Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold123
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: 1422801
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 1358 characters in sequence are not A, C, G, or T
File 6 of 9
Found at i:860878 original size:80 final size:80
Alignment explanation
Indices: 860716--860889 Score: 185
Period size: 80 Copynumber: 2.2 Consensus size: 80
860706 AGTTTTGTCT
* * *
860716 TGGTCAACCCTTTTCATTTGTTGGCTTGTAAGATTCATCCCGTTCAACCTTTTCAACTTGTTGAC
1 TGGTCAACCCTTTTCATTTGTTGGCTTGTAAGATTCATCCCATTCAACCTTTTCAACTTATTAAC
*
860781 TTATAGGTTTCATCC
66 TTATAGATTTCATCC
* * * *
860796 TGGTCAA-CCTTTCTCATTTGTTGGCTTGTCAGTTTTATTCCATTCAACCTTTCTC-A-TTCATT
1 TGGTCAACCCTTT-TCATTTGTTGGCTTGTAAGATTCATCCCATTCAACCTTT-TCAACTT-ATT
*
860858 AACTATATTGATTTCA-CC
63 AACT-TATAGATTTCATCC
*
860876 TGGTTCAGCCCTTT
1 TGG-TCAACCCTTT
860890 GAACCTAGGA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
79 7 0.09
80 52 0.67
81 14 0.18
82 5 0.06
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.44
Consensus pattern (80 bp):
TGGTCAACCCTTTTCATTTGTTGGCTTGTAAGATTCATCCCATTCAACCTTTTCAACTTATTAAC
TTATAGATTTCATCC
Found at i:862928 original size:89 final size:89
Alignment explanation
Indices: 862688--862943 Score: 399
Period size: 88 Copynumber: 2.9 Consensus size: 89
862678 ACCAATTTTG
*
862688 TTGGTTTCCAATTACCCATTAGTTGATATTATGAAAATGTTGGGAATGATATCTAATTTAATGCA
1 TTGGTTTCTAATTACCCATTAGTTGATATTATGAAAATGTTGGGAATGATATCTAATTTAATGCA
* *
862753 CGCTGATCTTTTTAACTAATTTCA
66 TGCTGATCTTTTTAACAAATTTCA
* *
862777 TTGGTTTCTAATTA-CCATTAGTTGATATTGTGAAAATGTTGGGAATAATATCTAATTTAATGCA
1 TTGGTTTCTAATTACCCATTAGTTGATATTATGAAAATGTTGGGAATGATATCTAATTTAATGCA
862841 TGCTCG-TCTTTTTAACAAATTTCA
66 TGCT-GATCTTTTTAACAAATTTCA
* **
862865 TTGGTTTCTAATTACCCATTAATTGATATTATGAAAGCGTTGGGAATGATATCTAATTTAATGCA
1 TTGGTTTCTAATTACCCATTAGTTGATATTATGAAAATGTTGGGAATGATATCTAATTTAATGCA
* *
862930 TGATTATCTTTTTA
66 TGCTGATCTTTTTA
862944 TGAAAATAAT
Statistics
Matches: 152, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
88 82 0.54
89 70 0.46
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (89 bp):
TTGGTTTCTAATTACCCATTAGTTGATATTATGAAAATGTTGGGAATGATATCTAATTTAATGCA
TGCTGATCTTTTTAACAAATTTCA
Found at i:864337 original size:153 final size:152
Alignment explanation
Indices: 864048--864375 Score: 376
Period size: 153 Copynumber: 2.2 Consensus size: 152
864038 AGATGTACTT
* * * * *
864048 TTAGGATAGGTTCACCCTTTTAACATCATTTTTGTGTCCTTTAGTGCTATTGAGATATTTCATGT
1 TTAGGATAGGTTCACCCTTTTAAAATCATTTTTGTGTCCTTTAGGGCTACTAAGATATTTCACGT
* * *
864113 CAAAGGTATACCTAGGGGCATTTTGGTAATTTCACTATAATCAAGTCCTAGGTAGTCATAGGGAT
66 CAAAGGTATACCTAGGGGCATTTTGGTAATTTCACTAGAATCAAGTCCTAGATAGCCATAGGGAT
* *
864178 GTTTTTATGCCAAAGGTGCACGC
131 GCTTTTATGCCAAA-GTACACGC
* *
864201 TTAGGATAGGTTCACCCTTTTAAAATCATTTTTGTGTCTTTTAGGGTTACTAAGATACTTTCACG
1 TTAGGATAGGTTCACCCTTTTAAAATCATTTTTGTGTCCTTTAGGGCTACTAAGATA-TTTCACG
* * *** *
864266 TCGAA-GTATACCCTATGGGCA-TTTGGATAATTTTTTTAGAA-CTAAGTCCTAGATAGCCA-CG
65 TCAAAGGTATA-CCTAGGGGCATTTTGG-TAATTTCACTAGAATC-AAGTCCTAGATAGCCATAG
* * *
864327 GGTTGCTTTTATGCCAAAGTATACGT
127 GGATGCTTTTATGCCAAAGTACACGC
* *
864353 TTAGGATATGTTCACACTTTTAA
1 TTAGGATAGGTTCACCCTTTTAA
864376 GATTATTTGG
Statistics
Matches: 148, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
152 26 0.18
153 79 0.53
154 43 0.29
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (152 bp):
TTAGGATAGGTTCACCCTTTTAAAATCATTTTTGTGTCCTTTAGGGCTACTAAGATATTTCACGT
CAAAGGTATACCTAGGGGCATTTTGGTAATTTCACTAGAATCAAGTCCTAGATAGCCATAGGGAT
GCTTTTATGCCAAAGTACACGC
Found at i:864580 original size:17 final size:18
Alignment explanation
Indices: 864546--864584 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
864536 TCCCTTTTTT
* *
864546 TTAATATTTTTAATAAAA
1 TTAAAATTTTCAATAAAA
864564 TTAAAATTTTCAA-AAAA
1 TTAAAATTTTCAATAAAA
864581 TTAA
1 TTAA
864585 CGCAATGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAAATTTTCAATAAAA
Found at i:867063 original size:16 final size:16
Alignment explanation
Indices: 867042--867073 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
867032 GCTTAAGTTG
*
867042 ACCCAAACCTAAATTA
1 ACCCAAACCAAAATTA
867058 ACCCAAACCAAAATTA
1 ACCCAAACCAAAATTA
867074 TATGAATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (16 bp):
ACCCAAACCAAAATTA
Found at i:867672 original size:20 final size:20
Alignment explanation
Indices: 867647--867692 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
867637 TTCAACAATT
867647 TGTATCGATACAAAAGGT-AA
1 TGTATCGATACAAAA-GTAAA
*
867667 TGTATCGATACATAAGTAAA
1 TGTATCGATACAAAAGTAAA
867687 TGTATC
1 TGTATC
867693 AATGCATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:868593 original size:24 final size:20
Alignment explanation
Indices: 868513--868586 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
868503 TTTTACATCA
*
868513 TCAATGTATCGATCCATTCT
1 TCAATGTATCGATACATTCT
*
868533 TC-ATGTATCGATACCA-T-G
1 TCAATGTATCGATA-CATTCT
868551 T--ATGTATCGATACATTCT
1 TCAATGTATCGATACATTCT
868569 TCAATGTATCGATACATT
1 TCAATGTATCGATACATT
868587 TTATCTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 2 0.04
17 12 0.26
18 2 0.04
19 11 0.24
20 19 0.41
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (20 bp):
TCAATGTATCGATACATTCT
Found at i:882286 original size:1 final size:1
Alignment explanation
Indices: 882282--882333 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
882272 CCAAAAACAC
* * * * * *
882282 AAAAAAAAAACAAAAAAAATAAAAAAACAAAAAAAACAAACAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
882334 GGGGTCTAGA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:882292 original size:13 final size:13
Alignment explanation
Indices: 882274--882333 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 13
882264 CCTTCGTACC
882274 AAAAACACAAAAA
1 AAAAACACAAAAA
*
882287 AAAAACAAAAAAAA
1 AAAAAC-ACAAAAA
*
882301 TAAAAAAACAAAAA
1 -AAAAACACAAAAA
882315 AAACAA-ACAAATAA
1 AAA-AACACAAA-AA
882329 AAAAA
1 AAAAA
882334 GGGGTCTAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 16 0.40
14 19 0.47
15 5 0.12
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAAACACAAAAA
Found at i:882296 original size:9 final size:9
Alignment explanation
Indices: 882284--882321 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
882274 AAAAACACAA
882284 AAAAAAAAC
1 AAAAAAAAC
882293 AAAAAAAA-
1 AAAAAAAAC
*
882301 TAAAAAAAC
1 AAAAAAAAC
882310 AAAAAAAAC
1 AAAAAAAAC
882319 AAA
1 AAA
882322 CAAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:882307 original size:17 final size:17
Alignment explanation
Indices: 882285--882333 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
882275 AAAACACAAA
*
882285 AAAAAAACAAAAAAAAT
1 AAAAAAACAAAAAAAAC
882302 AAAAAAACAAAAAAAAC
1 AAAAAAACAAAAAAAAC
* *
882319 AAACAAATAAAAAAA
1 AAAAAAACAAAAAAA
882334 GGGGTCTAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAC
Found at i:882308 original size:30 final size:31
Alignment explanation
Indices: 882274--882331 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
882264 CCTTCGTACC
882274 AAAAACACAAAAAAA-AAACAAA-AAAAATAA
1 AAAAACA-AAAAAAACAAACAAATAAAAATAA
882304 AAAAACAAAAAAAACAAACAAATAAAAA
1 AAAAACAAAAAAAACAAACAAATAAAAA
882332 AAGGGGTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 7 0.27
30 14 0.54
31 5 0.19
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.03
Consensus pattern (31 bp):
AAAAACAAAAAAAACAAACAAATAAAAATAA
Found at i:882320 original size:26 final size:25
Alignment explanation
Indices: 882284--882333 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
882274 AAAAACACAA
882284 AAAAAAAACAAAAAAAATAAAAAAAC
1 AAAAAAAAC-AAAAAAATAAAAAAAC
*
882310 AAAAAAAACAAACAAATAAAAAAA
1 AAAAAAAACAAAAAAATAAAAAAA
882334 GGGGTCTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (25 bp):
AAAAAAAACAAAAAAATAAAAAAAC
Found at i:883599 original size:29 final size:29
Alignment explanation
Indices: 883563--883656 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 29
883553 AAGCCCATAG
883563 GTCAGTGGCATTTCTTCAAAAAACCACAA
1 GTCAGTGGCATTTCTTCAAAAAACCACAA
* * *
883592 GTCAGTGGTATCTCGTCAAAAAACCACAA
1 GTCAGTGGCATTTCTTCAAAAAACCACAA
* **
883621 GTCAGTGGCA-TCCTTTC-AAAGCCCACAA
1 GTCAGTGGCATTTC-TTCAAAAAACCACAA
883649 GTCAGTGG
1 GTCAGTGG
883657 TATCCTTTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
28 18 0.33
29 37 0.67
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (29 bp):
GTCAGTGGCATTTCTTCAAAAAACCACAA
Found at i:883655 original size:28 final size:28
Alignment explanation
Indices: 883549--884268 Score: 813
Period size: 28 Copynumber: 25.1 Consensus size: 28
883539 CGTTCATCTC
* * *
883549 TTCAAAGCCCATAGGTCAGTGGCAT-TT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
** *
883576 CTTCAAAAAACCACAAGTCAGTGGTAT-CT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* **
883605 CGTCAAAAAACCACAAGTCAGTGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
*
883635 TTCAAAGCCCACAAGTCAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
883663 TTCAAAGCCCACAAATCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
883691 TTCAAAGCCCACAAGTCAGTGGCA-CTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* * *
883719 TTCAAGGCCCACAAGTTAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
883747 TTCAAAGCCCACAAGTCAATGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
883775 TCTCAAAGCCCACAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
883804 TCTCAAAGCCCACAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
* *
883833 TTCAAAGCCCACAAGTTAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
883861 TCTCAAAGCCCACAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
* *
883890 TCTCAAAGCCCACAAGTTAATGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
*
883919 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
883947 TTCAAAGCCCATAAATCAGTTGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
883975 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
884003 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
884031 TCTTAAAGCCCACAAGTCAGTGGCATCCAT
1 T-TCAAAGCCCACAAGTCAGTGGCATCC-T
* *
884061 CTT-AAAGCCTACAAGTCAGCGGCATCCT
1 -TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
884089 TTCAAAGCCCACAAGTCAGTGGCACCCA
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
884117 TTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* * *
884146 TTCAAAGCCCATAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CA-TCCT
* * * *
884176 TTCAAATCCCACAAGTTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCT
* *
884206 TTCAAAGCCCACACAAGTCAATGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
*
884238 TTCAAAGCCTACACAAGTTAGTGGCA-CCT
1 TTCAAAGCC--CACAAGTCAGTGGCATCCT
884267 TT
1 TT
884269 TTCTTAAAAC
Statistics
Matches: 612, Mismatches: 61, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
27 3 0.00
28 303 0.50
29 224 0.37
30 38 0.06
31 7 0.01
32 37 0.06
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:883920 original size:256 final size:253
Alignment explanation
Indices: 883615--884268 Score: 869
Period size: 256 Copynumber: 2.5 Consensus size: 253
883605 CGTCAAAAAA
* * *
883615 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGTATCCTTTCAAAGCCCACAAATC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGAATCCTTTCAAAGCCCACAAGTC
* *
883680 AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAGGCCCACAAGTTAATGGCATC
66 AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCA-C
* *
