Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 12 of 47
Found at i:1601277 original size:18 final size:19
Alignment explanation
Indices: 1601245--1601290 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1601235 CCAATAGGTA
*
1601245 ATAAAAAAT-AATA-TTAC
1 ATAAAATATAAATATTTAC
1601262 ATAAAATATAAATATTTAC
1 ATAAAATATAAATATTTAC
*
1601281 ATAAATTATA
1 ATAAAATATA
1601291 TTATCTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.32
18 4 0.16
19 13 0.52
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAAATATAAATATTTAC
Found at i:1602088 original size:20 final size:20
Alignment explanation
Indices: 1602035--1602090 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 20
1602025 ATGTAAAAAA
*
1602035 TTACATAAAATATTATTGAG
1 TTACATAAAATATTATAGAG
*
1602055 TTATATATAAATATTATAGAG
1 TTACATA-AAATATTATAGAG
1602076 TTACATAAAATATTA
1 TTACATAAAATATTA
1602091 ACGAAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (20 bp):
TTACATAAAATATTATAGAG
Found at i:1602169 original size:16 final size:16
Alignment explanation
Indices: 1602129--1602170 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
1602119 TTTAAAAAAA
*
1602129 ATTAAATATAATTTTT
1 ATTAAATATATTTTTT
*
1602145 A-CAAA-ATATTTTTT
1 ATTAAATATATTTTTT
1602159 ATTAAATATATT
1 ATTAAATATATT
1602171 ATATATGTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
14 9 0.43
15 6 0.29
16 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTAAATATATTTTTT
Found at i:1602463 original size:11 final size:11
Alignment explanation
Indices: 1602449--1602491 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
1602439 AAAATATTAT
*
1602449 TTATATAAATA
1 TTATAAAAATA
1602460 TTATAAAAATA
1 TTATAAAAATA
1602471 -TATAAAAATA
1 TTATAAAAATA
1602481 TTATTAAAAAT
1 TTA-TAAAAAT
1602492 TTTGATCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 10 0.34
11 12 0.41
12 7 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TTATAAAAATA
Found at i:1602476 original size:10 final size:10
Alignment explanation
Indices: 1602450--1602491 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
1602440 AAATATTATT
*
1602450 TATATAAATA
1 TATATAAAAA
1602460 T-TATAAAAA
1 TATATAAAAA
1602469 TATATAAAAA
1 TATATAAAAA
1602479 TATTATTAAAAA
1 TA-TA-TAAAAA
1602491 T
1 T
1602492 TTTGATCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 8 0.29
10 11 0.39
11 2 0.07
12 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TATATAAAAA
Found at i:1602479 original size:21 final size:22
Alignment explanation
Indices: 1602450--1602491 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1602440 AAATATTATT
*
1602450 TATATAAATATTA-TAAAAATA
1 TATAAAAATATTATTAAAAATA
1602471 TATAAAAATATTATTAAAAAT
1 TATAAAAATATTATTAAAAAT
1602492 TTTGATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TATAAAAATATTATTAAAAATA
Found at i:1608232 original size:33 final size:33
Alignment explanation
Indices: 1608168--1608236 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
1608158 TATTATTTTA
* * **
1608168 AAAATAATATATATTAATATTTTTAAATTTAAT
1 AAAATAATATAAATTAATATATAAAAATTTAAT
1608201 AAAATAATATAAATTAA-ATATAAAAATTT--T
1 AAAATAATATAAATTAATATATAAAAATTTAAT
1608231 AAAATA
1 AAAATA
1608237 TTAATTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 7 0.22
32 9 0.28
33 16 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
AAAATAATATAAATTAATATATAAAAATTTAAT
Found at i:1608235 original size:21 final size:21
Alignment explanation
Indices: 1608211--1608253 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1608201 AAAATAATAT
1608211 AAAT-TAAATATAAAAATTTTA
1 AAATATAAAT-TAAAAATTTTA
* *
1608232 AAATATTAATTAAAATTTTTA
1 AAATATAAATTAAAAATTTTA
1608253 A
1 A
1608254 TTATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATATAAATTAAAAATTTTA
Found at i:1608266 original size:21 final size:20
Alignment explanation
Indices: 1608219--1608266 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
1608209 ATAAATTAAA
1608219 TATAAAAATTTTAAAATATT
1 TATAAAAATTTTAAAATATT
* * *
1608239 AATTAAAATTTTTAATTATATT
1 TA-TAAAAATTTTAA-AATATT
1608261 TATAAA
1 TATAAA
1608267 CAGTTATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 15 0.68
22 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATAAAAATTTTAAAATATT
Found at i:1608993 original size:21 final size:18
Alignment explanation
Indices: 1608945--1608990 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
1608935 TTATATTTTT
1608945 AAAATTA-TAATAAATAA
1 AAAATTATTAATAAATAA
*
1608962 AAAATAATTAATAATATTAA
1 AAAATTATTAATAA-A-TAA
1608982 AAAATTATT
1 AAAATTATT
1608991 TAAATATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 6 0.25
19 1 0.04
20 11 0.46
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTATTAATAAATAA
Found at i:1611272 original size:3 final size:3
Alignment explanation
Indices: 1611264--1611300 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1611254 GCACTCTTAT
1611264 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1611301 ATTTATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1613000 original size:21 final size:21
Alignment explanation
Indices: 1612961--1613001 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1612951 TCTTACAAGA
** *
1612961 TGTATCGATACTCATCATGGT
1 TGTATCGATACAAACCATGGT
1612982 TGTATCGATACAAACCATGG
1 TGTATCGATACAAACCATGG
1613002 CAGTACTCAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (21 bp):
TGTATCGATACAAACCATGGT
Found at i:1615795 original size:89 final size:87
Alignment explanation
Indices: 1615505--1615938 Score: 308
Period size: 89 Copynumber: 4.9 Consensus size: 87
1615495 ATTTTTGATT
* * * * * *** **
1615505 TTGGGAAACTCCATCCCCACTACTCTAAAGGGGATACTCCAACCCCGA-TCTTAAAAAAAACTCA
1 TTGGGAAACTTCATCCCCATTACTCT-GAGGGGATACTTCAA-CCCTATTCTCCCAAAAATTTCA
* *
1615569 AATTTTTCTTCGTATAATTTTATCC
64 AATTTTCCTTCGTATGATTTTAT-C
* * * * * * *
1615594 TTAGGGAAACTCCATCTCTACTATTTTGAGGGGATA-TTCCAAACCC-ATTCT---AATAAAGTT
1 TT-GGGAAACTTCATCCCCATTACTCTGAGGGGATACTT-C-AACCCTATTCTCCCAA-AAATTT
* *
1615654 CAAACTTTCCTTTGTATGATTTTATTC
62 CAAATTTTCCTTCGTATGATTTTA-TC
* * *
1615681 TTGGGGAAA-TTCCATCCCCACTACTCTAAGGGGATACTTCAACCCTATTCTCCCAAAAATTTTA
1 TT-GGGAAACTT-CATCCCCATTACTCTGAGGGGATACTTCAACCCTATTCTCCCAAAAATTTCA
*
1615745 AATTTTCCTTCGTATCATTTTATC
64 AATTTTCCTTCGTATGATTTTATC
* * * * * *
1615769 ATTGGGAAAACTTCATCTCCATTACTCCGAGGAGATAC-TCAAATCCTGTTCTGCCAAAAATTTC
1 -TTGGG-AAACTTCATCCCCATTACTCTGAGGGGATACTTC-AACCCTATTCTCCCAAAAATTTC
* * *
1615833 AAAATTTCCTCCATATGATTTTATCC
63 AAATTTTCCTTCGTATGATTTTAT-C
* * * * *
1615859 TTAGGGAAACTTTACCCCCATTACTTTGAGAGGATACTCCAACCCTATTCTCCCAAAAATTTCAA
1 TT-GGGAAACTTCATCCCCATTACTCTGAGGGGATACTTCAACCCTATTCTCCCAAAAATTTCAA
*
1615924 ATTTATCCTTTGTAT
65 ATTT-TCCTTCGTAT
1615939 AGTCAGGATA
Statistics
Matches: 273, Mismatches: 52, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
86 8 0.03
87 58 0.21
88 12 0.04
89 157 0.58
90 38 0.14
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (87 bp):
TTGGGAAACTTCATCCCCATTACTCTGAGGGGATACTTCAACCCTATTCTCCCAAAAATTTCAAA
TTTTCCTTCGTATGATTTTATC
Found at i:1621978 original size:74 final size:73
Alignment explanation
Indices: 1621864--1622519 Score: 182
Period size: 72 Copynumber: 9.0 Consensus size: 73
1621854 TTTTTTATTC
** * ** * * *
1621864 TTTAAAGCCCACACAAAATGGTGGCACCCCTTTTATTTTTTTAGTCCTTAA-AGAATAGGACGCC
1 TTTAAAGCCCACACAAGCTAGTAACACCCCTTTTA-CTTTTTAGTCC-TAAGAGAACAGGACACC
1621928 TTTT-TCTTTT
64 TTTTCT-TTTT
* * *
1621938 TTTAAAGCCCACACAAGCTAGTAACACCCCTTTGT-CTTTTTAGTCCTAAGAGAGCATGATACCT
1 TTTAAAGCCCACACAAGCTAGTAACACCCCTTT-TACTTTTTAGTCCTAAGAGAACAGGACACCT
1622002 TTTCTTTTT
65 TTTCTTTTT
* * * * * ** **
1622011 TTTAAAGCCCGCACAAGCTGGTGTAAC-CCTCTTTT--TTTTTAATCCTCAAAAG-GGAGGATGC
1 TTTAAAGCCCACACAAGCT--AGTAACACCCCTTTTACTTTTTAGTCCT-AAGAGAACAGGACAC
1622072 CTTTT-TTTTT
63 CTTTTCTTTTT
* * * ** * * *
1622082 CTTAAAGCCTACACAAGCTGGTGGCA-CCCTTTTATCCTTATAGTCCTCAA-A-AAGTAGGACAC
1 TTTAAAGCCCACACAAGCTAGTAACACCCCTTTTA-CTTTTTAGTCCT-AAGAGAA-CAGGACAC
*
1622144 ATTTTCTTTTT
63 CTTTTCTTTTT
* * * ** * * **
1622155 TTTCAAAGCTCACATAAGCTGGTGGCA--CCTTTTATCTTTTTAGTTCTCAA-A-AATTAGGATG
1 TTT-AAAGCCCACACAAGCTAGTAACACCCCTTTTA-CTTTTTAGTCCT-AAGAGAA-CAGGACA
*
1622216 CTTTTTCCTTTTT
62 CCTTTT-CTTTTT
* * * ** * * * **
1622229 TTCAAAGCTCACACAAGCTGGTGGCACCCCTTTTATCTTTTTAGTTCTCAA-AGACCAAGA-TGC
1 TTTAAAGCCCACACAAGCTAGTAACACCCCTTTTA-CTTTTTAGTCCT-AAGAGAACAGGACACC
1622292 TTGTTC--TTT
64 TT-TTCTTTTT
* * * ** * * * ****
1622301 TTCAAAGCCCATACAAACTAGTGGCATCCCTTTTATCTTTTTAGTCCTCAA-AGAGCAAG-TGTT
1 TTTAAAGCCCACACAAGCTAGTAACACCCCTTTTA-CTTTTTAGTCCT-AAGAGAACAGGACACC
1622364 TTTTC-TTTT
64 TTTTCTTTTT
* * ** * * ** *
1622373 TTCAAAGCCCACACAAGCTGGTGGCA-CCTTTTTATCTTTTTAGTCCTCAA-AGAGCATAACATC
1 TTTAAAGCCCACACAAGCTAGTAACACCCCTTTTA-CTTTTTAGTCCT-AAGAGAACAGGACACC
1622436 TTTTC--TTT
64 TTTTCTTTTT
* * * ** * * *
1622444 TTTAAAGCCTACGCAAGCTAATGGCA-CCCTTTTATCTTTTAAGTCCTCGAAGGGCA-AGG-CAC
1 TTTAAAGCCCACACAAGCTAGTAACACCCCTTTTA-CTTTTTAGTCCT--AAGAGAACAGGACAC
1622506 CTTTTCTTTTT
63 CTTTTCTTTTT
1622517 TTT
1 TTT
1622520 TTTTTTCAAA
Statistics
Matches: 470, Mismatches: 86, Indels: 53
0.77 0.14 0.09
Matches are distributed among these distances:
69 9 0.02
71 105 0.22
72 136 0.29
73 118 0.25
74 66 0.14
75 35 0.07
76 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (73 bp):
TTTAAAGCCCACACAAGCTAGTAACACCCCTTTTACTTTTTAGTCCTAAGAGAACAGGACACCTT
TTCTTTTT
Found at i:1622020 original size:73 final size:72
Alignment explanation
Indices: 1621813--1622760 Score: 649
Period size: 71 Copynumber: 13.0 Consensus size: 72
1621803 AGTATCTAAA
* * *
1621813 CCTTTTATCTTTTTAGTACTCAAAGAGTAGGATGCCTTTTCTTTTTTATTCTTTAAAGCCCACAC
1 CCTTTTATCTTTTTAGTCCTCAAAGAGCAGGATACCTTTTC----TT-TT-TTTAAAGCCCACAC
**
1621878 AAAATGGTGGCACC
60 AAGCTGGTGGCA-C
* * ** **
1621892 CCTTTTATTTTTTTAGTCCTTAAAGAATAGGACGCCTTTTTCTTTTTTTAAAGCCCACACAAGCT
1 CCTTTTATCTTTTTAGTCCTCAAAGAGCAGGATACC-TTTTCTTTTTTTAAAGCCCACACAAGCT
* **
1621957 AGTAACAC
