Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 38 of 160
Found at i:9133209 original size:64 final size:63
Alignment explanation
Indices: 9133115--9133282 Score: 177
Period size: 60 Copynumber: 2.7 Consensus size: 63
9133105 AGTTTCAATG
* *
9133115 CCTCTGTTT-GGGAGGAGTCATTTTCGAACAAGTTTAAAAAAAAAAAAAAAAAAGATTTTCAAAA
1 CCTCTGTTTAGGG-GGAGCCATTTTCAAACAAGTTT-AAAAAAAAAAAAAAAAAGATTTTCAAAA
* * *
9133179 CCTCTGTTTAGGGGGAGCCATTTTCAAACAAG-TT--AAAAAAAAGAAAGAATATTTTCAAAA
1 CCTCTGTTTAGGGGGAGCCATTTTCAAACAAGTTTAAAAAAAAAAAAAAAAAGATTTTCAAAA
* * * * * *
9133239 CCTTTATTTAGGGGAAGCCATCTTCAAA-AA-TATATAAAAAAAAA
1 CCTCTGTTTAGGGGGAGCCATTTTCAAACAAGTTTAAAAAAAAAAA
9133283 CTCTTAGAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
59 3 0.03
60 47 0.53
61 8 0.09
63 2 0.02
64 26 0.29
65 3 0.03
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (63 bp):
CCTCTGTTTAGGGGGAGCCATTTTCAAACAAGTTTAAAAAAAAAAAAAAAAAGATTTTCAAAA
Found at i:9134126 original size:144 final size:144
Alignment explanation
Indices: 9133866--9134260 Score: 470
Period size: 144 Copynumber: 2.7 Consensus size: 144
9133856 AGAAATTACA
* * * * *
9133866 AAATTACCAAAATACCTTTTAGGGGTATTTTCATAATTTATCCTT-CTAAAGCTTAGATTTTTAT
1 AAATTACCAAAATACCCTTTAAGGGTATTTTTATAATTTATCCTTCCT-AAGCTTGGATTTTCAT
* * * ** *
9133930 GAAATTTTTTAGATCTTAATTTCATAATATTTCAAGATTTTTGGTGCATTTGAAATCGTAGGAAT
65 GAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAAGAAT
9133995 ACCCCGAAAAGTATG
130 ACCCCGAAAAGTATG
* * *
9134010 AAATTACCAAAATGCCCTTTAAGGGTATTTTTGTAATTTATCTTTCCTAAGCTTGGATTTTCATG
1 AAATTACCAAAATACCCTTTAAGGGTATTTTTATAATTTATCCTTCCTAAGCTTGGATTTTCATG
* * * *
9134075 AAACTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAATAGTA
66 AAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAAGAATA
* *
9134140 GCCCGAGAAGTATG
131 CCCCGAAAAGTATG
* * * * ** ** *
9134154 AAATTACTAAAATACCCTCTATGGGTGTTTTTATAATTTGCCCTTCCCGA-TTGTGGATTTTCAT
1 AAATTACCAAAATACCCTTTAAGGGTATTTTTATAATTTATCCTTCCTAAGCT-TGGATTTTCAT
* * *
9134218 GAAAATTTTCAGTTCTCAATTTTATAATATTTCATGATTTTTG
65 GAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTTG
9134261 ATGCCTTAAA
Statistics
Matches: 213, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
143 1 0.00
144 210 0.99
145 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (144 bp):
AAATTACCAAAATACCCTTTAAGGGTATTTTTATAATTTATCCTTCCTAAGCTTGGATTTTCATG
AAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCACAAGAATA
CCCCGAAAAGTATG
Found at i:9136640 original size:18 final size:18
Alignment explanation
Indices: 9136614--9136673 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
9136604 CACAACATTA
9136614 TGCAATTTATCTTTTATT
1 TGCAATTTATCTTTTATT
* *
9136632 TGCATTTTAT-TATTA--
1 TGCAATTTATCTTTTATT
*
9136647 TGCAATTTATCCTTTATT
1 TGCAATTTATCTTTTATT
*
9136665 TGCATTTTA
1 TGCAATTTA
9136674 GTTTCGCATC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
15 9 0.27
16 3 0.09
17 4 0.12
18 17 0.52
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (18 bp):
TGCAATTTATCTTTTATT
Found at i:9136647 original size:33 final size:33
Alignment explanation
Indices: 9136610--9136673 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
9136600 ATAACACAAC
*
9136610 ATTATGCAATTTATCTTTTATTTGCATTTTATT
1 ATTATGCAATTTATCCTTTATTTGCATTTTATT
9136643 ATTATGCAATTTATCCTTTATTTGCATTTTA
1 ATTATGCAATTTATCCTTTATTTGCATTTTA
9136674 GTTTCGCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (33 bp):
ATTATGCAATTTATCCTTTATTTGCATTTTATT
Found at i:9136655 original size:15 final size:16
Alignment explanation
Indices: 9136610--9136657 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
9136600 ATAACACAAC
9136610 ATTATGCAATTTATCT
1 ATTATGCAATTTATCT
* *
9136626 TTTATTTGCATTTTAT-T
1 ATTA--TGCAATTTATCT
9136643 ATTATGCAATTTATC
1 ATTATGCAATTTATC
9136658 CTTTATTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
15 9 0.36
16 3 0.12
17 4 0.16
18 9 0.36
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTATGCAATTTATCT
Found at i:9138254 original size:17 final size:16
Alignment explanation
Indices: 9138224--9138274 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 16
9138214 ACACCCTATT
* *
9138224 TTTTTTATTATTTTCA
1 TTTTTAATTTTTTTCA
*
9138240 CTTTTTCATTTTTTTCA
1 -TTTTTAATTTTTTTCA
9138257 TTTTTAATTTTTTT-A
1 TTTTTAATTTTTTTCA
9138272 TTT
1 TTT
9138275 AAAAAATTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 4 0.13
16 13 0.42
17 14 0.45
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTAATTTTTTTCA
Found at i:9140523 original size:84 final size:84
Alignment explanation
Indices: 9140372--9140599 Score: 266
Period size: 84 Copynumber: 2.7 Consensus size: 84
9140362 CCCAAAGGTA
* * * * *
9140372 TTAGAGATTATATCCGAAGGTCTTATAAATCTCGACTCTAAAATAGATTCAGCTAGGAAGACATA
1 TTAGAGATTATGTCTGAAGGTCTTATAAATTTCGACTCTAAAATAGATTCAGCTAGAAAAACATA
** *
9140437 TGAATCTTGGCT-GAAGGAT
66 TGAATCTT-GCTCGAAAAAC
* * * *
9140456 TTAGAGATTATGTTTGAAGATCTTATAAATTTCGACTCTAAAATAGATTCAGCTCGAAAAACTTA
1 TTAGAGATTATGTCTGAAGGTCTTATAAATTTCGACTCTAAAATAGATTCAGCTAGAAAAACATA
9140521 TGAATCTTGCTCGAAAAAC
66 TGAATCTTGCTCGAAAAAC
* * *
9140540 TTAGAGATTACGTCT-AGAGGTCTTACAAATCTT-AACTCTAAAAT-GATTCAGCTAGAAAAA
1 TTAGAGATTATGTCTGA-AGGTCTTATAAAT-TTCGACTCTAAAATAGATTCAGCTAGAAAAA
9140600 TGTTCTCCTT
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
