Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007938.1 Hibiscus syriacus cultivar Beakdansim tig00110348_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: 2808856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 14
Found at i:2482900 original size:16 final size:17
Alignment explanation
Indices: 2482879--2482912 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2482869 ACTATTCACA
*
2482879 TGAATAGT-GAATTTTG
1 TGAATAGTAAAATTTTG
2482895 TGAATAGTAAAATTTTG
1 TGAATAGTAAAATTTTG
2482912 T
1 T
2482913 CGGCGATACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
TGAATAGTAAAATTTTG
Found at i:2491367 original size:42 final size:41
Alignment explanation
Indices: 2491310--2491445 Score: 177
Period size: 40 Copynumber: 3.3 Consensus size: 41
2491300 ACATTTGTCA
* *
2491310 TTTACAAATATCGCTAAAGGTAATGATATTTAGCGGCATTTT
1 TTTACAAACACCGCTAAAGGTAATGATATTTAGCGGC-TTTT
** *
2491352 TTTACAAACACCGCTAAAACTAATGATATTTAGCTGC-TTT
1 TTTACAAACACCGCTAAAGGTAATGATATTTAGCGGCTTTT
*
2491392 TTTACAAACACCGCTAAAGGTTATGATATTTAGCGG-TGTTT
1 TTTACAAACACCGCTAAAGGTAATGATATTTAGCGGCT-TTT
*
2491433 TTTCCAAACACCG
1 TTTACAAACACCG
2491446 ATATTTAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 35 0.43
41 15 0.18
42 32 0.39
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (41 bp):
TTTACAAACACCGCTAAAGGTAATGATATTTAGCGGCTTTT
Found at i:2492130 original size:14 final size:14
Alignment explanation
Indices: 2492111--2492155 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
2492101 AATACGAGCT
2492111 ATTAATATGTCAAC
1 ATTAATATGTCAAC
* *
2492125 ATTAATAAG-C--T
1 ATTAATATGTCAAC
2492136 ATTAATATGTCAAC
1 ATTAATATGTCAAC
2492150 ATTAAT
1 ATTAAT
2492156 TTATATAGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
11 8 0.33
12 1 0.04
13 1 0.04
14 14 0.58
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (14 bp):
ATTAATATGTCAAC
Found at i:2492136 original size:25 final size:25
Alignment explanation
Indices: 2492107--2492155 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
2492097 ATATAATACG
2492107 AGCTATTAATATGTCAACATTAATA
1 AGCTATTAATATGTCAACATTAATA
2492132 AGCTATTAATATGTCAACATTAAT
1 AGCTATTAATATGTCAACATTAAT
2492156 TTATATAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (25 bp):
AGCTATTAATATGTCAACATTAATA
Found at i:2495629 original size:12 final size:12
Alignment explanation
Indices: 2495612--2495643 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
2495602 TCTGACTGGA
2495612 TTTGGACCCGTT
1 TTTGGACCCGTT
2495624 TTTGGACCCGTT
1 TTTGGACCCGTT
2495636 TTTGGACC
1 TTTGGACC
2495644 TGGGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.25, G:0.25, T:0.41
Consensus pattern (12 bp):
TTTGGACCCGTT
Found at i:2495671 original size:5 final size:5
Alignment explanation
Indices: 2495661--2495687 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2495651 AAAATATATG
2495661 AAATT AAATT AAATT AAATT AAATT AA
1 AAATT AAATT AAATT AAATT AAATT AA
2495688 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:2495888 original size:38 final size:38
Alignment explanation
Indices: 2495824--2496024 Score: 150
Period size: 38 Copynumber: 5.3 Consensus size: 38
2495814 CGTTTTAAAA
* *
2495824 ATATTATATAAGTTTTCAAAAAAAATGTTTTTAAAACTAT
1 ATATTATATAA--TTTCACAAAAAATGTTTTAAAAACTAT
*
2495864 ATATTATATAATTTCACAAAAAATGTTTTTTAAAACTAT
1 ATATTATATAATTTCACAAAAAATG-TTTTAAAAACTAT
* **
2495903 ATACTATAT-ATGTTTTC--AAAATGTTTTAAAAACTAT
1 ATATTATATAAT-TTCACAAAAAATGTTTTAAAAACTAT
* *
2495939 ATAATATATAAACGGTTT--C--AAAATGTTTTCAAAACTAT
1 ATATTATAT-AA---TTTCACAAAAAATGTTTTAAAAACTAT
* * *
2495977 ATATTATATATATTTTA-AAAATAT-TTTCAAAAACTAT
1 ATATTATATA-ATTTCACAAAAAATGTTTTAAAAACTAT
*
2496014 ATAATATATAA
1 ATATTATATAA
2496025 ATTTTCGAAA
Statistics
Matches: 137, Mismatches: 12, Indels: 28
0.77 0.07 0.16
Matches are distributed among these distances:
35 3 0.02
36 21 0.15
37 27 0.20
38 48 0.35
39 24 0.18
40 13 0.09
41 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (38 bp):
ATATTATATAATTTCACAAAAAATGTTTTAAAAACTAT
Found at i:2495924 original size:75 final size:75
Alignment explanation
Indices: 2495845--2496091 Score: 217
Period size: 75 Copynumber: 3.3 Consensus size: 75
2495835 GTTTTCAAAA
* * *
2495845 AAAATGTTTTTAAAACTATATATTATAT-AA-TTTCACAAAAAATGTTTTTTAAAACTATATACT
1 AAAATATTTTAAAAACTATATAATATATAAAGTTTCACAAAAAATGTTTTTTAAAACTATATA-T
2495908 ATATATGTTTTC
65 ATATAT-TTTTC
* *
2495920 AAAATGTTTTAAAAACTATATAATATATAAACGGTTT--C--AAAATG-TTTTCAAAACTATATA
1 AAAATATTTTAAAAACTATATAATATATAAA--GTTTCACAAAAAATGTTTTTTAAAACTATATA
*
2495980 TTATATATATTTTA
64 -TATATAT-TTTTC
* ** *
2495994 AAAATATTTTCAAAAACTATATAATATATAAATTTTCGA-AAATCAT-TTTTTTGAAAATTATAT
1 AAAATATTTT-AAAAACTATATAATATATAAAGTTTC-ACAAAAAATGTTTTTT-AAAACTATAT
2496057 AT-TATATTTTGTC
63 ATATATATTTT-TC
*
2496070 AAAAATATTTTTACAAACTATA
1 -AAAATA-TTTTAAAAACTATA
2496092 ATAAAAAACA
Statistics
Matches: 143, Mismatches: 14, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
73 3 0.02
74 35 0.24
75 56 0.39
76 8 0.06
77 24 0.17
78 14 0.10
79 3 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (75 bp):
AAAATATTTTAAAAACTATATAATATATAAAGTTTCACAAAAAATGTTTTTTAAAACTATATATA
TATATTTTTC
Found at i:2496553 original size:7 final size:7
Alignment explanation
Indices: 2496461--2496556 Score: 50
Period size: 7 Copynumber: 13.9 Consensus size: 7
2496451 GTGCATAACT
2496461 TAAACCC
1 TAAACCC
*
2496468 TTAA-CC
1 TAAACCC
* *
2496474 TAAATCT
1 TAAACCC
*
2496481 TAAATCC
1 TAAACCC
**
2496488 TAAACTA
1 TAAACCC
*
2496495 TAATCCC
1 TAAACCC
*
2496502 TAAATCC
1 TAAACCC
*
2496509 TAAACCT
1 TAAACCC
* *
2496516 TATAGCC
1 TAAACCC
*
2496523 TAAACCA
1 TAAACCC
*
2496530 TAAACAC
1 TAAACCC
* *
2496537 TGAACAC
1 TAAACCC
2496544 TAAACCC
1 TAAACCC
2496551 TAAACC
1 TAAACC
2496557 AAAAAACCAC
Statistics
Matches: 63, Mismatches: 25, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
6 5 0.08
7 58 0.92
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.24
Consensus pattern (7 bp):
TAAACCC
Found at i:2496598 original size:28 final size:28
Alignment explanation
Indices: 2496574--2496632 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
2496564 CACAAACCAC
2496574 AAACCACATA-TCATATACCATAAACCCT
1 AAACCACATACT-ATATACCATAAACCCT
* *
2496602 AAACCATATACTATATACCATAAACTCT
1 AAACCACATACTATATACCATAAACCCT
2496630 AAA
1 AAA
2496633 TACTAAACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (28 bp):
AAACCACATACTATATACCATAAACCCT
Found at i:2496609 original size:21 final size:21
Alignment explanation
Indices: 2496585--2496648 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
2496575 AACCACATAT
*
2496585 CATATACCATAAACCCTAAAC
1 CATATACCATAAACCATAAAC
* *
2496606 CATATACTATATACCATAAAC
1 CATATACCATAAACCATAAAC
*
2496627 TCTAAATA-C-TAAACCATAAAC
1 -C-ATATACCATAAACCATAAAC
2496648 C
1 C
2496649 CTGTCACATA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 29 0.83
22 1 0.03
23 4 0.11
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
CATATACCATAAACCATAAAC
Found at i:2496646 original size:7 final size:7
Alignment explanation
Indices: 2496523--2496648 Score: 53
Period size: 7 Copynumber: 17.9 Consensus size: 7
2496513 CCTTATAGCC
2496523 TAAACCA
1 TAAACCA
2496530 TAAA-CA
1 TAAACCA
*
2496536 CTGAA-CA
1 -TAAACCA
*
2496543 CTAAACCC
1 -TAAACCA
2496551 TAAACCAA
1 TAAACC-A
*
2496559 AAAACCA
1 TAAACCA
*
2496566 CAAACCA
1 TAAACCA
*
2496573 CAAACCA
1 TAAACCA
* * *
2496580 CATATCA
1 TAAACCA
*
2496587 TATACCA
1 TAAACCA
*
2496594 TAAACCC
1 TAAACCA
2496601 TAAACCA
1 TAAACCA
* *
2496608 TATACTA
1 TAAACCA
*
2496615 TATACCA
1 TAAACCA
2496622 TAAACTC-
1 TAAAC-CA
*
2496629 TAAA-TA
1 TAAACCA
2496635 CTAAACCA
1 -TAAACCA
2496643 TAAACC
1 TAAACC
2496649 CTGTCACATA
Statistics
Matches: 93, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
6 2 0.02
7 83 0.89
8 8 0.09
ACGTcount: A:0.52, C:0.30, G:0.01, T:0.17
Consensus pattern (7 bp):
TAAACCA
Found at i:2496747 original size:14 final size:15
Alignment explanation
Indices: 2496728--2496758 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
2496718 TATAATTATC
2496728 AATAATGT-ATTTTA
1 AATAATGTAATTTTA
2496742 AATAATGTAATTTTA
1 AATAATGTAATTTTA
2496757 AA
1 AA
2496759 AAATCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
AATAATGTAATTTTA
Found at i:2497138 original size:28 final size:28
Alignment explanation
Indices: 2497098--2497199 Score: 186
Period size: 28 Copynumber: 3.6 Consensus size: 28
2497088 GAGAGTCATA
2497098 GTAGCATGAGATCAAAATATTGTCGAAT
1 GTAGCATGAGATCAAAATATTGTCGAAT
*
2497126 GTAGCATGAGATCAAAATATTGTTGAAT
1 GTAGCATGAGATCAAAATATTGTCGAAT
2497154 GTAGCATGAGATCAAAATATTGTCGAAT
1 GTAGCATGAGATCAAAATATTGTCGAAT
2497182 GTAGCATGAGATCTAAAA
1 GTAGCATGAGATC-AAAA
2497200 CATGAAGTTG
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
28 67 0.94
29 4 0.06
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (28 bp):
GTAGCATGAGATCAAAATATTGTCGAAT
Found at i:2498954 original size:16 final size:16
Alignment explanation
Indices: 2498929--2498963 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2498919 TAGCCTAGGC
* *
2498929 GGCGGTGGTAGCAGGT
1 GGCGGCGGTAACAGGT
2498945 GGCGGCGGTAACAGGT
1 GGCGGCGGTAACAGGT
2498961 GGC
1 GGC
2498964 TAAGGGCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.54, T:0.14
Consensus pattern (16 bp):
GGCGGCGGTAACAGGT
Found at i:2499047 original size:24 final size:24
Alignment explanation
Indices: 2499015--2499062 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2499005 ATTAGGATTA
2499015 GCCAAAAGTTGTAGTATTTATTTC
1 GCCAAAAGTTGTAGTATTTATTTC
2499039 GCCAAAAGTTGTAGTATTTATTTC
1 GCCAAAAGTTGTAGTATTTATTTC
2499063 TTCATCTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (24 bp):
GCCAAAAGTTGTAGTATTTATTTC
Found at i:2499299 original size:11 final size:11
Alignment explanation
Indices: 2499283--2499319 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
2499273 TGAATTTGAT
2499283 ATCATCATGAC
1 ATCATCATGAC
2499294 ATCATCATGAC
1 ATCATCATGAC
2499305 ATCATCATGATC
1 ATCATCATGA-C
2499317 ATC
1 ATC
2499320 CATGTTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 21 0.84
12 4 0.16
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (11 bp):
ATCATCATGAC
Found at i:2503562 original size:3 final size:3
Alignment explanation
Indices: 2503556--2503621 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
2503546 AAAAAAAATT
* *
2503556 TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2503604 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
2503622 ATGTAAGACG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2504624 original size:230 final size:229
Alignment explanation
Indices: 2504179--2504860 Score: 728
Period size: 230 Copynumber: 3.0 Consensus size: 229
2504169 GGGTTTGTTA
* * * * * * *
2504179 ACGACGTTGTTCCTTCGTGTTGAGGATGGCTAGTTGTATTTACGA-GACTGTGCATCTAAAGACA
1 ACGACATTGTTCCTTCGTGTTGAGGATGTCTAGTTGTATTT-GGATAAATGTGCATATAGAGACA
* * *
2504243 ACAT-TGTTCCTTCACGTTGAGAAAGTCTGATT-ACTTAAAGATAATTTGATTTTGGAAATGACA
65 A-ATATGTTCCTTCACATTGAGAAAGTCTGATTGTC-TAAAGATAATTTGATTTTGGAAACGACA
* * * *