65 GGTGGCAC
* * * *
1621965 CCCTTTGTCTTTTTAGTCCT-AAGAGAGCATGATACCTTTTCTTTTTTTTAAAGCCCGCACAAGC
1 CCTTTTATCTTTTTAGTCCTCAA-AGAGCAGGATACCTTTTC-TTTTTTTAAAGCCCACACAAGC
**
1622029 TGGTGTAAC
64 TGGTGGCAC
* * * *
1622038 CCTCTTT-T-TTTTTAATCCTCAAA-AGGGAGGATGCCTTTT-TTTTTCTTAAAGCCTACACAAG
1 CCT-TTTATCTTTTTAGTCCTCAAAGA-GCAGGATACCTTTTCTTTTT-TTAAAGCCCACACAAG
1622099 CTGGTGGCAC
63 CTGGTGGCAC
* * * * * * * *
1622109 CCTTTTATCCTTATAGTCCTCAAAAAGTAGGACACATTTTCTTTTTTTTCAAAGCTCACATAAGC
1 CCTTTTATCTTTTTAGTCCTCAAAGAGCAGGATACCTTTTC-TTTTTTT-AAAGCCCACACAAGC
1622174 TGGTGGCA-
64 TGGTGGCAC
* * ** * * *
1622182 CCTTTTATCTTTTTAGTTCTCAAAAATTAGGATGCTTTTTCCTTTTTTTCAAAGCTCACACAAGC
1 CCTTTTATCTTTTTAGTCCTCAAAGAGCAGGATACCTTTT-CTTTTTTT-AAAGCCCACACAAGC
1622247 TGGTGGCACC
64 TGGTGGCA-C
* * * * * * *
1622257 CCTTTTATCTTTTTAGTTCTCAAAGACCAAGAT-GCTTGTTC-TTTTTCAAAGCCCATACAAACT
1 CCTTTTATCTTTTTAGTCCTCAAAGAGCAGGATACCTT-TTCTTTTTTTAAAGCCCACACAAGCT
*
1622320 AGTGGCATC
65 GGTGGCA-C
* *** *
1622329 CCTTTTATCTTTTTAGTCCTCAAAGAGCAAG-TGTTTTTTCTTTTTTCAAAGCCCACACAAGCTG
1 CCTTTTATCTTTTTAGTCCTCAAAGAGCAGGATACCTTTTCTTTTTTTAAAGCCCACACAAGCTG
1622393 GTGGCAC
66 GTGGCAC
* ** * * * * *
1622400 CTTTTTATCTTTTTAGTCCTCAAAGAGCATAACATCTTTTC-TTTTTTAAAGCCTACGCAAGCTA
1 CCTTTTATCTTTTTAGTCCTCAAAGAGCAGGATACCTTTTCTTTTTTTAAAGCCCACACAAGCTG
*
1622464 ATGGCAC
66 GTGGCAC
* * * * * *
1622471 CCTTTTATCTTTTAAGTCCTCGAAGGGCAAGG-CACCTTTTCTTTTTTTTTTTTTTCAAA-ACTA
1 CCTTTTATCTTTTTAGTCCTCAAAGAGC-AGGATACCTTTTC-------TTTTTTT-AAAGCCCA
*
1622534 CACAAGTTGGTGGCA-
57 CACAAGCTGGTGGCAC
* * * ** * *
1622549 CCTCTTTATCATTTTAGTCCTCAAAGAGTAAGACGCC--TT-TTTTTTCAAA-CCTACACAAGCT
1 CCT-TTTATCTTTTTAGTCCTCAAAGAGCAGGATACCTTTTCTTTTTTTAAAGCCCACACAAGCT
*
1622610 GGTGGTAC
65 GGTGGCAC
* * * * * * * *
1622618 CCCTTTATCTTTTTAGTCTTTAAAGTGTAGGA-A-GTTTTTTCTTTTTTAAAGCCTACACAAGCT
1 CCTTTTATCTTTTTAGTCCTCAAAGAGCAGGATACCTTTTCT-TTTTTTAAAGCCCACACAAGCT
*
1622681 GGTGGTAC
65 GGTGGCAC
* * * * * * *
1622689 CTTTTTATCTTTTTAGTCCTCAAAGTGTAGGATACATTTTC-TTTCTCAAAGCCCACACAAGTTG
1 CCTTTTATCTTTTTAGTCCTCAAAGAGCAGGATACCTTTTCTTTTTTTAAAGCCCACACAAGCTG
1622753 GTGGCAC
66 GTGGCAC
1622760 C
1 C
1622761 TATCCATTTC
Statistics
Matches: 706, Mismatches: 123, Indels: 88
0.77 0.13 0.10
Matches are distributed among these distances:
68 45 0.06
69 9 0.01
70 16 0.02
71 191 0.27
72 136 0.19
73 132 0.19
74 53 0.08
75 33 0.05
76 2 0.00
77 2 0.00
78 5 0.01
79 74 0.10
80 8 0.01
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (72 bp):
CCTTTTATCTTTTTAGTCCTCAAAGAGCAGGATACCTTTTCTTTTTTTAAAGCCCACACAAGCTG
GTGGCAC
Found at i:1622097 original size:71 final size:74
Alignment explanation
Indices: 1621853--1622395 Score: 234
Period size: 73 Copynumber: 7.4 Consensus size: 74
1621843 GATGCCTTTT
* ** * * * * *
1621853 CTTTTTTATTCTTTAAAGCCCACACAAAATGGTG--GCACCCCTTTTATTTTTTTAGTCCTTAAA
1 CTTTTTT-TTTTTTAAAGCCCACACAAGCTGGTGTAACACCCC-TTTGTCTTTTTAATCCTAAAA
** *
1621916 GAATAGGACGC
64 GAGCAGGATGC
* * *
1621927 CTTTTTCTTTTTTTAAAGCCCACACAAGCT--AGTAACACCCCTTTGTCTTTTTAGTCCTAAGAG
1 CTTTTT-TTTTTTTAAAGCCCACACAAGCTGGTGTAACACCCCTTTGTCTTTTTAATCCTAAAAG
* *
1621990 AGCATGATAC
65 AGCAGGATGC
* *
1622000 CTTTTCTTTTTTTTAAAGCCCGCACAAGCTGGTGTAAC-CCTCTTT-T-TTTTTAATCCTCAAAA
1 CTTTT-TTTTTTTTAAAGCCCACACAAGCTGGTGTAACACCCCTTTGTCTTTTTAATCCT-AAAA
*
1622062 G-GGAGGATGC
64 GAGCAGGATGC
* * * * * * * *
1622072 CTTTTTTTTTCTTAAAGCCTACACAAGCTGGTG--GCACCCTTTTATCCTTATAGTCCTCAAAA-
1 CTTTTTTTTTTTTAAAGCCCACACAAGCTGGTGTAACACCCCTTTGTCTTTTTAATCCT-AAAAG
* **
1622134 AGTAGGACAC
65 AGCAGGATGC
* * * * * * * *
1622144 ATTTTCTTTTTTTTCAAAGCTCACATAAGCTGGTG--GCA-CCTTTTATCTTTTTAGTTCTCAAA
1 CTTTT-TTTTTTTT-AAAGCCCACACAAGCTGGTGTAACACCCCTTTGTCTTTTTAATCCT-AAA
**
1622206 A-ATTAGGATG-
63 AGAGCAGGATGC
* * * * * *
1622216 CTTTTTCCTTTTTTTCAAAGCTCACACAAGCTGGTG--GCACCCCTTTTATCTTTTTAGTTCTCA
1 CTTTTT--TTTTTTT-AAAGCCCACACAAGCTGGTGTAACACCCC-TTTGTCTTTTTAATCCTAA
* *
1622279 AAGACCAAGATG-
62 AAGAGCAGGATGC
* * * * * * * * * * *
1622291 CTTGTTCTTTTTCAAAGCCCATACAAACTAGTG--GCATCCCTTTTATCTTTTTAGTCCTCAAAG
1 CTTTTTTTTTTTTAAAGCCCACACAAGCTGGTGTAACA-CCCCTTTGTCTTTTTAATCCTAAAAG
*
1622354 AGCAAG-TG-
65 AGCAGGATGC
1622362 -TTTTTTCTTTTTTCAAAGCCCACACAAGCTGGTG
1 CTTTTTT-TTTTTT-AAAGCCCACACAAGCTGGTG
1622396 GCACCTTTTT
Statistics
Matches: 380, Mismatches: 68, Indels: 44
0.77 0.14 0.09
Matches are distributed among these distances:
69 1 0.00
70 9 0.02
71 34 0.09
72 111 0.29
73 128 0.34
74 63 0.17
75 34 0.09
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (74 bp):
CTTTTTTTTTTTTAAAGCCCACACAAGCTGGTGTAACACCCCTTTGTCTTTTTAATCCTAAAAGA
GCAGGATGC
Found at i:1622127 original size:144 final size:146
Alignment explanation
Indices: 1621813--1622761 Score: 452
Period size: 147 Copynumber: 6.5 Consensus size: 146
1621803 AGTATCTAAA
* * * * * ** *
1621813 CCTTTTATCTTTTTAGTACTCAAAGAGTAGGATGCCTTTTCTTTTTTATTCTTTAAAGCCCACAC
1 CCTTTTATCCTTATAGTCCTCAAAAAGCAGGACACATTTTCTTTTTT-TTC---AAAGCCCACAC
** * * * * * *
1621878 AAAATGGTGGCACCCCTTTTATTTTTTTAGTCCTTAAAGAA-TAGGACGCCTTTTTCTTTTTTTA
62 AAGCTGGTGG-A-ACCTTTTATCTTTTTAATCCTCAAA-AAGGAGGATGCCTTTTTCTTTTTTTA
* * **
1621942 AAGCCCACACAAGCTAGTAACAC
124 AAGCCTACACAAGCTGGTGGCAC
* * * * * * * * *
1621965 CCCTTTGTCTTTTTAGTCCT-AAGAGAGCATGATACCTTTTCTTTTTTTT-AAAGCCCGCACAAG
1 CCTTTTATCCTTATAGTCCTCAA-AAAGCAGGACACATTTTCTTTTTTTTCAAAGCCCACACAAG
* * *
1622028 CTGGTGTAACCCTCTTT-T-TTTTTAATCCTCAAAAGGGAGGATGCCTTTTT-TTTTCTTAAAGC
65 CTGGTGGAA-CCT-TTTATCTTTTTAATCCTCAAAAAGGAGGATGCCTTTTTCTTTTTTTAAAGC
1622090 CTACACAAGCTGGTGGCAC
128 CTACACAAGCTGGTGGCAC
* * *
1622109 CCTTTTATCCTTATAGTCCTCAAAAAGTAGGACACATTTTCTTTTTTTTCAAAGCTCACATAAGC
1 CCTTTTATCCTTATAGTCCTCAAAAAGCAGGACACATTTTCTTTTTTTTCAAAGCCCACACAAGC
* * * **
1622174 TGGTGGCACCTTTTATCTTTTTAGTTCTCAAAAATTAGGATG-CTTTTTCCTTTTTTTCAAAG-C
66 TGGTGGAACCTTTTATCTTTTTAATCCTCAAAAAGGAGGATGCCTTTTT-CTTTTTTT-AAAGCC
1622237 TCACACAAGCTGGTGGCACC
129 T-ACACAAGCTGGTGGCA-C
* * * * * * ** * *
1622257 CCTTTTATCTTTTTAGTTCTCAAAGACCAAGATGC-TTGTTC---TTTTTCAAAGCCCATACAAA
1 CCTTTTATCCTTATAGTCCTCAAAAAGCAGGACACATT-TTCTTTTTTTTCAAAGCCCACACAAG
* * * * * * * *
1622318 CTAGTGGCATCCCTTTTATCTTTTTAGTCCTCAAAGAGCAAG-TG-TTTTTTCTTTTTTCAAAGC
65 CTGGTGG-A-ACCTTTTATCTTTTTAATCCTCAAAAAGGAGGATGCCTTTTTCTTTTTTTAAAGC
*
1622381 CCACACAAGCTGGTGGCAC
128 CTACACAAGCTGGTGGCAC
* * * * * * * *
1622400 CTTTTTATCTTTTTAGTCCTCAAAGAGCA-TA-ACATCTTT-TCTTTTTT-AAAGCCTACGCAAG
1 CCTTTTATCCTTATAGTCCTCAAAAAGCAGGACACAT-TTTCTTTTTTTTCAAAGCCCACACAAG
** * * * * * *
1622461 CTAATGGCACCCTTTTATC-TTTTAAGTCCTC-GAAGGGCAAGGCACCTTTTCTTTTTTTTTTTT
65 CTGGTGG-AACCTTTTATCTTTTTAA-TCCTCAAAAAGG--AGG-A----TGCCTTTTTCTTTTT
* *
1622524 TTCAAA-ACTACACAAGTTGGTGGCA-
121 TT-AAAGCCTACACAAGCTGGTGGCAC
* * * * * * *
1622549 CCTCTTTATCATTTTAGTCCTCAAAGAGTAAGACGC-----CTTTTTTTTCAAA-CCTACACAAG
1 CCT-TTTATCCTTATAGTCCTCAAAAAGCAGGACACATTTTCTTTTTTTTCAAAGCCCACACAAG
* * * * * ** * * *
1622608 CTGGTGGTACCCCTTTATCTTTTTAGTCTTTAAAGTGTAGGAAG-TTTTTTC-TTTTTTAAAGCC
65 CTGGTGG-AACCTTTTATCTTTTTAATCCTCAAAAAGGAGGATGCCTTTTTCTTTTTTTAAAGCC
*
1622671 TACACAAGCTGGTGGTAC
129 TACACAAGCTGGTGGCAC
* * * ** * * * *
1622689 CTTTTTATCTTTTTAGTCCTCAAAGTGTAGGATACATTTTC---TTTCTCAAAGCCCACACAAGT
1 CCTTTTATCCTTATAGTCCTCAAAAAGCAGGACACATTTTCTTTTTTTTCAAAGCCCACACAAGC
*
1622751 TGGTGGCACCT
66 TGGTGGAACCT
1622762 ATCCATTTCA
Statistics
Matches: 626, Mismatches: 123, Indels: 107
0.73 0.14 0.12
Matches are distributed among these distances:
138 3 0.00
139 49 0.08
140 8 0.01
141 18 0.03
142 34 0.05
143 51 0.08
144 100 0.16
145 96 0.15
146 23 0.04
147 102 0.16
148 40 0.06
149 3 0.00
150 52 0.08
151 8 0.01
152 39 0.06
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (146 bp):
CCTTTTATCCTTATAGTCCTCAAAAAGCAGGACACATTTTCTTTTTTTTCAAAGCCCACACAAGC
TGGTGGAACCTTTTATCTTTTTAATCCTCAAAAAGGAGGATGCCTTTTTCTTTTTTTAAAGCCTA
CACAAGCTGGTGGCAC
Found at i:1622589 original size:150 final size:148
Alignment explanation
Indices: 1622362--1622635 Score: 354
Period size: 150 Copynumber: 1.8 Consensus size: 148
1622352 AGAGCAAGTG
* * *
1622362 TTTTTTCTTTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTTATCTTTTTAGTCCTCAAAGAG
1 TTTTTTCTTTTTTCAAAGACCACACAAGCTGGTGGCACCTCTTTATCATTTTAGTCCTCAAAGAG
* * * *
1622427 CATAACATCTTTTCTTTTTTAAAGCCTACGCAAGCTAATGGCACCCTTTTATCTTTTAAGTCCTC
66 CATAACA-CCTTT-TTTTTCAAA-CCTACACAAGCTAATGGCACCCCTTTATCTTTTAAGTCCTC
1622492 GAAGGGCAAGGCACCTTTTCT
128 GAAGGGCAAGGCACCTTTTCT
* * *
1622513 TTTTTTTTTTTTTCAAA-ACTACACAAGTTGGTGGCACCTCTTTATCATTTTAGTCCTCAAAGAG
1 TTTTTTCTTTTTTCAAAGACCACACAAGCTGGTGGCACCTCTTTATCATTTTAGTCCTCAAAGAG
* * ** * *
1622577 TA-AGACGCCTTTTTTTTCAAACCTACACAAGCTGGTGGTACCCCTTTATCTTTTTAGTC
66 CATA-ACACCTTTTTTTTCAAACCTACACAAGCTAATGGCACCCCTTTATCTTTTAAGTC
1622636 TTTAAAGTGT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
147 32 0.30
148 8 0.08
149 5 0.05
150 45 0.42
151 16 0.15
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (148 bp):
TTTTTTCTTTTTTCAAAGACCACACAAGCTGGTGGCACCTCTTTATCATTTTAGTCCTCAAAGAG
CATAACACCTTTTTTTTCAAACCTACACAAGCTAATGGCACCCCTTTATCTTTTAAGTCCTCGAA
GGGCAAGGCACCTTTTCT
Found at i:1622632 original size:68 final size:69
Alignment explanation
Indices: 1622518--1622713 Score: 241
Period size: 68 Copynumber: 2.8 Consensus size: 69
1622508 TTTCTTTTTT
* * * * *
1622518 TTTTTTTTCAAAACTACACAAGTTGGTGGCACCTCTTTATCATTTTAGTCCTCAAAGAGTAAGAC
1 TTTTTTTTCAAACCTACACAAGCTGGTGGTACCTCTTTATCTTTTTAGTCCTCAAAGAGTAAGAA
1622583 G-CC
66 GTCC
* * * * *
1622586 TTTTTTTTCAAACCTACACAAGCTGGTGGTACCCCTTTATCTTTTTAGTCTTTAAAGTGTAGGAA
1 TTTTTTTTCAAACCTACACAAGCTGGTGGTACCTCTTTATCTTTTTAGTCCTCAAAGAGTAAGAA
**
1622651 GTTT
66 GTCC
* *
1622655 TTTCTTTTTTAAAGCCTACACAAGCTGGTGGTACCTTTTTATCTTTTTAGTCCTCAAAG
1 TTT-TTTTTCAAA-CCTACACAAGCTGGTGGTACCTCTTTATCTTTTTAGTCCTCAAAG
1622714 TGTAGGATAC
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
68 56 0.52
69 3 0.03
70 8 0.07
71 41 0.38
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (69 bp):
TTTTTTTTCAAACCTACACAAGCTGGTGGTACCTCTTTATCTTTTTAGTCCTCAAAGAGTAAGAA