83 19 0.15
84 102 0.83
85 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (84 bp):
TTAGAGATTATGTCTGAAGGTCTTATAAATTTCGACTCTAAAATAGATTCAGCTAGAAAAACATA
TGAATCTTGCTCGAAAAAC
Found at i:9140790 original size:17 final size:17
Alignment explanation
Indices: 9140740--9140802 Score: 81
Period size: 17 Copynumber: 3.7 Consensus size: 17
9140730 TAAGAATGGA
*
9140740 AGATTCACAAGATTTTA
1 AGATTCACAAGATTTTC
*
9140757 AGATTCACAAGAGTTTC
1 AGATTCACAAGATTTTC
*
9140774 AGATTTACAAGATTTTC
1 AGATTCACAAGATTTTC
* *
9140791 ATATTAACAAGA
1 AGATTCACAAGA
9140803 ACTTCATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (17 bp):
AGATTCACAAGATTTTC
Found at i:9140907 original size:17 final size:17
Alignment explanation
Indices: 9140887--9140929 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
9140877 AGGCAAGAAC
9140887 TTCAGATTCACAAGAGT
1 TTCAGATTCACAAGAGT
*
9140904 TTCAGATTCACAAGATT
1 TTCAGATTCACAAGAGT
*
9140921 TTTAGATTC
1 TTCAGATTC
9140930 GCAAACACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (17 bp):
TTCAGATTCACAAGAGT
Found at i:9141302 original size:23 final size:23
Alignment explanation
Indices: 9141241--9141312 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 23
9141231 TCACATTCAA
*
9141241 ATTTTATATTCTAAAAATTTTAGAG
1 ATTTT-TATTCTAAAAA-CTTAGAG
** * *
9141266 ATTTACATTC--AAAAGTTAAAG
1 ATTTTTATTCTAAAAACTTAGAG
9141287 ATTTTTATTCTAAAAACTTAGAG
1 ATTTTTATTCTAAAAACTTAGAG
9141310 ATT
1 ATT
9141313 CACATCAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
21 13 0.35
22 4 0.11
23 12 0.32
24 4 0.11
25 4 0.11
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (23 bp):
ATTTTTATTCTAAAAACTTAGAG
Found at i:9141330 original size:45 final size:44
Alignment explanation
Indices: 9141247--9141390 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 44
9141237 TCAAATTTTA
* * * *
9141247 TATTCTAAAAATTTTAGAGATTTACATTCAAAA-GTTAAAGATTTT
1 TATTCTAAAAA-CTTAGAGATTCACA-TCAAAATTTTAAAGATTCT
* *
9141292 TATTCTAAAAACTTAGAGATTCACATCAAAAATTTTAAAAATTCA
1 TATTCTAAAAACTTAGAGATTCACATC-AAAATTTTAAAGATTCT
* * * * *
9141337 CATT-AAAAAACATTA-ACATTCACAACCAAAATTTCAAAGATTCT
1 TATTCTAAAAAC-TTAGAGATTCAC-ATCAAAATTTTAAAGATTCT
9141381 TA-TCTAAAAA
1 TATTCTAAAAA
9141391 ATTTCAAGGT
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
43 3 0.04
44 49 0.62
45 27 0.34
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (44 bp):
TATTCTAAAAACTTAGAGATTCACATCAAAATTTTAAAGATTCT
Found at i:9141426 original size:22 final size:22
Alignment explanation
Indices: 9141401--9141507 Score: 54
Period size: 23 Copynumber: 4.8 Consensus size: 22
9141391 ATTTCAAGGT
9141401 TTCACATTCAAAATTTCAAAAA
1 TTCACATTCAAAATTTCAAAAA
* * * * *
9141423 TTCAACTTTGAAAATTTTTAGAGA
1 TTC-ACATTCAAAA-TTTCAAAAA
* * *
9141447 TTTACATCCAAAATTTCAAAGA
1 TTCACATTCAAAATTTCAAAAA
* * * *
9141469 CTCACATTTAAAAAATT-AGAAA
1 TTCACA-TTCAAAATTTCAAAAA
* *
9141491 TTCCCATTTAAAATTTC
1 TTCACATTCAAAATTTC
9141508 TAAGGTTCTT
Statistics
Matches: 59, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
21 8 0.14
22 21 0.36
23 22 0.37
24 8 0.14
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.36
Consensus pattern (22 bp):
TTCACATTCAAAATTTCAAAAA
Found at i:9144120 original size:32 final size:33
Alignment explanation
Indices: 9144045--9144219 Score: 158
Period size: 34 Copynumber: 5.3 Consensus size: 33
9144035 TTTTTTTTGG
*
9144045 GCCAAATAAACTAGGCTTAAAATTTTTATCAGGT
1 GCCAAGTAAACTAGGCTTAAAA-TTTTATCAGGT
* * * *
9144079 GCCAGGTAAACTATGCTTAAACTTTTATTA-GT
1 GCCAAGTAAACTAGGCTTAAAATTTTATCAGGT
9144111 GCCAAGTAAACTAGGCTTAAAATTTTCATCAGGT
1 GCCAAGTAAACTAGGCTTAAAATTTT-ATCAGGT
*** * **
9144145 ATTAAGTAAACTAGGCTTAAAATCTTTCTTTGGT
1 GCCAAGTAAACTAGGCTTAAAAT-TTTATCAGGT
* * * *
9144179 GCC-AGATAAATTAGGCCTAAAATTTCAT-TGGT
1 GCCAAG-TAAACTAGGCTTAAAATTTTATCAGGT
9144211 GCCAAGTAA
1 GCCAAGTAA
9144220 GTTAGACATA
Statistics
Matches: 114, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
32 35 0.31
33 17 0.15
34 59 0.52
35 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (33 bp):
GCCAAGTAAACTAGGCTTAAAATTTTATCAGGT
Found at i:9144218 original size:66 final size:68
Alignment explanation
Indices: 9144045--9144254 Score: 225
Period size: 66 Copynumber: 3.1 Consensus size: 68
9144035 TTTTTTTTGG
* * * *
9144045 GCCAAATAAACTAGGCTTAAAATTTTTATCAGGTGCCAGGTAAACTATGCTT-AAA-CTTT-TAT
1 GCCAGATAAACTAGGCTTAAAATTTTCATCAGGTGCCAAGTAAACTAGGCTTAAAATCTTTCT-T
9144107 TAGT
65 TAGT
***
9144111 GCCA-AGTAAACTAGGCTTAAAATTTTCATCAGGTATTAAGTAAACTAGGCTTAAAATCTTTCTT
1 GCCAGA-TAAACTAGGCTTAAAATTTTCATCAGGTGCCAAGTAAACTAGGCTTAAAATCTTTCTT
*
9144175 TGGT
65 TAGT
* * * ** * *
9144179 GCCAGATAAATTAGGCCTAAAA-TTTCAT-TGGTGCCAAGTAAGTTAGACATAAAATCTTTCTTT
1 GCCAGATAAACTAGGCTTAAAATTTTCATCAGGTGCCAAGTAAACTAGGCTTAAAATCTTTCTTT
9144242 AGT
66 AGT
9144245 GCCAGATAAA
1 GCCAGATAAA
9144255 TTGAGCTTAA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
65 1 0.01
66 83 0.69
67 9 0.07
68 26 0.21
69 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (68 bp):
GCCAGATAAACTAGGCTTAAAATTTTCATCAGGTGCCAAGTAAACTAGGCTTAAAATCTTTCTTT
AGT
Found at i:9144232 original size:100 final size:101
Alignment explanation
Indices: 9144051--9144238 Score: 234
Period size: 100 Copynumber: 1.9 Consensus size: 101
9144041 TTGGGCCAAA
* * * * * *