883745 CTTTCAAAGCCCACAAGTCAATGGCATCTTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAA
130 CTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCATCTCAA
* * * *
883810 AGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAATGGCATCCTTCTCAAAGC
195 AGCCCACAAGTCAGCGGCATCCTTTCAAAGCCCACAAGTCAATGGCACCCAT-TCAAAGC
* * *
883870 CCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAATGGCATCCTTTCAAAGCCCATAAGT
1 CCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGAATCCTTTCAAAGCCCACAAGT
* * * *
883935 CAGTGGCATCCTTTCAAAGCCCATAAATCAGTTGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCA
65 CAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTTAGTGGCA
* * *
883999 CCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTTAAAGCCCACAAGTCAGTGGCATCCATCTT
129 -CCTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCATCTC
* *
884064 AAAGCCTACAAGTCAGCGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGC
193 AAAGCCCACAAGTCAGCGGCATCCTTTCAAAGCCCACAAGTCAATGGCACCCATTCAAAGC
* * * * *
884125 CCACAAGTCAGTGGCACCCTTTTCAAAGCCCATAAGCTAGTGGTAACTCTTTTCAAATCCCACAA
1 CCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGG-AA-TCCTTTCAAAGCCCACAA
* * * *
884190 GTTAGTGGTAACTCTTTTCAAAGCCCACACAAGTCAATGGCAACTCTTTTCAAAGCCTACACAAG
63 GTCAGTGG-CA-TCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTC-TTTCAAAGCC--CACAAG
884255 TTAGTGGCACCTTT
120 TTAGTGGCACCTTT
884269 TTCTTAAAAC
Statistics
Matches: 346, Mismatches: 39, Indels: 19
0.86 0.10 0.05
Matches are distributed among these distances:
255 65 0.19
256 204 0.59
257 22 0.06
258 1 0.00
259 10 0.03
260 2 0.01
261 10 0.03
262 2 0.01
263 11 0.03
264 5 0.01
265 14 0.04
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (253 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGAATCCTTTCAAAGCCCACAAGTC
AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCACC
TTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCATCTCAAA
GCCCACAAGTCAGCGGCATCCTTTCAAAGCCCACAAGTCAATGGCACCCATTCAAAGC
Found at i:883982 original size:170 final size:171
Alignment explanation
Indices: 883615--884268 Score: 854
Period size: 170 Copynumber: 3.8 Consensus size: 171
883605 CGTCAAAAAA
* *
883615 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGTATCCTTTCAAAGCCCACAAATC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC
*
883680 AGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCA-CTCTT-TCAAGGCCCACAAGTTAATGGC
66 AGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCTCTTCTCAAAGCCCACAAGTTAATGGC
* *
883742 ATCCTTTCAAAGCCCACAAGTCAATGGCATCTTTCTCAAAGC
131 ATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGC
883784 CCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGT
* *
883849 TAATGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATC-CTTCTCAAAGCCCACAAGTTAATGG
65 CAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCTCTTCTCAAAGCCCACAAGTTAATGG
*
883913 CATCCTTTCAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGC
130 CATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
883955 CCATAAATCAGTTGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC
* * * * * **
884020 AGTGGCATCCTTCTTAAAGCCCACAAGTCAGTGGCATC-CATCTTAAAGCCTACAAGTCAGCGGC
66 AGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCTCTTCTCAAAGCCCACAAGTTAATGGC
* *
884084 ATCCTTTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGC
131 ATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * * * *
884125 CCACAAGTCAGTGGCACCCTTTTCAAAGCCCATAAG-CTAGTGGTAACTCTTTTCAAATCCCACA
1 CCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTC-AGTGG-CA-TCCTTTCAAAGCCCACA
* * * * * * *
884189 AGTTAGTGGTAACTCTTTTCAAAGCCCACACAAGTCAATGGCAACTCTTTTCAAAGCCTACACAA
62 AGTCAGTGGCATC-CTTCTCAAAG-CC-CACAAGTCAGTGGCATCTCTTCTCAAAGCC--CACAA
*
884254 GTTAGTGGCA-CCTTT
122 GTTAATGGCATCCTTT
884269 TTCTTAAAAC
Statistics
Matches: 425, Mismatches: 46, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
169 21 0.05
170 204 0.48
171 71 0.17
172 54 0.13
173 24 0.06
174 8 0.02
175 2 0.00
176 15 0.04
177 9 0.02
178 5 0.01
179 12 0.03
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (171 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC
AGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCTCTTCTCAAAGCCCACAAGTTAATGGC
ATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
Found at i:885509 original size:20 final size:19
Alignment explanation
Indices: 885433--885507 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
885423 TTTTACCTAG
885433 ATGTATCGATACAATTTTCA
1 ATGTATCGATAC-ATTTTCA
* *
885453 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TTTCA
*
885473 ATGTATCTATACATTCTTCA
1 ATGTATCGATACATT-TTCA
885493 ATGTATCGATACATT
1 ATGTATCGATACATT
885508 CTGTCTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 3 0.06
20 44 0.94
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:885557 original size:51 final size:51
Alignment explanation
Indices: 885476--885608 Score: 203
Period size: 51 Copynumber: 2.6 Consensus size: 51
885466 TGTATGAATG
* * *
885476 TATCTATACATTCTTCAATGTATCGATACATTCTGTCTTTTTACCCAGGTA
1 TATCAATACATTATTCAATGTATCGATACATTCTGTCTTTTTACCCAGATA
* * * *
885527 TATCGATACATTTTTCAATGTATAGATACATTCTGTCTTTTTACCCAGATG
1 TATCAATACATTATTCAATGTATCGATACATTCTGTCTTTTTACCCAGATA
885578 TATCAATACATTATTCAATGTATCGATACAT
1 TATCAATACATTATTCAATGTATCGATACAT
885609 CTAGTTAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (51 bp):
TATCAATACATTATTCAATGTATCGATACATTCTGTCTTTTTACCCAGATA
Found at i:888041 original size:19 final size:19
Alignment explanation
Indices: 887998--888070 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
887988 CACACCCAGA
*
887998 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
888018 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
888037 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
888057 TGTATCGATACATG
1 TGTATCGATACATG
888071 AAACTGGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:888124 original size:20 final size:20
Alignment explanation
Indices: 888099--888152 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
888089 TTACCATTGT
* *
888099 TTGTATTGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
888119 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
888139 TTGTATCGATACAT
1 TTGTATCGATACAT
888153 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:891307 original size:20 final size:20
Alignment explanation
Indices: 891284--891321 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
891274 CACATGTATG
*
891284 AATGTATTGATACATTCTTC
1 AATGTATCGATACATTCTTC
891304 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
891322 GTCTTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:903800 original size:22 final size:22
Alignment explanation
Indices: 903775--903816 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
903765 AGATAAACAT
903775 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
*
903797 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
903817 TCAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:911909 original size:20 final size:20
Alignment explanation
Indices: 911884--911937 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
911874 GTTATAAGCA
* *
911884 ATGTATTGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
911904 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
911924 ATGTATCGATACAA
1 ATGTATCGATACAA
911938 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:913553 original size:24 final size:25
Alignment explanation
Indices: 913521--913577 Score: 89
Period size: 24 Copynumber: 2.3 Consensus size: 25
913511 CAAAATAATT
* *
913521 TTAACAAGTTCGTACATTCT-CCCC
1 TTAATAAGTTCGTACATTATCCCCC
913545 TTAATAAGTTCGTACATTATCCCCC
1 TTAATAAGTTCGTACATTATCCCCC
913570 TTAATAAG
1 TTAATAAG
913578 GTAATTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (25 bp):
TTAATAAGTTCGTACATTATCCCCC
Found at i:915979 original size:84 final size:84
Alignment explanation
Indices: 915889--916053 Score: 210
Period size: 84 Copynumber: 2.0 Consensus size: 84
915879 CATTTTCCAC
* * *
915889 TTGCAACTCATTTC-TTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAAT-T-ATTTTCTA
1 TTGCAACTC-TTTCATATTCTCCTCTAATTCACTTAATTTC-TTTT-AAAGAATATCATTTTCTA
915951 AACTAATTGATTTACTTTCATT
63 AACTAATTGATTTACTTTCATT
* * *
915973 TTGCAACTCTTTCATATTCTTCTCTAATTCACTTAATTTCTTTTCAAGAATATCATTTTCTACAC
1 TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTAAAGAATATCATTTTCTAAAC
* *
916038 TTATTGATTTATTTTC
66 TAATTGATTTACTTTC
916054 TTCTTTGAGT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 55 0.79
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.53
Consensus pattern (84 bp):
TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTAAAGAATATCATTTTCTAAAC
TAATTGATTTACTTTCATT
Found at i:918123 original size:13 final size:13
Alignment explanation
Indices: 918105--918130 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
918095 ACAATTTTTA
918105 TGTATCGATACAT
1 TGTATCGATACAT
918118 TGTATCGATACAT
1 TGTATCGATACAT
918131 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:918127 original size:32 final size:32
Alignment explanation
Indices: 918086--918148 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
918076 TATAAGCCAA
*
918086 TGTATCGATACA-ATTTTTATGTATCGATACAT
1 TGTATCGATACATA-CTTTATGTATCGATACAT
*
918118 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATACATACTTTATGTATCGATACA
918149 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTATGTATCGATACAT
Found at i:932653 original size:15 final size:16
Alignment explanation
Indices: 932633--932662 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
932623 TCTGTCAAAC
932633 CCGTCAGTG-TTGGTA
1 CCGTCAGTGCTTGGTA
932648 CCGTCAGTGCTTGGT
1 CCGTCAGTGCTTGGT
932663 CGTCCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.10, C:0.23, G:0.33, T:0.33
Consensus pattern (16 bp):
CCGTCAGTGCTTGGTA
Found at i:934816 original size:8 final size:8
Alignment explanation
Indices: 934799--934874 Score: 66
Period size: 8 Copynumber: 9.2 Consensus size: 8
934789 CTTCATACCC
934799 AAAA-AAA
1 AAAACAAA
934806 AAAACAAA
1 AAAACAAA
*
934814 AAAAAAGAGA
1 AAAACA-A-A
934824 AAAACCAAAA
1 AAAA-C-AAA
934834 AAAACAAA
1 AAAACAAA
*
934842 AAAACCAA
1 AAAACAAA
*
934850 GAAA-AAA
1 AAAACAAA
*
934857 ATAACAAA
1 AAAACAAA
934865 AAAACAAA
1 AAAACAAA
934873 AA
1 AA
934875 TGGGTCCAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
7 8 0.15
8 33 0.60
9 2 0.04
10 10 0.18
11 1 0.02
12 1 0.02
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.01
Consensus pattern (8 bp):
AAAACAAA
Found at i:934828 original size:18 final size:18
Alignment explanation
Indices: 934799--934874 Score: 73
Period size: 18 Copynumber: 4.0 Consensus size: 18
934789 CTTCATACCC
934799 AAAA-AAAAAAACAAAAA
1 AAAACAAAAAAACAAAAA
* * *
934816 AAAAGAGAAAAACCAAAA
1 AAAACAAAAAAACAAAAA
934834 AAAACAAAAAAACCAAGAAAAA
1 AAAACAAAAAAA-C---AAAAA
934856 AATAACAAAAAAACAAAAA
1 AA-AACAAAAAAACAAAAA
934875 TGGGTCCAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
17 4 0.08
18 21 0.44
19 6 0.12
22 7 0.15
23 10 0.21
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.01
Consensus pattern (18 bp):
AAAACAAAAAAACAAAAA
Found at i:934832 original size:31 final size:30
Alignment explanation
Indices: 934797--934874 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 30
934787 TTCTTCATAC
934797 CCAAAAAAAAAAACAAAAAAAAAGAGAAAAA
1 CCAAAAAAAAAAACAAAAAAAAAGA-AAAAA
* **
934828 CCAAAAAAAACAA-AAAAACCAAGAAAAAA
1 CCAAAAAAAAAAACAAAAAAAAAGAAAAAA
*
934857 --ATAACAAAAAAACAAAAA