GTCC
Found at i:1622760 original size:289 final size:286
Alignment explanation
Indices: 1622073--1622760 Score: 719
Period size: 289 Copynumber: 2.4 Consensus size: 286
1622063 GGAGGATGCC
* * * *
1622073 TTTTTT-TTTCTTAAAGCCTACACAAGCTGGTGGCACCCTTTTATCCTTATAGTCCTCAAAAAGT
1 TTTTTTCTTTTTTAAAGCCTACACAAGCTGGTGGCACCTTTTTATCTTTTTAGTCCTC--AAAGT
* * * * *
1622137 AGGACACATTTTCTTTTTTTTCAAAGCTCACATAAGCTGGTGGCA-CCTTTTATCTTTTTAGTTC
64 AGGATACATTTTC---TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTTATCTTTTAAGTCC
** *
1622201 TCAAAAATTAGGATGCTTTTTCCTTTTTTTCAAAGCTCACACAAGCTGGTGGCACCCCTTTTATC
126 TCAAAAACAAGGATGCTTTTTCCTTTTTTTCAAAACTCACACAAGCTGGTGGCACCCCTTTTATC
* * * * *
1622266 TTTTTAGTTCTCAAAGACCAAGATGCTTGTTCTTTTTCAAAGCCCATACAAACTAGTGGCATCCC
191 ATTTTAGTCCTCAAAGACCAAGACGCCTGTTCTTTTTCAAAGCCCACACAAACTAGTGGCATCCC
* *
1622331 TTTTATCTTTTTAGTCCTCAAAGAGCAAGTG
256 CTTTATCTTTTTAGTCCTCAAAGAGCAAGAG
*
1622362 TTTTTTCTTTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTTATCTTTTTAGTCCTCAAAG-A
1 TTTTTTCTTTTTT-AAAGCCTACACAAGCTGGTGGCACCTTTTTATCTTTTTAGTCCTCAAAGTA
* * * * **
1622426 GCATAACATCTTTTCTTTTTTAAAGCCTACGCAAGCTAATGGCACCCTTTTATCTTTTAAGTCCT
65 GGAT-ACA--TTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTTATCTTTTAAGTCCT
*** * ** * *
1622491 CGAAGGGCAAGGCACCTTTTCTTTTTTTTTTTTTTCAAAACT-ACACAAGTTGGTGGCACCTC-T
127 C-AAAAACAAGG-A----TGCTTTTTCCTTTTTTTCAAAACTCACACAAGCTGGTGGCACCCCTT
** * * * *
1622554 TTATCATTTTAGTCCTCAAAGAGTAAGACGCCT-TT-TTTTTCAAA-CCTACACAAGCTGGTGGT
186 TTATCATTTTAGTCCTCAAAGACCAAGACGCCTGTTCTTTTTCAAAGCCCACACAAACTAGTGGC
* * * * *
1622616 A-CCCCTTTATCTTTTTAGTCTTTAAAGTGTAGGAAG
251 ATCCCCTTTATCTTTTTAGTCCTCAAAGAGCAAG-AG
*
1622652 TTTTTTCTTTTTTAAAGCCTACACAAGCTGGTGGTACCTTTTTATCTTTTTAGTCCTCAAAGTGT
1 TTTTTTCTTTTTTAAAGCCTACACAAGCTGGTGGCACCTTTTTATCTTTTTAGTCCTCAAA--GT
* *
1622717 AGGATACATTTTCTTTCTCAAAGCCCACACAAGTTGGTGGCACC
64 AGGATACATTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACC
1622761 TATCCATTTC
Statistics
Matches: 328, Mismatches: 55, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
288 25 0.08
289 133 0.41
290 38 0.12
291 60 0.18
292 6 0.02
293 28 0.09
294 18 0.05
295 20 0.06
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (286 bp):
TTTTTTCTTTTTTAAAGCCTACACAAGCTGGTGGCACCTTTTTATCTTTTTAGTCCTCAAAGTAG
GATACATTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTTATCTTTTAAGTCCTCAAA
AACAAGGATGCTTTTTCCTTTTTTTCAAAACTCACACAAGCTGGTGGCACCCCTTTTATCATTTT
AGTCCTCAAAGACCAAGACGCCTGTTCTTTTTCAAAGCCCACACAAACTAGTGGCATCCCCTTTA
TCTTTTTAGTCCTCAAAGAGCAAGAG
Found at i:1624475 original size:13 final size:13
Alignment explanation
Indices: 1624457--1624487 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1624447 ATTTTTCACT
1624457 ATGTATCGATACA
1 ATGTATCGATACA
1624470 ATGTATCGATACA
1 ATGTATCGATACA
1624483 ATGTA
1 ATGTA
1624488 CCATGTATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1629382 original size:76 final size:78
Alignment explanation
Indices: 1629285--1629483 Score: 224
Period size: 76 Copynumber: 2.6 Consensus size: 78
1629275 AATAACGAGG
* * * * * *
1629285 TTGGAGTGTTCCTTCGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TT-A
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTGA
*
1629348 GAA-AAAATCGGGA
65 GAATAAAACCGGGA
** *
1629361 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTGA
* *
1629426 GAATAAAGCCGGGG
65 GAATAAAACCGGGA
* * *
1629440 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1629484 GAAATAACGA
Statistics
Matches: 102, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
75 1 0.01
76 50 0.49
77 2 0.02
78 3 0.03
79 46 0.45
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (78 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTGAG
AATAAAACCGGGA
Found at i:1629392 original size:28 final size:28
Alignment explanation
Indices: 1629348--1629401 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
1629338 TCGATGATTA
1629348 GAAAAAATCGGGATTGGAGTATCCCTTC
1 GAAAAAATCGGGATTGGAGTATCCCTTC
*
1629376 GAAAATAA-CGGGGTTGGAGTATCCCT
1 GAAAA-AATCGGGATTGGAGTATCCCT
1629402 AATTATGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (28 bp):
GAAAAAATCGGGATTGGAGTATCCCTTC
Found at i:1629475 original size:28 final size:28
Alignment explanation
Indices: 1629435--1629510 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
1629425 GGAATAAAGC
** *
1629435 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1629463 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* *
1629491 CGAGGTTGGAGTGTCCCCGA
1 CGGGGTTGGAGTATCCCCGA
1629511 TTGTGAAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1631940 original size:13 final size:13
Alignment explanation
Indices: 1631922--1631947 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1631912 ACAAAGATCC
1631922 ATGTATCGATACA
1 ATGTATCGATACA
1631935 ATGTATCGATACA
1 ATGTATCGATACA
1631948 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1631943 original size:33 final size:33
Alignment explanation
Indices: 1631901--1631967 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1631891 AAAATTTCCA
***
1631901 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1631934 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1631967 A
1 A
1631968 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1632011 original size:19 final size:19
Alignment explanation
Indices: 1631987--1632033 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
1631977 CAGTAGCTAA
*
1631987 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
1632006 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
1632025 TTATGTATC
1 TTATGTATC
1632034 ATTGCCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:1632752 original size:55 final size:55
Alignment explanation
Indices: 1632668--1633235 Score: 819
Period size: 55 Copynumber: 10.3 Consensus size: 55
1632658 ATAAATTGTA
* * * * * *
1632668 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1632723 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1632778 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
1632833 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGATG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
1632888 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1632943 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1632998 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1633053 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
1633108 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1633163 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1633218 TCCTGCTCTTTGGGGACT
1 TCCTGCTCTTTGAGGACT
1633236 AAAAAGCGGA
Statistics
Matches: 474, Mismatches: 30, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
54 14 0.03
55 448 0.95
56 12 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:1632997 original size:29 final size:29
Alignment explanation
Indices: 1632964--1633052 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 29
1632954 GGGGACTGAA
1632964 AGGTGCCACCAACTCGTGTGGGCTTTAAG
1 AGGTGCCACCAACTCGTGTGGGCTTTAAG
* ** * *
1632993 AGGTG--TCCTGCTC-TTTGGGGAC-TGAA-
1 AGGTGCCACCAACTCGTGT-GGG-CTTTAAG
*
1633019 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTCGTGTGGGCTTTAAG
1633048 AGGTG
1 AGGTG
1633053 TCCTGCTCTT
Statistics
Matches: 42, Mismatches: 11, Indels: 14
0.63 0.16 0.21
Matches are distributed among these distances:
26 7 0.17
27 12 0.29
28 11 0.26
29 12 0.29
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (29 bp):
AGGTGCCACCAACTCGTGTGGGCTTTAAG
Found at i:1633022 original size:26 final size:26
Alignment explanation
Indices: 1632934--1633023 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
1632924 GTGTGGGCTT
*
1632934 TGAAAGGCGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** * *
1632960 TGAAAGGTG-CCACCAACTCGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCT-TTG-GGGAC
*
1632987 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
1633015 TGAAAGGTG
1 TGAAAGGTG
1633024 CCACCAACTT
Statistics
Matches: 46, Mismatches: 11, Indels: 14
0.65 0.15 0.20
Matches are distributed among these distances:
25 3 0.07
26 15 0.33
27 9 0.20
28 9 0.20
29 7 0.15
30 3 0.07
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:1633128 original size:26 final size:26
Alignment explanation
Indices: 1633099--1633188 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
1633089 GTGTGGGCTT
1633099 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
* ** * * *
1633125 TGAAAAGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
*
1633152 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
1633180 TGAAAGGTG
1 TGAAAGGTG
1633189 CCACCAACTT
Statistics
Matches: 45, Mismatches: 14, Indels: 10
0.65 0.20 0.14
Matches are distributed among these distances:
25 3 0.07
26 16 0.36
27 8 0.18
28 8 0.18
29 7 0.16
30 3 0.07
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:1634221 original size:1 final size:1
Alignment explanation
Indices: 1634217--1634278 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
1634207 CTTTTCTCTC
* * * * * ** *
1634217 TTTTTCTTTGTTTTGTTTTTTGTTTTTTTTTTTTGTTTTTTTTTTTGCTCTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1634279 GAAGAGAAGG
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:1634236 original size:25 final size:24
Alignment explanation
Indices: 1634214--1634279 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
1634204 TTTCTTTTCT
1634214 CTCTTTTTCTTTGTTTTGTTTTTTG
1 CTCTTTTT-TTTGTTTTGTTTTTTG
* * *
1634239 TTTTTTTTTTTTGTTTTTTTTTTTG
1 -CTCTTTTTTTTGTTTTGTTTTTTG
1634264 CTCTTTTTTTT-TTTTG
1 CTCTTTTTTTTGTTTTG
1634280 AAGAGAAGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 4 0.12
24 9 0.26
25 15 0.44
26 6 0.18
ACGTcount: A:0.00, C:0.08, G:0.09, T:0.83
Consensus pattern (24 bp):
CTCTTTTTTTTGTTTTGTTTTTTG
Found at i:1634239 original size:7 final size:7
Alignment explanation