9144051 TAAACTAGGCTTAAAATTTTTATCAGGTGCCAGGTAAACTATGCTTAAACTTTTATTAGTGCCAA
1 TAAACTAGGCTTAAAATCTTTATCAGGTGCCAGATAAACTAGGCCTAAAATTTCATTAGTGCCAA
* *
9144116 GTAAACTAGGCTTAAAAT-TTTCATCAGGTATTAAG
66 GTAAACTAGACATAAAATCTTTCATCAGGTATTAAG
* ** * *
9144151 TAAACTAGGCTTAAAATCTTTCTTTGGTGCCAGATAAATTAGGCCTAAAATTTCATTGGTGCCAA
1 TAAACTAGGCTTAAAATCTTTATCAGGTGCCAGATAAACTAGGCCTAAAATTTCATTAGTGCCAA
**
9144216 GTAAGTTAGACATAAAATCTTTC
66 GTAAACTAGACATAAAATCTTTC
9144239 TTTAGTGCCA
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
100 68 0.94
101 4 0.06
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (101 bp):
TAAACTAGGCTTAAAATCTTTATCAGGTGCCAGATAAACTAGGCCTAAAATTTCATTAGTGCCAA
GTAAACTAGACATAAAATCTTTCATCAGGTATTAAG
Found at i:9144248 original size:34 final size:35
Alignment explanation
Indices: 9144162--9144256 Score: 110
Period size: 32 Copynumber: 2.9 Consensus size: 35
9144152 AAACTAGGCT
* *
9144162 TAAAATCTTTCTTTGGTGCC-AGATAAATTAGGCC
1 TAAAATCTTTCTTTGGTGCCAAGATAAATTAGACA
* *
9144196 TAAAA--TTTCATTGGTGCCAAG-TAAGTTAGACA
1 TAAAATCTTTCTTTGGTGCCAAGATAAATTAGACA
*
9144228 TAAAATCTTTCTTTAGTGCC-AGATAAATT
1 TAAAATCTTTCTTTGGTGCCAAGATAAATT
9144257 GAGCTTAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
32 25 0.50
33 4 0.08
34 21 0.42
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (35 bp):
TAAAATCTTTCTTTGGTGCCAAGATAAATTAGACA
Found at i:9146138 original size:10 final size:11
Alignment explanation
Indices: 9146096--9146145 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
9146086 CACCCATTCA
9146096 TTTTTTTTTCT
1 TTTTTTTTTCT
* *
9146107 TTTTACTTTCCT
1 TTTT-TTTTTCT
9146119 TTCATTTTTTTCT
1 TT--TTTTTTTCT
9146132 TTTTTTTTTCT
1 TTTTTTTTTCT
9146143 TTT
1 TTT
9146146 GCATTCTATC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 16 0.50
12 7 0.22
13 7 0.22
14 2 0.06
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:9146141 original size:25 final size:26
Alignment explanation
Indices: 9146098--9146150 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
9146088 CCCATTCATT
9146098 TTTTTTTCTTTTTACTTTCCTTT-CA
1 TTTTTTTCTTTTTACTTTCCTTTGCA
** *
9146123 TTTTTTTCTTTTTTTTTTCTTTTGCA
1 TTTTTTTCTTTTTACTTTCCTTTGCA
9146149 TT
1 TT
9146151 CTATCACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (26 bp):
TTTTTTTCTTTTTACTTTCCTTTGCA
Found at i:9150004 original size:16 final size:20
Alignment explanation
Indices: 9149963--9150000 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9149953 TTTTGCATGA
9149963 ATTTGCATGACTAATATTAT
1 ATTTGCATGACTAATATTAT
9149983 ATTTGCATGA-TAAT-TTAT
1 ATTTGCATGACTAATATTAT
9150001 TTGCCTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (20 bp):
ATTTGCATGACTAATATTAT
Found at i:9150033 original size:24 final size:25
Alignment explanation
Indices: 9150004--9150062 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
9149994 AATTTATTTG
9150004 CCTAATATATACATTTGCATGATTA
1 CCTAATATATACATTTGCATGATTA
* **
9150029 -TTAATATATTTATTTGCATGATTA
1 CCTAATATATACATTTGCATGATTA
9150053 CCTAATATAT
1 CCTAATATAT
9150063 TTATGTTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (25 bp):
CCTAATATATACATTTGCATGATTA
Found at i:9150109 original size:21 final size:21
Alignment explanation
Indices: 9150083--9150183 Score: 91
Period size: 21 Copynumber: 4.8 Consensus size: 21
9150073 ATTGTATGTT
9150083 ATTAATATATTTATTTACATG
1 ATTAATATATTTATTTACATG
*
9150104 ATTAATATATTTATTTATATG
1 ATTAATATATTTATTTACATG
* * *
9150125 ATTTAT-TAATATATTTGCATG
1 ATTAATAT-ATTTATTTACATG
**
9150146 ATTATTAATATATTTATTTTTATG
1 ---ATTAATATATTTATTTACATG
9150170 ATT-ATAT-TTTATTT
1 ATTAATATATTTATTT
9150184 GATTGCATGA
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
19 7 0.11
20 5 0.08
21 38 0.58
24 15 0.23
25 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
ATTAATATATTTATTTACATG
Found at i:9150162 original size:45 final size:46
Alignment explanation
Indices: 9150104--9150208 Score: 151
Period size: 47 Copynumber: 2.3 Consensus size: 46
9150094 TATTTACATG
9150104 ATTAATATATTTATTTATATGATT-TATTA-ATATATTTGCATGATT
1 ATTAATATATTTATTTATATGATTATATTATATATA-TTGCATGATT
* * *
9150149 ATTAATATATTTATTTTTATGATTATATTTTATTTGATTGCATGATT
1 ATTAATATATTTATTTATATGATTATATTATATAT-ATTGCATGATT
9150196 ATTAATATATTTA
1 ATTAATATATTTA
9150209 ATTGCTTGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
45 23 0.43
46 4 0.07
47 26 0.48
48 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (46 bp):
ATTAATATATTTATTTATATGATTATATTATATATATTGCATGATT
Found at i:9150170 original size:24 final size:24
Alignment explanation
Indices: 9150074--9150243 Score: 146
Period size: 24 Copynumber: 7.4 Consensus size: 24
9150064 TATGTTTGGA
9150074 TTGTATG-TTATTAATATATTTA-
1 TTGTATGATTATTAATATATTTAT
* *
9150096 TT-TA-CATGATTAATATATTTAT
1 TTGTATGATTATTAATATATTTAT
*
9150118 TTATATGATTTATT-A-ATA--TAT
1 TTGTATGA-TTATTAATATATTTAT
*
9150139 TTGCATGATTATTAATATATTTAT
1 TTGTATGATTATTAATATATTTAT
* * *
9150163 TTTTATGATTA-TATTTTATTTGA-
1 TTGTATGATTATTAATATATTT-AT
* *
9150186 TTGCATGATTATTAATATATTTAA
1 TTGTATGATTATTAATATATTTAT
*
9150210 TTGCT-TGATTATTAATATGTTTAT
1 TTG-TATGATTATTAATATATTTAT
9150234 TTGTATGATT
1 TTGTATGATT
9150244 TCTTGATTAT
Statistics
Matches: 117, Mismatches: 17, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
20 5 0.04
21 26 0.22
22 7 0.06
23 24 0.21
24 51 0.44
