAAAAATA
97908 AGTTACCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 25 0.78
22 7 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAAAAAAATATTTTTATTC
Found at i:103465 original size:28 final size:28
Alignment explanation
Indices: 103415--103499 Score: 133
Period size: 28 Copynumber: 3.2 Consensus size: 28
103405 TATCAACATG
*
103415 AAATAA-A-AATTAAACAA-GGATAAAT
1 AAATAAGATAATTAAGCAATGGATAAAT
103440 AAATAAGATAATTAAGCAATGGATAAAT
1 AAATAAGATAATTAAGCAATGGATAAAT
103468 AAATAAGATAATTAAGCAAT-GATAAAT
1 AAATAAGATAATTAAGCAATGGATAAAT
103495 AAATA
1 AAATA
103500 CATGAAATAT
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
25 6 0.11
26 1 0.02
27 21 0.38
28 28 0.50
ACGTcount: A:0.62, C:0.04, G:0.11, T:0.24
Consensus pattern (28 bp):
AAATAAGATAATTAAGCAATGGATAAAT
Found at i:104176 original size:2 final size:2
Alignment explanation
Indices: 104169--104199 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
104159 TTAATTGGAA
104169 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104200 GAGGGGTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105131 original size:2 final size:2
Alignment explanation
Indices: 105126--105158 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
105116 CGTGTGTGTG
105126 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105159 GGTAATTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:105389 original size:2 final size:2
Alignment explanation
Indices: 105384--105415 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
105374 AACGTGTGTG
105384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105416 GGTAATTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:106861 original size:18 final size:18
Alignment explanation
Indices: 106835--106869 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
106825 ATAATAATAA
*
106835 TAATTACAACAACAACAG
1 TAATAACAACAACAACAG
*
106853 TAATAACAACAATAACA
1 TAATAACAACAACAACA
106870 AAACGTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (18 bp):
TAATAACAACAACAACAG
Found at i:109058 original size:24 final size:24
Alignment explanation
Indices: 109026--109084 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
109016 AATCATCGTT
109026 ATCATATATCAGTGAAAACCAATA
1 ATCATATATCAGTGAAAACCAATA
109050 ATCATATATCAGTGAAAACCAATA
1 ATCATATATCAGTGAAAACCAATA
109074 ATCATATATCA
1 ATCATATATCA
109085 ATCATAGTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (24 bp):
ATCATATATCAGTGAAAACCAATA
Found at i:113872 original size:24 final size:24
Alignment explanation
Indices: 113815--113875 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
113805 AATCATCGTT
*
113815 ATCATATATAAGTGAAAACCAATA
1 ATCATATATCAGTGAAAACCAATA
113839 ATCATATATCAGTGAAAACCAATA
1 ATCATATATCAGTGAAAACCAATA
113863 ATCATATATCAGT
1 ATCATATATCAGT
113876 CATAGTCCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (24 bp):
ATCATATATCAGTGAAAACCAATA
Found at i:116374 original size:17 final size:17
Alignment explanation
Indices: 116352--116392 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
116342 ATTCAACAGT
*
116352 GGTCAACGCCGATCAAC
1 GGTCAACGCAGATCAAC
*
116369 GGTCAACGCAGGTCAAC
1 GGTCAACGCAGATCAAC
116386 GGTCAAC
1 GGTCAAC
116393 AATCGACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.29, C:0.32, G:0.27, T:0.12
Consensus pattern (17 bp):
GGTCAACGCAGATCAAC
Found at i:117962 original size:15 final size:15
Alignment explanation
Indices: 117925--117966 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
117915 TAACTTTTGA
* *
117925 AATTTATGATTATTT
1 AATTTATAATTTTTT
117940 -ATTT-TAATTTTTT
1 AATTTATAATTTTTT
117953 AATTTATAATTTTT
1 AATTTATAATTTTT
117967 AACTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 7 0.30
14 8 0.35
15 8 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
AATTTATAATTTTTT
Found at i:124336 original size:20 final size:20
Alignment explanation
Indices: 124311--124355 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
124301 GGAAGCATTG
*
124311 ATACTAGTGACTAAGTATCA
1 ATACTACTGACTAAGTATCA
* *
124331 ATACTACTGACTGAGTATCG
1 ATACTACTGACTAAGTATCA
124351 ATACT
1 ATACT
124356 CTAATATTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
ATACTACTGACTAAGTATCA
Found at i:126887 original size:45 final size:45
Alignment explanation
Indices: 126773--126905 Score: 214
Period size: 44 Copynumber: 3.0 Consensus size: 45
126763 TTGGAGGAAG
*
126773 TTTCTGAAGGCTCCTCTGCTGTGTGCAAGGGTGAGACCTTACC-A
1 TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCGA
* *
126817 TTTCTGAAGGCTCATCTACTGTGTGCAAGGGTGAGACCTTACCGT
1 TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCGA
* *
126862 TTTCTGAAGGCTCATATGCTATGTGCAAGGGTGAGACCTTACCG
1 TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCG
126906 CTCCTCGGTT
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 41 0.50
45 41 0.50
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (45 bp):
TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCGA
Found at i:127429 original size:69 final size:69
Alignment explanation
Indices: 127349--127481 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 69
127339 ATATGATGAT
127349 TGATACTTTTAAATATTAAAAAAATTGAAGATAAA-ATCAAAAGTTAAAATAGCAATATTTATGT
1 TGATACTTTTAAATATTAAAAAAATTGAAGA-AAATATCAAAAGTTAAAATAGCAATATTTATGT
127413 GATAA
65 GATAA
* * * * * *
127418 TGATACTTTTAAATATTGAAACAATTGATGAAAATATCAAAATTTAAAATATCATTATTTATGT
1 TGATACTTTTAAATATTAAAAAAATTGAAGAAAATATCAAAAGTTAAAATAGCAATATTTATGT
127482 AATGCCGATC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 3 0.05
69 54 0.95
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (69 bp):
TGATACTTTTAAATATTAAAAAAATTGAAGAAAATATCAAAAGTTAAAATAGCAATATTTATGTG
ATAA
Found at i:127613 original size:14 final size:14
Alignment explanation
Indices: 127594--127620 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