Indices: 1634227--1634262 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
1634217 TTTTTCTTTG
1634227 TTTTGTT
1 TTTTGTT
1634234 TTTTGTT
1 TTTTGTT
1634241 TTTT-TT
1 TTTTGTT
1634247 TTTTGTT
1 TTTTGTT
1634254 TTTT-TT
1 TTTTGTT
1634260 TTT
1 TTT
1634263 GCTCTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 11 0.39
7 17 0.61
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (7 bp):
TTTTGTT
Found at i:1634240 original size:12 final size:12
Alignment explanation
Indices: 1634217--1634276 Score: 75
Period size: 12 Copynumber: 4.8 Consensus size: 12
1634207 CTTTTCTCTC
*
1634217 TTTTTCTTTGTT
1 TTTTTTTTTGTT
*
1634229 TTGTTTTTTGTTT
1 TTTTTTTTTG-TT
1634242 TTTTTTTTTGTT
1 TTTTTTTTTGTT
1634254 TTTTTTTTTGCTCT
1 TTTTTTTTTG-T-T
1634268 TTTTTTTTT
1 TTTTTTTTT
1634277 TTGAAGAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
12 20 0.48
13 12 0.29
14 10 0.24
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:1634258 original size:16 final size:16
Alignment explanation
Indices: 1634217--1634279 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
1634207 CTTTTCTCTC
* *
1634217 TTTTTCTTTGTTTTGT
1 TTTTTTTTTTTTTTGT
1634233 TTTTTGTTTTTTTTT-T
1 TTTTT-TTTTTTTTTGT
* *
1634249 TTGTTTTTTTTTTTGC
1 TTTTTTTTTTTTTTGT
*
1634265 TCTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTG
1634280 AAGAGAAGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
15 9 0.23
16 23 0.59
17 7 0.18
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTTTTTTGT
Found at i:1634270 original size:20 final size:19
Alignment explanation
Indices: 1634227--1634278 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
1634217 TTTTTCTTTG
* *
1634227 TTTTGTTTTTTGTTTTTTTT
1 TTTTGTTTTTT-TTTTTCTC
1634247 TTTTGTTTTTTTTTTTGCTC
1 TTTTGTTTTTTTTTTT-CTC
1634267 TTTT-TTTTTTTT
1 TTTTGTTTTTTTT
1634279 GAAGAGAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (19 bp):
TTTTGTTTTTTTTTTTCTC
Found at i:1640166 original size:33 final size:33
Alignment explanation
Indices: 1640129--1640195 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1640119 TTCAATGATT
1640129 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1640162 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1640195 T
1 T
1640196 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1640167 original size:13 final size:13
Alignment explanation
Indices: 1640149--1640173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1640139 CATAAAATGT
1640149 TGTATCGATACAA
1 TGTATCGATACAA
1640162 TGTATCGATACA
1 TGTATCGATACA
1640174 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1640257 original size:13 final size:13
Alignment explanation
Indices: 1640239--1640263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1640229 ATTACTCACA
1640239 TGTATCGATACAT
1 TGTATCGATACAT
1640252 TGTATCGATACA
1 TGTATCGATACA
1640264 CTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1640328 original size:52 final size:52
Alignment explanation
Indices: 1640272--1640392 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1640262 CACTGATTTT
*
1640272 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAGTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1640324 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1640376 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1640393 TAACTTTTCA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1650426 original size:76 final size:78
Alignment explanation
Indices: 1650329--1650527 Score: 224
Period size: 76 Copynumber: 2.6 Consensus size: 78
1650319 AATAACGAGG
* * * * * *
1650329 TTGGAGTGTTCCTTCGGAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TT-A
1 TTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTGA
*
1650392 GAA-AAAATCGGGA
65 GAATAAAACCGGGA
* ** *
1650405 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTGA
* *
1650470 GAATAAAGCCGGGG
65 GAATAAAACCGGGA
* *
1650484 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGAT
1650528 GAAATAACGA
Statistics
Matches: 101, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
75 1 0.01
76 49 0.49
77 2 0.02
78 3 0.03
79 46 0.46
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (78 bp):
TTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTGAG
AATAAAACCGGGA
Found at i:1650436 original size:28 final size:28
Alignment explanation
Indices: 1650392--1650445 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
1650382 TCGATGATTA
1650392 GAAAAAATCGGGATTGGAGTATCCCTTC
1 GAAAAAATCGGGATTGGAGTATCCCTTC
*
1650420 GAAAATAA-CGGGGTTGGAGTATCCCT
1 GAAAA-AATCGGGATTGGAGTATCCCT
1650446 AATTATGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (28 bp):
GAAAAAATCGGGATTGGAGTATCCCTTC
Found at i:1650519 original size:28 final size:28
Alignment explanation
Indices: 1650479--1650554 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
1650469 GGAATAAAGC
** *
1650479 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1650507 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* *
1650535 CGAGGTTGGAGTGTCCCCGA
1 CGGGGTTGGAGTATCCCCGA
1650555 TTGTGAAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1652984 original size:13 final size:13
Alignment explanation
Indices: 1652966--1652991 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1652956 ACAAAGATCC
1652966 ATGTATCGATACA
1 ATGTATCGATACA
1652979 ATGTATCGATACA
1 ATGTATCGATACA
1652992 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1652987 original size:33 final size:33
Alignment explanation
Indices: 1652945--1653011 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1652935 AAAATTTCCA
***
1652945 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1652978 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1653011 A
1 A
1653012 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1653055 original size:19 final size:18
Alignment explanation
Indices: 1653031--1653098 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1653021 CAGTAGCTAA
1653031 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1653050 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1653065 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1653082 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1653099 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1653071 original size:13 final size:13
Alignment explanation
Indices: 1653053--1653077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1653043 ACAATACTTA
1653053 TGTATCGATACAT
1 TGTATCGATACAT
1653066 TGTATCGATACA
1 TGTATCGATACA
1653078 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1653075 original size:32 final size:32
Alignment explanation
Indices: 1653034--1653096 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1653024 TAGCTAATTA
*
1653034 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1653066 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1653097 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1653178 original size:21 final size:21
Alignment explanation
Indices: 1653154--1653210 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1653144 CATTTGTAGG
1653154 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1653175 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1653196 ATGTATCGATACATT
1 ATGTATCGATACATT
1653211 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1653239 original size:18 final size:18
Alignment explanation
Indices: 1653216--1653251 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1653206 ACATTTAAAT
1653216 TTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTCAA
1653234 TTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTCAA
1653252 ACACTTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTCAA
Found at i:1656948 original size:3 final size:3
Alignment explanation
Indices: 1656942--1656976 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
1656932 AAGTTCTTCT
*
1656942 TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1656977 TTTGATAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:1656977 original size:9 final size:9
Alignment explanation
Indices: 1656939--1656978 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
1656929 GTTAAGTTCT
1656939 TCTTCATCA
1 TCTTCATCA
*
1656948 TCATCATCA
1 TCTTCATCA
*
1656957 TCATCATCA
1 TCTTCATCA
1656966 TCTTCATCA
1 TCTTCATCA
1656975 TCTT
1 TCTT
1656979 TGATAGTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (9 bp):
TCTTCATCA
Found at i:1658720 original size:20 final size:22
Alignment explanation
Indices: 1658697--1658739 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
1658687 CAAAGCAATA
1658697 TGTATCGATAC-TTCT-AGGTT
1 TGTATCGATACTTTCTAAGGTT
1658717 TGTATCGATACTTTCTAAGGTT
1 TGTATCGATACTTTCTAAGGTT
1658739 T
1 T
1658740 TAACCTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.47
Consensus pattern (22 bp):
TGTATCGATACTTTCTAAGGTT
Found at i:1661428 original size:88 final size:87
Alignment explanation
Indices: 1661239--1661430 Score: 201
Period size: 88 Copynumber: 2.2 Consensus size: 87
1661229 AAACATAAAA
* * * * *
1661239 AATTTTCAACTTTGGGG-AAACTCCATCCCCACTATTCTGAGGGGGCACTCTAACTTCGATCTTC
1 AATTTT-ATCTTTGGGGAAAACTCCACCCCCACTATTCTGAGGGGACACTCCAACTTCCATCTTC
* *
1661303 AAAAATTAAAATTTTCTTTGTAC
65 AAAAATCAAAATTTCCTTTGTAC
* *
1661326 AACTTTATCCTTGGGGAAAACTCCACCCCCACTA-TCTCGAGGGAGACACTCCAAC-TCCACTCT
1 AATTTTATCTTTGGGGAAAACTCCACCCCCACTATTCT-GAGGG-GACACTCCAACTTCCA-TCT
* * * * *
1661389 TTATAAGTCAAACTTTCCTTTGTAT
63 TCAAAAATCAAAATTTCCTTTGTAC
1661414 AATTTTATCTTTGGGGA
1 AATTTTATCTTTGGGGA
1661431 TACTCAAATC
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
86 11 0.13
87 29 0.34
88 45 0.53
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (87 bp):
AATTTTATCTTTGGGGAAAACTCCACCCCCACTATTCTGAGGGGACACTCCAACTTCCATCTTCA
AAAATCAAAATTTCCTTTGTAC
Found at i:1668744 original size:19 final size:21
Alignment explanation
Indices: 1668699--1668752 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1668689 TTTCAACAAT