25 4 0.03
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (24 bp):
TTGTATGATTATTAATATATTTAT
Found at i:9150233 original size:71 final size:66
Alignment explanation
Indices: 9150081--9150243 Score: 188
Period size: 71 Copynumber: 2.4 Consensus size: 66
9150071 GGATTGTATG
*
9150081 TTATTAATATATTTATTTACATGATTAATATATTTATTTATATGATTTATTAATATATTTGCATG
1 TTATTAATATATTTATTTATATGATTAATATATTTATTTATATGATTTATTAATATATTTGCATG
9150146 A
66 A
*
9150147 TTATTAATATATTTATTTTTATGATT-ATAT-TTTATTTGAT-TGCATGATTATTAATATATTTA
1 TTATTAATATATTTATTTATATGATTAATATATTTATTT-ATATG-AT--TTATTAATATA--T-
*
9150209 ATTGCTTGA
59 -TTGCATGA
* *
9150218 TTATTAATATGTTTATTTGTATGATT
1 TTATTAATATATTTATTTATATGATT
9150244 TCTTGATTAT
Statistics
Matches: 84, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
64 9 0.11
65 8 0.10
66 24 0.29
67 11 0.13
69 1 0.01
71 31 0.37
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (66 bp):
TTATTAATATATTTATTTATATGATTAATATATTTATTTATATGATTTATTAATATATTTGCATG
A
Found at i:9150243 original size:56 final size:56
Alignment explanation
Indices: 9150183--9150299 Score: 180
Period size: 56 Copynumber: 2.1 Consensus size: 56
9150173 ATATTTTATT
* * *
9150183 TGATTGCATGATTATTAATATATTTAATTGCTTGATTATTAATATGTTTATTTGTA
1 TGATTGCATGATTATTAATATATTTAATTACCTGATTATTAATATATTTATTTGTA
* * *
9150239 TGATTTCTTGATTATTAATATATTTAATTACCTGATTATTAATATATTTATTTGTG
1 TGATTGCATGATTATTAATATATTTAATTACCTGATTATTAATATATTTATTTGTA
9150295 TGATT
1 TGATT
9150300 ATATTTGATT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (56 bp):
TGATTGCATGATTATTAATATATTTAATTACCTGATTATTAATATATTTATTTGTA
Found at i:9150275 original size:32 final size:32
Alignment explanation
Indices: 9150213--9150275 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
9150203 TATTTAATTG
* * **
9150213 CTTGATTATTAATATGTTTATTTGTATGATTT
1 CTTGATTATTAATATATTTAATTACATGATTT
*
9150245 CTTGATTATTAATATATTTAATTACCTGATT
1 CTTGATTATTAATATATTTAATTACATGATT
9150276 ATTAATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.56
Consensus pattern (32 bp):
CTTGATTATTAATATATTTAATTACATGATTT
Found at i:9150304 original size:18 final size:18
Alignment explanation
Indices: 9150281--9150333 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
9150271 TGATTATTAA
**
9150281 TATATTTATTTGTGTGAT
1 TATATTTATTTGCATGAT
9150299 TATATTTGA-TTGCATGAT
1 TATATTT-ATTTGCATGAT
*
9150317 TATATATATTTGCATGA
1 TATATTTATTTGCATGA
9150334 ATGATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.53
Consensus pattern (18 bp):
TATATTTATTTGCATGAT
Found at i:9150443 original size:35 final size:35
Alignment explanation
Indices: 9150371--9150491 Score: 154
Period size: 35 Copynumber: 3.4 Consensus size: 35
9150361 AAGATCATTA
* * *
9150371 ATATTATTGTATGATAATTTTTGTATGGTATGATTTT
1 ATATTATTGCATGAT--TTATTGCATGGTATGATTTT
* * *
9150408 ATATTATTGTATGATTTATTGCATGGTAGGCTTTT
1 ATATTATTGCATGATTTATTGCATGGTATGATTTT
*
9150443 ATATTATTGCATGATTTATTGCATGATATGATTTT
1 ATATTATTGCATGATTTATTGCATGGTATGATTTT
9150478 AT-TTATTGCATGAT
1 ATATTATTGCATGAT
9150492 ATAGTTTTAT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
34 12 0.16
35 49 0.64
37 15 0.20
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.53
Consensus pattern (35 bp):
ATATTATTGCATGATTTATTGCATGGTATGATTTT
Found at i:9150490 original size:17 final size:17
Alignment explanation
Indices: 9150439--9150551 Score: 52
Period size: 17 Copynumber: 6.1 Consensus size: 17
9150429 CATGGTAGGC
9150439 TTTTATATTATTGCATGA
1 TTTTAT-TTATTGCATGA
* *
9150457 -TTTATTGCA-TGATATGA
1 TTTTATT-TATTG-CATGA
9150474 TTTTATTTATTGCATGATATA
1 TTTTATTTATTGCATG----A
9150495 GTTTTATATTATTGCATGA
1 -TTTTAT-TTATTGCATGA
* * *
9150514 -TTTATTACATGGTATGA
1 TTTTATT-TATTGCATGA
9150531 TTTAATATTTATTGCATGA
1 TTT--TATTTATTGCATGA
9150550 TT
1 TT
9150552 GCCCGATATT
Statistics
Matches: 71, Mismatches: 10, Indels: 27
0.66 0.09 0.25
Matches are distributed among these distances:
16 4 0.06
17 26 0.37
18 10 0.14
19 10 0.14
20 4 0.06
21 1 0.01
22 6 0.08
23 10 0.14
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.53
Consensus pattern (17 bp):
TTTTATTTATTGCATGA
Found at i:9150500 original size:57 final size:58
Alignment explanation
Indices: 9150421--9150550 Score: 192
Period size: 57 Copynumber: 2.2 Consensus size: 58
9150411 TTATTGTATG
* * *
9150421 ATTTATTGCATGGTAGGCTTTTATATTATTGCATGATTTATTGCATGATATGATTT-T
1 ATTTATTGCATGATAAGCTTTTATATTATTGCATGATTTATTACATGATATGATTTAT
*
9150478 ATTTATTGCATGATATAG-TTTTATATTATTGCATGATTTATTACATGGTATGATTTAAT
1 ATTTATTGCATGATA-AGCTTTTATATTATTGCATGATTTATTACATGATATGATTT-AT
9150537 ATTTATTGCATGAT
1 ATTTATTGCATGAT
9150551 TGCCCGATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
57 50 0.76
58 1 0.02
59 15 0.23
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (58 bp):
ATTTATTGCATGATAAGCTTTTATATTATTGCATGATTTATTACATGATATGATTTAT
Found at i:9150510 original size:23 final size:22
Alignment explanation
Indices: 9150456--9150514 Score: 93
Period size: 22 Copynumber: 2.6 Consensus size: 22
9150446 TTATTGCATG
9150456 ATTTATTGCATGATATGATTTT
1 ATTTATTGCATGATATGATTTT
9150478 ATTTATTGCATGATAT-AGTTTT
1 ATTTATTGCATGATATGA-TTTT
9150500 ATATTATTGCATGAT
1 AT-TTATTGCATGAT
9150515 TTATTACATG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 1 0.03
22 22 0.63
23 12 0.34