1 CCA-AAAAAAAAAACAAAAA
934875 TGGGTCCAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 1 0.03
28 8 0.20
29 10 0.25
30 9 0.22
31 12 0.30
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.01
Consensus pattern (30 bp):
CCAAAAAAAAAAACAAAAAAAAAGAAAAAA
Found at i:934839 original size:28 final size:29
Alignment explanation
Indices: 934801--934874 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 29
934791 TCATACCCAA
*
934801 AAAAAAAAACAAAAAAA-AAGAGAAAAAC
1 AAAAAAAAACAAAAAAACAAGAAAAAAAC
* *
934829 CAAAAAAAACAAAAAAACCAAGAAAAAAAT
1 AAAAAAAAACAAAAAAA-CAAGAAAAAAAC
934859 AACAAAAAAACAAAAA
1 AA-AAAAAAACAAAAA
934875 TGGGTCCAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 16 0.41
30 10 0.26
31 13 0.33
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.01
Consensus pattern (29 bp):
AAAAAAAAACAAAAAAACAAGAAAAAAAC
Found at i:936154 original size:28 final size:28
Alignment explanation
Indices: 936089--936728 Score: 715
Period size: 28 Copynumber: 22.5 Consensus size: 28
936079 CGTTCATTTC
* * *
936089 TTCAAAGGCCACAAATCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
936118 TTCAAAGCCTATAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* **
936146 TTCAAAGCCCATAAGTCAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* **
936174 TTCAAAGCCCACAAGTCGGTGGCAACTATT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
**
936204 TTCAAAGCCCACAAGTCAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
936232 TTCAAAGCCCACGAGTCAGTGGCGACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* *
936262 TTCAAATCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
936291 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
936319 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
936347 TTCAAAACCCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*** ** *
936375 TTCAAAGCCCGTGAGTTGGT-GCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
*
936404 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
936432 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
**
936460 TTCAAAGCCCACAAGTCAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* **
936488 TTCAAAGCCCACAAGTCGGTGGCAACTTTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* *
936518 TTGAAAGCCCACAAGTCGGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
936546 TTCAAAGCTCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
936575 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
936603 TTCAAAGCTCACAAGTTAGTGGCGCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
936631 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
936660 TTCAAAGCCCACAAATCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
936688 TTCAAAGCTCATAAGTTAGTGGCGCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
936716 TTCAAAGCCCACA
1 TTCAAAGCCCACA
936729 CGAGTCGATA
Statistics
Matches: 515, Mismatches: 85, Indels: 23
0.83 0.14 0.04
Matches are distributed among these distances:
27 1 0.00
28 320 0.62
29 123 0.24
30 71 0.14
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:936407 original size:85 final size:85
Alignment explanation
Indices: 936089--936728 Score: 768
Period size: 85 Copynumber: 7.5 Consensus size: 85
936079 CGTTCATTTC
* * * * * * *
936089 TTCAAAGGCCACAAATCAGTGGCACTCTTTTCAAAGCCTATAAGTCAATGGCAC-CCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* *
936153 CCCATAAGTCAGTGGCATTCT
65 CCCACAAGTCAGTGGCATCCT
* ** *
936174 TTCAAAGCCCACAAGTCGGTGGCAACTATTTTCAAAGCCCACAAGTCAGTGGCATTC-TTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
* *
936238 GCCCACGAGTCAGTGGCGACTCTT
64 GCCCACAAGTCAGTGGC-A-TCCT
* * *
936262 TTCAAATCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
*
936326 CCCACAAGTTAGTGGCATCCT
65 CCCACAAGTCAGTGGCATCCT
* * *** **
936347 TTCAAAACCCACAAGTCAGTGACACCCTTTCAAAGCCCGTGAGTTGGT-GCAACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCTTTTCAAAG
* *
936411 CCCACAAGTCAATGGCACCCT
65 CCCACAAGTCAGTGGCATCCT
*
936432 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTC-TTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* **
936496 CCACAAGTCGGTGGCAACTTTT
66 CCACAAGTCAGTGGC-A-TCCT
* * * *
936518 TTGAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCTCACAAGTCAATGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
936583 CCACAAGTCAGTGGCATCCT
66 CCACAAGTCAGTGGCATCCT
* * *
936603 TTCAAAGCTCACAAGTTAGTGGCGCCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
*
936668 CCACAAATCAGTGGCATCCT
66 CCACAAGTCAGTGGCATCCT
* * * *
936688 TTCAAAGCTCATAAGTTAGTGGCGCCCTTTCAAAGCCCACA
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
936729 CGAGTCGATA
Statistics
Matches: 483, Mismatches: 61, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
83 2 0.00
84 41 0.08
85 237 0.49
86 104 0.22
87 76 0.16
88 23 0.05
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (85 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
CCACAAGTCAGTGGCATCCT
Found at i:936602 original size:256 final size:256
Alignment explanation
Indices: 936097--936728 Score: 829
Period size: 256 Copynumber: 2.5 Consensus size: 256
936087 TCTTCAAAGG
* * * * * * * *
936097 CCACAAATCAGTGGCACTCTTTTCAAAGCCTATAAGTCAATGGCAC-CCTTTCAAAGCCCATAAG
1 CCACAAGTCAGTGACAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAG
* * **
936161 TCAGTGGCATTCTTTCAAAGCCCACAAGTCGGTGGCAACTATTTTCAAAGCCCACAAGTCAGTGG
65 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGG
* * * *
936226 CATTCTTTCAAAGCCCACGAGTCAGTGGCGACTCTTTTCAAATCCCACAAGTCAGTGGCACTCTT
128 CATTCTTTCAAAGCCCACAAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* *
936291 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAAC
193 TTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAAC
*** **
936355 CCACAAGTCAGTGACACCCTTTCAAAGCCCGTGAGTTGGT-GCAACTCTTTTCAAAGCCCACAAG
1 CCACAAGTCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAG
* *
936419 TCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
65 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
936484 TTCTTTCAAAGCCCACAAGTCGGTGGCAACTTTTTTGAAAGCCCACAAGTCGGTGGCAC-CCTTT
130 TTCTTTCAAAGCCCACAAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTT
* * *
936548 CAAAGCTCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
195 CAAAGCCCACAAGTCAATGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAAC
* * * * *
936611 TCACAAGTTAGTGGCGCCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAAT
1 CCACAAGTCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGT
* * * *
936676 CAGTGGCATCCTTTCAAAGCTCATAAGTTAGTGGCGCCCTTTCAAAGCCCACA
66 CAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
936729 CGAGTCGATA
Statistics
Matches: 324, Mismatches: 46, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
255 25 0.08
256 214 0.66
257 22 0.07
258 63 0.19
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (256 bp):
CCACAAGTCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGT
CAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
TCTTTCAAAGCCCACAAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
AAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAAC
Found at i:937622 original size:20 final size:20
Alignment explanation
Indices: 937599--937673 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
937589 AAGTACCCAT
937599 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
937619 ATGTATCGATACATATATGA
1 ATGTATCGATACATTTTTCA
*
937639 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
937659 ATGTATCTATACATT
1 ATGTATCGATACATT
937674 CTATCTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:944264 original size:20 final size:19
Alignment explanation
Indices: 944220--944267 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
944210 ATCGATACAT
** *
944220 TGTATCGATGCATGTTCAT
1 TGTATCGATGCATACTCAC
944239 TGTATCGATGCATACTCAAC
1 TGTATCGATGCATACTC-AC
944259 TGTATCGAT
1 TGTATCGAT
944268 ACATGAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (19 bp):
TGTATCGATGCATACTCAC
Found at i:945933 original size:3 final size:3
Alignment explanation
Indices: 945918--945955 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
945908 AACCATCAAA
* *
945918 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
945956 AGTTGACTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:946307 original size:30 final size:28
Alignment explanation
Indices: 946269--946366 Score: 95
Period size: 31 Copynumber: 3.6 Consensus size: 28
946259 ATACATTTTT
946269 CAATGTATCGATACATTCTATCTTGTACC
1 CAATGTATCGATACATTCTATCTT-TACC
946298 CAGATGTATCGATACA---T-TC-TT---
1 CA-ATGTATCGATACATTCTATCTTTACC
946319 CAATGTATCGATACATTCTATCTTTTTACC
1 CAATGTATCGATACATTCTATC--TTTACC
946349 CAAATGTATCGATACATT
1 C-AATGTATCGATACATT
946367 TTTCAATGTA
Statistics
Matches: 57, Mismatches: 0, Indels: 22
0.72 0.00 0.28
Matches are distributed among these distances:
20 13 0.23
21 2 0.04
23 1 0.02
24 3 0.05
25 1 0.02
26 2 0.04
27 3 0.05
29 2 0.04
30 14 0.25
31 16 0.28
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (28 bp):
CAATGTATCGATACATTCTATCTTTACC
Found at i:946324 original size:50 final size:51
Alignment explanation
Indices: 946244--946385 Score: 232
Period size: 50 Copynumber: 2.8 Consensus size: 51
946234 GTCACATTTT
* *
946244 TACCTAGATGTATTGATACATTTTTCAATGTATCGATACATTCTATC-TTG
1 TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTG
* *
946294 TACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTT
1 TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTG
*
946345 TACCCAAATGTATCGATACATTTTTCAATGTATCGATACAT
1 TACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
946386 CTAGTTAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 44 0.52
51 41 0.48
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (51 bp):
TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTG
Found at i:947257 original size:19 final size:20
Alignment explanation
Indices: 947217--947254 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
947207 TATCCTTTGA
**
947217 CCATGC-TTTTTTTTATGTT
1 CCATGCATTTTTAATATGTT
947236 CCATGCATTTTTAATATGT
1 CCATGCATTTTTAATATGT
947255 CCAGCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (20 bp):
CCATGCATTTTTAATATGTT
Found at i:949618 original size:13 final size:13
Alignment explanation
Indices: 949599--949629 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
949589 GATACATGTG
949599 ACATTGTATCGAT
1 ACATTGTATCGAT
*
949612 GCATTGTATCGAT
1 ACATTGTATCGAT
949625 ACATT
1 ACATT
949630 TAGCCCAACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:953615 original size:51 final size:52
Alignment explanation
Indices: 953504--953634 Score: 212
Period size: 51 Copynumber: 2.6 Consensus size: 52
953494 TACATATATT
* * *
953504 GATACATTGAAAAATGTATCGATATATTTGGGTCAAAAACCTAGAATGTATC
1 GATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAGAATGTATC
*
953556 GATACAATGAAGAATGTATCGATACATTTGGGTC-AAAACCCAGAATGTATC
1 GATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAGAATGTATC
953607 GATACAATGAAAAATGTAT-GATACATTT
1 GATACAATGAAAAATGTATCGATACATTT
953635 TCATTTTAGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
50 9 0.12
51 34 0.46
52 31 0.42
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (52 bp):
GATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAGAATGTATC
Found at i:955694 original size:20 final size:20
Alignment explanation
Indices: 955671--955743 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
955661 ACAATTCAAA
955671 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
955691 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