2504306 T-AGTTCATACATGATGAGGAGATCTGGTCACTTTGGGTGACTTGCTTGATGTCAAATCTGATGA
128 TGA-CTCCTACATGATGAGGAGATCTGGTCACTTTGGGTGATTTGCTTGATGTCAAATCTAATGA
* * *
2504370 TGACATTGCTTCTTCTTGTTGAGGAGATCTAGTCAGTGG
192 TGATATTGCTCCTTCGTGTTGAGGAGATCTAGTCAG-GG
* * * *
2504409 ACGACATTGTTCATTCGTGTTAAGGATGTCTAGTTGTATTTGGATAATTGTGCATATAGAGATAA
1 ACGACATTGTTCCTTCGTGTTGAGGATGTCTAGTTGTATTTGGATAAATGTGCATATAGAGACAA
* * * *
2504474 ATATGTTCCTTCACATTGAGAAAGTTTAATTGTCTGAAGATAATTTGATTTTAGAAACGACATGA
66 ATATGTTCCTTCACATTGAGAAAGTCTGATTGTCTAAAGATAATTTGATTTTGGAAACGACATGA
* * * * *
2504539 CTCCTACGTGATGAGGAGATCTGGTCACTTTAGGCGATTTGCTCGATGTCAAATCTAATAATGAT
131 CTCCTACATGATGAGGAGATCTGGTCACTTTGGGTGATTTGCTTGATGTCAAATCTAATGATGAT
*
2504604 ATTGCTCCTTCGTATTGAGGAGATCTAGTCAGGG
196 ATTGCTCCTTCGTGTTGAGGAGATCTAGTCAGGG
** *** * * * *
2504638 GTGACATTGTTCCTTCACATTGAGTATGTTTAGTCGTATTTGGATAAATGTGCATATGGAGACAA
1 ACGACATTGTTCCTTCGTGTTGAGGATGTCTAGTTGTATTTGGATAAATGTGCATATAGAGACAA
* * * * * ** * *
2504703 A-ATTATTCATTCACATTAAGGAAGTCTGATTGTTTTCATATAATTTGATTTTGGAAACGACACG
66 ATA-TGTTCCTTCACATTGAGAAAGTCTGATTGTCTAAAGATAATTTGATTTTGGAAACGACATG
* * * * * * *
2504767 ACTCCTTCACGATGAGGAGATCTAGTCATTTCTGGGTGATTTGTTTGATGCCAAATATAATGATG
130 ACTCCTACATGATGAGGAGATCTGGTCACTT-TGGGTGATTTGCTTGATGTCAAATCTAATGATG
* *
2504832 ATATTGC-CCATTCGCGTTGAGGAGGTCTA
194 ATATTGCTCC-TTCGTGTTGAGGAGATCTA
2504861 TTCATGATTG
Statistics
Matches: 375, Mismatches: 70, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
228 1 0.00
229 136 0.36
230 236 0.63
231 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (229 bp):
ACGACATTGTTCCTTCGTGTTGAGGATGTCTAGTTGTATTTGGATAAATGTGCATATAGAGACAA
ATATGTTCCTTCACATTGAGAAAGTCTGATTGTCTAAAGATAATTTGATTTTGGAAACGACATGA
CTCCTACATGATGAGGAGATCTGGTCACTTTGGGTGATTTGCTTGATGTCAAATCTAATGATGAT
ATTGCTCCTTCGTGTTGAGGAGATCTAGTCAGGG
Found at i:2511113 original size:21 final size:20
Alignment explanation
Indices: 2511062--2511113 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
2511052 TTTTCCCAAT
*
2511062 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* * **
2511082 TCACAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
2511103 TCGCAATGCGA
1 TCGCAATGCGA
2511114 TACTGACTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:2511127 original size:20 final size:20
Alignment explanation
Indices: 2511102--2511215 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
2511092 AATTGGGAAA
*
2511102 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
2511122 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
2511142 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
2511163 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
2511183 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
2511203 TTCGCAACGCGAT
1 ATCGCAACGCGAT
2511216 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2511164 original size:61 final size:61
Alignment explanation
Indices: 2511099--2511215 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
2511089 GCGAATTGGG
* * * * *
2511099 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
2511160 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
2511216 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:2511838 original size:20 final size:19
Alignment explanation
Indices: 2511792--2511957 Score: 136
Period size: 20 Copynumber: 9.1 Consensus size: 19
2511782 GAAACCAAAA
*
2511792 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2511811 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
2511830 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
2511850 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
2511866 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
2511883 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
2511897 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
2511916 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
2511936 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2511956 TC
1 TC
2511958 AACCAAAAGA
Statistics
Matches: 119, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
14 20 0.17
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 41 0.34
20 49 0.41
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2511873 original size:39 final size:39
Alignment explanation
Indices: 2511797--2511873 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
2511787 CAAAATCGCA
* **
2511797 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
2511836 TTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
2511874 ATAGTCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.45
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:2511882 original size:33 final size:33
Alignment explanation
Indices: 2511845--2511932 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
2511835 GTTGCGATTT
* *
2511845 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
2511878 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
2511911 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
2511933 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:2514021 original size:42 final size:42
Alignment explanation
Indices: 2513959--2514051 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
2513949 GCCCGACTCG
* * *
2513959 CCTATCATCCCTCAAAAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAAAGTCCACTCCCACCGTTCAAGAGGCC
* * * *
2514001 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAAAGTCCACTCCCACCGTTCAAGAGGCC
* *
2514043 ACTGTCATC
1 CCTATCATC
2514052 GTTGAAGAGG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.23, C:0.39, G:0.15, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCTCAAAAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:2514039 original size:21 final size:21
Alignment explanation
Indices: 2514015--2514081 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2514005 TCATTCCTCG
2514015 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
2514036 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
2514057 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
2514078 AGAG
1 AGAG
2514082 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2515459 original size:14 final size:14
Alignment explanation
Indices: 2515440--2515475 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2515430 ATTGTTTAAT
2515440 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
2515454 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
2515468 TGATTTGT
1 TGATTTGT
2515476 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:2515676 original size:19 final size:19
Alignment explanation
Indices: 2515654--2515784 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
2515644 CGAAATTAAA
*
2515654 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
2515673 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
2515689 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
2515706 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
2515720 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
2515739 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
* * *
2515755 CTCG--TTACGATTTTTAT
1 TTCGCATTGCGATTTTCAT
2515772 TTCGCATTGCGAT
1 TTCGCATTGCGAT
2515785 AGTAATTTCC
Statistics
Matches: 81, Mismatches: 16, Indels: 30
0.64 0.13 0.24
Matches are distributed among these distances:
14 22 0.27
16 12 0.15
17 13 0.16
19 34 0.42
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:2515700 original size:33 final size:32
Alignment explanation
Indices: 2515658--2515784 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
2515648 ATTAAATTCG
2515658 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
2515691 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
2515724 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
* *
2515757 CGTTACGATTTTTATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
2515785 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:2515747 original size:66 final size:66
Alignment explanation
Indices: 2515651--2515783 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
2515641 ACGCGAAATT
* *
2515651 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTACGATTTTCATTTCGCATTGC
2515716 G
66 G
* *
2515717 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTACGATTTTTATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTACGATTTTCATTTCGCATTGC
2515782 G
66 G
2515783 A
1 A
2515784 TAGTAATTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTACGATTTTCATTTCGCATTGC
G
Found at i:2518094 original size:12 final size:12
Alignment explanation
Indices: 2518077--2518101 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2518067 TCTTCGGGGA
2518077 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2518089 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2518101 C
1 C
2518102 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2518303 original size:24 final size:24
Alignment explanation
Indices: 2518276--2518329 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2518266 CTGAAACATC
* * *
2518276 ATCAAAATCCGTGTATTGATCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
2518300 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
2518324 ATCAAA
1 ATCAAA
2518330 TTTTGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:2519469 original size:14 final size:16
Alignment explanation
Indices: 2519449--2519522 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
2519439 TGAAAATCGC
2519449 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
2519464 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
2519481 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
2519500 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
2519516 -TTGCGAT
1 ATTGCGAT
2519523 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:2519486 original size:19 final size:19
Alignment explanation
Indices: 2519445--2519512 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
2519435 GAAATGAAAA
2519445 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
2519461 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2519478 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2519497 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
2519513 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2519488 original size:52 final size:52
Alignment explanation
Indices: 2519426--2519540 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
2519416 AACGAGAAAA
* ***
2519426 TCGCAATGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
** ** **
2519478 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
2519530 TCGCGTTGCGA
1 TCGCATTGCGA
2519541 TAGTCTGTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:2519648 original size:14 final size:14
Alignment explanation
Indices: 2519629--2519665 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2519619 CATCAATTAA
2519629 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
2519643 ACAAATCATCTTTT
1 ACAAATCAACATTT
2519657 ACAAATCAA
1 ACAAATCAA
2519666 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:2521568 original size:20 final size:19
Alignment explanation