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.53
Consensus pattern (22 bp):
ATTTATTGCATGATATGATTTT
Found at i:9150539 original size:35 final size:36
Alignment explanation
Indices: 9150478--9150551 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 36
9150468 ATATGATTTT
* *
9150478 ATTTATTGCATGATATAGTTTTATA-TTATTGCATG
1 ATTTATTACATGATATAGTTTAATATTTATTGCATG
*
9150513 ATTTATTACATGGTAT-GATTTAATATTTATTGCATG
1 ATTTATTACATGATATAG-TTTAATATTTATTGCATG
9150549 ATT
1 ATT
9150552 GCCCGATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 1 0.03
35 20 0.59
36 13 0.38
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (36 bp):
ATTTATTACATGATATAGTTTAATATTTATTGCATG
Found at i:9151360 original size:13 final size:13
Alignment explanation
Indices: 9151342--9151382 Score: 64
Period size: 13 Copynumber: 3.0 Consensus size: 13
9151332 GCTAAGAAAG
9151342 AAATTTTTTCTTT
1 AAATTTTTTCTTT
9151355 AAATTTTTTCACTTT
1 AAATTTTTT--CTTT
9151370 AAATTTTTTCTTT
1 AAATTTTTTCTTT
9151383 TGTGGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 13 0.50
15 13 0.50
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (13 bp):
AAATTTTTTCTTT
Found at i:9151369 original size:15 final size:14
Alignment explanation
Indices: 9151342--9151379 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
9151332 GCTAAGAAAG
9151342 AAATTTTTT-CTTT
1 AAATTTTTTCCTTT
9151355 AAATTTTTTCACTTT
1 AAATTTTTTC-CTTT
9151370 AAATTTTTTC
1 AAATTTTTTC
9151380 TTTTGTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.39
15 14 0.61
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (14 bp):
AAATTTTTTCCTTT
Found at i:9153307 original size:26 final size:26
Alignment explanation
Indices: 9153278--9153340 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
9153268 TTACATTAAA
9153278 TTTAGGGTTATAGGCTAGG-TTTAGGG
1 TTTA-GGTTATAGGCTAGGCTTTAGGG
* **
9153304 TTTAGGTTTTAGTTTAGGCTTTAGGG
1 TTTAGGTTATAGGCTAGGCTTTAGGG
9153330 -TTAGGTT-TAGG
1 TTTAGGTTATAGG
9153341 GTTTAAGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 3 0.09
25 18 0.56
26 11 0.34
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.44
Consensus pattern (26 bp):
TTTAGGTTATAGGCTAGGCTTTAGGG
Found at i:9153367 original size:38 final size:38
Alignment explanation
Indices: 9153277--9153393 Score: 123
Period size: 38 Copynumber: 3.0 Consensus size: 38
9153267 TTTACATTAA
*
9153277 ATTTAGGGTTATA-GGCTAGGTTTAGGGTTT-AGGTTTT
1 ATTTAGGGTT-TAGGGTTAGGTTTAGGGTTTAAGGTTTT
*
9153314 AGTTTAGGCTTTAGGGTTAGGTTTAGGGTTTAAGGTTTGT
1 A-TTTAGGGTTTAGGGTTAGGTTTAGGGTTTAAGGTTT-T
*
9153354 -TTTAGGGTTTAGGGTTTTAAGGTTTAGGTTTTTAAGGTTT
1 ATTTAGGGTTTAGGG--TT-AGGTTTAGG-GTTTAAGGTTT
9153394 AAGGTTTAGG
Statistics
Matches: 68, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
37 3 0.04
38 37 0.54
39 6 0.09
40 3 0.04
41 9 0.13
42 10 0.15
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (38 bp):
ATTTAGGGTTTAGGGTTAGGTTTAGGGTTTAAGGTTTT
Found at i:9153372 original size:15 final size:15
Alignment explanation
Indices: 9153297--9153462 Score: 89
Period size: 15 Copynumber: 11.3 Consensus size: 15
9153287 ATAGGCTAGG
9153297 TTTAGGGTTTA-GGT
1 TTTAGGGTTTAGGGT
*
9153311 TTTA--GTTTA-GGC
1 TTTAGGGTTTAGGGT
9153323 TTTAGGG-TTA-GG-
1 TTTAGGGTTTAGGGT
9153335 TTTAGGGTTTAAGGTTTGT
1 TTTAGGGTTT-AGG---GT
9153354 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
* *
9153369 TTTAAGGTTTAGGTT
1 TTTAGGGTTTAGGGT
* *
9153384 TTTAAGGTTTAAGG-
1 TTTAGGGTTTAGGGT
* *
9153398 TTTAGGATATTAAGGT
1 TTTAGGGT-TTAGGGT
* **
9153414 TTAAGATTTTAGGG-
1 TTTAGGGTTTAGGGT
* *
9153428 TTTAGAGTTTAGGAT
1 TTTAGGGTTTAGGGT
* **
9153443 TTCAAAGTTTAGGGT
1 TTTAGGGTTTAGGGT
9153458 TTTAG
1 TTTAG
9153463 AATTTTAGGG
Statistics
Matches: 121, Mismatches: 19, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
12 18 0.15
13 7 0.06
14 23 0.19
15 54 0.45
16 5 0.04
18 4 0.03
19 10 0.08
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:9153394 original size:22 final size:22
Alignment explanation
Indices: 9153369--9153418 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
9153359 GGTTTAGGGT
* *
9153369 TTTAAGGTTTAGGTTTTTAAGG
1 TTTAAGGTTTAGGATATTAAGG
9153391 TTTAAGGTTTAGGATATTAAGG
1 TTTAAGGTTTAGGATATTAAGG
9153413 TTTAAG
1 TTTAAG
9153419 ATTTTAGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (22 bp):
TTTAAGGTTTAGGATATTAAGG
Found at i:9153437 original size:22 final size:22
Alignment explanation
Indices: 9153353--9153476 Score: 67
Period size: 22 Copynumber: 5.5 Consensus size: 22
9153343 TTAAGGTTTG
*
9153353 TTTTAGGGTTTAGGGTTTTAAG-
1 TTTTAGGGTTTAGAG-TTTAAGA
* *
9153375 GTTTAGGTTTTTA-AGGTTTAAG-
1 TTTTAGG-GTTTAGA-GTTTAAGA
* *
9153397 GTTTAGGATATTA-AGGTTTAAGA
1 TTTTAGGGT-TTAGA-GTTTAAGA
*
9153420 TTTTAGGGTTTAGAGTTTAGGA
1 TTTTAGGGTTTAGAGTTTAAGA
* ** * *
9153442 TTTCAAAGTTTAGGGTTTTAGAA
1 TTTTAGGGTTTAGAGTTTAAG-A
9153465 TTTTAGGGTTTA
1 TTTTAGGGTTTA
9153477 AGGCAGACTT
Statistics
Matches: 80, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
21 1 0.01
22 56 0.70
23 23 0.29
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.47
Consensus pattern (22 bp):
TTTTAGGGTTTAGAGTTTAAGA
Found at i:9153462 original size:37 final size:36
Alignment explanation
Indices: 9153354--9153462 Score: 112
Period size: 37 Copynumber: 2.9 Consensus size: 36
9153344 TAAGGTTTGT
* * * *