127584 ATCGATTCTT
127594 TGCTTTGATATTTA
1 TGCTTTGATATTTA
127608 TGCTTTGATATTT
1 TGCTTTGATATTT
127621 GTAGAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.15, T:0.59
Consensus pattern (14 bp):
TGCTTTGATATTTA
Found at i:127747 original size:66 final size:68
Alignment explanation
Indices: 127612--127766 Score: 187
Period size: 66 Copynumber: 2.3 Consensus size: 68
127602 TATTTATGCT
127612 TTGATATTTGTAGAAAAA-T-TCGATACTTTATAACATTTTCATTTTTTATTTTTTTAATTTGAA
1 TTGATATTTGTA-AAAAAGTATCGATACTTTATAACATTTTCATTTTTTATTTTTTTAATTTGAA
*
127675 ATTA
65 AGTA
* **
127679 TTGATATTTGTAAAAAAGTATTGATA-TTTAT-AGTTTTCTCATTTCTTT-TTTTTTTAA-TTGA
1 TTGATATTTGTAAAAAAGTATCGATACTTTATAACATTT-TCATTT-TTTATTTTTTTAATTTGA
127740 AAGTA
64 AAGTA
* *
127745 TTGATATTTTTAAAAGAGTATC
1 TTGATATTTGTAAAAAAGTATC
127767 AATATTTTTA
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
66 36 0.47
67 33 0.43
68 8 0.10
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.53
Consensus pattern (68 bp):
TTGATATTTGTAAAAAAGTATCGATACTTTATAACATTTTCATTTTTTATTTTTTTAATTTGAAA
GTA
Found at i:127771 original size:20 final size:20
Alignment explanation
Indices: 127748--127794 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
127738 GAAAGTATTG
*
127748 ATATTTTTAAAAGAGTATCA
1 ATATTTTTAAAAAAGTATCA
127768 ATATTTTTAAAAAAGTATCA
1 ATATTTTTAAAAAAGTATCA
127788 ATATTTT
1 ATATTTT
127795 GTGACCTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (20 bp):
ATATTTTTAAAAAAGTATCA
Found at i:127815 original size:15 final size:15
Alignment explanation
Indices: 127797--127826 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
127787 AATATTTTGT
*
127797 GACCTTCTCTTTTTC
1 GACCTTCTCATTTTC
127812 GACCTTCTCATTTTC
1 GACCTTCTCATTTTC
127827 TATGTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.33, G:0.07, T:0.50
Consensus pattern (15 bp):
GACCTTCTCATTTTC
Found at i:128823 original size:25 final size:24
Alignment explanation
Indices: 128772--128823 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
128762 TATGTTATAG
* * *
128772 TAGGAGGATGAATTTATAAACTTT
1 TAGGAGGATGAACTTATAAAATGT
128796 TAGGAGGAGTGAACTTATAAAATGT
1 TAGGAGGA-TGAACTTATAAAATGT
128821 TAG
1 TAG
128824 ATGCCAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (24 bp):
TAGGAGGATGAACTTATAAAATGT
Found at i:133803 original size:133 final size:133
Alignment explanation
Indices: 133426--133835 Score: 582
Period size: 131 Copynumber: 3.1 Consensus size: 133
133416 GTTTCGAAAT
* *
133426 TATAAGTATCGATACTTGTACATTTACT-CCTATTTTCATTATACTAGTAG-AA-ATGTTTACCG
1 TATAAGTATCGATACTTGGACATTTA-TGCCTATTTTCATTATACCAGTAGAAACATGTTTACCG
* *
133488 TGTACATTGCTAATTTACCTATTACTTTAAAATAATAGGTTTCGAAATTATAAGTATCGATACTT
65 TGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTT
133553 TATA
130 TATA
* * * *
133557 TATGAGTATCGATACTAGGACATTTACGCCTATTTTTATTATACCCA-TAGAAAC--GTTTACCG
1 TATAAGTATCGATACTTGGACATTTATGCCTATTTTCATTATA-CCAGTAGAAACATGTTTACCG
* * *
133619 TGTACATTCTTAATTTACCTATT-CGTTTAAAGTAATAGATTTCAAAATTATAAGTATCGATACT
65 TGTACATTGTTAATTTACCTATTAC-TTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACT
*
133683 TTGTA
129 TTATA
* * **
133688 TATAAGTATCGATACTTGGACATTTATGCCAATTTTCATTATACCGGTAGAAACATGTTTACCAA
1 TATAAGTATCGATACTTGGACATTTATGCCTATTTTCATTATACCAGTAGAAACATGTTTACCGT
133753 GTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTT
66 GTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTT
133818 ATA
131 ATA
**
133821 TATGTGTATCGATAC
1 TATAAGTATCGATAC
133836 ATTTTGCATG
Statistics
Matches: 244, Mismatches: 26, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
130 3 0.01
131 154 0.63
132 4 0.02
133 82 0.34
134 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (133 bp):
TATAAGTATCGATACTTGGACATTTATGCCTATTTTCATTATACCAGTAGAAACATGTTTACCGT
GTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTT
ATA
Found at i:135799 original size:17 final size:16
Alignment explanation
Indices: 135774--135805 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
135764 GAAAAGAAAA
135774 TAAATTTTAAAACATG
1 TAAATTTTAAAACATG
135790 TAAATATTTAAAACAT
1 TAAAT-TTTAAAACAT
135806 AAAGAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
TAAATTTTAAAACATG
Found at i:138354 original size:18 final size:18
Alignment explanation
Indices: 138331--138373 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
138321 TCAAAAGACC
138331 TTGAGAAGAAT-ACCTTGG
1 TTGAGAAG-ATGACCTTGG
138349 TTGAGAAGATGACCTTGG
1 TTGAGAAGATGACCTTGG
*
138367 CTGAGAA
1 TTGAGAA
138374 TAAGGTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.26
Consensus pattern (18 bp):
TTGAGAAGATGACCTTGG
Found at i:139262 original size:199 final size:197
Alignment explanation
Indices: 138896--139911 Score: 1186
Period size: 199 Copynumber: 5.1 Consensus size: 197
138886 ATTTAGATCG
* * *
138896 AAAA-TATCCATACCTATATAAAAGTATCGATACTTGGTATTTACGCTTATTATCAATATAGCGG
1 AAAAGTAT-CATACCTATATAAAAGTATCGATACTTGGTATTTACGCCTATTATCATTATACCGG
* *
138960 TAGACTTTTACCATTTAAATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTCCA
65 TAGACTTTTACCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCA
* * * *
139025 AGTATTGATACTTTATATATGTGTATCGATACATTTTGCGTACAAATTGTTTGAGAAACATACTG
130 AGTATCGATATTTTATATATG-GTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTG
139090 GAAT
194 GAAT
* * ***
139094 AATAA-TATCGATACCTATATAAAAGTATCGATACTTGGTATTTATGCCTATTATCAATATATTA
1 AA-AAGTATC-ATACCTATATAAAAGTATCGATACTTGGTATTTACGCCTATTATCATTATACCG
*
139158 GTAGACTTTTATCC-TTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCCAAATTC
64 GTAGACTTTTA-CCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTC
* * * * *
139222 CAAGTATCGATATTTTATATATGCGTATCAATATATTTTGCATGCAAATTGTTTGAGAAGCATAT
128 CAAGTATCGATATTTTATATATG-GTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATAC
139287 TGGATTAAAAGTATCCAGACT
192 T-G-------G-----A-A-T
*
139308 GGATTAAGAGTATCCATACCTATATAAAAGTATTGATACTTGGTATTTACGCCTATTATCATTAT
1 --A--AA-AGTAT-CATACCTATATAAAAGTATCGATACTTGGTATTTACGCCTATTATCATTAT
* *
139373 ACCAGTAGACTTTTACCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTTGAAA
60 ACCGGTAGACTTTTACCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAA
* * *
139438 TTCTAAGTATCGATATTTTATACAT-GTATCGATATATTTTGCGTGCAAATTGTTTGAGAATCAT
125 TTCCAAGTATCGATATTTTATATATGGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCAT
*
139502 ACTGAAAT
190 ACTGGAAT
* *
139510 AAAAGTATTCATACCAATATAAAGAGTATCGATACTTGGTATTTACGCCTATTATCATTATATCG
1 AAAAGTA-TCATACCTATATAAA-AGTATCGATACTTGGTATTTACGCCTATTATCATTATACCG
* *
139575 GTAGACTTTTACCGTTTACATTGTT-A---A--T-TTAC-----AGTAATAGGTTTTGAAATTCC
64 GTAGACTTTTACCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCC
* * *
139628 AAGTATCGATACTTTATACAT-GTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTT
129 AAGTATCGATATTTTATATATGGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTG
139692 GAAT
194 GAAT
* *
139696 AAAAGTATTCATACCTATATAAAGAGTATCAATACTTGGTATTTATGCCTATTATCATTATACCG
1 AAAAGTA-TCATACCTATATAAA-AGTATCGATACTTGGTATTTACGCCTATTATCATTATACCG
* *
139761 GTAGACTTTTACCGTTTACATTGTTAAGTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCC
64 GTAGACTTTTACCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCC
* * * * *
139826 AAGTA-CTGATACTTTATATATGTGTGTGTCAATACATTTTGTGTGCAAATTGTTTGAGGATCAT
129 AAGTATC-GATA-TTT-TATATATG-GTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCAT
*
139890 ATTGGAAT
190 ACTGGAAT
139898 AAAAGTATCCATAC
1 AAAAGTAT-CATAC
139912 TGGCATAAGA
Statistics
Matches: 718, Mismatches: 54, Indels: 88
0.83 0.06 0.10
Matches are distributed among these distances:
186 170 0.24
187 1 0.00
190 1 0.00
191 4 0.01
192 2 0.00
193 4 0.01
194 1 0.00
197 19 0.03
198 97 0.14
199 172 0.24
200 9 0.01
201 1 0.00
202 54 0.08
203 1 0.00
204 1 0.00
207 1 0.00
212 1 0.00
213 1 0.00
214 1 0.00
216 2 0.00
217 39 0.05
218 4 0.01
219 131 0.18
220 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (197 bp):
AAAAGTATCATACCTATATAAAAGTATCGATACTTGGTATTTACGCCTATTATCATTATACCGGT
AGACTTTTACCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAA
GTATCGATATTTTATATATGGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTGGA
AT
Found at i:139735 original size:186 final size:189
Alignment explanation
Indices: 139316--139911 Score: 738
Period size: 186 Copynumber: 3.1 Consensus size: 189
139306 CTGGATTAAG
* * ** *
139316 AGTATCCATACCTATATAAA-AGTATTGATACTTGGTATTTACGCCTATTATCATTATACCAGTA
1 AGTATTCATACCAATATAAAGAGTATCAATACTTGGTATTTACGCCTATTATCATTATACCGGTA
* *
139380 GACTTTTACCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTTGAAATTCTAAG
66 GACTTTTACCGTTTACATTGTTAA--TA-CT-TTAC-----AGTAATAGGTTTTGAAATTCCAAG
* *
139445 TATCGATATTTTATACATGTATCGATATATTTTGCGTGCAAATTGTTTGAGAATCATAC-TGAAA
122 TATCGATACTTTATACATGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTTG-AA
139509 TAAA
186 TAAA
* *
139513 AGTATTCATACCAATATAAAGAGTATCGATACTTGGTATTTACGCCTATTATCATTATATCGGTA
1 AGTATTCATACCAATATAAAGAGTATCAATACTTGGTATTTACGCCTATTATCATTATACCGGTA
139578 GACTTTTACCGTTTACATTGTT-A-A-TTTACAGTAATAGGTTTTGAAATTCCAAGTATCGATAC
66 GACTTTTACCGTTTACATTGTTAATACTTTACAGTAATAGGTTTTGAAATTCCAAGTATCGATAC
139640 TTTATACATGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTTGAATAAA
131 TTTATACATGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTTGAATAAA
* *
139699 AGTATTCATACCTATATAAAGAGTATCAATACTTGGTATTTATGCCTATTATCATTATACCGGTA
1 AGTATTCATACCAATATAAAGAGTATCAATACTTGGTATTTACGCCTATTATCATTATACCGGTA
*
139764 GACTTTTACCGTTTACATTGTTAAGTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAG
66 GACTTTTACCGTTTACATTGTTAA--TA-CT-TTAC-----AGTAATAGGTTTTGAAATTCCAAG
* * * * *
139829 TA-CTGATACTTTATATATGTGTGTGTCAATACATTTTGTGTGCAAATTGTTTGAGGATCATA-T
122 TATC-GATACTTTATACA----TGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACT
139892 TGGAATAAA
182 T-GAATAAA
*
139901 AGTATCCATAC
1 AGTATTCATAC
139912 TGGCATAAGA
Statistics
Matches: 359, Mismatches: 20, Indels: 35
0.87 0.05 0.08
Matches are distributed among these distances:
186 169 0.47
187 3 0.01
190 1 0.00
191 4 0.01
192 2 0.01
193 4 0.01
194 1 0.00
197 20 0.06
198 99 0.28
201 2 0.01
202 54 0.15
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (189 bp):
AGTATTCATACCAATATAAAGAGTATCAATACTTGGTATTTACGCCTATTATCATTATACCGGTA
GACTTTTACCGTTTACATTGTTAATACTTTACAGTAATAGGTTTTGAAATTCCAAGTATCGATAC
TTTATACATGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTTGAATAAA
Found at i:140471 original size:177 final size:176
Alignment explanation
Indices: 140177--140926 Score: 792
Period size: 177 Copynumber: 4.1 Consensus size: 176
140167 AAATTGAAAT
* * *
140177 CGGTTTTGTCAAATTTCAACCTGTTATATTGTCATGTATCGACACATGTGTATAAGGTATCGATA
1 CGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGATA
* *
140242 CTTTATAGGAACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGAACATATAC
66 CTTTATAGGCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATAC
* *
140307 TTATAAAAGTATCGATGCAAATTTCAACCATTCTGGTAGCTCTTTA
131 TTATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTA
**
140353 TCGGTTTTGTCAAATTTAAATTTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGAT
1 -CGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGAT
* *
140418 ACTTTATAGGCACTATTATTGCAATTCTTTTAAATTCTTAAAGTATCGATACTTTGGTACATATG
65 ACTTTATAGGCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATA
140483 CTTATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTA
130 CTTATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTA
* * * * * * * *
140530 CCGGTTTTGTCAAATTGAAA-CTGGT-T-TTGTCAAATTTAAACATGTTATATTTGTC--ATGTA