1668699 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
1668720 TTGTATCGATACATA-AGT-G
1 TTGTATCGATACAAACAGTAA
1668739 TTGTATCGATACAA
1 TTGTATCGATACAA
1668753 TGTATCGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:1673247 original size:65 final size:65
Alignment explanation
Indices: 1673121--1673248 Score: 186
Period size: 65 Copynumber: 2.0 Consensus size: 65
1673111 GGCTCATTGA
* * **
1673121 AAATCATCTAAGAGAGGTATCTAAACTTATCTACTCTAGTCCTCAAAAAGCAAAATGCCTTTTCT
1 AAATCATCCAAGAAAGGTATCTAAACTTATCTACTCTAGTCCTCAAAAAGCAAAACACCTTTTCT
* *
1673186 AAATCATCCAAGAAAGGTATCTAAACTTATCTACTCTAGTCCTTAAAGAA-CAAGACACCTTTT
1 AAATCATCCAAGAAAGGTATCTAAACTTATCTACTCTAGTCCTCAAA-AAGCAAAACACCTTTT
1673249 TTTTTCAAGC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 54 0.96
66 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (65 bp):
AAATCATCCAAGAAAGGTATCTAAACTTATCTACTCTAGTCCTCAAAAAGCAAAACACCTTTTCT
Found at i:1673339 original size:71 final size:71
Alignment explanation
Indices: 1673210--1673867 Score: 432
Period size: 71 Copynumber: 9.4 Consensus size: 71
1673200 AGGTATCTAA
* * * ** * * * *
1673210 ACTTATCTACTCTAGTCCTTAAAGAACAAGACACCTTTT-TTTTTC-AAGCCCACACAAACTGAT
1 ACTTATCTTCTTTAGTCCTCAAAGAGTAGGATACCTTTTCTCTTTCAAAACCCACACAAACTGAT
1673273 GGCATC
66 GGCATC
* * * * *
1673279 ATTTATCTTCTTTAGTCTTCAAACAGTAGGATACTTTTTCTCTTTCAAAACCCACACAAACTGGT
1 ACTTATCTTCTTTAGTCCTCAAAGAGTAGGATACCTTTTCTCTTTCAAAACCCACACAAACTGAT
*
1673344 GACATC
66 GGCATC
* * * * * * * ** *
1673350 ATTTATCTTCTTTAGTCCTCAAAGAGTAAGATGCCTTTACTCTTTC-AAATCTATACAAGTTGGT
1 ACTTATCTTCTTTAGTCCTCAAAGAGTAGGATACCTTTTCTCTTTCAAAACCCACACAAACTGAT
1673414 GGCATC
66 GGCATC
* * * ** * * *
1673420 ACTTATCTTATTTAATCCTCAAAAAGTAGGATGTCTTTTCTCTTTTAAAGCCCACACAAGCT-AG
1 ACTTATCTTCTTTAGTCCTCAAAGAGTAGGATACCTTTTCTCTTTCAAAACCCACACAAACTGA-
1673484 TGGCATC
65 TGGCATC
* * * *
1673491 ATTTATCTTCATTAGTCCTCAAAAAGTAGGATGCCTTTTCTCTTTCAAAAGCCCACAC-AACTGA
1 ACTTATCTTCTTTAGTCCTCAAAGAGTAGGATACCTTTTCTCTTTCAAAA-CCCACACAAACTGA
1673555 TGGCATC
65 TGGCATC
* * * * ** *
1673562 ACTTATCATCTTTAGTCTTCAAAGAGCAGGACACCTTTTCTCTTTCAAAACCCACACAAGTTGGT
1 ACTTATCTTCTTTAGTCCTCAAAGAGTAGGATACCTTTTCTCTTTCAAAACCCACACAAACTGAT
*
1673627 GGCGTC
66 GGCATC
* * * *
1673633 ACTTATCTT-TTTCAGTCCACAAAGAGTAGGATGCCATTTTTTCTTT--AAACCTCACACAAGCT
1 ACTTATCTTCTTT-AGTCCTCAAAGAGTAGGATACC-TTTTCTCTTTCAAAACC-CACACAAACT
*
1673695 -AGCGGCA-C
63 GA-TGGCATC
** * * * * ** * *
1673703 -C-TATCCACTTTAGTCTTAAAAAAGTAAGATGTCTTTT-T-TTTCAAAGCCTACACAAACT-AG
1 ACTTATCTTCTTTAGTCCTCAAAGAGTAGGATACCTTTTCTCTTTCAAAACCCACACAAACTGA-
1673763 TGGCATC
65 TGGCATC
* * * * ** * * * * * *
1673770 GCTTGTCTTCTTTAGTCCTTAAAAAACATGATGCATTTTCT-TCTTCAAAGCCCACATAAGCT-A
1 ACTTATCTTCTTTAGTCCTCAAAGAGTAGGATACCTTTTCTCT-TTCAAAACCCACACAAACTGA
*
1673833 GTGGTATC
65 -TGGCATC
* * *
1673841 ATTTATCTTTTTTAGTCCTTAAAGAGT
1 ACTTATCTTCTTTAGTCCTCAAAGAGT
1673868 GAGACATCTT
Statistics
Matches: 465, Mismatches: 105, Indels: 36
0.77 0.17 0.06
Matches are distributed among these distances:
65 3 0.01
66 15 0.03
67 9 0.02
68 21 0.05
69 58 0.12
70 79 0.17
71 263 0.57
72 17 0.04
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (71 bp):
ACTTATCTTCTTTAGTCCTCAAAGAGTAGGATACCTTTTCTCTTTCAAAACCCACACAAACTGAT
GGCATC
Found at i:1673474 original size:141 final size:141
Alignment explanation
Indices: 1673255--1673667 Score: 499
Period size: 141 Copynumber: 2.9 Consensus size: 141
1673245 TTTTTTTTTC
* *
1673255 AAGCCCACACAAACTGATGGCATCATTTATCTTCTTTAGTCTTCAAACAGTAGGATACTTTTTCT
1 AAGCCCACAC-AACTGATGGCATCACTTATCTTCTTTAGTCTTCAAAAAGTAGGATAC-TTTTCT
* * *
1673320 CTTTCAAAACCCACACAAACTGGTGACATCATTTATCTTCTTTAGTCCTCAAAGAGTAAGATGCC
64 CTTTCAAAACCCACACAAGCTGGTGGCATCATTTATCTTCTTTAGTCCTCAAAGAGTAGGATGCC
1673385 TTTACTCTTTC-A
129 TTTACTCTTTCAA
* * * * * * * * *
1673397 AA-TCTATACAAGTTGGTGGCATCACTTATCTTATTTAATCCTCAAAAAGTAGGATGTCTTTTCT
1 AAGCCCACACAA-CTGATGGCATCACTTATCTTCTTTAGTCTTCAAAAAGTAGGAT-ACTTTTCT
* * * * *
1673461 CTTTTAAAGCCCACACAAGCTAGTGGCATCATTTATCTTCATTAGTCCTCAAAAAGTAGGATGCC
64 CTTTCAAAACCCACACAAGCTGGTGGCATCATTTATCTTCTTTAGTCCTCAAAGAGTAGGATGCC
*
1673526 TTTTCTCTTTCAA
129 TTTACTCTTTCAA
* * * *
1673539 AAGCCCACACAACTGATGGCATCACTTATCATCTTTAGTCTTCAAAGAGCAGGACACCTTTTCTC
1 AAGCCCACACAACTGATGGCATCACTTATCTTCTTTAGTCTTCAAAAAGTAGGATA-CTTTTCTC
* * * *
1673604 TTTCAAAACCCACACAAGTTGGTGGCGTCACTTATCTT-TTTCAGTCCACAAAGAGTAGGATGCC
65 TTTCAAAACCCACACAAGCTGGTGGCATCATTTATCTTCTTT-AGTCCTCAAAGAGTAGGATGCC
1673668 ATTTTTTCTT
Statistics
Matches: 223, Mismatches: 42, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
140 2 0.01
141 115 0.52
142 100 0.45
143 6 0.03
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (141 bp):
AAGCCCACACAACTGATGGCATCACTTATCTTCTTTAGTCTTCAAAAAGTAGGATACTTTTCTCT
TTCAAAACCCACACAAGCTGGTGGCATCATTTATCTTCTTTAGTCCTCAAAGAGTAGGATGCCTT
TACTCTTTCAA
Found at i:1673521 original size:212 final size:214
Alignment explanation
Indices: 1673250--1673701 Score: 576
Period size: 212 Copynumber: 2.1 Consensus size: 214
1673240 ACACCTTTTT
* * * * * *
1673250 TTTTCAAGCCCACACAAACT-GATGGCATCATTTATCTTCTTTAGTCTTCAAACAGTAGGATACT
1 TTTTAAAGCCCACACAAGCTAG-TGGCATCATTTATCTTCATTAGTCCTCAAAAAGTAGGATACC
* * * *
1673314 TTTTCTCTTTCAAAA-CCCACACAAACTGGTGACATCATTTATCTTCTTTAGTCCTCAAAGAGTA
65 TTTTCTCTTTCAAAAGCCCACAC-AACTGATGACATCACTTATCATCTTTAGTCCTCAAAGAGCA
** * * * *
1673378 AGATGCCTTTACTCTTTC-AAATCTATACAAGTTGGTGGCATCACTTATCTTATTT-AATCCTCA
129 AGACACCTTTACTCTTTCAAAACCCACACAAGTTGGTGGCATCACTTATCTT-TTTCAATCCACA
*
1673441 AAAAGTAGGATGTC-TTTTCTC
193 AAAAGTAGGATGCCATTTTCTC
*
1673462 TTTTAAAGCCCACACAAGCTAGTGGCATCATTTATCTTCATTAGTCCTCAAAAAGTAGGATGCCT
1 TTTTAAAGCCCACACAAGCTAGTGGCATCATTTATCTTCATTAGTCCTCAAAAAGTAGGATACCT
* * *
1673527 TTTCTCTTTCAAAAGCCCACACAACTGATGGCATCACTTATCATCTTTAGTCTTCAAAGAGCAGG
66 TTTCTCTTTCAAAAGCCCACACAACTGATGACATCACTTATCATCTTTAGTCCTCAAAGAGCAAG
* * * *
1673592 ACACCTTTTCTCTTTCAAAACCCACACAAGTTGGTGGCGTCACTTATCTTTTTCAGTCCACAAAG
131 ACACCTTTACTCTTTCAAAACCCACACAAGTTGGTGGCATCACTTATCTTTTTCAATCCACAAAA
*
1673657 AGTAGGATGCCATTTTTTC
196 AGTAGGATGCCATTTTCTC
*
1673676 -TTTAAA-CCTCACACAAGCTAGCGGCA
1 TTTTAAAGCC-CACACAAGCTAGTGGCA
1673702 CCTATCCACT
Statistics
Matches: 207, Mismatches: 27, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
212 124 0.60
213 77 0.37
214 6 0.03
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (214 bp):
TTTTAAAGCCCACACAAGCTAGTGGCATCATTTATCTTCATTAGTCCTCAAAAAGTAGGATACCT
TTTCTCTTTCAAAAGCCCACACAACTGATGACATCACTTATCATCTTTAGTCCTCAAAGAGCAAG
ACACCTTTACTCTTTCAAAACCCACACAAGTTGGTGGCATCACTTATCTTTTTCAATCCACAAAA
AGTAGGATGCCATTTTCTC
Found at i:1677307 original size:87 final size:87
Alignment explanation
Indices: 1677102--1677435 Score: 291
Period size: 88 Copynumber: 3.8 Consensus size: 87
1677092 AACTATTCTA
* * ** ** * *
1677102 AAGGGGATACTCTAACCCCGATCTCAAAAAAACCTCAAATTTTTCTTCATATAATTTTA-CTCTT
1 AAGGGGATACTCCAACCCCGTTCTCCCAAAAATTTCAAA-TTTCCTTCGTATAATTTTATCT-TT
* * *
1677166 AGGGAAAATCCATCCCTACTATTCC
64 AGGG-AAATTCATCCCCACTACTCC
** ** * *
1677191 AAGGGGATACTCC-ACCCTATTCTAAC-AAAAGTTCAAACTTTCCTTCGCATAATTTTATCTTTA
1 AAGGGGATACTCCAACCCCGTTCTCCCAAAAATTTCAAA-TTTCCTTCGTATAATTTTATCTTTA
*
1677254 GGGAAATTTCATCCCCATTACTCC
65 GGGAAA-TTCATCCCCACTACTCC
* * *
1677278 AAGGGGATACTCCAACCCCGTTC-CCCAAAAATTTTAAATTTTCCTTCGTATGATTTTATCTTTG
1 AAGGGGATACTCCAACCCCGTTCTCCCAAAAATTTCAAA-TTTCCTTCGTATAATTTTATCTTTA
* * * *
1677342 GGGAAACTCTACCCCCAGTACTCTG
65 GGGAAATTC-ATCCCCACTACTC-C
* * *
1677367 AA-GGGATACTCCAACCTCGTTCTCCCAAAAATTTCAAATTTACCCTTCGTATAGTTTTATCTTC
1 AAGGGGATACTCCAACCCCGTTCTCCCAAAAATTTCAAATTT--CCTTCGTATAATTTTATCTTT
1677431 AGGGA
64 AGGGA
1677436 TACTCCAAAC
Statistics
Matches: 200, Mismatches: 36, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
86 3 0.01
87 60 0.30
88 87 0.44
89 28 0.14
90 22 0.11
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (87 bp):
AAGGGGATACTCCAACCCCGTTCTCCCAAAAATTTCAAATTTCCTTCGTATAATTTTATCTTTAG
GGAAATTCATCCCCACTACTCC
Found at i:1689148 original size:20 final size:20
Alignment explanation
Indices: 1689098--1689149 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
1689088 TTTAAGGTTT
* *
1689098 ATATATCAATACAATTAATA
1 ATATATCGATACAATGAATA
* * *
1689118 ATGTATTGATATAATGAATA
1 ATATATCGATACAATGAATA
1689138 ATATATCGATAC
1 ATATATCGATAC
1689150 TTATTAATGC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (20 bp):
ATATATCGATACAATGAATA
Found at i:1691896 original size:20 final size:20
Alignment explanation
Indices: 1691871--1691941 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1691861 AACCTTCATT
1691871 TGTATCGATACATACCAAAA
1 TGTATCGATACATACCAAAA
* *
1691891 TGTATCGATTCAATA-CACAA
1 TGTATCGATAC-ATACCAAAA
* *
1691911 TATATCGATACAT-CTAAAAA
1 TGTATCGATACATAC-CAAAA
1691931 TGTATCGATAC
1 TGTATCGATAC
1691942 TCTGAGCTAC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.05
20 36 0.88
21 3 0.07
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATACCAAAA
Found at i:1694172 original size:2 final size:2
Alignment explanation
Indices: 1694165--1694211 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1694155 TATATTTTGA
1694165 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1694207 TC TC T
1 TC TC T
1694212 ATATATATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1694216 original size:2 final size:2
Alignment explanation
Indices: 1694211--1694255 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1694201 TCTCTCTCTC
1694211 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1694253 TA T
1 TA T
1694256 GCAATATCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1697331 original size:20 final size:19
Alignment explanation
Indices: 1697283--1697332 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1697273 TCCACATGCT
*
1697283 TTTTTTTTCCTGCTACACC
1 TTTTCTTTCCTGCTACACC
1697302 TTTTCTTTCCTGCTACACC
1 TTTTCTTTCCTGCTACACC
1697321 TTTTCCTTTCCT
1 TTTT-CTTTCCT
1697333 TTTATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.08, C:0.34, G:0.04, T:0.54