9153354 TTTAGGGTTTAGGGTTTTAAGGTTTAGGTTTTTAAGG
1 TTTAGAGTTTA-GGATTTAAGGTTTAGGATTTTAGGG
*
9153391 TTTA-AGGTTTAGGATATTAAGGTTTAAGATTTTAGGG
1 TTTAGA-GTTTAGGAT-TTAAGGTTTAGGATTTTAGGG
* *
9153428 TTTAGAGTTTAGGATTTCAAAGTTTAGGGTTTTAG
1 TTTAGAGTTTAGGATTT-AAGGTTTAGGATTTTAG
9153463 AATTTTAGGG
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
36 5 0.08
37 54 0.90
38 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (36 bp):
TTTAGAGTTTAGGATTTAAGGTTTAGGATTTTAGGG
Found at i:9153476 original size:7 final size:7
Alignment explanation
Indices: 9153295--9153459 Score: 99
Period size: 7 Copynumber: 23.7 Consensus size: 7
9153285 TTATAGGCTA
9153295 GGTTTAG
1 GGTTTAG
9153302 GGTTTAG
1 GGTTTAG
*
9153309 GTTTTA-
1 GGTTTAG
9153315 -GTTTAG
1 GGTTTAG
*
9153321 GCTTTAG
1 GGTTTAG
9153328 GG-TTA-
1 GGTTTAG
9153333 GGTTTAG
1 GGTTTAG
*
9153340 GGTTTAA
1 GGTTTAG
9153347 GGTTT--
1 GGTTTAG
*
9153352 GTTTTAG
1 GGTTTAG
9153359 GGTTTAG
1 GGTTTAG
*
9153366 GGTTTTAA
1 GG-TTTAG
9153374 GGTTTAG
1 GGTTTAG
* *
9153381 GTTTTTAA
1 G-GTTTAG
*
9153389 GGTTTAA
1 GGTTTAG
9153396 GGTTTAG
1 GGTTTAG
* *
9153403 GATATTAA
1 GGT-TTAG
9153411 GGTTTAAG
1 GGTTT-AG
**
9153419 ATTTTAG
1 GGTTTAG
9153426 GGTTTAG
1 GGTTTAG
*
9153433 AGTTTAG
1 GGTTTAG
* *
9153440 GATTTCAA
1 GGTTT-AG
*
9153448 AGTTTAG
1 GGTTTAG
9153455 GGTTT
1 GGTTT
9153460 TAGAATTTTA
Statistics
Matches: 118, Mismatches: 29, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
5 10 0.08
6 6 0.05
7 78 0.66
8 24 0.20
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (7 bp):
GGTTTAG
Found at i:9155027 original size:143 final size:143
Alignment explanation
Indices: 9154752--9155216 Score: 465
Period size: 143 Copynumber: 3.2 Consensus size: 143
9154742 ATTTTCATGA
* * * * * * *
9154752 TTTTAATATACCAAAATTCAT-AAAGTTATATTTAATTATGATCTGGAGCCTTTCATAAAAAATC
1 TTTTAATACATCAAAATTCATGAAA-TAATATTTAAATATGATATGGAGCTTTTCATGAAAAATC
* * *
9154816 GACCTCGAAAAAGTTAAATTATGAAAATATCCTGAAA-GGTATTTTAGTAATTT-CATTCCATTT
65 GACCTCGAAAAAGTTAAATTATAAAAATAACCTTAAAGGGTATTTTAGTAATTTAC-TTCC-TTT
*
9154879 TAGGTGCAATCAAGAT
128 GAGGTGCAATCAAGAT
* ** * * * * *
9154895 CTGCACTAGATCAAAATTCATGAAATAATATTTAAATATGATTTGAAGCTTTTCGTGAAAAATCG
1 TTTTAATACATCAAAATTCATGAAATAATATTTAAATATGATATGGAGCTTTTCATGAAAAATCG
* * * *
9154960 ACCTCGAAAAAATCAAATTATAAAAATACCCTTAAAGGGCATTTTAGTAATTTACTT-CTTTGGA
66 ACCTCGAAAAAGTTAAATTATAAAAATAACCTTAAAGGGTATTTTAGTAATTTACTTCCTTT-GA
*
9155024 GGTGCCATCAAGAT
130 GGTGCAATCAAGAT
* * * * * * * *
9155038 TTTTAATACATCAAAATTCGTGAAATGATATTCAAACATGACATGGAGTTTTTCACGACAAA-CT
1 TTTTAATACATCAAAATTCATGAAATAATATTTAAATATGATATGGAGCTTTTCATGAAAAATC-
* * * * *
9155102 GACTTCGAAAAGGTTAAATTACAAAAAAAAACTTAAAGGGTATTTTAGTAATTTTA-TTCCTTTT
65 GACCTCGAAAAAGTTAAATTATAAAAATAACCTTAAAGGGTATTTTAGTAA-TTTACTTCC-TTT
* *
9155166 GAGGTACAATTAAGAT
128 GAGGTGCAATCAAGAT
*
9155182 TTTTAATACATCAAAATTTATGAAATAATATTTAA
1 TTTTAATACATCAAAATTCATGAAATAATATTTAA
9155217 GCATGATCTA
Statistics
Matches: 261, Mismatches: 53, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
142 4 0.02
143 184 0.70
144 69 0.26
145 4 0.02
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (143 bp):
TTTTAATACATCAAAATTCATGAAATAATATTTAAATATGATATGGAGCTTTTCATGAAAAATCG
ACCTCGAAAAAGTTAAATTATAAAAATAACCTTAAAGGGTATTTTAGTAATTTACTTCCTTTGAG
GTGCAATCAAGAT
Found at i:9155222 original size:144 final size:142
Alignment explanation
Indices: 9154752--9155272 Score: 417
Period size: 143 Copynumber: 3.6 Consensus size: 142
9154742 ATTTTCATGA
* * * ** ** *
9154752 TTTTAATATACCAAAATTCAT-AAAGTTATATTTAATTATGATCTGGAGCCTTTCATA-AAAAAT
1 TTTTAATACATCAAAATTCATGAAA-TAATATTTAAACATGA-CTGGAGTTTTTCA-AGAAAACT
* * ** * ** * *
9154815 CGACCTCGAAAAAGTTAAATTATGAAAATATCCTGAAA-GGTATTTTAGTAATTTCATTCCATTT
63 -GACCTCGAAAAAATCAAATTACAAAAAAAAACTTAAAGGGTATTTTAGTAATTTTATTCC-TTT
9154879 T-AGGTGCAATCAAGAT
126 TGAGGTGCAATCAAGAT
* ** * * * * * * ** *
9154895 CTGCACTAGATCAAAATTCATGAAATAATATTTAAATATGATTTGAAGCTTTTCGTGAAAAATCG
1 TTTTAATACATCAAAATTCATGAAATAATATTTAAACATGA-CTGGAGTTTTTCAAGAAAACT-G
* * ** * *
9154960 ACCTCGAAAAAATCAAATTATAAAAATACCCTTAAAGGGCATTTTAGTAA-TTTACTT-CTTTGG
64 ACCTCGAAAAAATCAAATTACAAAAAAAAACTTAAAGGGTATTTTAGTAATTTTA-TTCCTTTTG
*
9155023 AGGTGCCATCAAGAT
128 AGGTGCAATCAAGAT
* * * *
9155038 TTTTAATACATCAAAATTCGTGAAATGATATTCAAACATGACATGGAGTTTTTCACGACAAACTG
1 TTTTAATACATCAAAATTCATGAAATAATATTTAAACATGAC-TGGAGTTTTTCAAGA-AAACTG
* ** *
9155103 ACTTCGAAAAGGTTAAATTACAAAAAAAAACTTAAAGGGTATTTTAGTAATTTTATTCCTTTTGA
64 ACCTCGAAAAAATCAAATTACAAAAAAAAACTTAAAGGGTATTTTAGTAATTTTATTCCTTTTGA
* *
9155168 GGTACAATTAAGAT
129 GGTGCAATCAAGAT
* * *
9155182 TTTTAATACATCAAAATTTATGAAATAATATTTAAGCATGATCTAGAGTTTTTGCAAGAAAACTG
1 TTTTAATACATCAAAATTCATGAAATAATATTTAAACATGA-CTGGAGTTTTT-CAAGAAAACTG
* *
9155247 ACCT-AAAAAAACTCAAATAACAAAAA
64 ACCTCGAAAAAA-TCAAATTACAAAAA
9155273 TGCTGCTAAA
Statistics
Matches: 303, Mismatches: 63, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
142 3 0.01
143 187 0.62
144 108 0.36
145 5 0.02
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (142 bp):
TTTTAATACATCAAAATTCATGAAATAATATTTAAACATGACTGGAGTTTTTCAAGAAAACTGAC
CTCGAAAAAATCAAATTACAAAAAAAAACTTAAAGGGTATTTTAGTAATTTTATTCCTTTTGAGG
TGCAATCAAGAT
Found at i:9155283 original size:144 final size:141
Alignment explanation