1 -CGGTTTTGTCAAATTTAAACCTGTTATATTGTC--ATGT-ATC--GATACATGTGTCTAAGGTA
* * * * * * * * *
140590 TCTATACATGTGTCTAAAGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCT
60 TCGATAC-T-T-TAT-AGGCA-C--TA--TTATTGCAATTCTT-TT-AAATTC----------CT
*
140655 AAAGTATCGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCCAGTA
104 AAAGTATCGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCCGGTA
140720 GCTCTTTA
169 GCTCTTTA
* * * *
140728 CTGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATTGATACATGTCTGTAAGGTATCGAC
1 C-GGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGAT
* * * * *
140793 ACTTTATAGCCTCTATTATTGTAATTCTTTTAAATTCCTAAAGTA-CTAATACTTTGGTATATAT
65 ACTTTATAGGCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATC-GATACTTTGGTACATAT
* * **
140857 ACTTATAAACGTATCGATACAAATTTCAACAATTTTGGTAGCTCTTTA
129 ACTTATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTA
*
140905 CGGATTTTGTCAAATTGAAACC
1 CGG-TTTTGTCAAATTTAAACC
140927 GGTTTTATCA
Statistics
Matches: 474, Mismatches: 65, Indels: 68
0.78 0.11 0.11
Matches are distributed among these distances:
174 5 0.01
175 1 0.00
176 9 0.02
177 279 0.59
178 1 0.00
179 10 0.02
180 2 0.00
181 3 0.01
182 1 0.00
184 2 0.00
186 10 0.02
187 7 0.01
188 7 0.01
189 9 0.02
191 2 0.00
193 1 0.00
194 1 0.00
195 2 0.00
196 8 0.02
197 2 0.00
198 99 0.21
199 7 0.01
200 1 0.00
201 5 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (176 bp):
CGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGATA
CTTTATAGGCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATAC
TTATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTA
Found at i:140557 original size:20 final size:20
Alignment explanation
Indices: 140532--140570 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
140522 GCTCTTTACC
140532 GGTTTTGTCAAATTGAAACT
1 GGTTTTGTCAAATTGAAACT
*
140552 GGTTTTGTCAAATTTAAAC
1 GGTTTTGTCAAATTGAAAC
140571 ATGTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (20 bp):
GGTTTTGTCAAATTGAAACT
Found at i:140603 original size:198 final size:197
Alignment explanation
Indices: 140355--140748 Score: 689
Period size: 198 Copynumber: 2.0 Consensus size: 197
140345 GCTCTTTATC
** *
140355 GGTTTTGTCAAATTTAAATTTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGATAC
1 GGTTTTGTCAAATTTAAACATGTTATATTGTCATGTATCGATACATGTGTCTAAAGTATCGATAC
* * *
140420 TTTATAGGCACTATTATTGCAATTCTTTTAAATTCTTAAAGTATCGATACTTTGGTACATATGCT
66 TTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATACT
*
140485 TATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTACCGGTTTTGTCAAATTGAAA
131 TATAAAAGTATCGATACAAATTTCAACCATTCCAGTAGCTCTTTACCGGTTTTGTCAAATTGAAA
140550 CT
196 CT
*
140552 GGTTTTGTCAAATTTAAACATGTTATATTTGTCATGTATCTATACATGTGTCTAAAGTATCGATA
1 GGTTTTGTCAAATTTAAACATGTTATA-TTGTCATGTATCGATACATGTGTCTAAAGTATCGATA
140617 CTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATAC
65 CTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATAC
* *
140682 TTATAAAAGTATCGATACAAATTTCAACCATTCCAGTAGCTCTTTACTGGTTTTGTCAAATTTAA
130 TTATAAAAGTATCGATACAAATTTCAACCATTCCAGTAGCTCTTTACCGGTTTTGTCAAATTGAA
140747 AC
195 AC
140749 CTGTTATATT
Statistics
Matches: 186, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
197 25 0.13
198 161 0.87
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (197 bp):
GGTTTTGTCAAATTTAAACATGTTATATTGTCATGTATCGATACATGTGTCTAAAGTATCGATAC
TTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATACT
TATAAAAGTATCGATACAAATTTCAACCATTCCAGTAGCTCTTTACCGGTTTTGTCAAATTGAAA
CT
Found at i:140899 original size:375 final size:372
Alignment explanation
Indices: 140158--141123 Score: 1427
Period size: 375 Copynumber: 2.6 Consensus size: 372
140148 CAATTCCACT
* *
140158 GGTTTTGTCAAATTGAAA-TCGGTTTTGTCAAATTTCAACCTGTTATATTGTCATGTATCGACAC
1 GGTTTTGTCAAATTGAAACT-GGTTTTGTCAAATTTCAACATGTTATATTGTCATGTATC-ATAC
**
140222 ATGTGTATAAGGTATCGATACTTTATAGGAACTATTATTGCAATTCTTTTAAATTCCTAAAGTAT
64 ATGTGTATAAGGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTAT
* *
140287 CGATACTTTGGAACATATACTTATAAAAGTATCGATGCAAATTTCAACCATTCTGGTAGCTCTTT
129 CGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTTT
** *
140352 A-TCGGTTTTGTCAAATTTAAATTTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCG
194 ACT-GGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTCTCTAAGGTATCG
* * * *
140416 ATACTTTATAGGCACTATTATTGCAATTCTTTTAAATTCTTAAAGTATCGATACTTTGGTACATA
258 ACACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCAATACTTTGGTACATA
* *
140481 TGCTTATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTACC
323 TACTTATAAAAGTATCGATACAAATTTCAACAATTCCGGTAGCTCTTTA-C
*
140532 GGTTTTGTCAAATTGAAACTGGTTTTGTCAAATTTAAACATGTTATATTTGTCATGTATCTATAC
1 GGTTTTGTCAAATTGAAACTGGTTTTGTCAAATTTCAACATGTTATA-TTGTCATGTATC-ATAC
* *
140597 ATGTGTCTAAAGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTAT
64 ATGTGTATAAGGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTAT
**
140662 CGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCCAGTAGCTCTTT
129 CGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTTT
* *
140727 ACTGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATTGATACATGTCTGTAAGGTATCGA
194 ACTGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTCTCTAAGGTATCGA
* * *
140792 CACTTTATAGCCTCTATTATTGTAATTCTTTTAAATTCCTAAAGTA-CTAATACTTTGGTATATA
259 CACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATC-AATACTTTGGTACATA
* **
140856 TACTTATAAACGTATCGATACAAATTTCAACAATTTTGGTAGCTCTTTAC
323 TACTTATAAAAGTATCGATACAAATTTCAACAATTCCGGTAGCTCTTTAC
* * * *
140906 GGATTTTGTCAAATTGAAACCGGTTTTATCAAATTTCAACTTGCTATATTGTCATGTATCAGTAC
1 GG-TTTTGTCAAATTGAAACTGGTTTTGTCAAATTTCAACATGTTATATTGTCATGTATCA-TAC
* * * **
140971 ATGTTTGTAAGGTATCGATACTTTATAGTCACTATTATTGCAATTCTTTTAAATTCCTACCGTA-
64 ATGTGTATAAGGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTAT
* * *
141035 CAGATACTTTGGTACATATACTTATAAACGTATCGATACAAATTTCAACAATTCTGGTAGCTGTT
129 C-GATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTT
** *
141100 TACCAGTTTTGTCAAATTGAAACC
193 TACTGGTTTTGTCAAATTTAAACC
141124 GGTTTTGTCA
Statistics
Matches: 537, Mismatches: 48, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
373 2 0.00
374 199 0.37
375 335 0.62
376 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (372 bp):
GGTTTTGTCAAATTGAAACTGGTTTTGTCAAATTTCAACATGTTATATTGTCATGTATCATACAT
GTGTATAAGGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCG
ATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTTTAC
TGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTCTCTAAGGTATCGACA
CTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCAATACTTTGGTACATATAC
TTATAAAAGTATCGATACAAATTTCAACAATTCCGGTAGCTCTTTAC
Found at i:141130 original size:20 final size:20
Alignment explanation
Indices: 141105--141218 Score: 84
Period size: 20 Copynumber: 5.7 Consensus size: 20
141095 CTGTTTACCA
141105 GTTTTGTCAAATTGAAACCG
1 GTTTTGTCAAATTGAAACCG
** *
141125 GTTTTGTCAAATTTCAACTG
1 GTTTTGTCAAATTGAAACCG
* ** *
141145 GTTTTGTCAATTTCCAATCG
1 GTTTTGTCAAATTGAAACCG
* ** *
141165 GGTTTGTCAAATTTGTTACCT
1 GTTTTGTCAAA-TTGAAACCG
* **
141186 GTTTTGTCAATTTGAAATTG
1 GTTTTGTCAAATTGAAACCG
*
141206 GATTTGTCAAATT
1 GTTTTGTCAAATT
141219 TCAAATTGTT
Statistics
Matches: 70, Mismatches: 23, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
20 57 0.81
21 13 0.19
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.45
Consensus pattern (20 bp):
GTTTTGTCAAATTGAAACCG
Found at i:141158 original size:19 final size:20
Alignment explanation
Indices: 141105--141178 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
141095 CTGTTTACCA
**
141105 GTTTTGTCAAATTGAAACCG
1 GTTTTGTCAAATTTCAACCG
*
141125 GTTTTGTCAAATTTCAACTG
1 GTTTTGTCAAATTTCAACCG
*
141145 GTTTTGTC-AATTTCCAATCG
1 GTTTTGTCAAATTT-CAACCG
*
141165 GGTTTGTCAAATTT
1 GTTTTGTCAAATTT
141179 GTTACCTGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.11
20 36 0.78
21 5 0.11
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (20 bp):
GTTTTGTCAAATTTCAACCG
Found at i:153134 original size:18 final size:17
Alignment explanation
Indices: 153101--153137 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
153091 TTCTTCATCA
*
153101 TCCCATCTTTTTATTCT
1 TCCCATCTTCTTATTCT
153118 TCCCATCATTCTTATTCT
1 TCCCATC-TTCTTATTCT
153136 TC
1 TC
153138 TTAATTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.14, C:0.32, G:0.00, T:0.54
Consensus pattern (17 bp):
TCCCATCTTCTTATTCT
Found at i:153911 original size:103 final size:102
Alignment explanation
Indices: 153799--153996 Score: 276
Period size: 103 Copynumber: 1.9 Consensus size: 102
153789 CCTTTATTTG
153799 AAACATTG-AAGCTAATTTTGGTAACGATACTCATAGGAGTATC-TA-TAACGAGGGTAGAGTAT
1 AAACATTGAAAG-TAATTTTGGTAACGATACTCATAGGAGTATCATACTAACGAGGGT-GAGTAT
* * *
153861 CGATACTCCCCATAGAAGTATCGATATCAGAGTATTTTTCA
64 CGATACT-CCAAAACAAGTATCGATATC-GAGTATTTTTCA
* * *
153902 AAACATTGAAAGTAATTTTGGTATCGGTACTCATAGGAGTATCGATACTAAGGAGGGTGAGTATC
1 AAACATTGAAAGTAATTTTGGTAACGATACTCATAGGAGTATC-ATACTAACGAGGGTGAGTATC
153967 GATACTCCAAAACAAGTATCGATATCGAGT
65 GATACTCCAAAACAAGTATCGATATCGAGT
153997 CTAATTTTCA
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
103 41 0.48
104 20 0.24
105 15 0.18
106 9 0.11
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (102 bp):
AAACATTGAAAGTAATTTTGGTAACGATACTCATAGGAGTATCATACTAACGAGGGTGAGTATCG
ATACTCCAAAACAAGTATCGATATCGAGTATTTTTCA
Found at i:154024 original size:105 final size:103
Alignment explanation
Indices: 153812--154024 Score: 254
Period size: 103 Copynumber: 2.0 Consensus size: 103
153802 CATTGAAGCT
* * *
153812 AATTTTGGTAACGATACTCATAGGAGTATCTATAACGAGGGTAGAGTATCGATACTCCCCATAGA
1 AATTTTGGTAACGATACTCATAGGAGTATCTATAACGAGGGTAGAGTATCGATACTCCCAAAACA
* * *
153877 AGTATCGATATCAGAGTATTTTTCAAAACATTGAAAGT
66 AGTATCGATATCAGAGTAATTTTCAAAACATCGAAAGA
* * *
153915 AATTTTGGTATCGGTACTCATAGGAGTATCGATACTAAGGAGGGT-GAGTATCGATACT-CCAAA
1 AATTTTGGTAACGATACTCATAGGAGTATC--TA-TAACGAGGGTAGAGTATCGATACTCCCAAA
*
153978 ACAAGTATCGATATC-GAGTCTAATTTTCAAAA-ATCGAAGGCA
63 ACAAGTATCGATATCAGAG--TAATTTTCAAAACATCGAAAG-A
154020 AATTT
1 AATTT
154025 CATACTGATA
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
103 31 0.33
104 23 0.24
105 31 0.33
106 9 0.10
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (103 bp):
AATTTTGGTAACGATACTCATAGGAGTATCTATAACGAGGGTAGAGTATCGATACTCCCAAAACA
AGTATCGATATCAGAGTAATTTTCAAAACATCGAAAGA
Found at i:162766 original size:20 final size:21
Alignment explanation
Indices: 162720--162774 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
162710 TTTAGTATAG
* *
162720 GAGTATCGATACTCATTCATT
1 GAGTATCGATACTCATGCATA
*
162741 GAGTATCGATAC-CATGGATA
1 GAGTATCGATACTCATGCATA
162761 GAGTATCGATACTC
1 GAGTATCGATACTC
162775 CTAACACTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (21 bp):
GAGTATCGATACTCATGCATA
Found at i:162795 original size:30 final size:30
Alignment explanation
Indices: 162761--162832 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
162751 ACCATGGATA
162761 GAGTATCGATACTCCTAACACTCCCCATAG
1 GAGTATCGATACTCCTAACACTCCCCATAG
*
162791 GAGTATCGATACTGCTAACACTCCCCATAG
1 GAGTATCGATACTCCTAACACTCCCCATAG
162821 GAGTATCGATAC
1 GAGTATCGATAC
162833 CGAGGTGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (30 bp):
GAGTATCGATACTCCTAACACTCCCCATAG
Found at i:172823 original size:29 final size:28
Alignment explanation
Indices: 172781--172840 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 28
172771 TTCACCTAAC
172781 TAAATTGATGTAAGCAATGACATCAAAAT
1 TAAATTGATGTAAGCAATGACATC-AAAT
172810 TAAATTGATGTAAGCAATGACATCAAAT
1 TAAATTGATGTAAGCAATGACATCAAAT
172838 TAA
1 TAA