Indices: 2521533--2521599 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
2521523 GAAACTTAAA
2521533 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
2521552 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
2521572 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
2521591 ATCGCAACG
1 ATCGCAACG
2521600 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:2521607 original size:14 final size:14
Alignment explanation
Indices: 2521588--2521645 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2521578 ATGCGAAATG
2521588 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2521602 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
2521618 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2521634 AAAATCGCAACG
1 AAAATCGCAACG
2521646 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2521630 original size:32 final size:33
Alignment explanation
Indices: 2521572--2521650 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
2521562 GGAAATGGCT
*
2521572 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2521605 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2521637 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
2521651 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:2521679 original size:19 final size:17
Alignment explanation
Indices: 2521657--2521752 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
2521647 GAAACACAAA
2521657 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
2521676 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
2521692 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
2521708 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
2521724 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
2521741 TCGCATTGCGAT
1 TCGC-TTGCGAT
2521753 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:2521698 original size:14 final size:14
Alignment explanation
Indices: 2521679--2521736 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2521669 TTTCATTTCG
2521679 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2521693 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2521709 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
2521725 CGTTGCGATTTT
1 CGTTGCGATTTT
2521737 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2521743 original size:33 final size:33
Alignment explanation
Indices: 2521662--2521752 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
2521652 ACAAATCGCA
2521662 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
2521695 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
2521727 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
2521753 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:2521771 original size:20 final size:19
Alignment explanation
Indices: 2521737--2521791 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
2521727 TTGCGATTTT
*
2521737 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
2521756 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
2521776 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
2521792 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:2522299 original size:18 final size:18
Alignment explanation
Indices: 2522273--2522318 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
2522263 GTCGATCAGA
*
2522273 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
2522291 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
2522309 TGATGGCTCT
1 TGATGGCTCT
2522319 CGAAGTGGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.15, G:0.43, T:0.28
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:2523662 original size:20 final size:20
Alignment explanation
Indices: 2523637--2523674 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2523627 AATAGTTTCT
2523637 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
2523657 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
2523675 GAGAGAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:2523965 original size:22 final size:22
Alignment explanation
Indices: 2523938--2523981 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2523928 GATGGAGATA
2523938 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
2523960 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
2523982 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2524194 original size:20 final size:20
Alignment explanation
Indices: 2524169--2524262 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
2524159 GATTATGTAT
2524169 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2524189 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
2524209 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
2524230 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2524250 TATCGCATTGCGA
1 TATCGCGTTGCGA
2524263 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:2524263 original size:20 final size:20
Alignment explanation
Indices: 2524149--2524263 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
2524139 CGCTTTGAAA
*
2524149 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
2524170 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
2524190 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
2524210 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
2524231 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
2524251 ATCGCATTGCGAT
1 ATCGCATTGCGAT
2524264 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:2524281 original size:21 final size:21
Alignment explanation
Indices: 2524252--2524344 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
2524242 ATAGTCAGTA
2524252 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
2524273 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
2524293 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
2524314 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
2524334 TCGCATTGCGA
1 TCGCATTGCGA
2524345 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:2524282 original size:41 final size:41
Alignment explanation
Indices: 2524191--2524325 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
2524181 AAAGTCAGTA
* * * ** *
2524191 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
2524231 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
2524273 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
2524314 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2524326 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:2524326 original size:41 final size:41
Alignment explanation
Indices: 2524252--2524344 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
2524242 ATAGTCAGTA
2524252 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
2524293 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
2524334 TCGCATTGCGA
1 TCGCATTGCGA
2524345 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:2531587 original size:16 final size:16
Alignment explanation
Indices: 2531563--2531594 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2531553 GTTGAGGTAA
*
2531563 ATAATAAAATAATGTT
1 ATAACAAAATAATGTT
2531579 ATAACAAAATAATGTT
1 ATAACAAAATAATGTT
2531595 GAGAACAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (16 bp):
ATAACAAAATAATGTT
Found at i:2533956 original size:112 final size:112
Alignment explanation
Indices: 2533755--2533970 Score: 337
Period size: 112 Copynumber: 1.9 Consensus size: 112
2533745 TGTTATCTTC
* * *
2533755 ATTTATCCCTAAAGACGGTTAGACGTCCTCATTACGTAGGAACAATGTCATCCACCGACCAAATC
1 ATTTATCCCTAAAGACGGTTAGACGTCCTCATGACATAGGAACAATGTCATCCACCGACCAAATA
*
2533820 TCCTCATCACATAGAAGCAGTGTCATCC-TTAGATAACCATATCTATA
66 TCCTCATCACATAGAAGCAGTGTCA-CCTTTAGAGAACCATATCTATA
*
2533867 ATTTATCGCTAAAGACGGCTT-GACGTCCTCATGACATAGGAACAATGTCATCCACCGACCAAAT
1 ATTTATCCCTAAAGACGG-TTAGACGTCCTCATGACATAGGAACAATGTCATCCACCGACCAAAT
* *
2533931 ATCCTCATCACGTAGAAGCATTGTCACCTTTAGAGAACCA
65 ATCCTCATCACATAGAAGCAGTGTCACCTTTAGAGAACCA
2533971 GATTTTGTCA
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
111 2 0.02
112 91 0.96
113 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (112 bp):
ATTTATCCCTAAAGACGGTTAGACGTCCTCATGACATAGGAACAATGTCATCCACCGACCAAATA
TCCTCATCACATAGAAGCAGTGTCACCTTTAGAGAACCATATCTATA
Found at i:2534328 original size:3 final size:3
Alignment explanation
Indices: 2534320--2534378 Score: 84
Period size: 3 Copynumber: 19.7 Consensus size: 3
2534310 TTATTAACTT
*
2534320 TTA TTA TTA TTA TTA TTA AT- TTA TTA TTA TTAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
*
2534365 CTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
2534379 TATAACATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.92
4 3 0.06
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2536376 original size:5 final size:5
Alignment explanation
Indices: 2536368--2536413 Score: 67
Period size: 5 Copynumber: 9.2 Consensus size: 5
2536358 ATTATTATAT
*
2536368 TTTTA TTTTA TTTTA -TTTA TTCTA TTTTA TTATTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA T
2536414 GTTCATAGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 4 0.11
5 28 0.76
6 5 0.14
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:2536387 original size:25 final size:25
Alignment explanation
Indices: 2536359--2536410 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
2536349 TTTATAAAAA
2536359 TTATTATATTTTTATT-TTATTTTAT
1 TTATTATA-TTTTATTATTATTTTAT
*
2536384 TTATTCTATTTTATTATTATTTTAT
1 TTATTATATTTTATTATTATTTTAT
2536409 TT
1 TT
2536411 TATGTTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (25 bp):
TTATTATATTTTATTATTATTTTAT
Found at i:2539216 original size:16 final size:16
Alignment explanation
Indices: 2539195--2539238 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
2539185 ACATGTTAGT
2539195 GACTTAAACAAAAAGA
1 GACTTAAACAAAAAGA
*
2539211 GACTTAAA-ATAAAAGG
1 GACTTAAACA-AAAAGA
2539227 GA-TTAAACAAAA
1 GACTTAAACAAAA
2539239 TTAATAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.61, C:0.09, G:0.14, T:0.16
Consensus pattern (16 bp):
GACTTAAACAAAAAGA
Found at i:2546092 original size:18 final size:18
Alignment explanation
Indices: 2546069--2546121 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
2546059 ACTGAATATT
2546069 TGTCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
* *
2546087 TGTCCCGAAGGAACACTA
1 TGTCCCGAATGACCACTA
2546105 TGTCCCGAATGACCACT
1 TGTCCCGAATGACCACT
2546122 GTTAATCCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:2555892 original size:22 final size:22
Alignment explanation
Indices: 2555866--2555947 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
2555856 TTAGTACAGA
*
2555866 GGGAATCGATACCCCCTTGAAG
1 GGGAATCAATACCCCCTTGAAG
* *
2555888 GGGAA-CTGATTCCCCCTTTGAAG
1 GGGAATC-AATACCCCC-TTGAAG
* * * *
2555911 GGGAACCAAT-TCCCCTTGTAT
1 GGGAATCAATACCCCCTTGAAG
2555932 GGGAATCAATACCCCC
1 GGGAATCAATACCCCC
2555948 ATGGGGTTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 14 0.29
22 21 0.43
23 13 0.27
24 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (22 bp):
GGGAATCAATACCCCCTTGAAG
Found at i:2555908 original size:23 final size:22
Alignment explanation