Consensus pattern (19 bp):
TTTTCTTTCCTGCTACACC
Found at i:1702917 original size:19 final size:19
Alignment explanation
Indices: 1702893--1702952 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
1702883 ATAATTAAAA
1702893 ATTAATAAATATCTATATT
1 ATTAATAAATATCTATATT
1702912 ATTAATAAATA--T-TA--
1 ATTAATAAATATCTATATT
1702926 A--AATAAATATCTATATT
1 ATTAATAAATATCTATATT
1702943 ATTAATAAAT
1 ATTAATAAAT
1702953 TTTTTGATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
12 8 0.24
14 2 0.06
15 2 0.06
16 2 0.06
17 2 0.06
19 18 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTAATAAATATCTATATT
Found at i:1703034 original size:13 final size:12
Alignment explanation
Indices: 1703000--1703026 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1702990 TAATTAAATT
1703000 AAAAATTAAAAA
1 AAAAATTAAAAA
1703012 AAAAATTAAAAA
1 AAAAATTAAAAA
1703024 AAA
1 AAA
1703027 TTATTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATTAAAAA
Found at i:1704366 original size:24 final size:24
Alignment explanation
Indices: 1704334--1704382 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1704324 CAGGTATTAG
1704334 ATTGATATAGTGAAAATGTCGCCA
1 ATTGATATAGTGAAAATGTCGCCA
1704358 ATTGATATAGTGAAAATGTCGCCA
1 ATTGATATAGTGAAAATGTCGCCA
1704382 A
1 A
1704383 CTGAATCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (24 bp):
ATTGATATAGTGAAAATGTCGCCA
Found at i:1706469 original size:2 final size:2
Alignment explanation
Indices: 1706462--1706503 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1706452 GTTTAAGTGC
1706462 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1706504 ATATATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1706508 original size:2 final size:2
Alignment explanation
Indices: 1706503--1706536 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1706493 TCTCTCTCTC
1706503 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1706537 GAGAGAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1706706 original size:13 final size:13
Alignment explanation
Indices: 1706685--1706714 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1706675 TGTTAGCTGG
*
1706685 AAAACAGAAAAAA
1 AAAAAAGAAAAAA
1706698 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
1706711 AAAA
1 AAAA
1706715 GAAGGAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:1706825 original size:2 final size:2
Alignment explanation
Indices: 1706820--1706855 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1706810 ACACACACAC
1706820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1706856 TCCGATATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1707502 original size:13 final size:11
Alignment explanation
Indices: 1707473--1707567 Score: 50
Period size: 11 Copynumber: 8.2 Consensus size: 11
1707463 AATAATTGAA
1707473 TATTATTAAAT
1 TATTATTAAAT
1707484 TA-TATTCAAAT
1 TATTATT-AAAT
*
1707495 TAATTATTAAAA
1 T-ATTATTAAAT
1707507 TATATATTAAAAAT
1 TAT-TATT--AAAT
* * *
1707521 AAATATTGTAAT
1 TATTATT-AAAT
1707533 TA-TATTAAAT
1 TATTATTAAAT
* *
1707543 AATTATTAAAA
1 TATTATTAAAT
*
1707554 TATGATTCAAAT
1 TATTATT-AAAT
1707566 TA
1 TA
1707568 AAAATAATTT
Statistics
Matches: 63, Mismatches: 13, Indels: 15
0.69 0.14 0.16
Matches are distributed among these distances:
10 8 0.13
11 25 0.40
12 18 0.29
13 8 0.13
14 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (11 bp):
TATTATTAAAT
Found at i:1707762 original size:19 final size:20
Alignment explanation
Indices: 1707735--1707772 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1707725 GCATAAATTT
*
1707735 TTTTTACTT-ATTTTTAATA
1 TTTTCACTTAATTTTTAATA
1707754 TTTTCACTTAATTTTTAAT
1 TTTTCACTTAATTTTTAAT
1707773 CAATATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTCACTTAATTTTTAATA
Found at i:1711673 original size:34 final size:33
Alignment explanation
Indices: 1711625--1711845 Score: 248
Period size: 34 Copynumber: 6.5 Consensus size: 33
1711615 TGGTAAAAAC
* *
1711625 CACCATTTAATCAACAATGGCAACCTACTAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
1711658 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* * *
1711692 CACCCATTTAATCAATAATGATAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
1711726 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
1711760 CTCCAATTTAGTCAACAATGGCAAACC-ACCAAAT
1 CACC-ATTTAATCAACAATGG-TAACCTACCAAAT
*
1711794 CACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
1711828 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
1711846 TGTCCCACTT
Statistics
Matches: 160, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
33 24 0.15
34 129 0.81
35 7 0.04
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:1711804 original size:102 final size:101
Alignment explanation
Indices: 1711625--1711845 Score: 327
Period size: 102 Copynumber: 2.2 Consensus size: 101
1711615 TGGTAAAAAC
* * *
1711625 CACCATTTAATCAACAATGGCAACCTACTAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
1711690 ATCACCCATTTAATCAATAATGATAAGCTACCAAAT
66 ATCACCCATTTAATCAACAATGATAAACTACCAAAT
** * *
1711726 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCT-CCAATTTAGTCAACAATGGCAAACCACC
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACC-ATTTAGTCAACAATGGCAAACCACC
*
1711790 AAATCACCCATTTAATCAACAATGGTAAACTACCAAAT
64 AAATCACCCATTTAATCAACAATGATAAACTACCAAAT
1711828 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
1711846 TGTCCCACTT
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
101 18 0.17
102 88 0.83
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATGATAAACTACCAAAT
Found at i:1716299 original size:34 final size:33
Alignment explanation
Indices: 1716251--1716468 Score: 233
Period size: 34 Copynumber: 6.5 Consensus size: 33
1716241 TGGTAAAAAC
**
1716251 CACCATTTAATCAACAATGACAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
1716284 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
1716318 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
1716352 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * * **
1716386 CTCCTATTTAGTTAACAATGACAAACC-ACCAAAT
1 CACC-ATTTAATCAACAATG-GTAACCTACCAAAT
*
1716420 CACCAATTTAATCAACAATGGTAAACTACCAAAT
1 CACC-ATTTAATCAACAATGGTAACCTACCAAAT
1716454 CACCATTTAATCAAC
1 CACCATTTAATCAAC
1716469 GACGAGTTCA
Statistics
Matches: 155, Mismatches: 22, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
33 19 0.12
34 131 0.85
35 5 0.03
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.26
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:1716367 original size:68 final size:67
Alignment explanation
Indices: 1716253--1716468 Score: 263
Period size: 68 Copynumber: 3.2 Consensus size: 67
1716243 GTAAAAACCA
* * *
1716253 CCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGACAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
1716318 CAC
65 CAC
* ** * *
1716321 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGACAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
1716386 CTC
65 CAC
* * * * * *
1716389 CTATTTAGTTAACAATGACAAACCACCAAATCACCAATTTAATCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGACAAACTACCAAATTACC-ATTTAATCAACAATGGTAAGCTACCAAAT
1716454 CA-
65 CAC
1716456 CCATTTAATCAAC
1 CCATTTAATCAAC
1716469 GACGAGTTCA
Statistics
Matches: 123, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
67 13 0.11
68 110 0.89
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (67 bp):
CCATTTAATCAACAATGACAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:1716395 original size:102 final size:101
Alignment explanation
Indices: 1716251--1716468 Score: 303
Period size: 102 Copynumber: 2.1 Consensus size: 101
1716241 TGGTAAAAAC
** *
1716251 CACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCACCAA
* * *
1716316 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCAATTTAATCAACAATGGTAAACTACCAAAT
** ** * *
1716352 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCT-CCTATTTAGTTAACAATGACAAACCACC
1 CAC-CATTTAATCAACAATGACAACCTACCAAATCTACC-ATTTAGTCAACAATGACAAACCACC
1716416 AAATCACCAATTTAATCAACAATGGTAAACTACCAAAT
64 AAATCACCAATTTAATCAACAATGGTAAACTACCAAAT
1716454 CACCATTTAATCAAC
1 CACCATTTAATCAAC
1716469 GACGAGTTCA
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
101 15 0.15
102 86 0.85
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.26
Consensus pattern (101 bp):
CACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCACCAA
ATCACCAATTTAATCAACAATGGTAAACTACCAAAT
Found at i:1718143 original size:28 final size:27
Alignment explanation
Indices: 1718086--1718149 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 27
1718076 CACCCATTTG
*
1718086 TTTGTCAAAAATGGTGGTTATTTTGTA
1 TTTGTCAAAAATGGTGGTTATTTTGGA
1718113 TTTGTCAAAAATGGTGGTT-TCCTTTGGA
1 TTTGTCAAAAATGGTGGTTAT--TTTGGA
1718141 TTTGTCAAA
1 TTTGTCAAA
1718150 TATAGAGGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 1 0.03
27 19 0.56
28 14 0.41
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTGGA
Found at i:1722637 original size:426 final size:427
Alignment explanation
Indices: 1721843--1722690 Score: 1644
Period size: 426 Copynumber: 2.0 Consensus size: 427
1721833 TACTCAATTA
*
1721843 TCTCCGAAAACTAATGAGGAACGAGAGAATATGGCAAAAGTTCCATATGCTAATGCAGTTGGGAG
1 TCTCCGAAAACTAATGAGGAACGAGAGAATATGACAAAAGTTCCATATGCTAATGCAGTTGGGAG
*
1721908 CTTGATGTATGCAATGGTGTGTACGCGGCCTGATATTTCACAAGCAGTTGGAGTTGTGAGTAGGT
66 CTTGATGTATGCAATGGTGTGTACGCGGCCTGATATTTCACAAGCAGTTGGAGTTATGAGTAGGT
1721973 ACATGCATGATCCTGGAAAGGAACATTGGCAAGCTGTGAAATGGATTCTTCGATACATCTATAAT
131 ACATGCATGATCCTGGAAAGGAACATTGGCAAGCTGTGAAATGGATTCTTCGATACATCTATAAT
1722038 ACAATAGATGTTGGGTTAATGTTTGAGAAAGAAGAAAGTCAGTATGTAGAGGGATTTTGTGACTC
196 ACAATAGATGTTGGGTTAATGTTTGAGAAAGAAGAAAGTCAGTATGTAGAGGGATTTTGTGACTC
1722103 AGATTATTCTGGTGATTTAGACAAGCGTCGATCAACTACTGGTTATATTTTTACTCTTGCAAAAG
261 AGATTATTCTGGTGATTTAGACAAGCGTCGATCAACTACTGGTTATATTTTTACTCTTGCAAAAG