172841 TTTAGGTGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.28
Consensus pattern (28 bp):
TAAATTGATGTAAGCAATGACATCAAAT
Found at i:174648 original size:18 final size:18
Alignment explanation
Indices: 174607--174649 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
174597 TCGACCACAA
*
174607 AAATTTTAATCGAAAAAT
1 AAATTTTAATCGAAAAAG
174625 AAATTTTAA-CGAAATAAG
1 AAATTTTAATCGAAA-AAG
*
174643 ATATTTT
1 AAATTTT
174650 CTATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (18 bp):
AAATTTTAATCGAAAAAG
Found at i:178492 original size:20 final size:20
Alignment explanation
Indices: 178467--178504 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
178457 TTCACACCCT
* *
178467 TTTCAAACGCGGAAAATACC
1 TTTCAAACACGAAAAATACC
178487 TTTCAAACACGAAAAATA
1 TTTCAAACACGAAAAATA
178505 ATGGAGGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (20 bp):
TTTCAAACACGAAAAATACC
Found at i:179986 original size:23 final size:22
Alignment explanation
Indices: 179955--180015 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
179945 GTTATTTTTT
179955 TTTTCATGTAATATTTTTTTTAC
1 TTTT-ATGTAATATTTTTTTTAC
179978 ATTTTATGT-AT-TTTCTTTTTAC
1 -TTTTATGTAATATTT-TTTTTAC
180000 -TTTA-GTATATATTTTT
1 TTTTATGTA-ATATTTTT
180016 ATTTTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
19 2 0.06
20 4 0.12
21 7 0.21
22 12 0.36
23 4 0.12
24 4 0.12
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTTATGTAATATTTTTTTTAC
Found at i:180051 original size:38 final size:38
Alignment explanation
Indices: 180005--180146 Score: 105
Period size: 42 Copynumber: 3.6 Consensus size: 38
179995 TTTACTTTAG
*
180005 TATA-TATTTTTA-TTTTTATTTTTAGATTATATATAAA
1 TATATTATTTTTACTTTTTATTTTTA-ATTATATATATA
* *
180042 TATATTATTTTTTA-TTATCAGTTTTATTAATTTATATATATA
1 TATATTA-TTTTTACTTTTTA--TTT-TTAA-TTATATATATA
* *
180084 TATATATATATATTACTTTTTTATTTTT--TTATTTTATATA
1 TATAT-TAT-TTTTAC-TTTTTATTTTTAATTA-TATATATA
180124 TATATTATTTTTACTCTTTTATT
1 TATATTATTTTTACT-TTTTATT
180147 ATTATTTTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 23
0.73 0.07 0.20
Matches are distributed among these distances:
37 5 0.06
38 14 0.16
39 16 0.19
40 12 0.14
41 4 0.05
42 21 0.25
43 9 0.11
45 4 0.05
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (38 bp):
TATATTATTTTTACTTTTTATTTTTAATTATATATATA
Found at i:180120 original size:44 final size:44
Alignment explanation
Indices: 180014--180128 Score: 128
Period size: 50 Copynumber: 2.5 Consensus size: 44
180004 GTATATATTT
*
180014 TTATTTTTATTTT-TAGAT-TATATATAAATATATTATTTTTTA
1 TTATTTTTATTTTATATATATATATATAAATATATTATTTTTTA
*
180056 TTATCAGTTTTATTAATTTATATATATATATATATATATATTACTTTTTTA
1 TTAT---TTTTA-T--TTTATATATATATATATAAATATATTA-TTTTTTA
180107 TT-TTTTTATTTTATATATATAT
1 TTATTTTTATTTTATATATATAT
180129 TATTTTTACT
Statistics
Matches: 62, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
42 4 0.06
44 13 0.21
45 5 0.08
46 2 0.03
47 5 0.08
48 3 0.05
49 4 0.06
50 17 0.27
51 9 0.15
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (44 bp):
TTATTTTTATTTTATATATATATATATAAATATATTATTTTTTA
Found at i:180135 original size:30 final size:32
Alignment explanation
Indices: 180086--180151 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 32
180076 TATATATATA
* *
180086 TATATATATATTACTTTTTTATTTTTTTATT-T
1 TATATATATATTAC-TTTTTACTCTTTTATTAT
180118 TATATATATATTA-TTTTTACTCTTTTATTAT
1 TATATATATATTACTTTTTACTCTTTTATTAT
180149 TAT
1 TAT
180152 TTTATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 14 0.45
31 4 0.13
32 13 0.42
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (32 bp):
TATATATATATTACTTTTTACTCTTTTATTAT
Found at i:180207 original size:15 final size:16
Alignment explanation
Indices: 180187--180216 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
180177 TTTCTATATT
180187 TTTTTCTTT-TTTTTC
1 TTTTTCTTTATTTTTC
180202 TTTTTCTTTATTTTT
1 TTTTTCTTTATTTTT
180217 TATATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTCTTTATTTTTC
Found at i:180257 original size:23 final size:22
Alignment explanation
Indices: 180203--180257 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
180193 TTTTTTTTCT
180203 TTTTCTTTATTTTTTATATTTA
1 TTTTCTTTATTTTTTATATTTA
* *
180225 TTTTAC-TTATTATTTTATCTTTG
1 TTTT-CTTTATT-TTTTATATTTA
180248 TTTTCTTTAT
1 TTTTCTTTAT
180258 CTTATCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTCTTTATTTTTTATATTTA
Found at i:180270 original size:32 final size:30
Alignment explanation
Indices: 180221--180283 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 30
180211 ATTTTTTATA
* *
180221 TTTATTTTACTTATTATTTTATCTTTGTTTTC
1 TTTATCTTACTTATTA-TTTA-ATTTGTTTTC
180253 TTTATCTTATCTT-TTATTTAATTTGTTTTC
1 TTTATCTTA-CTTATTATTTAATTTGTTTTC
180283 T
1 T
180284 CTTTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 10 0.36
31 4 0.14
32 11 0.39
33 3 0.11
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (30 bp):
TTTATCTTACTTATTATTTAATTTGTTTTC
Found at i:180334 original size:15 final size:15
Alignment explanation
Indices: 180316--180345 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
180306 TATTTATTTC
180316 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
180331 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
180346 ACATGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (15 bp):
TTACCTTTTTATCTA
Found at i:182774 original size:8 final size:8
Alignment explanation
Indices: 182761--182799 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
182751 GAACATTTCA
*
182761 TGCATTCT
1 TGCATTTT
182769 TGCA-TTT
1 TGCATTTT
182776 TGCATTTT
1 TGCATTTT
*
182784 TGCCTTTT
1 TGCATTTT
182792 TGCATTTT
1 TGCATTTT
182800 CATCTACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:183995 original size:9 final size:9
Alignment explanation
Indices: 183983--184034 Score: 59