Indices: 2555877--2555947 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 22
2555867 GGAATCGATA
**
2555877 CCCCCTTGAAGGGGAACTGATT
1 CCCCCTTGAAGGGGAACCAATT
2555899 CCCCCTTTGAAGGGGAACCAATT
1 CCCCC-TTGAAGGGGAACCAATT
* * * *
2555922 -CCCCTTGTATGGGAATCAATA
1 CCCCCTTGAAGGGGAACCAATT
2555943 CCCCC
1 CCCCC
2555948 ATGGGGTTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 13 0.32
22 13 0.32
23 15 0.37
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (22 bp):
CCCCCTTGAAGGGGAACCAATT
Found at i:2561423 original size:16 final size:16
Alignment explanation
Indices: 2561404--2561446 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
2561394 ATTTTGAGAA
2561404 TTTAAGAGTTTGATAG
1 TTTAAGAGTTTGATAG
* *
2561420 TTTAAGAGTTAGATAT
1 TTTAAGAGTTTGATAG
*
2561436 TTTTAGAGTTT
1 TTTAAGAGTTT
2561447 AAGAGTTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (16 bp):
TTTAAGAGTTTGATAG
Found at i:2561893 original size:30 final size:30
Alignment explanation
Indices: 2561852--2561909 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2561842 AGTGGGAGGA
* *
2561852 AGGCATGGTGCACCCATCGCGCCTTAGGGG
1 AGGCATGGTGCACCAAACGCGCCTTAGGGG
* *
2561882 AGGCGTGGTGCACCAAACGCGTCTTAGG
1 AGGCATGGTGCACCAAACGCGCCTTAGG
2561910 TGGTTTCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.36, T:0.17
Consensus pattern (30 bp):
AGGCATGGTGCACCAAACGCGCCTTAGGGG
Found at i:2562778 original size:23 final size:23
Alignment explanation
Indices: 2562735--2562780 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2562725 ACATATTAGT
**
2562735 TAGCGCTTATATAATGTAATAGG
1 TAGCGCTTATATAATAAAATAGG
2562758 TAGCGCTTATATAATAAAATAGG
1 TAGCGCTTATATAATAAAATAGG
2562781 CATTTAACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (23 bp):
TAGCGCTTATATAATAAAATAGG
Found at i:2565686 original size:14 final size:15
Alignment explanation
Indices: 2565667--2565695 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2565657 TGTTTTCTCA
2565667 TAAACCGG-TACATT
1 TAAACCGGTTACATT
2565681 TAAACCGGTTACATT
1 TAAACCGGTTACATT
2565696 GTTAATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (15 bp):
TAAACCGGTTACATT
Found at i:2565903 original size:199 final size:199
Alignment explanation
Indices: 2565513--2567165 Score: 2270
Period size: 199 Copynumber: 8.3 Consensus size: 199
2565503 AGACATATGG
* * *
2565513 TTATAATTATGTTTTTCGATGTTTTTGGGATAGACAATTGTTATAAATGTATCGAAACTTTGTT-
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT-TTA
* * * * * * *
2565577 GTGCACTTGGTTTTTAAAATATAGTCTGGACAAAAATGTATCGAAACTTGATGTATTTGTGTCGA
65 GTGCACTTGG-TTTTGAAATACATTCTGGACCAAAA-GTATCGACACTTGTTATATTTGTGTCGA
** * * * * * *
2565642 TACTTCATGTATACTTGTTTTCTCATAAACCGGTACATTTAAACCGGTTACATTG-TTAATTTAC
128 TACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACA-TGAATAATTTAC
*
2565706 ATATTACA
192 CTATTACA
* * *
2565714 TTATAATTATGGTTTTCGATATTTTTGGGATCGACACTTATTATAAATGTATCGACACTTTTTAG
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
* **
2565779 TGCACTTGATTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTTATATTTGTGTCGATAC
66 TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTATATTTGTGTCGATAC
* *
2565844 TTTTTGTACACTTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTAT
131 TTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACCTAT
2565909 TACA
196 TACA
* * *
2565913 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGAAAC-TTTTAT
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA-
* * *
2565977 GTGCACTTGGTTCTGAAATACATTATGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATA
65 GTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTATATTTGTGTCGATA
* * * * *
2566042 CTGTTTGTACACCTATTTTCTCAAAAACCGGTGTATTTAGACCGGTTATATTG-CTAATTTACCT
130 CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACA-TGAATAATTTACCT
2566106 ATTACA
194 ATTACA
* *
2566112 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATATATGTATCGACACTTTTTAG
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
* * ** *
2566177 TGCACTTGGTTTTGAAATACAGTCTAGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGATAC
66 TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTATATTTGTGTCGATAC
* ***
2566242 GTTTTGTACACCTGTTTTCTCAAAAACC-GTATATTTAGACTATTTACATGAATAATTTACCTAT
131 TTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACCTAT
2566306 TACA
196 TACA
* *
2566310 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACAC-TTTTAT
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA-
* *
2566374 GTGCACTTGGTTCT-AAACTACATTCTGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGAT
65 GTGCACTTGGTTTTGAAA-TACATTCTGGACCAAAAGTATCGACACTTGTTATATTTGTGTCGAT
* ** * * *** *
2566438 -GTTGTTTGTACACCTGTTTTCTCAAAAACTAGTATGTTTAGACCGGTTATATTTCTAGTTTACC
129 ACTT-TTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACC
2566502 TATTACA
193 TATTACA
*
2566509 TTATAATTATGGTTTTT-GATGTTTTTGGGATCGACACTTGTTATAAATGTATTGACACTTTTTA
1 TTATAATTAT-GTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA
*
2566573 GTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTT-TGATTTGTGTCGAT
65 GTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTAT-ATTTGTGTCGAT
* * * * *
2566637 ACTTTTTTTACACATGTTTTCTCAAAAACTGGTATATTTAGACTGTTTACATGAATAATTTACCT
129 ACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACCT
2566702 ATTACA
194 ATTACA
* * *
2566708 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATTTATCGACAC-TTTTAT
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA-
* * *
2566772 GTGCACTTGGTTCTAAAATACATTCTGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATA
65 GTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTATATTTGTGTCGATA
* ***
2566837 CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTTCTAATTTACCTA
130 CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACCTA
2566902 TTACA
195 TTACA
* *
2566907 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTG-TA-AATTTTGTATCGACACTTTTT
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAA--ATGTATCGACACTTTTT
* * *
2566970 AGTGCACTTAGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTAGATTTGTGTCGAT
64 AGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTATATTTGTGTCGAT
* * * **
2567035 ACTTTTTGTAAACCTGTTTTCTCAAAAATCTGTATATTTAGACCTATTACATGAATAATTTACCT
129 ACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACCT
2567100 ATTACA
194 ATTACA
* *
2567106 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTT
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTT
2567166 GTTTTATTTG
Statistics
Matches: 1285, Mismatches: 144, Indels: 48
0.87 0.10 0.03
Matches are distributed among these distances:
197 13 0.01
198 183 0.14
199 970 0.75
200 53 0.04
201 66 0.05
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (199 bp):
TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
TGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTATATTTGTGTCGATAC
TTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACCTAT
TACA
Found at i:2566251 original size:398 final size:398
Alignment explanation
Indices: 2565513--2567165 Score: 2607
Period size: 398 Copynumber: 4.2 Consensus size: 398
2565503 AGACATATGG
* * * * *
2565513 TTATAATTATGTTTTTCGATGTTTTTGGGATAGACAATTGTTATAAATGTATCGAAACTTTGT-T
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTT-TAT
* * * * * * *
2565577 GTGCACTTGGTTTTTAAAATATAGTCTGGACAAAAATGTATCGAAACTTGATGTATTTGTGTCGA
65 GTGCACTTGG-TTCTAAAATACATTCTGGACCAAAA-GTATCGACACTTGTTCTATTTGTGTCGA
* * * * * * * *
2565642 TACT-TCATGTATACTTGTTTTCTCATAAACCGGTACATTTAAACCGGTTACATTGTTAATTTAC
128 TACTGT-TTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTAC
* * *
2565706 ATATTACATTATAATTATGGTTTTCGATATTTTTGGGATCGACACTTATTATAAATGTATCGACA
192 CTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACA
* * *
2565771 CTTTTTAGTGCACTTGATTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTTATATTTGT
257 CTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTAGATTTGT
*
2565836 GTCGATACTTTTTGTACACTTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAAT
322 GTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAAT
2565901 TTACCTATTACA
387 TTACCTATTACA
*
2565913 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGAAACTTTTATG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTTATG
* *
2565978 TGCACTTGGTTCTGAAATACATTATGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATAC
66 TGCACTTGGTTCTAAAATACATTCTGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATAC
* *
2566043 TGTTTGTACACCTATTTTCTCAAAAACCGGTGTATTTAGACCGGTTATATTGCTAATTTACCTAT
131 TGTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
*
2566108 TACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATATATGTATCGACACTTT
196 TACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT
* * *
2566173 TTAGTGCACTTGGTTTTGAAATACAGTCTAGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCG
261 TTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTAGATTTGTGTCG
* **
2566238 ATACGTTTTGTACACCTGTTTTCTCAAAAACC-GTATATTTAGACTATTTACATGAATAATTTAC
326 ATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTAC
2566302 CTATTACA
391 CTATTACA
2566310 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTTATG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTTATG
* **
2566375 TGCACTTGGTTCTAAACTACATTCTGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATGT
66 TGCACTTGGTTCTAAAATACATTCTGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATAC
** * * *
2566440 TGTTTGTACACCTGTTTTCTCAAAAACTAGTATGTTTAGACCGGTTATATTTCTAGTTTACCTAT
131 TGTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
* *
2566505 TACATTATAATTATGGTTTTTGATGTTTTTGGGATCGACACTTGTTATAAATGTATTGACACTTT
196 TACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT
* * *
2566570 TTAGTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCG
261 TTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTAGATTTGTGTCG
* * * *
2566635 ATACTTTTTTTACACATGTTTTCTCAAAAACTGGTATATTTAGACTGTTTACATGAATAATTTAC
326 ATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTAC
2566700 CTATTACA
391 CTATTACA
*
2566708 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATTTATCGACACTTTTATG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTTATG
2566773 TGCACTTGGTTCTAAAATACATTCTGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATAC
66 TGCACTTGGTTCTAAAATACATTCTGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATAC
* *
2566838 TTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTTCTAATTTACCTAT
131 TGTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
*
2566903 TACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTG-TA-AATTTTGTATCGACACT
196 TACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAA--ATGTATCGACACT
* * *
2566966 TTTTAGTGCACTTAGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTAGATTTGTGT
259 TTTTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTAGATTTGTGT
* * *
2567031 CGATACTTTTTGTAAACCTGTTTTCTCAAAAATCTGTATATTTAGACC-TATTACATGAATAATT
324 CGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGT-TTACATGAATAATT
2567095 TACCTATTACA
388 TACCTATTACA
2567106 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTT
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTT
2567166 GTTTTATTTG
Statistics
Matches: 1163, Mismatches: 84, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
396 2 0.00
397 372 0.32
398 700 0.60
399 21 0.02
400 68 0.06
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (398 bp):
TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTTATG
TGCACTTGGTTCTAAAATACATTCTGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATAC
TGTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
TACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT
TTAGTGCACTTGGTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTAGATTTGTGTCG
ATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTAC
CTATTACA
Found at i:2570494 original size:199 final size:199
Alignment explanation
Indices: 2570148--2571644 Score: 2451
Period size: 199 Copynumber: 7.5 Consensus size: 199
2570138 TTTTCAATTT
* ** * * *
2570148 AAACTGGTATATTTAGACCAATTATATTGTTAATTTACCTATTATATTATAATTACGGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
* * * *
2570213 TTTTTTTGGGATCAACACTTGTTATAAATATATCGACAATTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * * *
2570278 CATTCTGGACCAAAAGTATCAAAACTTGCTCGATTTGTGTCGATACTTTTTGTACACCGGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
*
2570343 TAAA
196 TCAA
* *
2570347 AAACCGGTATATTTAGTCCGGTTATATTGCTAATTTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
* * *
2570412 TGTTTTTTGGATCGACACTTGTTACAAATGTATCAACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
*
2570477 CATTCTGGACAAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
2570542 TCAA
196 TCAA
* * *
2570546 AAACCGGTATATTTAGACCGATTATATTTCTAATTTACCTATTACATTATAATTATGGTTTTTGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
2570611 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * * *
2570676 CATTCTGGACCAAACGTATCGACACTTGTTTGATTTGTGTCGCTACTTTTTTTACACCTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
2570741 TCAA
196 TCAA
* * *
2570745 AAACCGGTATATTTAGACCGGTTATATTGTTAATTTACCTATTACGTTATAATTATGGTTTTTGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
2570810 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
2570875 CATTCTGGACCAAAAGTATCAACACTTGTTAGATTTGTGTCGATACTTTTTGTATACC-GATTTT
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTG-TTTT
2570939 CTCAA
195 CTCAA
* *
2570944 AAACCGATATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
*
2571009 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
2571074 CATTCTGGACCAAACGTATCGACACTTG-TCTGATTTGTGTCGATACTTTTTTTACACATGTTTT
131 CATTCTGGACCAAAAGTATCGACACTTGTTC-GATTTGTGTCGATACTTTTTGTACACCTGTTTT
2571138 CTCAA
195 CTCAA
* * *
2571143 AAATCGATATATTTAGACCGGTTATATTGTTAATTTACCTATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
* *
2571208 TGTTTTTGGGATCGACACTTGTTATAAATTTATCGACACTTTTTAGTGCTCTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* *
2571273 CATTCTGGACCAAAAGTATCGACACTTGTTAGATTTGTGTCGATACTTTTTGTACATCTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
2571338 TCAA
196 TCAA
* * *
2571342 AAACTGGTATATTTAGTCCGGTTATATTGCTAATTTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
* *
2571407 TGTTTTTGGGATCGACACTTTTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* *
2571472 CATTCTGGACAAAAAGTGTCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACC-GATTTT
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTG-TTTT
2571536 CTCAA
195 CTCAA
2571541 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
*
2571606 TGATTTTGGGATCGACACTTGTTATAAATGTATCGACAC
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC
2571645 ATAAGTTTAC
Statistics
Matches: 1206, Mismatches: 87, Indels: 10
0.93 0.07 0.01
Matches are distributed among these distances:
198 3 0.00
199 1201 1.00
200 2 0.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (199 bp):
AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
TCAA
Found at i:2572029 original size:19 final size:19
Alignment explanation
Indices: 2571990--2572037 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
2571980 TTACATTCAC
*
2571990 ATACAAAATT-ATAATCGT
1 ATACAAAATTAAAAATCGT
*
2572008 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
2572027 ATAC-AAATTAA
1 ATACAAAATTAA
2572038 CCATGCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:2573532 original size:21 final size:18
Alignment explanation
Indices: 2573494--2573532 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2573484 TTCTCCTCAT
2573494 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
2573512 TTCCTCCATCTTCTCTTC
1 TTCCTCCATCTTTTCTTC
2573530 TTC
1 TTC
2573533 AAATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.41, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:2573957 original size:9 final size:9
Alignment explanation
Indices: 2573940--2573973 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2573930 CTTCTTCCTT
*
2573940 CTCCACTGC
1 CTCCTCTGC
2573949 CTCCTCTGC
1 CTCCTCTGC
*
2573958 TTCCTCTGC
1 CTCCTCTGC
2573967 CTCCTCT
1 CTCCTCT
2573974 AACTCCTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.53, G:0.09, T:0.35
Consensus pattern (9 bp):
CTCCTCTGC
Found at i:2574239 original size:22 final size:21
Alignment explanation
Indices: 2574211--2574267 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
2574201 AACCTACATT
*
2574211 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
2574233 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
*
2574257 TATAAAAAAAC
1 TATAATAAAAC
2574268 AAAAACATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 9 0.30
24 18 0.60
25 1 0.03
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:2575561 original size:19 final size:20
Alignment explanation
Indices: 2575514--2575562 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
2575504 CATTTATACA
2575514 ACCTA-AAATATCATTTTCT
1 ACCTATAAATATCATTTTCT
2575533 ACCTAT-AATATCATTTT-T
1 ACCTATAAATATCATTTTCT
2575551 ACCTATAAATAT
1 ACCTATAAATAT
2575563 TAACTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (20 bp):
ACCTATAAATATCATTTTCT
Found at i:2576210 original size:181 final size:181
Alignment explanation
Indices: 2575946--2576443 Score: 789
Period size: 181 Copynumber: 2.7 Consensus size: 181
2575936 TATGCGTACT
* * * * * * *
2575946 TATTAAAGTATCGACACTTTCAACATATCTGGTATCTATTTACCGGTTTGGTCATTTTGAGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACT-TTTTCCGGTTTTGTCATTTTTAGACCA
* * *
2576011 GTTTTTTCATATTTTTACCTGTTATATTATTCTGGATCGATACATTTTCATAAAGTGTCGACACT
65 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
* *
2576076 GTTTAAGCGCTATAACTTATTCTCTTTTAAATTCAGAAAGTGTCAATACTTA
130 TTTTAAGCGCTATAACTTATTCTCTTTTAAATTCAAAAAGTGTCAATACTTA
* *
2576128 TATTAAATTATCGACACTTTCAACATATCCAGTAACTTTTTCCGGTTTTGTCATTTTTAGACCTG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTAGACCAG
* * *
2576193 TTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTAATAAAGTGTCGACACTT
66 TTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
* * *
2576258 TTTAAGCGTTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
131 TTTAAGCGCTATAACTTATTCTCTTTTAAATTCAAAAAGTGTCAATACTTA
*
2576309 TATTAAATTATCGACACTTTCAATATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTTAGACCA
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCA-TTTTTAGACCA
2576374 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
65 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
2576439 TTTTA
130 TTTTA
2576444 GTTTAATTTC
Statistics
Matches: 290, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
181 180 0.62
182 110 0.38
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (181 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTTAGACCAG
TTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTT
TTTAAGCGCTATAACTTATTCTCTTTTAAATTCAAAAAGTGTCAATACTTA
Found at i:2576485 original size:162 final size:163
Alignment explanation
Indices: 2576282--2576602 Score: 466
Period size: 163 Copynumber: 2.0 Consensus size: 163
2576272 CTTCTTCTCT
*
2576282 TTTAAATTCAAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAATATATCCGGTAAC-T
1 TTTAAATTCAAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * *
2576346 TTTTCCGGTTTTGTCATTTTTTAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
66 TTTACCGGTTTTGTCAATTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* *
2576411 CGATACATTTTCATAAAGTGTCGACACTTTTTAG
131 CAATACATTTT-ATAAAGTATCGACACTTTTTAG
* * * *
2576445 TTTAATTTCAGAAAGTGTCGATACTT-TATTAAATTATCGACACTTTCAACATATCTGGTATCGT
1 TTTAAATTCAAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * * * *
2576509 TTTACTGGTTTTGTCAATTTTGGGACCTGTTTTATCATATTTTTACTTGTTATATTGTTGTGGAT
66 TTTACCGGTTTTGTCAATTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* *
2576574 CAATATATTTTTTAAAGTATCGACACTTT
131 CAATACATTTTATAAAGTATCGACACTTT
2576603 ATAGGCGCTA
Statistics
Matches: 140, Mismatches: 17, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
162 49 0.35
163 91 0.65
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (163 bp):
TTTAAATTCAAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
TTTACCGGTTTTGTCAATTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
CAATACATTTTATAAAGTATCGACACTTTTTAG
Found at i:2576885 original size:182 final size:182
Alignment explanation
Indices: 2576445--2577301 Score: 1019
Period size: 182 Copynumber: 4.8 Consensus size: 182
2576435 CACTTTTTAG
* * *
2576445 TTTAATTTCAGAAAGTGTCGATACTT-TATTAAATTATCGACACTTTCAACATATCTGGTATCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAAC-T
* * * * *
2576509 TTTACTGGTTTTGTCAATTTTGGGACCTGTTTTATCATATTTTTACTTGTTATATTGTTGTGGAT
65 TTTTCCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * * *
2576574 CAATATATTTT-TTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTATCT
130 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * *
2576626 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAATATATCCGGTAGCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAAC-T
* * *
2576691 TTTACTGGTTTTGTCAATTTTGAGATCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
65 TTTTCCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * * * * *
2576756 CGATACATTTTCATAAAGTGTCGACACTTTTTAAGTGCAATAACTTTTTCTCT
130 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * *
2576809 TTTAAATTCAGAAAGTGTCGATGCTTATATTAAATTATCGATACTTTTAACATATCCGGTAACTT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTT
* *
2576874 TTTCCGGTTTTGTCATTTTTGAGACCTATTTTATCATATTTTTACC--------TGTTA-GGATC
66 TTTCCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
* * *
2576930 GATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTAT
131 GATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * *
2576982 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTTTCGACACTTTCAATATATCCGGTAACTT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTT
* * ** * * *
2577047 TTTCCGGTTTTGTCATTTTTTAGACCAATTTTATCATA-TTTTACTTATTATATTG-TGTGGATC
66 TTTCCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
* **
2577110 GATATATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