1722168 CTCCAGTTAGTTGGAAATCCACCTTACAGTCAACAGTGGCTCTGTCTACTACAGAAGCAGAGTAT
326 CTCCAGTTAGTTGGAAATCCACCTTACAGTCAACAGTGGCTCTGTCTACTACAGAAGCAGAGTAT
* *
1722233 ATGGCATTAATAGAGGCTATAAAAGAAACAGTGGCTC
391 ATGGCATTAACAAAGGCTATAAAAGAAACAGTGGCTC
1722270 TCTCCGAAAACTAATGAGGAACGAGAGAATATGACAAAAGTTCCATATGCTAATGCAGTTGGGAG
1 TCTCCGAAAACTAATGAGGAACGAGAGAATATGACAAAAGTTCCATATGCTAATGCAGTTGGGAG
1722335 CTTGATGTATGCAATGGTGTGTACGCGGCCTGATA-TTCACAAGCAGTTGGAGTTATGAGTAGGT
66 CTTGATGTATGCAATGGTGTGTACGCGGCCTGATATTTCACAAGCAGTTGGAGTTATGAGTAGGT
1722399 ACATGCATGATCCTGGAAAGGAACATTGGCAAGCTGTGAAATGGATTCTTCGATACATCTATAAT
131 ACATGCATGATCCTGGAAAGGAACATTGGCAAGCTGTGAAATGGATTCTTCGATACATCTATAAT
1722464 ACAATAGATGTTGGGTTAATGTTTGAGAAAGAAGAAAGTCAGTATGTAGAGGGATTTTGTGACTC
196 ACAATAGATGTTGGGTTAATGTTTGAGAAAGAAGAAAGTCAGTATGTAGAGGGATTTTGTGACTC
1722529 AGATTATTCTGGTGATTTAGACAAGCGTCGATCAACTACTGGTTATATTTTTACTCTTGCAAAAG
261 AGATTATTCTGGTGATTTAGACAAGCGTCGATCAACTACTGGTTATATTTTTACTCTTGCAAAAG
1722594 CTCCAGTTAGTTGGAAATCCACCTTACAGTCAACAGTGGCTCTGTCTACTACAGAAGCAGAGTAT
326 CTCCAGTTAGTTGGAAATCCACCTTACAGTCAACAGTGGCTCTGTCTACTACAGAAGCAGAGTAT
*
1722659 ATGGCATTAACAAAGGCTATAAAAGAAGCAGT
391 ATGGCATTAACAAAGGCTATAAAAGAAACAGT
1722691 ATGGCTTCAA
Statistics
Matches: 416, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
426 317 0.76
427 99 0.24
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (427 bp):
TCTCCGAAAACTAATGAGGAACGAGAGAATATGACAAAAGTTCCATATGCTAATGCAGTTGGGAG
CTTGATGTATGCAATGGTGTGTACGCGGCCTGATATTTCACAAGCAGTTGGAGTTATGAGTAGGT
ACATGCATGATCCTGGAAAGGAACATTGGCAAGCTGTGAAATGGATTCTTCGATACATCTATAAT
ACAATAGATGTTGGGTTAATGTTTGAGAAAGAAGAAAGTCAGTATGTAGAGGGATTTTGTGACTC
AGATTATTCTGGTGATTTAGACAAGCGTCGATCAACTACTGGTTATATTTTTACTCTTGCAAAAG
CTCCAGTTAGTTGGAAATCCACCTTACAGTCAACAGTGGCTCTGTCTACTACAGAAGCAGAGTAT
ATGGCATTAACAAAGGCTATAAAAGAAACAGTGGCTC
Found at i:1725215 original size:4 final size:4
Alignment explanation
Indices: 1725206--1725257 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
1725196 GGTCATAGTG
1725206 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
1725254 CTAT
1 CTAT
1725258 ATATATATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CTAT
Found at i:1729073 original size:2 final size:2
Alignment explanation
Indices: 1729068--1729101 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1729058 TTTTCTTTTA
1729068 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1729102 TCAAATTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1729186 original size:45 final size:45
Alignment explanation
Indices: 1729122--1729212 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
1729112 ATTTTTGTTT
1729122 GGGCCGGTGATTACGAAAGGTGGAGTCTTACAAGGATGGTGAAAG
1 GGGCCGGTGATTACGAAAGGTGGAGTCTTACAAGGATGGTGAAAG
1729167 GGGCCGGTGATTACGAAAGGTGGAGTCTTACAAGGATGGTGAAAG
1 GGGCCGGTGATTACGAAAGGTGGAGTCTTACAAGGATGGTGAAAG
1729212 G
1 G
1729213 TGCCAAGCGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.11, G:0.41, T:0.20
Consensus pattern (45 bp):
GGGCCGGTGATTACGAAAGGTGGAGTCTTACAAGGATGGTGAAAG
Found at i:1729422 original size:18 final size:18
Alignment explanation
Indices: 1729399--1729448 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 18
1729389 AATTTTTTTA
1729399 AAAAAATATTAATTTAAT
1 AAAAAATATTAATTTAAT
*
1729417 AAAAAATATT--TATAAT
1 AAAAAATATTAATTTAAT
* *
1729433 ATAAATTATTAATTTA
1 AAAAAATATTAATTTA
1729449 TTTTAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 13 0.50
18 13 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAAATATTAATTTAAT
Found at i:1729974 original size:37 final size:37
Alignment explanation
Indices: 1729932--1730007 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
1729922 CCTGTTAGAA
*
1729932 TTAATATTTTAAAGATTATGAAACCCAAAAAATAAAT
1 TTAATATTTTAAAGATTACGAAACCCAAAAAATAAAT
* *
1729969 TTAATATTTTAAGGATTACGAAACCTAAAAAATAAAT
1 TTAATATTTTAAAGATTACGAAACCCAAAAAATAAAT
1730006 TT
1 TT
1730008 TAAGGTCTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (37 bp):
TTAATATTTTAAAGATTACGAAACCCAAAAAATAAAT
Found at i:1731244 original size:29 final size:29
Alignment explanation
Indices: 1731168--1731270 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
1731158 AAGTTCCTAG
** * *
1731168 ACTTTTCAAAATTTCACTTTAATGCT-TAA
1 ACTTTTCAAAATCACACTTTAA-CCTCCAA
* * *
1731197 ACTTTTTAAAATTATACTTTAACC-CCAA
1 ACTTTTCAAAATCACACTTTAACCTCCAA
* *
1731225 AGCTTTTCAAAATCACACTTTGACCTCTAA
1 A-CTTTTCAAAATCACACTTTAACCTCCAA
1731255 ACTTTTCAAAATCACA
1 ACTTTTCAAAATCACA
1731271 TTTCGATTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.07
29 53 0.87
30 4 0.07
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (29 bp):
ACTTTTCAAAATCACACTTTAACCTCCAA
Found at i:1733044 original size:11 final size:11
Alignment explanation
Indices: 1733028--1733056 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1733018 AACAAATTAA
1733028 TTTTTTT-TCT
1 TTTTTTTCTCT
1733038 TTTTTTTCTCT
1 TTTTTTTCTCT
1733049 TTTTTTTC
1 TTTTTTTC
1733057 CTTAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:1735553 original size:22 final size:22
Alignment explanation
Indices: 1735492--1735573 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
1735482 TAAATTCGTA
* * *
1735492 TAACTCAAATATCAAACCCATT
1 TAACTCAAATATCAAATCTAAT
*
1735514 TGA-TCTAAATAATCAAATCTAAT
1 TAACTC-AAAT-ATCAAATCTAAT
* *
1735537 TAACTCGAATATCAAATTTAAT
1 TAACTCAAATATCAAATCTAAT
1735559 TAACTCAAAT-TCAAA
1 TAACTCAAATATCAAA
1735574 ACAACTCGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
21 7 0.14
22 26 0.53
23 14 0.29
24 2 0.04
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (22 bp):
TAACTCAAATATCAAATCTAAT
Found at i:1735632 original size:16 final size:16
Alignment explanation
Indices: 1735588--1735632 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
1735578 CTCGAACTCC
*
1735588 AAATAATTTAAACTTA
1 AAATAATTTAAATTTA
1735604 AAATAATTTAAATTTA
1 AAATAATTTAAATTTA
1735620 AAATAATTTAAAT
1 AAATAATTTAAAT
1735633 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATAATTTAAATTTA
Found at i:1735648 original size:32 final size:32
Alignment explanation
Indices: 1735588--1735648 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1735578 CTCGAACTCC
* *
1735588 AAATAATTTAAACTTAAAATAATTTAAATTTA
1 AAATAATTTAAAATTAAAATAATCTAAATTTA
*
1735620 AAATAATTTAAATATTTAAA-AATCTAAAT
1 AAATAATTTAAA-ATTAAAATAATCTAAAT
1735649 AACCTAACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 20 0.80
33 5 0.20
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (32 bp):
AAATAATTTAAAATTAAAATAATCTAAATTTA
Found at i:1736850 original size:41 final size:41
Alignment explanation
Indices: 1736721--1736861 Score: 133
Period size: 41 Copynumber: 3.3 Consensus size: 41
1736711 AGATTGTATT
**
1736721 TATTCAAAAACAAAAGTGTAACACTGGATCAGAGATCATATT
1 TATTC-AAAACAAAAGTGTAACACTGGATCAGAGATCATACC
* * * * * *
1736763 TATTCAAAACTCATAACTTTGAGATCA-T-AAACAAGGGATCATACC
1 TATTCAAAA--CAAAAGTGT-A-A-CACTGGATC-AGAGATCATACC
1736808 TATTCAAAACAAAAGTGTAACACTGGATCAGAGATCATACC
1 TATTCAAAACAAAAGTGTAACACTGGATCAGAGATCATACC
1736849 TATTCAAAACAAA
1 TATTCAAAACAAA
1736862 GGACTTTATT
Statistics
Matches: 77, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
40 2 0.03
41 30 0.39
42 8 0.10
43 12 0.16
44 3 0.04
45 20 0.26
46 2 0.03
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (41 bp):
TATTCAAAACAAAAGTGTAACACTGGATCAGAGATCATACC
Found at i:1737259 original size:2 final size:2
Alignment explanation
Indices: 1737252--1737278 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1737242 GCATTGTAGT
1737252 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1737279 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1740683 original size:31 final size:31
Alignment explanation
Indices: 1740637--1740702 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
1740627 CTAGAACGCT
*
1740637 CAAA-GGAGACTTACAAAAATTACAATGCAA
1 CAAATGGAGACATACAAAAATTACAATGCAA
*
1740667 CAAATGGAGACATACAAAAATTATAATGCAA
1 CAAATGGAGACATACAAAAATTACAATGCAA
1740698 CAAAT
1 CAAAT
1740703 ATTTTGAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.18
Consensus pattern (31 bp):
CAAATGGAGACATACAAAAATTACAATGCAA
Found at i:1745271 original size:2 final size:2
Alignment explanation
Indices: 1745264--1745300 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1745254 GATTTTCAAA
1745264 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1745301 CATGTAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1745683 original size:10 final size:10
Alignment explanation
Indices: 1745670--1745703 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1745660 CCATTTCATA
1745670 TTTTTTCTTTT
1 TTTTTTC-TTT
1745681 TTTTTTCTTT
1 TTTTTTCTTT
*
1745691 TTCTTTCTTT
1 TTTTTTCTTT
1745701 TTT
1 TTT
1745704 CTTCATCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1745687 original size:21 final size:21
Alignment explanation
Indices: 1745663--1745703 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1745653 GGCCACTCCA
1745663 TTTCATATTT-TTTCTTTTTTT
1 TTTC-TATTTCTTTCTTTTTTT
*
1745684 TTTCTTTTTCTTTCTTTTTT
1 TTTCTATTTCTTTCTTTTTT
1745704 CTTCATCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTCTATTTCTTTCTTTTTTT
Found at i:1745693 original size:17 final size:17
Alignment explanation
Indices: 1745671--1745706 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1745661 CATTTCATAT
*
1745671 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTTTTC
1745688 TTTTTCTTTCTTTTTTC
1 TTTTTCTTTCTTTTTTC
1745705 TT
1 TT
1745707 CATCTTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTCTTTCTTTTTTC
Found at i:1745704 original size:11 final size:11
Alignment explanation
Indices: 1745673--1745706 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1745663 TTTCATATTT
*
1745673 TTTCTTTTTTT
1 TTTCTTTTTTC
1745684 TTTC-TTTTTC
1 TTTCTTTTTTC
1745694 TTTCTTTTTTC
1 TTTCTTTTTTC
1745705 TT
1 TT
1745707 CATCTTCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:1745712 original size:17 final size:17