Period size: 9 Copynumber: 5.3 Consensus size: 9
183973 TAAAAAGGGC
183983 AAAAAGAAAA
1 AAAAAG-AAA
183993 AAAAAGCAAAAA
1 AAAAAG---AAA
184005 AAAAAGAAA
1 AAAAAGAAA
*
184014 AAAAAGAAC
1 AAAAAGAAA
184023 AAAAAGAAA
1 AAAAAGAAA
184032 AAA
1 AAA
184035 GAAAAAGGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 22 0.58
10 6 0.16
12 10 0.26
ACGTcount: A:0.87, C:0.04, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:183995 original size:18 final size:17
Alignment explanation
Indices: 183981--184040 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 17
183971 AATAAAAAGG
183981 GCAAAAAGAAAAAAAAA
1 GCAAAAAGAAAAAAAAA
*
183998 GCAAAAA-AAAAAGAAA
1 GCAAAAAGAAAAAAAAA
*
184014 --AAAAAG-AACAAAAA
1 GCAAAAAGAAAAAAAAA
*
184028 GAAAAAAGAAAAA
1 GCAAAAAGAAAAA
184041 GGGACAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 11 0.31
16 14 0.40
17 10 0.29
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (17 bp):
GCAAAAAGAAAAAAAAA
Found at i:184003 original size:7 final size:6
Alignment explanation
Indices: 183983--184041 Score: 54
Period size: 5 Copynumber: 10.0 Consensus size: 6
183973 TAAAAAGGGC
*
183983 AAAAAG -AAAA- AAAAAG CAAAAA- AAAAAG AAAAA- AAAGAAC AAAAAG
1 AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG
184029 AAAAAAG AAAAAG
1 -AAAAAG AAAAAG
184042 GGACAAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
5 16 0.36
6 15 0.33
7 14 0.31
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:184006 original size:12 final size:12
Alignment explanation
Indices: 183989--184033 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
183979 GGGCAAAAAG
183989 AAAAAAAAAGCA
1 AAAAAAAAAGCA
184001 AAAAAAAAAG-A
1 AAAAAAAAAGCA
184012 AAAAAAAGAA-CA
1 AAAAAAA-AAGCA
184024 AAAAGAAAAA
1 AAAA-AAAAA
184034 AGAAAAAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 8 0.27
12 19 0.63
13 3 0.10
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGCA
Found at i:184009 original size:31 final size:31
Alignment explanation
Indices: 183974--184050 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
183964 TAATCAGAAT
*
183974 AAAAAGGGCAAAAAGAAAAAAAAAGCAAAAA-
1 AAAAAGGGCAAAAAG-AAAAAAAAGAAAAAAG
*** *
184005 AAAAAGAAAAAAAAGAACAAAAAGAAAAAAG
1 AAAAAGGGCAAAAAGAAAAAAAAGAAAAAAG
184036 AAAAAGGGACAAAAA
1 AAAAAGGG-CAAAAA
184051 ACACATGCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 13 0.36
31 18 0.50
32 5 0.14
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (31 bp):
AAAAAGGGCAAAAAGAAAAAAAAGAAAAAAG
Found at i:184041 original size:22 final size:22
Alignment explanation
Indices: 183983--184051 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
183973 TAAAAAGGGC
*
183983 AAAAAGAAAAAAAAAGCAAAAAAA
1 AAAAAG-AAAAAGAA-CAAAAAAA
* *
184007 AAAGAAAAAAAAGAACAAAAAGA
1 AAA-AAGAAAAAGAACAAAAAAA
*
184030 AAAAAGAAAAAGGGACAAAAAA
1 AAAAAGAAAAA-GAACAAAAAA
184052 CACATGCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
22 7 0.19
23 18 0.49
24 10 0.27
25 2 0.05
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAGAACAAAAAAA
Found at i:184667 original size:22 final size:22
Alignment explanation
Indices: 184639--184682 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
184629 AGCTATCCCA
*
184639 TCAAACC-TTTGAGCATTAAATG
1 TCAAACCATTT-AGCATCAAATG
184661 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
184683 AACAAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:185690 original size:36 final size:36
Alignment explanation
Indices: 185643--185905 Score: 254
Period size: 36 Copynumber: 7.4 Consensus size: 36
185633 ATTGAAAACA
* *
185643 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
185679 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
** * *
185716 TTTATCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
185752 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
* * *
185781 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** ** * *
185817 TTTCTTTTGGAATTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTT-GAAACAAATTTCGTCTCTCTTGAGACAG
* *
185854 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
185890 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
185906 ATCTTTGAAT
Statistics
Matches: 184, Mismatches: 32, Indels: 22
0.77 0.13 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.10
30 2 0.01
35 1 0.01
36 97 0.53
37 63 0.34
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:185767 original size:73 final size:72
Alignment explanation
Indices: 185648--185912 Score: 296
Period size: 73 Copynumber: 3.7 Consensus size: 72
185638 AAACATTTCC
* *
185648 CTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGA
1 CTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGA
185713 CAGTTTAT
66 CAGTTT-T
* * *
185721 CTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA-------TAT-TTGA-A
1 CTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGA
*
185777 TATGTTTT
66 CA-GTTTT
* ** * ** *
185785 CTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAATTAAGTTTTGTCTCTCTTGAG
1 C-TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAG
185850 ACAGTTTCT
65 ACAGTTT-T
*
185859 CTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTG
1 CTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAT-TTTG
185913 AATTTATTTC
Statistics
Matches: 156, Mismatches: 23, Indels: 25
0.76 0.11 0.12
Matches are distributed among these distances:
64 4 0.03
65 46 0.29
66 2 0.01
72 2 0.01
73 94 0.60
74 8 0.05
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (72 bp):
CTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGA
CAGTTTT
Found at i:185791 original size:102 final size:102
Alignment explanation
Indices: 185685--185869 Score: 291
Period size: 102 Copynumber: 1.8 Consensus size: 102
185675 ATAGTTTCCC
* *
185685 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTATCTT-GAAATAAATTTTGTCTCTCTTGAGA