955712 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
955732 GTATCGATACAT
1 GTATCGATACAT
955744 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:955722 original size:41 final size:42
Alignment explanation
Indices: 955671--955765 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
955661 ACAATTCAAA
*
955671 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
955712 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
955754 GTATCGATACAT
1 GTATCGATACAT
955766 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:955822 original size:13 final size:13
Alignment explanation
Indices: 955804--955829 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
955794 TACAGCAAGT
955804 ATGTATCGATACA
1 ATGTATCGATACA
955817 ATGTATCGATACA
1 ATGTATCGATACA
955830 CAAAAAAATG
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:959911 original size:15 final size:15
Alignment explanation
Indices: 959891--959921 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
959881 TAAAAATGTC
*
959891 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
959906 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
959921 C
1 C
959922 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:962016 original size:20 final size:21
Alignment explanation
Indices: 961937--962015 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
961927 AATGTCCAAA
*
961937 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
961957 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
961982 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
962002 TTGTATCGATACAT
1 ATGTATCGATACAT
962016 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:962020 original size:13 final size:13
Alignment explanation
Indices: 962002--962040 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
961992 ACATTTTTCT
962002 TTGTATCGATACA
1 TTGTATCGATACA
962015 TTGTATCGATACA
1 TTGTATCGATACA
*
962028 CTGTATCGATACA
1 TTGTATCGATACA
962041 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:964506 original size:20 final size:20
Alignment explanation
Indices: 964483--964555 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
964473 ACAATTCAAA
964483 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
964503 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
964524 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
964544 GTATCGATACAT
1 GTATCGATACAT
964556 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:964527 original size:21 final size:21
Alignment explanation
Indices: 964501--964576 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
964491 ACATGTTGCA
964501 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
964522 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
964542 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
964563 ATGTATCGATACAT
1 ATGTATCGATACAT
964577 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:964534 original size:41 final size:41
Alignment explanation
Indices: 964483--964576 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
964473 ACAATTCAAA
*
964483 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
964524 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
964565 GTATCGATACAT
1 GTATCGATACAT
964577 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:964633 original size:13 final size:13
Alignment explanation
Indices: 964615--964640 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
964605 TACAGCAAGT
964615 ATGTATCGATACA
1 ATGTATCGATACA
964628 ATGTATCGATACA
1 ATGTATCGATACA
964641 CAAAAAATTG
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:967310 original size:165 final size:163
Alignment explanation
Indices: 966909--967407 Score: 429
Period size: 165 Copynumber: 3.0 Consensus size: 163
966899 AAAATTCATG
* * *
966909 AAATAAATTTAATTTTTCAAAACTGATTTAATAG-GAGTTTAATGATAATA-TTAGATAAATTTT
1 AAATAAA-TGAATTTTTCAAAACTGATTTAAT-GTGA-TTAAATGATAATATTTA-ATGAATTTT
* * * * *
966972 AAAAATTTTAAATCGAGAAAAATCCTCCCCAAAAACATTTATGGAATAGAAAATTTAGTTTTTCA
62 AAAAATTATAAAT-AAGAAAAAT-CTCCCCAAAAACATTTACGGAATAGAAAATTTAGTATTTAA
** * *
967037 AAAATAGGGAAATTTCAAGAAAAAATAAAAAACTTATGA
125 AAAATAGAAAAATTTCAAGAAAAAATAAAAAACTCATAA
* * * * * * * * * * *
967076 AAGTGAATGGATTTTTTAAAACTGATTTACTATAAAATAAATAATGATATTTGATGAA-TTTAGA
1 AAATAAATGAATTTTTCAAAACTGATTTAATGT-GATTAAATGATAATATTTAATGAATTTTA-A
* * * * *
967140 AAATTACAAACTAAGAAAAATCTCCTCAAAAATATTTACGGAGTATAAAACTTTA-TATTTAAAA
64 AAATTATAAA-TAAGAAAAATCTCCCCAAAAACATTTACGGAATAGAAAA-TTTAGTATTTAAAA
*
967204 AATATAAAAATTTCAAGAAAAAATAAAAAACTCATAA
127 AATAGAAAAATTTCAAGAAAAAATAAAAAACTCATAA
* * *
967241 AAATAAATGAATTTTTCAAAACTGATTAAATGGTGATTAAATGACAACATTTAATGAATTTTAAA
1 AAATAAATGAATTTTTCAAAACTGATTTAAT-GTGATTAAATGATAATATTTAATGAATTTTAAA
* * ** * *
967306 AATTATAAATTAAGAAAAATCTTTCCCAAAAA-ATTTATGGAGCAGAAAA-CTACGTATTTTAAA
65 AATTATAAA-TAAGAAAAATC-TCCCCAAAAACATTTACGGAATAGAAAATTTA-GTATTTAAAA
* *
967369 AATGAGAAAAA-TTCACA-AAGAATATTAAAAACTCATAA
127 AAT-AGAAAAATTTCA-AGAA-AAAATAAAAAACTCATAA
967407 A
1 A
967408 GCAAAAGGGA
Statistics
Matches: 263, Mismatches: 55, Indels: 29
0.76 0.16 0.08
Matches are distributed among these distances:
163 2 0.01
165 161 0.61
166 91 0.35
167 9 0.03
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.31
Consensus pattern (163 bp):
AAATAAATGAATTTTTCAAAACTGATTTAATGTGATTAAATGATAATATTTAATGAATTTTAAAA
ATTATAAATAAGAAAAATCTCCCCAAAAACATTTACGGAATAGAAAATTTAGTATTTAAAAAATA
GAAAAATTTCAAGAAAAAATAAAAAACTCATAA
Found at i:968931 original size:33 final size:33
Alignment explanation
Indices: 968867--968934 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
968857 TACATGCTCT
* * * *
968867 TTGTATCGATACATAGGACATTGGATTGATACA
1 TTGTATCGATACATAAGACACTGCATCGATACA
968900 TTGTATCGATACATGAAGA-ACTGCATCGATACA
1 TTGTATCGATACAT-AAGACACTGCATCGATACA
968933 TT
1 TT
968935 ATGCCCGACG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATAAGACACTGCATCGATACA
Found at i:981780 original size:13 final size:13
Alignment explanation
Indices: 981759--981790 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
981749 TCAATACATT
*
981759 ATACTTTATATCG
1 ATACATTATATCG
981772 ATACATTATATCG
1 ATACATTATATCG
981785 ATACAT
1 ATACAT
981791 GCTCTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (13 bp):
ATACATTATATCG
Found at i:981804 original size:19 final size:20
Alignment explanation
Indices: 981780--981830 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
981770 CGATACATTA
*
981780 TATCGATACATGCTC-TTTG
1 TATCGATACATGCTCAATTG
*
981799 TATCGATACATACTCAATTG
1 TATCGATACATGCTCAATTG
*
981819 TATTGATACATG
1 TATCGATACATG
981831 AAACTGGCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
TATCGATACATGCTCAATTG
Found at i:981888 original size:20 final size:20
Alignment explanation
Indices: 981859--981911 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
981849 CTAAGTGAAA
* *
981859 TGTATAGATACATG-GGACAG
1 TGTATCGATACATGAAGA-AG
*
981879 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAG
981899 TGTATCGATACAT
1 TGTATCGATACAT
981912 TATGCCCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAG
Found at i:983359 original size:204 final size:204
Alignment explanation
Indices: 983010--983407 Score: 550
Period size: 204 Copynumber: 2.0 Consensus size: 204
983000 AAAACCATTT
* ** *
983010 GAGCTCTTAATTTTTGCATGGAAATAGGGGTAGGACATTTCATCGAATGCGCACTTCTGCTTCAT
1 GAGCTCTTAATTTTTGCAAGGAAATAAAGGTAGGACACTTCATCGAATGCGCACTTCTGCTTCAT
* * *
983075 CTTTGGCTTTCTAGCCATTTTTGCCTAGAAGACAAGAGAAGGTCATACAATTTCTCCCCTGACTT
66 CTTTGGCTTTCTAGCCATTTTTGCCTAGAAAAAAAGAGAAGGTCATACAATTTCTCCCCTAACTT
* * * * * *
983140 TAGTCTTATCTCTAAAGTTCTCGAGAAGGAATGGTTTCAC-AAAAAAGTGAGGAACAATGGATCT
131 TAGTCCTATCTCTAAAGTTCTCAAGAAGGAATAGCTTCACGAAAAAACTAAGGAACAATGGATCT
983204 AGACTGTTC
196 AGACTGTTC
* *
983213 GAGCTCTTAATTTTTGCAAGGAAATAAAGGTAGGACGCTTCATC-AGATAGTGCACTTCTGCTTC
1 GAGCTCTTAATTTTTGCAAGGAAATAAAGGTAGGACACTTCATCGA-AT-GCGCACTTCTGCTTC
* * *
983277 ATCTTTGGCTTGT-TAGCCATTTTTGCTTAGAAAAAAAGAGGAGGTCATACAATTTCTCTCCTAA
64 ATCTTTGGCTT-TCTAGCCATTTTTGCCTAGAAAAAAAGAGAAGGTCATACAATTTCTCCCCTAA
* * * *
983341 GTTTGGTCCTATCTCTAAAGTTCTCAATAAGGAATAGCTTCACGAAAAATCTAAGGAACAATGGA
128 CTTTAGTCCTATCTCTAAAGTTCTCAAGAAGGAATAGCTTCACGAAAAAACTAAGGAACAATGGA
983406 TC
193 TC
983408 CAAAAATTTT
Statistics
Matches: 169, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
202 1 0.01
203 41 0.24
204 106 0.63
205 21 0.12
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (204 bp):
GAGCTCTTAATTTTTGCAAGGAAATAAAGGTAGGACACTTCATCGAATGCGCACTTCTGCTTCAT
CTTTGGCTTTCTAGCCATTTTTGCCTAGAAAAAAAGAGAAGGTCATACAATTTCTCCCCTAACTT
TAGTCCTATCTCTAAAGTTCTCAAGAAGGAATAGCTTCACGAAAAAACTAAGGAACAATGGATCT
AGACTGTTC
Found at i:984371 original size:13 final size:13
Alignment explanation
Indices: 984353--984378 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
984343 TACAGCAAGT
984353 ATGTATCGATACA
1 ATGTATCGATACA
984366 ATGTATCGATACA
1 ATGTATCGATACA
984379 CAAAAAATTG
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:986630 original size:21 final size:21
Alignment explanation
Indices: 986597--986642 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
986587 TTGCAAGTTG
*
986597 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
986619 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
986639 AAAT
1 AAAT
986643 GAAAACTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 9 0.41
22 7 0.32
ACGTcount: A:0.52, C:0.04, G:0.20, T:0.24
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:990562 original size:13 final size:13
Alignment explanation
Indices: 990544--990582 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
990534 ACATTTTTCT
*
990544 TTGTATTGATACA
1 TTGTATCGATACA
990557 TTGTATCGATACA
1 TTGTATCGATACA
990570 TTGTATCGATACA
1 TTGTATCGATACA
990583 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:990733 original size:22 final size:22
Alignment explanation
Indices: 990703--990744 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
990693 AAATCTTTTC
**
990703 CAAAATACTTGTTTTTTCATTT
1 CAAAATACTTCATTTTTCATTT
*
990725 CAAATTACTTCATTTTTCAT
1 CAAAATACTTCATTTTTCAT
990745 CAAAACCAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (22 bp):
CAAAATACTTCATTTTTCATTT
Found at i:1003414 original size:13 final size:13
Alignment explanation
Indices: 1003396--1003420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1003386 AATATTGCTT
1003396 TGTATCGATACAA
1 TGTATCGATACAA
1003409 TGTATCGATACA
1 TGTATCGATACA
1003421 TGTTTATTGT
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:1003525 original size:13 final size:13
Alignment explanation
Indices: 1003507--1003536 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1003497 GATACACGGG
*
1003507 ACATTGTATTGAT
1 ACATTGTATCGAT
1003520 ACATTGTATCGAT
1 ACATTGTATCGAT
1003533 ACAT
1 ACAT
1003537 AGTGAAAAGT
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:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1010076 original size:53 final size:52
Alignment explanation
Indices: 1009934--1010115 Score: 319
Period size: 52 Copynumber: 3.5 Consensus size: 52
1009924 CGAAATATGA
**
1009934 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
1009986 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
1010038 AAATTTGCCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTG-CCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1010091 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1010116 AAGATCAGTG
Statistics