131 GATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * * * *
2577162 TTTAAATTCAGAAAGTTTCTATACTTATATTAAATTATCGATAC--TCGACACATATCTGGT-AG
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTC-A-ACATATCCGGTAAC
* * * * * *
2577224 TGTTTTACCGGTTTTGTC-ATTTTGGGACCGGTTTTGTCATATTTGTACCTGTAATATTGCTATG
64 T-TTTT-CCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATG
* *
2577288 GAGCGATCCATTTT
127 GATCGATACATTTT
2577302 TCATTTGTAT
Statistics
Matches: 586, Mismatches: 73, Indels: 33
0.85 0.11 0.05
Matches are distributed among these distances:
172 6 0.01
173 147 0.25
174 5 0.01
178 2 0.00
179 4 0.01
180 122 0.21
181 48 0.08
182 162 0.28
183 90 0.15
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.45
Consensus pattern (182 bp):
TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTT
TTTCCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
GATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
Found at i:2576995 original size:173 final size:175
Alignment explanation
Indices: 2576445--2577276 Score: 899
Period size: 173 Copynumber: 4.7 Consensus size: 175
2576435 CACTTTTTAG
* * *
2576445 TTTAATTTCAGAAAGTGTCGATACTT-TATTAAATTATCGACACTTTCAACATATCTGGTATCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAAC-T
* * * *
2576509 TTTACTGGTTTTGTCAATTTTGGGACCTGTTTTATCATATTTTTACTTGTTATATTGTTGTGGAT
65 TTTTCCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTG-TATA------TGGAT
* * * *
2576574 CAATATATTTT-TTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTATCT
123 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * *
2576626 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAATATATCCGGTAGCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAAC-T
* * *
2576691 TTTACTGGTTTTGTCAATTTTGAGATCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
65 TTTTCCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTG---TA----TATGGAT
* * * * * *
2576756 CGATACATTTTCATAAAGTGTCGACACTTTTTAAGTGCAATAACTTTTTCTCT
123 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * *
2576809 TTTAAATTCAGAAAGTGTCGATGCTTATATTAAATTATCGATACTTTTAACATATCCGGTAACTT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTT
* *
2576874 TTTCCGGTTTTGTCATTTTTGAGACCTATTTTATCATATTTTTACCTGT-TA-GGATCGATACAT
66 TTTCCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTATATGGATCGATACAT
* * *
2576937 TTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTAT
131 TTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * *
2576982 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTTTCGACACTTTCAATATATCCGGTAACTT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTT
* * ** * *
2577047 TTTCCGGTTTTGTCATTTTTTAGACCAATTTTATCATA-TTTTACTTATTATATTGTGTGGATCG
66 TTTCCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCT-GTATA-----TGGATCG
* **
2577111 ATATATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
125 ATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * * * *
2577162 TTTAAATTCAGAAAGTTTCTATACTTATATTAAATTATCGATAC--TCGACACATATCTGGT-AG
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTC-A-ACATATCCGGTAAC
* * * *
2577224 TGTTTTACCGGTTTTGTC-ATTTTGGGACCGGTTTTGTCATATTTGTACCTGTA
64 T-TTTT-CCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTA
2577277 ATATTGCTAT
Statistics
Matches: 562, Mismatches: 68, Indels: 43
0.84 0.10 0.06
Matches are distributed among these distances:
172 7 0.01
173 148 0.26
174 4 0.01
178 2 0.00
179 4 0.01
180 122 0.22
181 41 0.07
182 140 0.25
183 90 0.16
184 2 0.00
188 2 0.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (175 bp):
TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTT
TTTCCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTATATGGATCGATACAT
TTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
Found at i:2577255 original size:20 final size:21
Alignment explanation
Indices: 2577230--2577268 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2577220 GTAGTGTTTT
2577230 ACCGGTTTTGTCAT-TTTGGG
1 ACCGGTTTTGTCATATTTGGG
2577250 ACCGGTTTTGTCATATTTG
1 ACCGGTTTTGTCATATTTG
2577269 TACCTGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (21 bp):
ACCGGTTTTGTCATATTTGGG
Found at i:2578086 original size:20 final size:22
Alignment explanation
Indices: 2578049--2578096 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
2578039 ATTTAAATAG
*
2578049 TTAAATGATCCGAGTAATAAAA
1 TTAAAAGATCCGAGTAATAAAA
2578071 TTAAAAGAT-CGA-TAATAAAA
1 TTAAAAGATCCGAGTAATAAAA
*
2578091 ATAAAA
1 TTAAAA
2578097 AAATTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.54
21 3 0.12
22 8 0.33
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.25
Consensus pattern (22 bp):
TTAAAAGATCCGAGTAATAAAA
Found at i:2581309 original size:45 final size:47
Alignment explanation
Indices: 2581249--2581345 Score: 117
Period size: 45 Copynumber: 2.1 Consensus size: 47
2581239 AATATATTGA
* ** *
2581249 CAAACGTTAAACGAACATGCTATTAAA-C-CTAAATGAACACGTTTG
1 CAAACATTAAACGAACATGCTAGCAAATCTATAAATGAACACGTTTG
* * *
2581294 CAAACATTAGACGAACATGTTAGCAAATCTATAAATGAACATGTTTG
1 CAAACATTAAACGAACATGCTAGCAAATCTATAAATGAACACGTTTG
2581341 CAAAC
1 CAAAC
2581346 GCTAAACAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 22 0.51
46 1 0.02
47 20 0.47
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (47 bp):
CAAACATTAAACGAACATGCTAGCAAATCTATAAATGAACACGTTTG
Found at i:2581627 original size:23 final size:25
Alignment explanation
Indices: 2581595--2581645 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
2581585 AATTTTATTT
2581595 TTATT-CC-CTTAAAATTATATAAA
1 TTATTCCCTCTTAAAATTATATAAA
* *
2581618 TTATTTCCTTCTTAAAATTTTATAAA
1 TTA-TTCCCTCTTAAAATTATATAAA
2581644 TT
1 TT
2581646 CACCTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 3 0.13
24 2 0.09
25 1 0.04
26 17 0.74
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (25 bp):
TTATTCCCTCTTAAAATTATATAAA
Found at i:2582561 original size:22 final size:23
Alignment explanation
Indices: 2582517--2582563 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
2582507 TATTATTATT
* *
2582517 AAACTAAGTTAAAACAAATAATGA
1 AAACTAAG-TAAAAAAAAGAATGA
2582541 AAACTAA-TAAAAAAAAGAATGA
1 AAACTAAGTAAAAAAAAGAATGA
2582563 A
1 A
2582564 CGGAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
24 7 0.33
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.17
Consensus pattern (23 bp):
AAACTAAGTAAAAAAAAGAATGA
Found at i:2585450 original size:22 final size:23
Alignment explanation
Indices: 2585418--2585462 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2585408 TAATTACTAC
*
2585418 TATCATATCATA-CACAAGTACA
1 TATCATATCATATCACAAATACA
*
2585440 TATCATCTCATATCACAAATACA
1 TATCATATCATATCACAAATACA
2585463 CATATGCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (23 bp):
TATCATATCATATCACAAATACA
Found at i:2586564 original size:19 final size:19
Alignment explanation
Indices: 2586540--2586589 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
2586530 TCTACTCTAG
2586540 GGTACCGATACCCTTCCTA
1 GGTACCGATACCCTTCCTA
*
2586559 GGTACCGATACCTTTCCTA
1 GGTACCGATACCCTTCCTA
*
2586578 GGTATCGATACC
1 GGTACCGATACC
2586590 AAAATTAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (19 bp):
GGTACCGATACCCTTCCTA
Found at i:2586654 original size:21 final size:22
Alignment explanation
Indices: 2586612--2586665 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
2586602 GATGTTCCCC
*
2586612 TGGTATCAATACCCTCCACATA
1 TGGTATCGATACCCTCCACATA
*
2586634 -GGTATCGATACCTCTTC-CATA
1 TGGTATCGATACC-CTCCACATA
2586655 TGGTATCGATA
1 TGGTATCGATA
2586666 TTGTTCATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (22 bp):
TGGTATCGATACCCTCCACATA
Found at i:2588716 original size:3 final size:3
Alignment explanation
Indices: 2588708--2588754 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
2588698 TTTTTATCCA
*
2588708 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2588755 AATATATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2590238 original size:14 final size:12
Alignment explanation
Indices: 2590199--2590239 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 12
2590189 ATAATAAATA
2590199 AATATTTATTTT
1 AATATTTATTTT
2590211 AA-A-TTATTTT
1 AATATTTATTTT
2590221 AATATTTAGTTTT
1 AATATTTA-TTTT
2590234 CAATAT
1 -AATAT
2590240 CAAAGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.36
11 2 0.08
12 5 0.20
13 4 0.16
14 5 0.20
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (12 bp):
AATATTTATTTT
Found at i:2590911 original size:24 final size:22
Alignment explanation
Indices: 2590863--2590921 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
2590853 CATATATTTA
2590863 ATTTATAAT-TT-TTTTTATAT
1 ATTTATAATATTATTTTTATAT
2590883 A--TATACATATTATTTTTATAGT
1 ATTTATA-ATATTATTTTTATA-T
2590905 ATTTATATATATTATTT
1 ATTTATA-ATATTATTT
2590922 CATTTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 3 0.09
21 8 0.25
22 2 0.06
24 13 0.41
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTATAATATTATTTTTATAT
Found at i:2590914 original size:22 final size:21
Alignment explanation
Indices: 2590863--2590914 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2590853 CATATATTTA
*
2590863 ATTTATA-ATTTTTTTTATAT
1 ATTTATATATTATTTTTATAT
* *
2590883 ATATACATATTATTTTTATAGT
1 ATTTATATATTATTTTTATA-T
2590905 ATTTATATAT
1 ATTTATATAT
2590915 ATTATTTCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 5 0.20
21 11 0.44
22 9 0.36
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTATATATTATTTTTATAT
Found at i:2601525 original size:14 final size:14
Alignment explanation
Indices: 2601508--2601555 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
2601498 TATTATGCTT
2601508 GAAAAAAAAAAAGA
1 GAAAAAAAAAAAGA
*
2601522 GAAAAAAAGAAAGA
1 GAAAAAAAAAAAGA
*
2601536 -AAAAAAAAGAAGAA
1 GAAAAAAAAAAAG-A
2601550 GAAAAA
1 GAAAAA
2601556 GAAAGGGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 10 0.34
14 14 0.48
15 5 0.17
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAAAGA
Found at i:2601528 original size:13 final size:13
Alignment explanation
Indices: 2601510--2601555 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
2601500 TTATGCTTGA
2601510 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
2601523 AAAAAAAGAAAGA-
1 AAAAAAA-AAAGAG
2601536 AAAAAAAAGAAGAAG
1 AAAAAAAA-AAG-AG
2601551 AAAAA
1 AAAAA
2601556 GAAAGGGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.03
13 17 0.59
14 6 0.21
15 5 0.17
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:2601537 original size:26 final size:26
Alignment explanation
Indices: 2601508--2601560 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
2601498 TATTATGCTT
2601508 GAAAAAAAAA-AAGAGAAAAAAAGAAA
1 GAAAAAAAAAGAAGA-AAAAAAAGAAA
*
2601534 GAAAAAAAAAGAAGAAGAAAAAGAAA
1 GAAAAAAAAAGAAGAAAAAAAAGAAA
2601560 G
1 G
2601561 GGGGTCAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (26 bp):
GAAAAAAAAAGAAGAAAAAAAAGAAA
Found at i:2602804 original size:82 final size:82
Alignment explanation
Indices: 2602714--2603210 Score: 859
Period size: 82 Copynumber: 6.0 Consensus size: 82
2602704 GAATGTGTTC
2602714 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