Indices: 9154853--9155300 Score: 377
Period size: 144 Copynumber: 3.1 Consensus size: 141
9154843 TATCCTGAAA
* * ** * *
9154853 GGTATTTTAGTAATTTCATTCCATTTT-AGGTGCAATCAAGATCTGCACTAGATCAAAATTCATG
1 GGTATTTTAGTAATTTTATTCC-TTTTGAGGTGCAATCAAGATTTTTAATACATCAAAATTCATG
* * * ** * * * *
9154917 AAATAATATTTAAATATGAT-TTGAAGCTTTTCGTGAAAAATCGACCTCGAAAAAATCAAATTAT
65 AAATAATATTTAAACATGATCTAG-AGTTTTTCAAGAAAACT-GACCT-AAAAAAATCAAATAAA
*
9154981 AAAAATACCCTTAAAG
127 AAAAATACTC-TAAAG
* * * *
9154997 GGCATTTTAGTAA-TTTACTT-CTTTGGAGGTGCCATCAAGATTTTTAATACATCAAAATTCGTG
1 GGTATTTTAGTAATTTTA-TTCCTTTTGAGGTGCAATCAAGATTTTTAATACATCAAAATTCATG
* * * * * * ** *
9155060 AAATGATATTCAAACATGA-CATGGAGTTTTTCACGACAAACTGACTTCGAAAAGGTTAAATTAC
65 AAATAATATTTAAACATGATC-TAGAGTTTTTCAAGA-AAACTGACCT-AAAAAAATCAAA-TA-
*
9155124 AAAAAAAAACT-TAAAG
125 AAAAAAATACTCTAAAG
* * *
9155140 GGTATTTTAGTAATTTTATTCCTTTTGAGGTACAATTAAGATTTTTAATACATCAAAATTTATGA
1 GGTATTTTAGTAATTTTATTCCTTTTGAGGTGCAATCAAGATTTTTAATACATCAAAATTCATGA
* *
9155205 AATAATATTTAAGCATGATCTAGAGTTTTTGCAAGAAAACTGACCTAAAAAAACTCAAATAACAA
66 AATAATATTTAAACATGATCTAGAGTTTTT-CAAGAAAACTGACCTAAAAAAA-TCAAATAAAAA
*
9155270 AAATGCTGCTAAAG
129 AAATACT-CTAAAG
* *
9155284 GGTTTTTTTTGTAATTT
1 GG-TATTTTAGTAATTT
9155301 CTCTCATCTT
Statistics
Matches: 241, Mismatches: 48, Indels: 29
0.76 0.15 0.09
Matches are distributed among these distances:
142 11 0.05
143 98 0.41
144 107 0.44
145 25 0.10
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (141 bp):
GGTATTTTAGTAATTTTATTCCTTTTGAGGTGCAATCAAGATTTTTAATACATCAAAATTCATGA
AATAATATTTAAACATGATCTAGAGTTTTTCAAGAAAACTGACCTAAAAAAATCAAATAAAAAAA
ATACTCTAAAG
Found at i:9157895 original size:29 final size:28
Alignment explanation
Indices: 9157863--9157920 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
9157853 TAATGATATA
*
9157863 TTTAATATGATATTTAAATTTTAAAATTT
1 TTTAATATGATATTTAAA-TTAAAAATTT
* *
9157892 TTTAATTTGATATTTGAATTAAAAATTT
1 TTTAATATGATATTTAAATTAAAAATTT
9157920 T
1 T
9157921 ATATTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (28 bp):
TTTAATATGATATTTAAATTAAAAATTT
Found at i:9161258 original size:17 final size:18
Alignment explanation
Indices: 9161216--9161268 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
9161206 TGTAAAATAT
*
9161216 TTAATAAATAATAAATCAC
1 TTAATAAA-AATAAATAAC
9161235 TTAATAAAAATAAATAAC
1 TTAATAAAAATAAATAAC
*
9161253 -TAATAAAAATTAATAA
1 TTAATAAAAATAAATAA
9161269 AATAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 15 0.47
18 9 0.28
19 8 0.25
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAATAAAAATAAATAAC
Found at i:9161276 original size:27 final size:28
Alignment explanation
Indices: 9161235--9161345 Score: 99
Period size: 27 Copynumber: 4.0 Consensus size: 28
9161225 AATAAATCAC
*
9161235 TTAATAAAAATAAATAAC-TAATAAAAA
1 TTAATAAAAATAAATAACAAAATAAAAA
9161262 TTAAT-AAAATAAAATAACAAAATAAAAA
1 TTAATAAAAAT-AAATAACAAAATAAAAA
*
9161290 --AACTAAAAATAAA-AACAAAAATCAAAA
1 TTAA-TAAAAATAAATAAC-AAAATAAAAA
* *
9161317 TGTAAAAAAAATAAA-ATCAAAATAGAAAA
1 T-TAATAAAAATAAATAACAAAATA-AAAA
9161346 AGAAAAACCT
Statistics
Matches: 70, Mismatches: 5, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
26 10 0.14
27 25 0.36
28 18 0.26
29 15 0.21
30 2 0.03
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (28 bp):
TTAATAAAAATAAATAACAAAATAAAAA
Found at i:9161285 original size:13 final size:14
Alignment explanation
Indices: 9161241--9161303 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 14
9161231 TCACTTAATA
9161241 AAAAT-AAATAACT
1 AAAATAAAATAACT
*
9161254 AATAA-AAATTAA-T
1 AA-AATAAAATAACT
9161267 AAAATAAAATAAC-
1 AAAATAAAATAACT
*
9161280 AAAATAAAAAAACT
1 AAAATAAAATAACT
9161294 AAAAATAAAA
1 -AAAATAAAA
9161304 ACAAAAATCA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
12 2 0.05
13 23 0.56
14 7 0.17
15 9 0.22
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAACT
Found at i:9161298 original size:15 final size:13
Alignment explanation
Indices: 9161267--9161309 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
9161257 AAAAATTAAT
*
9161267 AAAATAAAATAAC
1 AAAATAAAAAAAC
9161280 AAAATAAAAAAAC
1 AAAATAAAAAAAC
*
9161293 TAAAA-ATAAAAAC
1 -AAAATAAAAAAAC
9161306 AAAA
1 AAAA
9161310 ATCAAAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 4 0.15
13 19 0.70
14 4 0.15
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAAAC
Found at i:9161298 original size:28 final size:27
Alignment explanation
Indices: 9161236--9161303 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
9161226 ATAAATCACT
*
9161236 TAATAAAAAT-AAATAACTAATAAAAA
1 TAATAAAAATAAAATAACAAATAAAAA
9161262 TTAAT-AAAATAAAATAACAAAATAAAAA
1 -TAATAAAAATAAAATAAC-AAATAAAAA
9161290 -AACTAAAAATAAAA
1 TAA-TAAAAATAAAA
9161304 ACAAAAATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 7 0.19
27 12 0.33
28 17 0.47
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (27 bp):
TAATAAAAATAAAATAACAAATAAAAA
Found at i:9161351 original size:28 final size:27
Alignment explanation
Indices: 9161267--9161352 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 27
9161257 AAAAATTAAT
**
9161267 AAAATAAAATAACAAAATAAAAAA-ACTA
1 AAAATAAAAT--CAAAATAAAAAAGAAAA
* * *
9161295 AAAATAAAAACAAAAATCAAAATGTAAAA
1 AAAATAAAATC-AAAATAAAAAAG-AAAA
9161324 AAAATAAAATCAAAATAGAAAAAGAAAA