Matches: 124, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
52 74 0.60
53 50 0.40
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:1010126 original size:105 final size:104
Alignment explanation
Indices: 1009934--1010135 Score: 316
Period size: 105 Copynumber: 1.9 Consensus size: 104
1009924 CGAAATATGA
*
1009934 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
1 AAATTTGCCTGCATGTATCGATACATTGAATAATGTATCGATACATCTGGGCAAATTTGCCTGCA
*** *
1009999 TGTATCGATACATTTTATAGTGTATTGATACATCTGGGC
66 TGTATCGATACATAAGATAGTGTATCGATACATCTGGGC
**
1010038 AAATTTGCCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGC
1 AAATTTG-CCTGCATGTATCGATACATTGAATAATGTATCGATACATCTGGGCAAATTTGCCTGC
1010103 ATGTATCGATACA-AAGATCAGTGTATCGATACA
65 ATGTATCGATACATAAGAT-AGTGTATCGATACA
1010136 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
104 9 0.10
105 80 0.90
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (104 bp):
AAATTTGCCTGCATGTATCGATACATTGAATAATGTATCGATACATCTGGGCAAATTTGCCTGCA
TGTATCGATACATAAGATAGTGTATCGATACATCTGGGC
Found at i:1010142 original size:13 final size:13
Alignment explanation
Indices: 1010124--1010148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1010114 CAAAGATCAG
1010124 TGTATCGATACAA
1 TGTATCGATACAA
1010137 TGTATCGATACA
1 TGTATCGATACA
1010149 TTTAAGTGAT
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:1010229 original size:13 final size:13
Alignment explanation
Indices: 1010211--1010235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1010201 CAAAAAAACA
1010211 TGTATCGATACAT
1 TGTATCGATACAT
1010224 TGTATCGATACA
1 TGTATCGATACA
1010236 ACACTTTATG
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:1010333 original size:21 final size:21
Alignment explanation
Indices: 1010292--1010333 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1010282 GTTGGGACCT
*
1010292 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1010313 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1010334 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1011256 original size:171 final size:168
Alignment explanation
Indices: 1011054--1011429 Score: 562
Period size: 171 Copynumber: 2.2 Consensus size: 168
1011044 TTTTAGAGAT
* * *
1011054 GATGAAGGTGCTAATATTCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAA-GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAATGAAGATGAGAAAA
*
1011119 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
65 GTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
*
1011184 TGTCAACGTGCTGATTCAAGGCCAGCTACATT-GAACTTAAA
130 TGTCAACGTGCTGATTCAAGGCCAGCGACATTAG-ACTT--A
* *
1011225 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAA
1 GATGAAG-TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAATGAAGATGAGAAAA
* *
1011290 GTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAAAAAGGA
65 GTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
* *
1011355 TGTCAATGTGCTGATTCAAGGCCAGCGATATTAGACTTA
130 TGTCAACGTGCTGATTCAAGGCCAGCGACATTAGACTTA
*
1011394 -A--AAGTGCCAATGTGCTGATTCAAGGCCAGCTAATAT
1 GATGAAGTGCCAATATGCTGATTCAAGGCCAGC-AATAT
1011430 GCTGATTCAA
Statistics
Matches: 189, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
165 25 0.13
166 7 0.04
168 1 0.01
169 1 0.01
170 1 0.01
171 153 0.81
172 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (168 bp):
GATGAAGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAATGAAGATGAGAAAAG
TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGAT
GTCAACGTGCTGATTCAAGGCCAGCGACATTAGACTTA
Found at i:1011271 original size:49 final size:49
Alignment explanation
Indices: 1011125--1011283 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
1011115 AAAAGTGATA
* * * * *
1011125 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
1011176 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1011229 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1011278 ATGATG
1 AAGATG
1011284 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:1011447 original size:66 final size:66
Alignment explanation
Indices: 1011363--1011491 Score: 249
Period size: 66 Copynumber: 2.0 Consensus size: 66
1011353 GATGTCAATG
1011363 TGCTGATTCAAGGCCAGCGATATTAGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTAAT
1 TGCTGATTCAAGGCCAGCGATATTAGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTAAT
1011428 A
66 A
*
1011429 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTA
1 TGCTGATTCAAGGCCAGCGATATTAGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTA
1011492 CATTGGACTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (66 bp):
TGCTGATTCAAGGCCAGCGATATTAGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTAAT
A
Found at i:1011497 original size:43 final size:47
Alignment explanation
Indices: 1011429--1011600 Score: 226
Period size: 49 Copynumber: 3.7 Consensus size: 47
1011419 CCAGCTAATA
* * *
1011429 TGCTGATTCAAGGCCAGCGATATTGGACTT-A-A-AA-GTGCCAATG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAGAGAAGGTGCCAATG
*
1011472 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTT-AAGA-GAAGGTGCCAATG
1011521 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTT-AAGA-GAAGGTGCCAATG
* *
1011570 TGCTGAGTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTA
1011601 GAAGGGTTGC
Statistics
Matches: 118, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
43 28 0.24
45 1 0.01
46 1 0.01
48 3 0.03
49 85 0.72
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
TGCTGAGTCAAGGCCAGCTACATTGGACTTAAGAGAAGGTGCCAATG
Found at i:1011535 original size:49 final size:49
Alignment explanation
Indices: 1011463--1011600 Score: 249
Period size: 49 Copynumber: 2.8 Consensus size: 49
1011453 GGACTTAAAA
*
1011463 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1011512 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
1011561 GTGCCAATGTGCTGAGTCAAGGCCAGCTATATTGGGCTTA
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
1011601 GAAGGGTTGC
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
Found at i:1011628 original size:31 final size:30
Alignment explanation
Indices: 1011593--1011797 Score: 112
Period size: 30 Copynumber: 7.0 Consensus size: 30
1011583 CCAGCTATAT
*
1011593 TGGGCTTAGAAGGGTTGCCACCGGACTTGTG
1 TGGGCTTAGAAGGGTTGCCA-CTGACTTGTG
*
1011624 TGGGCTTTGGAAAGGG-TGCCACTGA-TT-TG
1 TGGGC-TTAG-AAGGGTTGCCACTGACTTGTG
*
1011653 TGGGCTTTGAA-GGTTGCCACTGAC-T-TG
1 TGGGCTTAGAAGGGTTGCCACTGACTTGTG
** *
1011680 T-GGCTTTTAAAGGTTGCCACTGACTT-TG
1 TGGGCTTAGAAGGGTTGCCACTGACTTGTG
* ***
1011708 TGGGCTTTTGAAAAATATGCCACTGAC-T-TG
1 TGGGC-TTAGAAGGGT-TGCCACTGACTTGTG
* *
1011738 TGGGCTTTTGAACAGGG-TGCCACTAAC-T-TG
1 TGGGC-TTAG-A-AGGGTTGCCACTGACTTGTG
** *
1011768 TGGGCTTTTAAAGGTTGCCACTGACTTGTG
1 TGGGCTTAGAAGGGTTGCCACTGACTTGTG
1011798 GGCTTTTGAA
Statistics
Matches: 146, Mismatches: 14, Indels: 29
0.77 0.07 0.15
Matches are distributed among these distances:
26 10 0.07
27 31 0.21
28 17 0.12
29 14 0.10
30 41 0.28
31 19 0.13
32 9 0.06
33 5 0.03
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.33
Consensus pattern (30 bp):
TGGGCTTAGAAGGGTTGCCACTGACTTGTG
Found at i:1011673 original size:27 final size:28
Alignment explanation
Indices: 1011622--1011862 Score: 243
Period size: 30 Copynumber: 8.3 Consensus size: 28
1011612 ACCGGACTTG
* * *
1011622 TGTGGGCTTTGGAAAGGGTGCCACTGATT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1011651 TGTGGGC-TTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
1011678 TGT-GGCTTTTAAAGGTTGCCACTGACTT
1 TGTGGGCTTTTGAAGGTTGCCACTGAC-T
**
1011706 TGTGGGCTTTTGAAAAATATGCCACTGACT
1 TGTGGGCTTTTG-AAGGT-TGCCACTGACT
* *
1011736 TGTGGGCTTTTGAACAGGGTGCCACTAACT
1 TGTGGGCTTTTG-A-AGGTTGCCACTGACT
*
1011766 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
**
1011794 TGTGGGCTTTTGAAAAATATGCCACTGACT
1 TGTGGGCTTTTG-AAGGT-TGCCACTGACT
* * *
1011824 TGTTGGCTTTTGAAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG---AAGGTTGCCACTGACT
1011855 TGTGGGCT
1 TGTGGGCT
1011863 GAAAAGAGTG
Statistics
Matches: 179, Mismatches: 23, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
26 3 0.02
27 35 0.20
28 31 0.17
29 18 0.10
30 61 0.34
31 28 0.16
32 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:1011734 original size:58 final size:58
Alignment explanation
Indices: 1011622--1011862 Score: 267
Period size: 58 Copynumber: 4.1 Consensus size: 58
1011612 ACCGGACTTG
* * **
1011622 TGTGGGCTTTGGAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAATTGCCACTGACT
*
1011678 TGT-GGCTTTT-AAAGGTTGCCACTGACTTTGTGGGCTTTTGAAAAATATGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTGCCACTGAC-TTGTGGGCTTTTGAAAAAT-TGCCACTGACT
* **
1011736 TGTGGGCTTTTGAACAGGGTGCCACTAACTTGTGGGCTTTT-AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAA-AGGGTGCCACTGACTTGTGGGCTTTTGAAAAATTGCCACTGACT
*** * * *
1011794 TGTGGGCTTTTGAAAAATATGCCACTGACTTGTTGGCTTTTGAAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAA--TTGCCACTGACT
1011855 TGTGGGCT
1 TGTGGGCT
1011863 GAAAAGAGTG
Statistics
Matches: 156, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
54 14 0.09
55 14 0.09
56 7 0.04
57 3 0.02
58 58 0.37
59 16 0.10
60 14 0.09
61 30 0.19
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (58 bp):
TGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAATTGCCACTGACT
Found at i:1011741 original size:30 final size:30
Alignment explanation
Indices: 1011640--1012077 Score: 232
Period size: 30 Copynumber: 14.8 Consensus size: 30
1011630 TTGGAAAGGG
* **
1011640 TGCCACTGATTTGTGGGC-TTTG-AAGGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
**
1011667 TGCCACTGACTTGT-GGCTTTT-AAAGGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1011694 TGCCACTGACTTTGTGGGCTTTTGAAAAATA
1 TGCCACTGAC-TTGTGGGCTTTTGAAAAATA
* ***
1011725 TGCCACTGACTTGTGGGCTTTTGAACAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* **
1011755 TGCCACTAACTTGTGGGCTTTT-AAAGGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1011783 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* **
1011813 TGCCACTGACTTGTTGGCTTTTGAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAA-TA
*
1011844 TGCCACTAACTTGTGGGC---TGAAAAGAGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAA-A-TA
* * * * ** *
1011872 GGCTA-TAGAGTTGTGAGCTTACAAAAAGAAAAAGA
1 TGCCACT-GACTTGTGGGCTT-----TTGAAAAATA
* * * * *
1011907 GTGCCACGGAGTTGTGGAC-TTTGGAAAAGA
1 -TGCCACTGACTTGTGGGCTTTTGAAAAATA
* * * ***
1011937 TGCCACCGACTTGTGGGCGTTCGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* **
1011967 TGCCACTGATTTGTGGGC-TTTG-AAGGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* *
1011994 TGCCACTGACTTGTGGGCTTTCGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* *
1012024 GGCCAACCGAC-TGTGGGC-TTTGAAAAA-A
1 TGCC-ACTGACTTGTGGGCTTTTGAAAAATA
**
1012052 TGCCACTAGACTTGTGGAATTTTGAA
1 TGCCACT-GACTTGTGGGCTTTTGAA
1012078 GGGTGATGAA
Statistics
Matches: 322, Mismatches: 59, Indels: 57
0.74 0.13 0.13
Matches are distributed among these distances:
26 3 0.01
27 51 0.16
28 55 0.17
29 49 0.15
30 114 0.35
31 31 0.10
35 2 0.01
36 17 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (30 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAATA
Found at i:1011802 original size:88 final size:88
Alignment explanation
Indices: 1011605--1011862 Score: 355
Period size: 88 Copynumber: 2.9 Consensus size: 88
1011595 GGCTTAGAAG
* * *** * *
1011605 GGTTGCCACCGGACTTGTGTGGGC-TTTGGAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGT
1 GGTTGCCA-CTGACTT-TGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAGGG
*