2602779 AGAAGATGAATTTGCCA
66 AGAAGATGAATTTGCCA
*
2602796 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTGGACAGAACAATCATTGAATTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
2602861 AGAAGATGAATTTGCCAA
66 AGAAGATGAATTTGCC-A
2602879 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
*
2602944 AGAAGATAAATTTGCCA
66 AGAAGATGAATTTGCCA
2602961 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
2603026 AGAAGATGAATTTGCCA
66 AGAAGATGAATTTGCCA
*
2603043 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAGTTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
2603108 AGAAGATGAATTTGCCA
66 AGAAGATGAATTTGCCA
* * * *
2603125 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGGTTTGGTATGAACCCCAAAAACCAATCATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGT-TGGA---C-AGAA-CAATCATT
*
2603190 GAATTTGGAAGATGAATTTGC
60 GAATTTAGAAGATGAATTTGC
2603211 TCATAGTAAA
Statistics
Matches: 397, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
82 283 0.71
83 83 0.21
86 1 0.00
87 3 0.01
88 27 0.07
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (82 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
AGAAGATGAATTTGCCA
Found at i:2602986 original size:165 final size:164
Alignment explanation
Indices: 2602714--2603210 Score: 859
Period size: 165 Copynumber: 3.0 Consensus size: 164
2602704 GAATGTGTTC
2602714 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
*
2602779 AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTGGACA
66 AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
2602844 GAACAATCATTGAATTTAGAAGATGAATTTGCCAA
131 GAACAATCATTGAATTTAGAAGATGAATTTGCC-A
2602879 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
*
2602944 AGAAGATAAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
66 AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
2603009 GAACAATCATTGAATTTAGAAGATGAATTTGCCA
131 GAACAATCATTGAATTTAGAAGATGAATTTGCCA
*
2603043 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAGTTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
* * *
2603108 AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGGTTTGGTATGAAC
66 AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGT-TGGA-
* *
2603173 CCCAAAAACCAATCATTGAATTTGGAAGATGAATTTGC
129 --C-AGAA-CAATCATTGAATTTAGAAGATGAATTTGC
2603211 TCATAGTAAA
Statistics
Matches: 317, Mismatches: 9, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
164 121 0.38
165 164 0.52
168 1 0.00
169 3 0.01
170 28 0.09
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (164 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTT
AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
GAACAATCATTGAATTTAGAAGATGAATTTGCCA
Found at i:2604065 original size:113 final size:113
Alignment explanation
Indices: 2603884--2604528 Score: 1105
Period size: 113 Copynumber: 5.7 Consensus size: 113
2603874 ATTGACATTG
*
2603884 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
** * * *
2603949 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTAT-TTTT
66 ATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTT
*
2603996 GCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
1 -CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
* *
2604061 AATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCAGCCTTT
65 AATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTT
*
2604110 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
2604175 ATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTT
66 ATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTT
*
2604223 CCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
2604288 ATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTT
66 ATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTT
2604336 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
* * *
2604401 ATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATTATCTTTT
66 ATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTT
* *
2604449 CCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
* *
2604513 ACTTGTTCAACTTTTT
66 ATTTGTTCAACCTTTT
2604529 GCATAATTCT
Statistics
Matches: 510, Mismatches: 21, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
112 70 0.14
113 437 0.86
114 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
ATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCTTTT
Found at i:2604854 original size:3 final size:3
Alignment explanation
Indices: 2604846--2604901 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
2604836 TTTTTATCCA
* *
2604846 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2604894 TAT TAT TA
1 TAT TAT TA
2604902 AATATATATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2606377 original size:14 final size:12
Alignment explanation
Indices: 2606338--2606378 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 12
2606328 ATAATAAATA
2606338 AATATTTATTTT
1 AATATTTATTTT
2606350 AA-A-TTATTTT
1 AATATTTATTTT
2606360 AATATTTAGTTTT
1 AATATTTA-TTTT
2606373 CAATAT
1 -AATAT
2606379 CAAAGAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.36
11 2 0.08
12 5 0.20
13 4 0.16
14 5 0.20
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (12 bp):
AATATTTATTTT
Found at i:2610212 original size:35 final size:36
Alignment explanation
Indices: 2610173--2610242 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
2610163 AAAAGTAAAC
*
2610173 ATTTTATCTCAAT-GAGATAATTTCCTTTGAAACCA
1 ATTTTATCTCAATCGACATAATTTCCTTTGAAACCA
* *
2610208 ATTTTATCTCATTCGACATTATTTCCTTTGAAACC
1 ATTTTATCTCAATCGACATAATTTCCTTTGAAACC
2610243 CAAAACATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 12 0.39
36 19 0.61
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (36 bp):
ATTTTATCTCAATCGACATAATTTCCTTTGAAACCA
Found at i:2611914 original size:8 final size:8
Alignment explanation
Indices: 2611901--2611935 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
2611891 TTTGTTTTGA
2611901 TTTATTAT
1 TTTATTAT
2611909 TTTATTAT
1 TTTATTAT
2611917 TTTATTTAT
1 TTTA-TTAT
2611926 TTTATTAT
1 TTTATTAT
2611934 TT
1 TT
2611936 ATTTAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTATTAT
Found at i:2611925 original size:17 final size:16
Alignment explanation
Indices: 2611900--2611940 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
2611890 ATTTGTTTTG
2611900 ATTTA-TTATTTTATT
1 ATTTATTTATTTTATT
2611915 ATTTTATTTATTTTATT
1 A-TTTATTTATTTTATT
2611932 ATTTATTTA
1 ATTTATTTA
2611941 ATATTTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.04
16 12 0.50
17 11 0.46
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTATTTATTTTATT
Found at i:2611926 original size:12 final size:12
Alignment explanation
Indices: 2611901--2611939 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
2611891 TTTGTTTTGA
2611901 TTTATTATTTTAT
1 TTTATTA-TTTAT
2611914 TATT-TTATTTAT
1 T-TTATTATTTAT
2611926 TTTATTATTTAT
1 TTTATTATTTAT
2611938 TT
1 TT
2611940 AATATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 16 0.67
13 4 0.17
14 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATTATTTAT
Found at i:2614177 original size:21 final size:22
Alignment explanation
Indices: 2614151--2614200 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
2614141 AAAGAAGATG
2614151 GAGGAGAAAATCAA-GCAGTTA
1 GAGGAGAAAATCAAGGCAGTTA
* * *
2614172 GAGGAGCAAATGAAGGTAGTTA
1 GAGGAGAAAATCAAGGCAGTTA
*
2614194 AAGGAGA
1 GAGGAGA
2614201 CCATGACTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.46, C:0.06, G:0.34, T:0.14
Consensus pattern (22 bp):
GAGGAGAAAATCAAGGCAGTTA
Found at i:2615871 original size:99 final size:99
Alignment explanation
Indices: 2615746--2615948 Score: 318
Period size: 99 Copynumber: 2.1 Consensus size: 99
2615736 AGATTATAAT
*
2615746 ATTAT-ATATATATACAATAAAGCTTGAGCTATCCCTCTAAAGCAATTGGTTAAACGCCCCGGCT
1 ATTATAATATATATACAATAAAGCTTGAGCTATCCCACTAAAGCAATTGGTTAAACGCCCCGGCT
* * *
2615810 TTATGGATAAGATTCAGTTAGCCTGATAAAGGTG
66 TTATGGATAAAATTCAGCTAACCTGATAAAGGTG
* * * *
2615844 ATTATAATATCTATACAATAAAGCTTGAGTTGTCCCACTAGAGCAATTGGTTAAACGCCCCGGCT
1 ATTATAATATATATACAATAAAGCTTGAGCTATCCCACTAAAGCAATTGGTTAAACGCCCCGGCT
2615909 TTATGGATAAAATTCAGCTAACCTGATAAAGGTG
66 TTATGGATAAAATTCAGCTAACCTGATAAAGGTG
*
2615943 TTTATA
1 ATTATA
2615949 TATTGAGCTG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 5 0.05
99 90 0.95
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (99 bp):
ATTATAATATATATACAATAAAGCTTGAGCTATCCCACTAAAGCAATTGGTTAAACGCCCCGGCT
TTATGGATAAAATTCAGCTAACCTGATAAAGGTG
Found at i:2617295 original size:84 final size:84
Alignment explanation
Indices: 2617151--2618022 Score: 852
Period size: 84 Copynumber: 10.4 Consensus size: 84
2617141 CTATCGGTAG
* * * * *
2617151 CATAACTCAAGACTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAATTCGACTACGCTCAGCTT
1 CATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTT
*
2617216 CAAGGCACATCATTTGCAG
66 CAAGGCACATCATTTGCAA
* *
2617235 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA-AGCTCAGCT
1 CATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACA-CTCAGCT
*
2617299 CCAAGGCACATCATTTGCAA
65 TCAAGGCACATCATTTGCAA
* * * * * *
2617319 CATAGCTCAATGCAAGAAGGGTTATTTGCCAGCAAAATACCTTCGAGTTCGACAACACTCAGC-T
1 CATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTT
* *
2617383 CAAAGGCATATCATTTGCAG
66 C-AAGGCACATCATTTGCAA
* * * ** * ** *
2617403 CATAAACTCAAGGCTAGAAGAGTTATTTATCAACCAAAGACCTTCGAGTTCGACTATTCTCAACT
1 CAT-AGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCT
* *
2617468 CCAAGGCACATCGTTTGCAA
65 TCAAGGCACATCATTTGCAA
* * * * * * * * *
2617488 CATAGCTCAAGGCAAGAAGTGCTATTTACCAACAAAAGATCTTCGAGTTCGACTACGCTCAACTC
1 CATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTT
*
2617553 CAAGGCACATCATTTGCAT
66 CAAGGCACATCATTTGCAA
* * * *
2617572 CATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGATCTTCGAGTTCGACTACACTCAGCTC
1 CATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTT
2617637 CAAGGCACATCATTTGCAA
66 CAAGGCACATCATTTGCAA
* * * * * * *
2617656 TATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAATACCTTTGAGTTCGATTACACGT-AGC-
1 CATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACAC-TCAGCT
* *
2617719 TCAACGGCACATCATTTACAG
65 TCAA-GGCACATCATTTGCAA
* * * ** *
2617740 TATAGCTCAAGGCTAGAAGGGCTATCT----ACCAAAGACCCACGAGTTCGATTACACTCAGCTT
1 CATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTT
* * * *
2617801 CGAGGGTACATTATTTACAA
66 C-AAGGCACATCATTTGCAA
* * * * * * * *
2617821 CATAACTCAAGGCTAGAAGGGTTATCTGTCAAAAAAAGACCTTTGAATTCTATTATACTCAGC-T
1 CATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTT
*
2617885 CAACGGCACATCATTTGCAG
66 CAA-GGCACATCATTTGCAA
* * * *
2617905 TATAGTTCAAGGCTAGAAGGGTTATCTG-C--C-AAAGACCATCGAGTTCGATTACACTCAGCTT
1 CATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTT
* *
2617966 CGAGGGCACATCATTTACAA
66 C-AAGGCACATCATTTGCAA
* * * * *
2617986 CATAGCTTAAGGCAAGAAGGGCTATCTGTCAGCAAAA
1 CATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAA
2618023 TTGTCGAGTT
Statistics
Matches: 658, Mismatches: 109, Indels: 41
0.81 0.13 0.05
Matches are distributed among these distances:
79 1 0.00
80 49 0.07
81 78 0.12
82 3 0.00
83 6 0.01
84 426 0.65
85 94 0.14
86 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (84 bp):
CATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTT
CAAGGCACATCATTTGCAA
Found at i:2619460 original size:19 final size:18
Alignment explanation
Indices: 2619438--2619477 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
2619428 GTATTTCATA
2619438 TTTTATATAATTTTTTCTC
1 TTTTATATAATTTTTT-TC
* *
2619457 TTTTTTATTATTTTTTTC
1 TTTTATATAATTTTTTTC
2619475 TTT
1 TTT
2619478 AACTTATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTATATAATTTTTTTC
Found at i:2619497 original size:4 final size:4
Alignment explanation
Indices: 2619488--2619627 Score: 82
Period size: 4 Copynumber: 36.0 Consensus size: 4
2619478 AACTTATTCT
* * * *
2619488 TTTA TTTA TTTA TTT- TTAAA TTTA TTTA TTTA ATT- TTT- TTTC TTTG
1 TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
2619534 TTTT TTTA TTT- TTTA TTTT TTTA -TTA TCTA TTTTGA TTTA -TTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTT-A TTTA TTTA -TTTA
* * *
2619582 TTTA TTT- TATTA TTTA TTTA -ATA TTTA ATTA -TTA TTTT TTTA TTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
2619628 ATTTGAATAG
Statistics
Matches: 107, Mismatches: 16, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
3 22 0.21
4 73 0.68
5 11 0.10
6 1 0.01
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:2619512 original size:28 final size:28
Alignment explanation
Indices: 2619459--2619513 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
2619449 TTTTTCTCTT
* *
2619459 TTTTATTATTTTTTTCTTTAACTTATTC
1 TTTTATTATTTATTTCTTAAACTTATTC
*
2619487 TTTTATTTATTTATTT-TTAAATTTATT
1 TTTTA-TTATTTATTTCTTAAACTTATT
2619514 TATTTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTTATTATTTATTTCTTAAACTTATTC
Found at i:2619565 original size:22 final size:22
Alignment explanation
Indices: 2619481--2619625 Score: 88
Period size: 21 Copynumber: 6.6 Consensus size: 22
2619471 TTTCTTTAAC
*
2619481 TTATTCTTTTATTTATTTATTTT
1 TTATTTTTTTA-TTATTTATTTT
* * *
2619504 TAAATTTATTTA-T-TTAATTTT
1 T-TATTTTTTTATTATTTATTTT
2619525 TT-TTCTTTGTT-TT-TTTATTTT
1 TTATT-TTT-TTATTATTTATTTT
*
2619546 TTATTTTTTTATTATCTA-TTT
1 TTATTTTTTTATTATTTATTTT
*
2619567 TGATTTATTATT-TTATTTATTTT
1 TTATTT-TT-TTATTATTTATTTT
* * * *
2619590 ATTATTTATTTAATATTTAATTA
1 -TTATTTTTTTATTATTTATTTT
2619613 TTATTTTTTTATT
1 TTATTTTTTTATT
2619626 TAATTTGAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 25
0.69 0.13 0.19
Matches are distributed among these distances:
19 2 0.02
20 4 0.04
21 33 0.35
22 27 0.29
23 15 0.16
24 12 0.13
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.74
Consensus pattern (22 bp):
TTATTTTTTTATTATTTATTTT
Found at i:2619620 original size:82 final size:82
Alignment explanation
Indices: 2619406--2619626 Score: 200
Period size: 82 Copynumber: 2.6 Consensus size: 82
2619396 TTTAACTCTT
* * * * *
2619406 TTATTTTTTTTATTTTTTTATTGTATTTCATATTTTA-TATAATTTTTTCTCTTTTTTATTATTT
1 TTATTTTATTTATTTTATTATT-TATTTAATATTTTATTATTATTTTTT-TATTTTTTATTATTT
* * *
2619470 TTTTCTTTAACTTATTCTT
64 TTTTATCTAACTTATTCTA
* * *
2619489 TTA-TTTATTTATTTTTAAATTTATTTATTTAAT-TTTTTTTCTTTGTTTTTTTATTTTTTATT-
1 TTATTTTATTTA-TTTT--A-TTATTTATTTAATATTTTATT-ATTATTTTTTTATTTTTTATTA
**
2619551 TTTTTATTATCTATTTTGATT-TA
61 TTTTT-TTATCTAACTT-ATTCTA
*
2619574 TTATTTTATTTATTTTATTATTTATTTAATATTTAATTATTATTTTTTTATTT
1 TTATTTTATTTATTTTATTATTTATTTAATATTTTATTATTATTTTTTTATTT
2619627 AATTTGAATA
Statistics
Matches: 111, Mismatches: 17, Indels: 21
0.74 0.11 0.14
Matches are distributed among these distances:
82 33 0.30
83 13 0.12
84 9 0.08
85 33 0.30
86 23 0.21
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (82 bp):
TTATTTTATTTATTTTATTATTTATTTAATATTTTATTATTATTTTTTTATTTTTTATTATTTTT
TTATCTAACTTATTCTA
Found at i:2619626 original size:8 final size:8
Alignment explanation
Indices: 2619404--2619592 Score: 80
Period size: 8 Copynumber: 21.9 Consensus size: 8
2619394 AATTTAACTC
2619404 TTTTATTTT
1 TTTTA-TTT
2619413 TTTTATTT
1 TTTTATTT
2619421 TTTTATTGT
1 TTTTATT-T
2619430 ATTTCATATTT
1 -TTT--TATTT
* *
2619441 TATATAATT
1 T-TTTATTT
*
2619450 TTTTCTCTT
1 TTTTAT-TT
2619459 TTTTATTAT
1 TTTTATT-T
2619468 TTTT-TTCT
1 TTTTATT-T
*
2619476 TTAACTTATTC
1 TT---TTATTT
2619487 TTTTATTT
1 TTTTATTT
*
2619495 ATTTATTT
1 TTTTATTT
**
2619503 TTAAATTT
1 TTTTATTT
*
2619511 ATTTATTT
1 TTTTATTT
2619519 AATTTT-TTT
1 --TTTTATTT
*
2619528 TCTTTGTTT
1 T-TTTATTT
2619537 TTTTA-TT
1 TTTTATTT
2619544 TTTTATTT
1 TTTTATTT
2619552 TTTTA-TT
1 TTTTATTT
* *
2619559 ATCTATTT
1 TTTTATTT
*
2619567 TGATTTATTA
1 T--TTTATTT
2619577 TTTTATTT
1 TTTTATTT
2619585 ATTTTATT
1 -TTTTATT
2619593 ATTTATTTAA
Statistics
Matches: 136, Mismatches: 24, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
7 13 0.10
8 61 0.45
9 37 0.27
10 13 0.10
11 6 0.04
12 6 0.04
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (8 bp):
TTTTATTT
Found at i:2620956 original size:2 final size:2
Alignment explanation
Indices: 2620949--2620973 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2620939 TTTAGTCCAT
2620949 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2620974 GCGTTAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2623462 original size:31 final size:33
Alignment explanation
Indices: 2623421--2623481 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
2623411 CAAATATTTT
*
2623421 AAAAAATAGACTTCTAATAA-AAA-AAATACTG
1 AAAAAATAGACTTATAATAACAAATAAATACTG
*
2623452 AAAAATTAGACTTATAATAACAAATAAATA
1 AAAAAATAGACTTATAATAACAAATAAATA
2623482 TTATAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 18 0.69
32 3 0.12
33 5 0.19
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.25
Consensus pattern (33 bp):
AAAAAATAGACTTATAATAACAAATAAATACTG
Found at i:2627806 original size:28 final size:30
Alignment explanation
Indices: 2627743--2627806 Score: 114
Period size: 29 Copynumber: 2.2 Consensus size: 30
2627733 TGTAATATTC
2627743 TACAAAATTTAAAATCAAAATAGTTATTTA
1 TACAAAATTTAAAATCAAAATAGTTATTTA
2627773 TACAAAA-TTAAAATCAAAATA-TTATTTA
1 TACAAAATTTAAAATCAAAATAGTTATTTA
2627801 TACAAA
1 TACAAA
2627807 CGTTAAAGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 13 0.38
29 14 0.41
30 7 0.21
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (30 bp):
TACAAAATTTAAAATCAAAATAGTTATTTA
Found at i:2628138 original size:97 final size:96
Alignment explanation
Indices: 2628037--2628224 Score: 351
Period size: 97 Copynumber: 1.9 Consensus size: 96
2628027 TTCAAAAGAT
2628037 AATATTAATTTTATTTTCATTTTCTATTTAAAT-TTTAAAAAAATGTGTCAGCTGGCTCGACCAG
1 AATATTAATTTTATTTTCATTTTCTATTTAAATATTT-AAAAAATGTGTCAGCTGGCTCGACCAG
2628101 TGTAGGTATGTAACAGGGATTTCCCTCCAAAAG
65 TGTAGGTATGTAAC-GGGATTTCCCTCCAAAAG
2628134 AATATTAATTTTATTTTCATTTTCTATTTAAATATTTAAAAAATGTGTCAGCTGGCTCGACCAGT
1 AATATTAATTTTATTTTCATTTTCTATTTAAATATTTAAAAAATGTGTCAGCTGGCTCGACCAGT
2628199 GTAGGTATGTAACGGGATTTCCCTCC
66 GTAGGTATGTAACGGGATTTCCCTCC
2628225 CTTTTTGCAT
Statistics
Matches: 90, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
96 13 0.14
97 74 0.82
98 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (96 bp):
AATATTAATTTTATTTTCATTTTCTATTTAAATATTTAAAAAATGTGTCAGCTGGCTCGACCAGT
GTAGGTATGTAACGGGATTTCCCTCCAAAAG
Found at i:2636897 original size:24 final size:24
Alignment explanation
Indices: 2636870--2636978 Score: 82
Period size: 23 Copynumber: 4.7 Consensus size: 24
2636860 AATTGCATTG
2636870 AAGTACCACATAGAATATG-CACCA
1 AAGTACCACATAGAATATGTC-CCA
** *
2636894 AAGTGTCACATAGAA-ATGTCCCG
1 AAGTACCACATAGAATATGTCCCA
* *
2636917 AAGGACCACATAG-ATATGTCCCG
1 AAGTACCACATAGAATATGTCCCA
* * * *
2636940 AAGGACCGCGTAGAA-ATGTCCCG
1 AAGTACCACATAGAATATGTCCCA
* *
2636963 AAGGACCACGTAGAAT
1 AAGTACCACATAGAAT
2636979 TCTCCCGACG
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
22 1 0.01
23 56 0.78
24 15 0.21
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (24 bp):
AAGTACCACATAGAATATGTCCCA
Found at i:2636928 original size:47 final size:47
Alignment explanation
Indices: 2636869--2637015 Score: 131
Period size: 46 Copynumber: 3.2 Consensus size: 47
2636859 AAATTGCATT
* *
2636869 GAAGTACCACATAGAATATG-CACCAAAGTG-TCACATAGAAATGTCCC
1 GAAGGACCACATAGAATATGTC-CCAAAG-GACCACATAGAAATGTCCC
* * *
2636916 GAAGGACCACATAG-ATATGTCCCGAAGGACCGCGTAGAAATGTCCC
1 GAAGGACCACATAGAATATGTCCCAAAGGACCACATAGAAATGTCCC
* * * * * * *
2636962 GAAGGACCACGTAGAAT-TCTCCCGACGGACCACGTAGAATTCTCCC
1 GAAGGACCACATAGAATATGTCCCAAAGGACCACATAGAAATGTCCC
*
2637008 GACGGACC
1 GAAGGACC
2637016 GCGTAGAACC
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.80
47 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.22, T:0.16
Consensus pattern (47 bp):
GAAGGACCACATAGAATATGTCCCAAAGGACCACATAGAAATGTCCC
Found at i:2636930 original size:23 final size:23
Alignment explanation
Indices: 2636904--2637023 Score: 150
Period size: 23 Copynumber: 5.2 Consensus size: 23
2636894 AAGTGTCACA
*
2636904 TAGAAATGTCCCGAAGGACCACA
1 TAGAAATGTCCCGAAGGACCACG
* *
2636927 TAGATATGTCCCGAAGGACCGCG
1 TAGAAATGTCCCGAAGGACCACG
2636950 TAGAAATGTCCCGAAGGACCACG
1 TAGAAATGTCCCGAAGGACCACG
* * *
2636973 TAGAATTCTCCCGACGGACCACG
1 TAGAAATGTCCCGAAGGACCACG
* * * *
2636996 TAGAATTCTCCCGACGGACCGCG
1 TAGAAATGTCCCGAAGGACCACG
2637019 TAGAA
1 TAGAA
2637024 CCCTCAACTC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 88 1.00
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (23 bp):
TAGAAATGTCCCGAAGGACCACG
Found at i:2637150 original size:16 final size:16
Alignment explanation
Indices: 2637108--2637154 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
2637098 TTCACATATT
* *
2637108 CATATAATCACGTAGTT
1 CATATAATCACATAG-A
2637125 CA-AT-ATCACATAGA
1 CATATAATCACATAGA
2637139 CATATAATCACATAGA
1 CATATAATCACATAGA
2637155 TCCTTGTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 2 0.08
15 10 0.38
16 12 0.46
17 2 0.08
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.28
Consensus pattern (16 bp):
CATATAATCACATAGA
Found at i:2637178 original size:45 final size:45
Alignment explanation
Indices: 2637127--2637249 Score: 140
Period size: 45 Copynumber: 2.7 Consensus size: 45
2637117 ACGTAGTTCA
* ** * *
2637127 ATATCACATAGACATATAATCACATAGATCCTTGTCATATAGCTT
1 ATATCACATAGTCATATAATCACATAGATCAATGCCACATAGCTT
*
2637172 ATATCACAT-GTTCATATAATCACATAGGTCAATGCCACATAGCTT
1 ATATCACATAG-TCATATAATCACATAGATCAATGCCACATAGCTT
* * * *
2637217 ATATCATATATTCATGTAATCACATAGGTCAAT
1 ATATCACATAGTCATATAATCACATAGATCAAT
2637250 ATCATATAAC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.01
45 66 0.99
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (45 bp):
ATATCACATAGTCATATAATCACATAGATCAATGCCACATAGCTT
Found at i:2641575 original size:3 final size:3
Alignment explanation
Indices: 2641567--2641623 Score: 98
Period size: 3 Copynumber: 19.0 Consensus size: 3
2641557 TTATTTATTA
2641567 AAT AAT AAT AAT ATAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2641612 AAT AAT AAT AAT
1 AAT AAT AAT AAT
2641624 CAAATGAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Done.