Alignment explanation
Indices: 1745675--1745723 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
1745665 TCATATTTTT
* **
1745675 TCTTTTTTTTTTCTTTT
1 TCTTTCTTTTTTCTTCA
1745692 TCTTTCTTTTTTCTTCA
1 TCTTTCTTTTTTCTTCA
* *
1745709 TCTTCCTTCTTTCTT
1 TCTTTCTTTTTTCTT
1745724 TCCCGCCCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTCTTTTTTCTTCA
Found at i:1750276 original size:43 final size:48
Alignment explanation
Indices: 1750227--1750319 Score: 115
Period size: 47 Copynumber: 2.0 Consensus size: 48
1750217 TATCAATATG
* *
1750227 ATTAATT-TACA-ATATATA-ATATTGTAAT-AATAAATAT-TTAAAA
1 ATTAATTATACATATAAATATAGATTGTAATAAATAAATATATTAAAA
* *
1750270 ATTAATTATATATATAAATATAGATTTTAATAAATAAATATATTAAAA
1 ATTAATTATACATATAAATATAGATTGTAATAAATAAATATATTAAAA
1750318 AT
1 AT
1750320 AACATATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 7 0.17
44 3 0.07
45 6 0.15
46 8 0.20
47 9 0.22
48 8 0.20
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (48 bp):
ATTAATTATACATATAAATATAGATTGTAATAAATAAATATATTAAAA
Found at i:1750315 original size:16 final size:16
Alignment explanation
Indices: 1750251--1750326 Score: 54
Period size: 16 Copynumber: 4.9 Consensus size: 16
1750241 TATAATATTG
1750251 TAAT-AATAAATAT-T
1 TAATAAATAAATATAT
*
1750265 TAA-AAATTAAT-TAT
1 TAATAAATAAATATAT
* * *
1750279 ATATATAAATATAGATTT
1 -TA-ATAAATAAATATAT
1750297 TAATAAATAAATATAT
1 TAATAAATAAATATAT
1750313 TAA-AAATAACATAT
1 TAATAAATAA-ATAT
1750327 TATAACAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
13 1 0.02
14 10 0.21
15 8 0.17
16 19 0.40
17 7 0.15
18 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (16 bp):
TAATAAATAAATATAT
Found at i:1752266 original size:2 final size:2
Alignment explanation
Indices: 1752259--1752302 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1752249 TGTTGCCCCC
1752259 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1752301 AT
1 AT
1752303 GGTAATGCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1754409 original size:6 final size:6
Alignment explanation
Indices: 1754398--1754432 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1754388 ATCTCTTTCC
* *
1754398 TTAAAA TTAAAA TTAAAA TTAAAA ATAAAA ATAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAA
1754433 CCATGAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
TTAAAA
Found at i:1755425 original size:2 final size:2
Alignment explanation
Indices: 1755418--1755473 Score: 69
Period size: 2 Copynumber: 28.5 Consensus size: 2
1755408 TTCCATACTT
* * *
1755418 TA TA TA TA AA TA TA TA TA TA TA TA TA T- TA CA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1755459 AA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
1755474 TACATTTCCA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1755464 original size:29 final size:29
Alignment explanation
Indices: 1755422--1755480 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
1755412 ATACTTTATA
*
1755422 TATAAATATATATATATATATATTACATT
1 TATAAATAAATATATATATATATTACATT
*
1755451 TATATATAAATATATATATATATTACATT
1 TATAAATAAATATATATATATATTACATT
1755480 T
1 T
1755481 CCATATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (29 bp):
TATAAATAAATATATATATATATTACATT
Found at i:1755486 original size:29 final size:29
Alignment explanation
Indices: 1755431--1755486 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
1755421 ATATAAATAT
*
1755431 ATATATATATATATTACATTTATATATAA
1 ATATATATATATATTACATTTACATATAA
*
1755460 ATATATATATATATTACATTTCCATAT
1 ATATATATATATATTACATTTACATAT
1755487 TTTTTTCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (29 bp):
ATATATATATATATTACATTTACATATAA
Found at i:1756610 original size:20 final size:20
Alignment explanation
Indices: 1756573--1756608 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
1756563 TAAAAATTTT
1756573 AAATATAAATATAATATAAA
1 AAATATAAATATAATATAAA
1756593 AAATAT-AAT-TAATATA
1 AAATATAAATATAATATA
1756609 TATATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 3 0.19
20 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATATAAATATAATATAAA
Found at i:1756622 original size:37 final size:36
Alignment explanation
Indices: 1756581--1756657 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 36
1756571 TTAAATATAA
1756581 ATAT-AATATAAAA-AATATAATTAATATATATATTTAT
1 ATATAAATATAAAATAATATAA--AATATA-ATATTTAT
* *
1756618 ATATAAAATTTAAAATGATATAAAATATAATATTTAT
1 ATAT-AAATATAAAATAATATAAAATATAATATTTAT
1756655 ATA
1 ATA
1756658 ATATTAACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
37 15 0.43
38 6 0.17
39 8 0.23
40 6 0.17
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (36 bp):
ATATAAATATAAAATAATATAAAATATAATATTTAT
Found at i:1757429 original size:15 final size:15
Alignment explanation
Indices: 1757411--1757452 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1757401 AATTAAAGTG
1757411 ATTAACTTAAAATAA
1 ATTAACTTAAAATAA
1757426 ATTAAACTT-AAATAA
1 ATT-AACTTAAAATAA
* *
1757441 TTTAAATTAAAA
1 ATTAACTTAAAA
1757453 ATATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.17
15 14 0.61
16 5 0.22
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
ATTAACTTAAAATAA
Found at i:1757435 original size:16 final size:16
Alignment explanation
Indices: 1757414--1757504 Score: 57
Period size: 16 Copynumber: 5.8 Consensus size: 16
1757404 TAAAGTGATT
1757414 AACTTAAAATAAATTA
1 AACTTAAAATAAATTA
*
1757430 AACTT-AAATAATTTA
1 AACTTAAAATAAATTA
*
1757445 AA-TTAAAA-ATATTTA
1 AACTTAAAATA-AATTA
*
1757460 AA-TCTAAAAAAAATTAA
1 AACT-TAAAATAAATT-A
* *
1757477 AAATTATAAT-AATATA
1 AACTTAAAATAAAT-TA
*
1757493 AACTCAAAATAA
1 AACTTAAAATAA
1757505 TTTTAAAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
14 3 0.05
15 22 0.37
16 24 0.40
17 10 0.17
18 1 0.02
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
AACTTAAAATAAATTA
Found at i:1757839 original size:8 final size:8
Alignment explanation
Indices: 1757826--1757902 Score: 56
Period size: 8 Copynumber: 9.8 Consensus size: 8
1757816 TTTAAATAAA
1757826 ATATAATT
1 ATATAATT
1757834 ATATAATTT
1 ATATAA-TT
*
1757843 ATATATTT
1 ATATAATT
1757851 ATATAA-T
1 ATATAATT
*
1757858 AT-TTATAT
1 ATATAAT-T
1757866 ATTATAATT
1 A-TATAATT
1757875 ATAT--TT
1 ATATAATT
*
1757881 A-AAATATT
1 ATATA-ATT
1757889 ATATAATT
1 ATATAATT
1757897 ATATAA
1 ATATAA
1757903 ATTTTTATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
5 1 0.02
6 5 0.09
7 3 0.06
8 30 0.56
9 12 0.22
10 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATATAATT
Found at i:1757897 original size:28 final size:29
Alignment explanation
Indices: 1757831--1757913 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 29
1757821 ATAAAATATA
1757831 ATTATATAATT-T-ATATATTTATATAAT
1 ATTATATAATTATAATATATTTATATAAT
1757858 ATT-TATATATTATAATTATATTTA-A-AAT
1 ATTATATA-ATTATAA-TATATTTATATAAT
* *
1757886 ATTATATAATTATATAAATTTTTATATA
1 ATTATATAATTATA-ATATATTTATATA
1757914 TCCACATTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
26 4 0.09
27 6 0.13
28 19 0.41
29 8 0.17
30 9 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
ATTATATAATTATAATATATTTATATAAT
Found at i:1757981 original size:18 final size:20
Alignment explanation
Indices: 1757932--1757970 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1757922 GTATTTATAT
1757932 AATTTTTATATTATATTTAA
1 AATTTTTATATTATATTTAA
*
1757952 AATTTTTATATTATTTTTA
1 AATTTTTATATTATATTTA
1757971 TATTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
AATTTTTATATTATATTTAA
Found at i:1757993 original size:44 final size:44
Alignment explanation
Indices: 1757923--1758034 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 44
1757913 ATCCACATTG
* * * * *
1757923 TATTTATATA-ATTTTTATATTATATTTAAAATTTTTATATTATT
1 TATTTATTTATATATTTATATCATATTTAAAATTATCAT-TTATT
* *
1757967 T-TTATATTT-TATATTTATATCGTATTTATAATTATCATTTATT
1 TATT-TATTTATATATTTATATCATATTTAAAATTATCATTTATT
*
1758010 TATTTATTTATATATATATAT-ATAT
1 TATTTATTTATATATTTATATCATAT
1758035 ATATATATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
43 16 0.29
44 39 0.71
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (44 bp):
TATTTATTTATATATTTATATCATATTTAAAATTATCATTTATT
Found at i:1758025 original size:2 final size:2
Alignment explanation
Indices: 1758018--1758055 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1758008 TTTATTTATT
1758018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1758056 AAGCTGCTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1761081 original size:22 final size:22
Alignment explanation
Indices: 1761050--1761099 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1761040 TCTTTACAAA
1761050 TAAAGTCATTCATGA-TTCATT
1 TAAAGTCATTCATGAGTTCATT
* *
1761071 TAAAGCTCATTTATGAGTTCGTT
1 TAAAG-TCATTCATGAGTTCATT
1761094 TAAAGT
1 TAAAGT
1761100 TTATTTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 10 0.40
23 10 0.40
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTCATTCATGAGTTCATT
Found at i:1761106 original size:23 final size:22
Alignment explanation
Indices: 1761050--1761098 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
1761040 TCTTTACAAA
*
1761050 TAAAG-TCATTCATGATTCATT
1 TAAAGCTCATTTATGATTCATT
*
1761071 TAAAGCTCATTTATGAGTTCGTT
1 TAAAGCTCATTTATGA-TTCATT
1761094 TAAAG
1 TAAAG
1761099 TTTATTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.21
22 9 0.38
23 10 0.42
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (22 bp):
TAAAGCTCATTTATGATTCATT
Found at i:1762560 original size:25 final size:26
Alignment explanation
Indices: 1762519--1762570 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
1762509 GGAAGCATGC
*
1762519 ATTTGTACTCTACAAC-TCGACTTTG
1 ATTTGTACTATACAACTTCGACTTTG
1762544 ATTTGTACGTATA-AACTTTCGACTTTG
1 ATTTGTAC-TATACAAC-TTCGACTTTG
1762571 CGATGCTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 11 0.48
26 3 0.13
27 9 0.39
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.42
Consensus pattern (26 bp):
ATTTGTACTATACAACTTCGACTTTG
Done.