1011667 TGCCACTGACTTGT-GGCTTTTAAA
64 TGCCACTAACTTGTGGGCTTTTAAA
1011691 GGTTGCCACTGACTTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAACAGGGT
1 GGTTGCCACTGACTTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAA-AGGGT
1011756 GCCACTAACTTGTGGGCTTTTAAA
65 GCCACTAACTTGTGGGCTTTTAAA
*
1011780 GGTTGCCACTGAC-TTGTGGGCTTTTGAAAAATATGCCACTGACTTGTTGGCTTTTGAAAAAGGG
1 GGTTGCCACTGACTTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTG--AAAGGG
1011844 TGCCACTAACTTGTGGGCT
64 TGCCACTAACTTGTGGGCT
1011863 GAAAAGAGTG
Statistics
Matches: 156, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
84 7 0.04
85 30 0.19
86 12 0.08
87 1 0.01
88 58 0.37
89 46 0.29
90 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (88 bp):
GGTTGCCACTGACTTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAGGGTG
CCACTAACTTGTGGGCTTTTAAA
Found at i:1011866 original size:58 final size:59
Alignment explanation
Indices: 1011622--1012077 Score: 230
Period size: 58 Copynumber: 7.7 Consensus size: 59
1011612 ACCGGACTTG
* * * * *
1011622 TGTGGGCTTTGGAAAGGGTGCCACTGATTTGTGGGC-TTTG---AAGGTTGCCACTGACT
1 TGTGGGC-TTGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAGGATGCCACTGACT
** * * *
1011678 TGT-GGCTTTTAAAGGTTGCCACTGACTTTGTGGGCTTTTGAAAAA-TATGCCACTGACT
1 TGTGGGCTTGAAAAAGATGCCACTGAC-TTGTGGGCTTTTGAAAAAGGATGCCACTGACT
* * * * *
1011736 TGTGGGCTTTTGAACAGGGTGCCACTAACTTGTGGGCTTTT---AAAGGTTGCCACTGACT
1 TGTGGGC--TTGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAGGATGCCACTGACT
* * * *
1011794 TGTGGGCTTTTGAAAAATATGCCACTGACTTGTTGGCTTTTGAAAAAGGGTGCCACTAACT
1 TGTGGGC--TTGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAGGATGCCACTGACT
* * * ** *
1011855 TGTGGGC-TG-AAAAGAGTGGCTA-TAGAGTTGTGAGC-TTACAAAAAGAAAAAGAGTGCCACGG
1 TGTGGGCTTGAAAAAGA-T-GCCACT-GACTTGTGGGCTTTTGAAAAAG-----GA-TGCCACTG
*
1011916 AGT
57 ACT
* * * * * * *
1011919 TGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCGTTCG-AAAAGGGTGCCACTGATT
1 TGTGGGC-TTGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAGGATGCCACTGACT
* * * * * *
1011978 TGTGGGCTTTG--AAGGTTGCCACTGACTTGTGGGCTTTCGAAAAA-AAGGCCAACCGAC-
1 TGTGGGC-TTGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAGGATGCC-ACTGACT
**
1012035 TGTGGGCTTTGAAAAA-ATGCCACTAGACTTGTGGAATTTTGAA
1 TGTGGGC-TTGAAAAAGATGCCACT-GACTTGTGGGCTTTTGAA
1012078 GGGTGATGAA
Statistics
Matches: 312, Mismatches: 57, Indels: 59
0.73 0.13 0.14
Matches are distributed among these distances:
54 16 0.05
55 11 0.04
56 7 0.02
57 46 0.15
58 87 0.28
59 52 0.17
60 13 0.04
61 37 0.12
63 1 0.00
64 14 0.04
65 17 0.05
66 5 0.02
67 6 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (59 bp):
TGTGGGCTTGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAGGATGCCACTGACT
Found at i:1012000 original size:27 final size:27
Alignment explanation
Indices: 1011937--1012014 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 27
1011927 TTGGAAAAGA
* *
1011937 TGCCACCGACTTGTGGGCGTTCGAAAAGGG
1 TGCCACTGACTTGTGGGC-TTTG--AAGGG
* *
1011967 TGCCACTGATTTGTGGGCTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAGGG
1011994 TGCCACTGACTTGTGGGCTTT
1 TGCCACTGACTTGTGGGCTTT
1012015 CGAAAAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.56
29 3 0.07
30 16 0.37
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.31
Consensus pattern (27 bp):
TGCCACTGACTTGTGGGCTTTGAAGGG
Found at i:1013516 original size:1 final size:1
Alignment explanation
Indices: 1013512--1013623 Score: 89
Period size: 1 Copynumber: 112.0 Consensus size: 1
1013502 CCGGACCCCC
* * * * * * ** *
1013512 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTTTTCCTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** **
1013577 TTTTTTGGTTTTTCATTTTTTTCGTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1013624 GGAGGACGCC
Statistics
Matches: 87, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 87 1.00
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:1013574 original size:41 final size:40
Alignment explanation
Indices: 1013520--1013624 Score: 142
Period size: 40 Copynumber: 2.6 Consensus size: 40
1013510 CCTTTTTTGT
* *
1013520 TTTTGTTTGTTTTTTTATTGTTTTTGTTTTT-TTTTTTTCC
1 TTTTGTTT-TTTTTTTTTTTTTTTTGTTTTTATTTTTTTCC
* *
1013560 TTTTGTTTTTTTTTTTTTTTTTTGGTTTTTCATTTTTTTCG
1 TTTTGTTTTTTTTTTTTTTTTTTTGTTTTT-ATTTTTTTCC
1013601 TTTT-TTTTTTTTTTTTTTTTTTTG
1 TTTTGTTTTTTTTTTTTTTTTTTTG
1013625 GAGGACGCCG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
39 19 0.33
40 27 0.47
41 12 0.21
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.86
Consensus pattern (40 bp):
TTTTGTTTTTTTTTTTTTTTTTTTGTTTTTATTTTTTTCC
Found at i:1013578 original size:55 final size:52
Alignment explanation
Indices: 1013512--1013623 Score: 145
Period size: 55 Copynumber: 2.1 Consensus size: 52
1013502 CCGGACCCCC
* *
1013512 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTT-GTTTTTTTTTTTTCCTTTTGTT
1 TTTTTTGTTTTTGTTTGGTTTTTCATT-TTTTTCGTTTTTTTTTTTT--TTTT-TT
* *
1013567 TTTTTTTTTTTTTTTTGGTTTTTCATTTTTTTCGTTTTTTTTTTTTTTTTTT
1 TTTTTTGTTTTTGTTTGGTTTTTCATTTTTTTCGTTTTTTTTTTTTTTTTTT
1013619 TTTTT
1 TTTTT
1013624 GGAGGACGCC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
52 7 0.13
53 4 0.08
54 5 0.10
55 36 0.69
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.87
Consensus pattern (52 bp):
TTTTTTGTTTTTGTTTGGTTTTTCATTTTTTTCGTTTTTTTTTTTTTTTTTT
Found at i:1013625 original size:41 final size:39
Alignment explanation
Indices: 1013512--1013625 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 39
1013502 CCGGACCCCC
*
1013512 TTTTTT-GTTTTTGTTTGTTTTTTTATTGTTTTT-GTTTTTT
1 TTTTTTCGTTTTT-TTT-TTTTTTT-TTTTTTTTGGTTTTTT
* *
1013552 TTTTTTCCTTTTGTTTTTTTTTTTTTTTTTTGGTTTTTCAT
1 TTTTTTCGTTTTTTTTTTTTTTTTTTTTTTTGGTTTTT--T
1013593 TTTTTTCGTTTTTTTTTTTTTTTTTTTTTTTGG
1 TTTTTTCGTTTTTTTTTTTTTTTTTTTTTTTGG
1013626 AGGACGCCGT
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
38 7 0.11
39 13 0.20
40 9 0.14
41 36 0.55
ACGTcount: A:0.02, C:0.04, G:0.10, T:0.85
Consensus pattern (39 bp):
TTTTTTCGTTTTTTTTTTTTTTTTTTTTTTTGGTTTTTT
Found at i:1023336 original size:10 final size:10
Alignment explanation
Indices: 1023321--1023347 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1023311 ATGTATCAAG
1023321 CAAAAACAAA
1 CAAAAACAAA
1023331 CAAAAACAAA
1 CAAAAACAAA
1023341 CAAAAAC
1 CAAAAAC
1023348 TTAGTTAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:1026239 original size:24 final size:26
Alignment explanation
Indices: 1026211--1026261 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
1026201 ATCAAAAATT
1026211 TTATTTAT-CG-GGGATACTCCAACC
1 TTATTTATCCGAGGGATACTCCAACC
*
1026235 TTATTTCTCCGAAGGGATACTCCAACC
1 TTATTTATCCG-AGGGATACTCCAACC
1026262 CCACTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
25 2 0.09
27 14 0.61
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (26 bp):
TTATTTATCCGAGGGATACTCCAACC
Found at i:1030519 original size:52 final size:52
Alignment explanation
Indices: 1030441--1030641 Score: 332
Period size: 52 Copynumber: 3.9 Consensus size: 52
1030431 CGAAATATGA
*
1030441 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
1030493 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
* *
1030545 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
1030597 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACA
1030642 ATGTATCGAT
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
51 2 0.01
52 139 0.99
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:1030648 original size:13 final size:13
Alignment explanation
Indices: 1030630--1030654 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1030620 CAAAGATCAG
1030630 TGTATCGATACAA
1 TGTATCGATACAA
1030643 TGTATCGATACA
1 TGTATCGATACA
1030655 TTTAAGTGAT
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:1030735 original size:13 final size:13
Alignment explanation
Indices: 1030717--1030741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1030707 CAAAAAAACA
1030717 TGTATCGATACAT
1 TGTATCGATACAT
1030730 TGTATCGATACA
1 TGTATCGATACA
1030742 ACATTTTATG
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:1030840 original size:21 final size:21
Alignment explanation
Indices: 1030799--1030840 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1030789 GTTGGGACCT
*
1030799 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1030820 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1030841 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1031756 original size:171 final size:171
Alignment explanation
Indices: 1031560--1031954 Score: 673
Period size: 171 Copynumber: 2.3 Consensus size: 171
1031550 TTTTAGAGAT
*
1031560 GATGAAGGTGCTAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
1031625 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
1031690 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * *
1031731 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAA
1 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
* *
1031796 GTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
*
1031861 TGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
*
1031902 GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
1031955 GTGCCAATGT
Statistics
Matches: 209, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
171 165 0.79
172 1 0.00
174 43 0.21
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (171 bp):
GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:1031777 original size:49 final size:49
Alignment explanation
Indices: 1031631--1031789 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
1031621 AAAAGTGATA
* * * * *
1031631 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
1031682 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1031735 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1031784 ATGATG
1 AAGATG
1031790 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:1031969 original size:43 final size:43
Alignment explanation
Indices: 1031908--1032140 Score: 295
Period size: 43 Copynumber: 5.1 Consensus size: 43
1031898 TAAAGATGGA
1031908 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1031951 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1031994 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1032037 AAAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
1 --A----AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* *
1032092 AAAGGTGCCAATATGGTGATTCAAGGCCAGCTATATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1032135 AGAAGG
1 A-AAGG
1032141 GTTGCCACCG
Statistics
Matches: 169, Mismatches: 8, Indels: 25
0.84 0.04 0.12
Matches are distributed among these distances:
43 83 0.49
44 4 0.02
45 1 0.01
48 1 0.01
49 77 0.46
50 1 0.01
53 1 0.01
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:1031976 original size:21 final size:21
Alignment explanation
Indices: 1031952--1032019 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
1031942 ATTGGACTTA
1031952 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* *
1031973 AAGGTCAGCTACAT-TG--GACTTA
1 AAGGT--GCCA-ATGTGCTGA-TTC
1031995 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
1032016 AAGG
1 AAGG
1032020 CCAGCTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:1032067 original size:49 final size:47
Alignment explanation
Indices: 1031864--1032135 Score: 326
Period size: 49 Copynumber: 5.8 Consensus size: 47
1031854 AAAAGGATGT
* * *
1031864 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG-T----AAGGTGC
1031916 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGTAAGGTGC
* * *
1031959 CAATGTGCTGATTCAAGGTCAGCTACATTGGACTT--A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGTAAGGTGC
*
1032002 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-GT-AAGGTGC
1032051 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG-T-AAGGTGC
* *
1032100 CAATATGGTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1032136 GAAGGGTTGC
Statistics
Matches: 201, Mismatches: 12, Indels: 17
0.87 0.05 0.07
Matches are distributed among these distances:
43 80 0.40
45 1 0.00
48 1 0.00
49 86 0.43
50 1 0.00
52 32 0.16
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (47 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGTAAGGTGC
Found at i:1032266 original size:30 final size:30
Alignment explanation
Indices: 1032175--1032608 Score: 310
Period size: 30 Copynumber: 14.8 Consensus size: 30
1032165 TGGAACAGGG
* **
1032175 TGCCACTGATTTGTGGGC-TTTG-AAGGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
**
1032202 TGCCACTGACTTGTGGGCTTTT-AAAGGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1032230 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* ***
1032260 TGCCACTGACTTGTGGGCTTTTGAACAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* **
1032290 TGCCACTAACTTGTGGGCTTTT-AAAGGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1032318 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
***
1032348 TGCCACTGACTTGTGGGCTTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* *
1032378 TGCCACTAACTTGTGGGC---TGAAAAGA-G
1 TGCCACTGACTTGTGGGCTTTTGAAAA-ATA
* * * ** *
1032405 TGCTA-TAGAGTTGTGAGCTTACAAAAGAAAAAGA
1 TGCCACT-GACTTGTGGGCTT----TTGAAAAATA
* * * * *
1032439 GTGCCACGGAGTTGTGGAC-TTTGGAAAAGA
1 -TGCCACTGACTTGTGGGCTTTTGAAAAATA
* ** ***
1032469 TGCCACCGACTTGTGGGCTTCGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* **
1032499 TGCCACTGATTTGTGGGC-TTTG-AAGGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
* *
1032526 TGCCACTGACTTGTGGGCTTTCGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
*
1032556 TGCCACCGACTTGTGGGC-TTTGAAAAA-A
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
*
1032584 TGCCACTGACTTGTGGACTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
1032609 GGGTGATGAA
Statistics
Matches: 329, Mismatches: 55, Indels: 44
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.00
27 53 0.16
28 74 0.22
29 44 0.13
30 137 0.42
33 1 0.00
34 6 0.02
35 13 0.04
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (30 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAATA
Found at i:1032279 original size:58 final size:58
Alignment explanation
Indices: 1032156--1032608 Score: 339
Period size: 58 Copynumber: 7.7 Consensus size: 58
1032146 CACCGACTTG
* * * *
1032156 TGTGGGCTTTGGAACAGGGTGCCACTGATTTGTGGGC-TTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTT-TAA-AGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACT
**
1032213 TGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACT
* * *
1032271 TGTGGGCTTTTGAACAGGGTGCCACTAACTTGTGGGCTTTT--AAAGGTTGCCACTGACT
1 TGTGGGCTTTT-AA-AGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACT
** * *
1032329 TGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT-AAAGGT-TGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACT
** * * * ** * * *
1032389 TGTGGGC-TGAAAAGAG-TGCTA-TAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTTAAAG-GTTGCCACT-GACTTGTGGGCTT----TTGAAAAGGA-TGCCACTGACT
* * * * * ** * *
1032451 TGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTT-TAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACT
* * ** *
1032510 TGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGGCTTTCGAAAAAAATGCCACCGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACT
* *** *
1032567 TGTGGGCTTTGAAAAAATGCCACTGACTTGTGGACTTTTGAA
1 TGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAA
1032609 GGGTGATGAA
Statistics
Matches: 311, Mismatches: 65, Indels: 39
0.75 0.16 0.09
Matches are distributed among these distances:
55 20 0.06
56 7 0.02
57 69 0.22
58 105 0.34
59 18 0.06
60 52 0.17
61 6 0.02
62 14 0.05
63 2 0.01
64 18 0.06
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (58 bp):
TGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACT
Found at i:1032320 original size:88 final size:87
Alignment explanation
Indices: 1032175--1032396 Score: 385
Period size: 88 Copynumber: 2.6 Consensus size: 87
1032165 TGGAACAGGG
* * *
1032175 TGCCACTGATTTGTGGGC-TTTG-AAGGTTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTG
1 TGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTAAAGGTTGCCACTG
1032238 ACTTGTGGGCTTTTGAAAAATA
66 ACTTGTGGGCTTTTGAAAAATA
1032260 TGCCACTGACTTGTGGGCTTTTGAACAGGGTGCCACTAACTTGTGGGCTTTTAAAGGTTGCCACT
1 TGCCACTGACTTGTGGGCTTTTGAA-AGGGTGCCACTAACTTGTGGGCTTTTAAAGGTTGCCACT
1032325 GACTTGTGGGCTTTTGAAAAATA
65 GACTTGTGGGCTTTTGAAAAATA
1032348 TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCT
1 TGCCACTGACTTGTGGGCTTTTG-AAAGGGTGCCACTAACTTGTGGGCT
1032397 GAAAAGAGTG
Statistics
Matches: 130, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
85 17 0.13
86 4 0.03
87 1 0.01
88 106 0.82
89 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.33
Consensus pattern (87 bp):
TGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTAAAGGTTGCCACTG
ACTTGTGGGCTTTTGAAAAATA
Found at i:1032540 original size:121 final size:116
Alignment explanation
Indices: 1032318--1032599 Score: 300
Period size: 121 Copynumber: 2.4 Consensus size: 116
1032308 TTTTAAAGGT
* * **
1032318 TGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCA
1 TGCCACCGACTTGTGGGCTTTGGAAAAA-ATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCA
* * *
1032383 CTAACTTGTGGGCTGAAAAGAGTGCTATAGAGTTGTGAGCTTACAAAAGAAAAAGAG
65 CTAACTTGTGGGCTGAAAAGAGTGCCATAGACTTGTGAGCTTAC----GAAAAA-AA
* * * * *
1032440 TGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCAC
1 TGCCACCGACTTGTGGGCTTTGGAAAAAATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCAC
* * *** * *
1032505 TGATTTGTGGGCTTTGAAG-GTTGCCACT-GACTTGTGGGCTTTCGAAAAAAA
66 TAACTTGTGGGCTGAAAAGAG-TGCCA-TAGACTTGTGAGCTTACGAAAAAAA
1032556 TGCCACCGACTTGTGGGCTTT-GAAAAAATGCCACTGACTTGTGG
1 TGCCACCGACTTGTGGGCTTTGGAAAAAATGCCACTGACTTGTGG
1032600 ACTTTTGAAG
Statistics
Matches: 135, Mismatches: 23, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
115 21 0.16
116 19 0.14
117 6 0.04
120 1 0.01
121 64 0.47
122 24 0.18
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (116 bp):
TGCCACCGACTTGTGGGCTTTGGAAAAAATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCAC
TAACTTGTGGGCTGAAAAGAGTGCCATAGACTTGTGAGCTTACGAAAAAAA
Found at i:1034051 original size:1 final size:1
Alignment explanation
Indices: 1034045--1034156 Score: 89
Period size: 1 Copynumber: 112.0 Consensus size: 1
1034035 TCCGGACCCC
* * * * * * ** *
1034045 TTTTTTTGTTTTTGTTTGTTTTTTATTGTTTTTGTTTTTTTTTTTCCTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** **
1034110 TTTTGGTTTTTCATTTTTTTCGTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1034157 GGAGGACGCC
Statistics
Matches: 87, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 87 1.00
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:1034119 original size:53 final size:49
Alignment explanation
Indices: 1034045--1034156 Score: 145
Period size: 53 Copynumber: 2.2 Consensus size: 49
1034035 TCCGGACCCC
* *
1034045 TTTTTTTGTTTTTGTTTGTTTTTTATTGTTTTT-GTTTTTTTTTTTCCTTTT
1 TTTTTTTTTTTTTGTTTGTTTTTCATT-TTTTTCGTTTTTTTTTTT--TTTT
*
1034096 GTTTTTTTTTTTTTTTTTGGTTTTTCATTTTTTTCGTTTTTTTTTTTTTTT
1 -TTTTTTTTTTTTTGTTT-GTTTTTCATTTTTTTCGTTTTTTTTTTTTTTT
1034147 TTTTTTTTTT
1 TTTTTTTTTT
1034157 GGAGGACGCC
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
50 10 0.18
51 4 0.07
52 20 0.36
53 21 0.38
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.87
Consensus pattern (49 bp):
TTTTTTTTTTTTTGTTTGTTTTTCATTTTTTTCGTTTTTTTTTTTTTTT
Found at i:1040940 original size:30 final size:30
Alignment explanation
Indices: 1040904--1041487 Score: 558
Period size: 30 Copynumber: 19.8 Consensus size: 30
1040894 CACTCTTTTC
*
1040904 AGCCCACAAGTTAGTGGCACCCTTTTCAAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
***
1040934 AGCCCACAAGTCAGTGGCATATTTTTCAAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
*
1040964 AGCCCACAAGTCAGTGGCAACC-TTT-AAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
* *
1040992 AGCCCACAAGTTAGTGGCACCCTGTTCAAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
***
1041022 AGCCCACAAGTCAGTGGCATATTTTTCAAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
*
1041052 AGCCCACAAGTCAGTGGCAACC-TTT-AAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
*
1041080 AGCCCACAAGTCAGTGGCAACC--TTC-AA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
* **
1041107 AGCCCACAAATCAGTGGCACCCTTTTCCGA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
* * *
1041137 AGCCCACAAGTCGGTGGCA-TCTTTTCCAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
* * * * **
1041166 AGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTA
1 AGCCCACAAGTCAGTGGCAC-CCTTTTC----AAA
* * * *
1041201 AGCTCACAACTCTA-TAGCACTCTTTTC---
1 AGCCCACAAGTC-AGTGGCACCCTTTTCAAA
*
1041228 AGCCCACAAGTTAGTGGCACCCTTTTCAAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
***
1041258 AGCCCACAAGTCAGTGGCATATTTTTCAAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
*
1041288 AGCCCACAAGTCAGTGGCAACC-TTT-AAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
* *
1041316 AGCCCACAAGTTAGTGGCACCCTGTTCAAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
***
1041346 AGCCCACAAGTCAGTGGCATATTTTTCAAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
*
1041376 AGCCCACAAGTCAGTGGCAACC-TTT-AAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
*
1041404 AGCCCACAAGTCAGTGGCAACC--TTC-AA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
* * *
1041431 AGCCCACAAATCAGTGGCACCCTGTTCCAA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAA
*
1041461 AGCCCACACAAGTCGGTGGCAACCCTT
1 AG-CC-CACAAGTCAGTGGC-ACCCTT
1041488 CTAAGCCCAA
Statistics
Matches: 462, Mismatches: 66, Indels: 49
0.80 0.11 0.08
Matches are distributed among these distances:
26 1 0.00
27 68 0.15
28 96 0.21
29 46 0.10
30 206 0.45
31 7 0.02
32 12 0.03
33 5 0.01
34 5 0.01
35 16 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (30 bp):
AGCCCACAAGTCAGTGGCACCCTTTTCAAA
Found at i:1041053 original size:88 final size:89
Alignment explanation
Indices: 1040904--1041468 Score: 586
Period size: 88 Copynumber: 6.4 Consensus size: 89
1040894 CACTCTTTTC
* *
1040904 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATACTTTTCAAAAGCCC
1040969 ACAAGTCAGTGGCAACCTTT-AAA
66 ACAAGTCAGTGGCAACCTTTCAAA
* * *
1040992 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATACTTTTCAAAAGCCC
1041057 ACAAGTCAGTGGCAACCTTT-AAA
66 ACAAGTCAGTGGCAACCTTTCAAA
* * ** **
1041080 AGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCC
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATACTTTTCAAAAGCCC
* * * *
1041142 ACAAGTCGGTGGCATCTTTTCCAA
66 ACAAGTCAGTGGCAACCTTTCAAA
* * * * ** * * *
1041166 AGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCACAACTCTA-TAGCACT-CTTTTC-
1 AGCCCACAAGTCAGTGGCAC-CCTTTTC----AAAAGCCCACAAGTC-AGTGGCA-TACTTTTCA
* *
1041228 --AGCCCACAAGTTAGTGGCACCCTTTTCAAA
59 AAAGCCCACAAGTCAGTGGCAACC-TTTCAAA
*** *
1041258 AGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCTTT-AAAAGCCC
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATACTTTTCAAAAGCCC
* *
1041321 ACAAGTTAGTGGCACCCTGTTCAAA
66 ACAAGTCAGTGGCAACCT-TTCAAA