1 TTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTATCTTGGAAATAAATTTTGTCTCTCTTGAGA
185749 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
65 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
* * * *
185787 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAATTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTATCTTGGAAATAAATTTTGTCTCTCTTGAGAC
*
185852 AGTTTCTCTTGAAACAAA
66 AGTTTCCCTTGAAACAAA
185870 TTTCGTCTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
101 27 0.36
102 48 0.64
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (102 bp):
TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTATCTTGGAAATAAATTTTGTCTCTCTTGAGAC
AGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
Found at i:185843 original size:138 final size:138
Alignment explanation
Indices: 185578--185968 Score: 491
Period size: 138 Copynumber: 2.8 Consensus size: 138
185568 ACTCATGATT
* * * *
185578 GTTT-TCTTAAAACAAGA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACA-TTGAAA
1 GTTTATCTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATATTTGAAT
* * * *
185640 ACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTC
64 ATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTC
185705 TCTTGAGACA
129 TCTTGAGACA
*
185715 GTTTATCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 GTTTATCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * * ** * ** *
185780 GTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAATTAAGTTTTGTCTCTC
66 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTC
185845 TTGAGACA
131 TTGAGACA
* * * * *
185853 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 GTTTATCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * * * *
185918 ATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
66 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACA
185969 CAAAATCTTC
Statistics
Matches: 216, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
137 9 0.04
138 207 0.96
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (138 bp):
GTTTATCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTC
TTGAGACA
Found at i:185967 original size:65 final size:65
Alignment explanation
Indices: 185863--186036 Score: 215
Period size: 67 Copynumber: 2.6 Consensus size: 65
185853 GTTTCTCTTG
* ** * **
185863 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
* *
185928 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
185993 TA
64 TA
* * *
185995 AAACATAA-TTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
186037 CATATATCTT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
65 35 0.37
66 4 0.04
67 53 0.56
68 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:186795 original size:105 final size:105
Alignment explanation
Indices: 186634--187083 Score: 703
Period size: 105 Copynumber: 4.3 Consensus size: 105
186624 GCCATCCGCG
* * * *
186634 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
186699 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
186742 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
186807 ACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
186847 ATTTCAACTTCACAACGAATGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
186912 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
186952 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
187017 ACCGCTGCTTGTCAACAA-AA-TT-TC-AT-TCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
187052 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
187084 TGAACAATGC
Statistics
Matches: 323, Mismatches: 19, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
100 37 0.11
101 2 0.01
102 1 0.00
103 2 0.01
104 2 0.01
105 254 0.79
106 3 0.01
108 22 0.07
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
Found at i:188167 original size:23 final size:22
Alignment explanation
Indices: 188127--188200 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
188117 ATTGTTTTGT
*
188127 TATTTTTTTT--TTTCATGTAA
1 TATTTTTTTTACTTTTATGTAA
188147 TATTTTTTTTACATTTTATGT-A
1 TATTTTTTTTAC-TTTTATGTAA
188169 T-TTTCTTTTTAC-TTTA-GTATA
1 TATTT-TTTTTACTTTTATGTA-A
188190 TATTTTATTTT
1 TATTTT-TTTT
188201 TATTTTTAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
19 2 0.04
20 14 0.31
21 6 0.13
22 16 0.36
23 7 0.16
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.70
Consensus pattern (22 bp):
TATTTTTTTTACTTTTATGTAA
Found at i:188177 original size:22 final size:22
Alignment explanation
Indices: 188152--188202 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
188142 TGTAATATTT
* *
188152 TTTTTACATTT-TATGTATTTTC
1 TTTTTAC-TTTATATATATTTTA
188174 TTTTTACTTTAGTATATATTTTA
1 TTTTTACTTTA-TATATATTTTA
188197 TTTTTA
1 TTTTTA
188203 TTTTTAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 7 0.28
23 15 0.60
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTTACTTTATATATATTTTA
Found at i:188262 original size:39 final size:39
Alignment explanation
Indices: 188188--188332 Score: 129
Period size: 39 Copynumber: 3.7 Consensus size: 39
188178 TACTTTAGTA
* *
188188 TATATTTTATTTTTA-TTT-TTAGA-TTATATAAATATAT
1 TATATTTTATTATTATTTTATTA-ATTTATATATATATAT
*
188225 TAT-TTTTATTATCAGTTTTATTAATTTATATATATATAT
1 TATATTTTATTATTA-TTTTATTAATTTATATATATATAT
* * *
188264 ATATATATTTACTTTTTATTTT-TTATTTTATATATATATTT
1 -TATAT-TTTA-TTATTATTTTATTAATTTATATATATATAT
* *
188305 TACTCTTTTATTATTATTTTATTTATTT
1 TA-TATTTTATTATTATTTTATTAATTT
188333 GTTTTATTTC
Statistics
Matches: 87, Mismatches: 11, Indels: 17
0.76 0.10 0.15
Matches are distributed among these distances:
36 9 0.10
37 3 0.03
38 4 0.05
39 25 0.29
40 14 0.16
41 20 0.23
42 8 0.09
43 4 0.05
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (39 bp):
TATATTTTATTATTATTTTATTAATTTATATATATATAT
Done.