*** *
1041346 AGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCTTT-AAAAGCCC
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATACTTTTCAAAAGCCC
1041409 ACAAGTCAGTGGCAACC-TTC-AA
66 ACAAGTCAGTGGCAACCTTTCAAA
* * *
1041431 AGCCCACAAATCAGTGGCACCCTGTTCCAAAGCCCACA
1 AGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACA
1041469 CAAGTCGGTG
Statistics
Matches: 412, Mismatches: 47, Indels: 39
0.83 0.09 0.08
Matches are distributed among these distances:
85 82 0.20
86 29 0.07
87 17 0.04
88 213 0.52
89 3 0.01
91 24 0.06
92 22 0.05
94 21 0.05
95 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (89 bp):
AGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATACTTTTCAAAAGCCC
ACAAGTCAGTGGCAACCTTTCAAA
Found at i:1041466 original size:324 final size:326
Alignment explanation
Indices: 1040877--1041481 Score: 1178
Period size: 324 Copynumber: 1.9 Consensus size: 326
1040867 CCTACCTAGT
1040877 AGCTCACAACTCTATAGCACTCTTTTCAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACA
1 AGCTCACAACTCTATAGCACTCTTTTCAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACA
1040942 AGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGT
66 AGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGT
1041007 GGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAA
131 GGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAA
* *
1041072 CCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGA
196 CCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTGTTCCAA
1041137 AG-CC-CACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGT
261 AGCCCACACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGT
1041200 A
326 A
1041201 AGCTCACAACTCTATAGCACTCTTTTCAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACA
1 AGCTCACAACTCTATAGCACTCTTTTCAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACA
1041266 AGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGT
66 AGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGT
1041331 GGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAA
131 GGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAA
1041396 CCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTGTTCCAA
196 CCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTGTTCCAA
1041461 AGCCCACACAAGTCGGTGGCA
261 AGCCCACACAAGTCGGTGGCA
1041482 ACCCTTCTAA
Statistics
Matches: 277, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
324 260 0.94
325 2 0.01
326 15 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (326 bp):
AGCTCACAACTCTATAGCACTCTTTTCAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACA
AGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGT
GGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAA
CCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTGTTCCAA
AGCCCACACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGT
A
Found at i:1041551 original size:49 final size:49
Alignment explanation
Indices: 1041489--1041826 Score: 340
Period size: 49 Copynumber: 7.0 Consensus size: 49
1041479 GCAACCCTTC
* *
1041489 TAAGCCCAATATAGCTGGCCTTGAATCACCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
1041538 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
1041587 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
1041630 TAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1041673 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * * *
1041725 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAGCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-T-ATCTT
* * * * * *
1041780 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1041827 ACTTTTCTCA
Statistics
Matches: 250, Mismatches: 26, Indels: 26
0.83 0.09 0.09
Matches are distributed among these distances:
43 80 0.32
44 1 0.00
48 1 0.00
49 85 0.34
50 1 0.00
51 2 0.01
52 38 0.15
53 2 0.01
54 1 0.00
55 38 0.15
56 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:1041629 original size:21 final size:21
Alignment explanation
Indices: 1041605--1041672 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
1041595 ATATAGCTGG
1041605 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* *
1041626 CCTTTAAGTC--CA-ATGTAGCTGA
1 CCTTGAA-TCAGCACAT-TGGC--A
1041648 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
1041669 CCTT
1 CCTT
1041673 TAAGTCCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:1041645 original size:43 final size:43
Alignment explanation
Indices: 1041581--1041716 Score: 245
Period size: 43 Copynumber: 3.2 Consensus size: 43
1041571 TTGGCACCTT
1041581 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* *
1041624 CACCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
1041667 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1041710 CACCTTT
1 CACCTTT
1041717 TCCATCTTTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
Found at i:1041748 original size:52 final size:53
Alignment explanation
Indices: 1041670--1041823 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
1041660 ACATTGGCAC
*
1041670 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAG
* * * *
1041722 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAG
* * * * * *
1041777 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1041824 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 35 0.42
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAG
Found at i:1041806 original size:55 final size:55
Alignment explanation
Indices: 1041670--1042052 Score: 280
Period size: 67 Copynumber: 6.7 Consensus size: 55
1041660 ACATTGGCAC
*
1041670 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * *
1041722 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
1041777 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
* *
1041841 CATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
1 C---TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
1041893 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * * *
1041948 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--TC-TC
1042013 AT
54 AT
*
1042015 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
1042053 AGCACCTTCA
Statistics
Matches: 257, Mismatches: 41, Indels: 51
0.74 0.12 0.15
Matches are distributed among these distances:
49 36 0.14
50 1 0.00
52 43 0.17
53 2 0.01
54 7 0.03
55 64 0.25
56 2 0.01
57 2 0.01
58 2 0.01
59 1 0.00
61 8 0.03
62 6 0.02
63 5 0.02
64 6 0.02
66 3 0.01
67 69 0.27
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:1041960 original size:171 final size:171
Alignment explanation
Indices: 1041670--1042064 Score: 664
Period size: 171 Copynumber: 2.3 Consensus size: 171
1041660 ACATTGGCAC
*
1041670 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTTCAAT
1041735 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAGCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAGCTTTAAGCCCAATATCGTTGGCC
*
1041800 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* *
1041844 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
* * *
1041909 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAGCTTTAAGCCCAATATCGTTGGCCATG
*
1041974 AATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* * *
1042015 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTAGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1042065 ATCTCTAAAA
Statistics
Matches: 209, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
171 166 0.79
172 3 0.01
174 40 0.19
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAGCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
Found at i:1042901 original size:13 final size:13
Alignment explanation
Indices: 1042883--1042907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1042873 CATAAAATGT
1042883 TGTATCGATACAA
1 TGTATCGATACAA
1042896 TGTATCGATACA
1 TGTATCGATACA
1042908 TGTTTTTTTG
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:1042988 original size:13 final size:13
Alignment explanation
Indices: 1042970--1042994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1042960 ATCACTTAAA
1042970 TGTATCGATACAT
1 TGTATCGATACAT
1042983 TGTATCGATACA
1 TGTATCGATACA
1042995 CTGATCTTTG
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:1043059 original size:52 final size:52
Alignment explanation
Indices: 1043003--1043183 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
1042993 CACTGATCTT
*
1043003 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1043055 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1043107 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1043159 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1043184 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1047927 original size:10 final size:10
Alignment explanation
Indices: 1047905--1047934 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
1047895 TAAGTTTTTA
1047905 TGAAAAATGTT
1 TGAAAAAT-TT
1047916 TGAAAAATTT
1 TGAAAAATTT
1047926 TGAAAAATT
1 TGAAAAATT
1047935 ATCTAGTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (10 bp):
TGAAAAATTT
Found at i:1052179 original size:124 final size:124
Alignment explanation
Indices: 1051958--1052207 Score: 428
Period size: 124 Copynumber: 2.0 Consensus size: 124
1051948 TTTTTGGCAG
* * * *
1051958 TGTCCTTGTTGATCGTATAGCATTTATTTAACTGACTCCATCATATCAATGCCATGCCCTATATA
1 TGTCCTGGTTGATAGTATAGCATTTATTTAACTGACTCCATCATACCAATACCATGCCCTATATA
*
1052023 TTTTGTTCCAATTCTTCAATGTTGATAAGAAATTGAGAATCACATACTGCTTCTTTCTT
66 TTATGTTCCAATTCTTCAATGTTGATAAGAAATTGAGAATCACATACTGCTTCTTTCTT
1052082 TGTCCTGGTTGATAGTATAGCATTTATTTAACTGACTCCATCATACCAATACCATGCCCTATATA
1 TGTCCTGGTTGATAGTATAGCATTTATTTAACTGACTCCATCATACCAATACCATGCCCTATATA
* * *
1052147 TTATGTTCCAATTCTTCAATGTTGGTATGAAATTGAGAATCACATACTGCTTCTTTTTT
66 TTATGTTCCAATTCTTCAATGTTGATAAGAAATTGAGAATCACATACTGCTTCTTTCTT
1052206 TG
1 TG
1052208 CTTCTTCATT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 118 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (124 bp):
TGTCCTGGTTGATAGTATAGCATTTATTTAACTGACTCCATCATACCAATACCATGCCCTATATA
TTATGTTCCAATTCTTCAATGTTGATAAGAAATTGAGAATCACATACTGCTTCTTTCTT
Found at i:1055409 original size:115 final size:113
Alignment explanation
Indices: 1055172--1055403 Score: 412
Period size: 112 Copynumber: 2.0 Consensus size: 113
1055162 TATGTTGAAA
*
1055172 AGTTTCAGAAGAGCTAAAAGAAACAGGAGGATCATCGTGTCTTCTTGTGTTATTATTTTTACAGT
1 AGTTTCAGAAGAGCTAAAAGAAACAGGAGGATCATCATG--TTCTTGTGTTATTATTTTTACAGT
1055237 TACATATCAAACTATCTTATCTTTCGTTTTTTGCCCCCCTTTCTTAATCT
64 TACATATCAAACTATCTTATCTTTCGTTTTTTGCCCCCCTTTCTTAATCT
1055287 AGTTTCAGAAGAGCTAAAAGAAACAGGAGGATCATCATG-TCTTGTGTTATTATTTTTACAGTTA
1 AGTTTCAGAAGAGCTAAAAGAAACAGGAGGATCATCATGTTCTTGTGTTATTATTTTTACAGTTA
* *
1055351 CATATCAAACTATCTTATCTTTCGTTTTTTGCCCCCTTTTCTTTATCT
66 CATATCAAACTATCTTATCTTTCGTTTTTTGCCCCCCTTTCTTAATCT
1055399 AGTTT
1 AGTTT
1055404 TTTCAGCTTC
Statistics
Matches: 114, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
112 76 0.67
115 38 0.33
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (113 bp):
AGTTTCAGAAGAGCTAAAAGAAACAGGAGGATCATCATGTTCTTGTGTTATTATTTTTACAGTTA
CATATCAAACTATCTTATCTTTCGTTTTTTGCCCCCCTTTCTTAATCT
Found at i:1060841 original size:22 final size:21
Alignment explanation
Indices: 1060816--1060860 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
1060806 TGCTAGCAAA
*
1060816 TTTCCTTATTTTTTTTTCTATT
1 TTTCCTTATTTTTCTTTCT-TT
* *
1060838 TTTCTTTCTTTTTCTTTCTTT
1 TTTCCTTATTTTTCTTTCTTT
1060859 TT
1 TT
1060861 CTCTCTCTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTCCTTATTTTTCTTTCTTT
Done.