1 AAAATAAAATCAAAATA-AAAAAGAAAA
9161352 A
1 A
9161353 CCTGCGATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
26 1 0.02
27 9 0.20
28 19 0.41
29 17 0.37
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.13
Consensus pattern (27 bp):
AAAATAAAATCAAAATAAAAAAGAAAA
Found at i:9162159 original size:3 final size:3
Alignment explanation
Indices: 9162153--9162403 Score: 154
Period size: 3 Copynumber: 87.0 Consensus size: 3
9162143 GAGATGATGG
*
9162153 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9162201 T-A TAA TAA TAA -ATA TAA TAA TAA AAA T-A TAA TAA TAA TAC TAG
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
9162244 TAA -AC T-A CAA TAA TAA TAA TAA TAA TATA CAA T-A TAA T-A TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * *
9162286 T-A TAC TATA TAA T-A TAA T-A TAA TAA TAC TAA TAG TAA TAC TACA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
** * * * * * * *
9162330 CCA TAC TAA TAA TAA T-A TCA TAC T-A TCA TAA T-A TTA TAC T-A TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
9162374 TAC T-A TAA TAA TAA TAA TAA TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
9162404 CATACCATAC
Statistics
Matches: 190, Mismatches: 38, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
2 21 0.11
3 161 0.85
4 8 0.04
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9162255 original size:22 final size:22
Alignment explanation
Indices: 9162160--9162403 Score: 124
Period size: 23 Copynumber: 11.2 Consensus size: 22
9162150 TGGTAATAAT
*
9162160 AATAATAATAATAATAATA-AT
1 AATAATAATAATAATAATATAC
*
9162181 AATAATAATAATAATAATAGTAT
1 AATAATAATAATAATAATA-TAC
* *
9162204 AATAATAA-ATATAATAATAAAA
1 AATAATAATA-ATAATAATATAC
9162226 ATATAATAATAATACTAGTAA-ACTAC
1 A-ATAATAATAATA--A-TAATA-TAC
9162252 AATAATAATAATAATAATATAC
1 AATAATAATAATAATAATATAC
*
9162274 AAT-ATAAT-ATACT-ATACTA-
1 AATAATAATAATAATAATA-TAC
*
9162293 TATAAT-ATAAT-ATAATAATAC
1 AATAATAATAATAATAAT-ATAC
* * *
9162314 --TAATAGTAATACTACACCATAC
1 AATAATAATAATAATA-A-TATAC
* *
9162336 TAATAATAAT-ATCATACTAT-C
1 -AATAATAATAATAATAATATAC
* *
9162357 -ATAAT-ATTATACT-ATACTAC
1 AATAATAATAATAATAATA-TAC
* *
9162377 TATAATAATAATAATAATATAT
1 AATAATAATAATAATAATATAC
9162399 AATAA
1 AATAA
9162404 CATACCATAC
Statistics
Matches: 172, Mismatches: 22, Indels: 57
0.69 0.09 0.23
Matches are distributed among these distances:
18 4 0.02
19 21 0.12
20 19 0.11
21 33 0.19
22 31 0.18
23 34 0.20
24 5 0.03
25 20 0.12
26 5 0.03
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.34
Consensus pattern (22 bp):
AATAATAATAATAATAATATAC
Found at i:9162362 original size:16 final size:16
Alignment explanation
Indices: 9162331--9162396 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
9162321 AATACTACAC
9162331 CATACTAATAATAATAT
1 CATACT-ATAATAATAT
*
9162348 CATACTATCATAATAT
1 CATACTATAATAATAT
* * *
9162364 TATACTATACTACTAT
1 CATACTATAATAATAT
* *
9162380 AATAATAATAATAATAT
1 CATACT-ATAATAATAT
9162397 ATAATAACAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
16 25 0.64
17 14 0.36
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (16 bp):
CATACTATAATAATAT
Found at i:9162946 original size:56 final size:56
Alignment explanation
Indices: 9162818--9162948 Score: 154
Period size: 56 Copynumber: 2.3 Consensus size: 56
9162808 CGAGCAACTA
* * * * * *
9162818 GGATTGAACTATAAGTCTGGAGAATTGACCTGGATCAAGTCAAGGTCAAATGACCG
1 GGATTGAACCATAAGTTTGGAAAACTAACCTGGATCAAGTCAAGGTCAAATAACCG
* * * * **
9162874 AGATTGAACCATAAGTTTGGAAAACTAACTTGGATCAATTTAAGGTCAAATAATTG
1 GGATTGAACCATAAGTTTGGAAAACTAACCTGGATCAAGTCAAGGTCAAATAACCG
9162930 GGATTGAACCATAAGTTTG
1 GGATTGAACCATAAGTTTG
9162949 AAACATTGAC
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (56 bp):
GGATTGAACCATAAGTTTGGAAAACTAACCTGGATCAAGTCAAGGTCAAATAACCG
Found at i:9177668 original size:42 final size:42
Alignment explanation
Indices: 9177615--9177697 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
9177605 ATAACTAATA
*
9177615 AAAATCAATAAAAAACTAAAAATC-AAAAGAAAATCAAAATGT
1 AAAATAAATAAAAAAC-AAAAATCAAAAAGAAAATCAAAATGT
* *
9177657 AAAATAAATAAAAAACCAAAATCAGAAAATAAAATCAAAAT
1 AAAATAAATAAAAAACAAAAATCA-AAAAGAAAATCAAAAT
9177698 AAAAAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 6 0.17
42 15 0.42
43 15 0.42
ACGTcount: A:0.71, C:0.10, G:0.04, T:0.16
Consensus pattern (42 bp):
AAAATAAATAAAAAACAAAAATCAAAAAGAAAATCAAAATGT
Found at i:9177695 original size:19 final size:19
Alignment explanation
Indices: 9177668--9177711 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9177658 AAATAAATAA
* * * *
9177668 AAAACCAAAATCAGAAAAT
1 AAAATCAAAATAAAAAAAG
9177687 AAAATCAAAATAAAAAAAG
1 AAAATCAAAATAAAAAAAG
9177706 AAAATC
1 AAAATC
9177712 TACAATTCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.73, C:0.11, G:0.05, T:0.11
Consensus pattern (19 bp):
AAAATCAAAATAAAAAAAG
Found at i:9177993 original size:12 final size:12
Alignment explanation
Indices: 9177976--9178000 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9177966 AATTTAAACT
9177976 TCCATAGAAAAA
1 TCCATAGAAAAA
9177988 TCCATAGAAAAA
1 TCCATAGAAAAA
9178000 T
1 T
9178001 TCAAATGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (12 bp):
TCCATAGAAAAA
Found at i:9178574 original size:22 final size:22
Alignment explanation
Indices: 9178549--9178686 Score: 80
Period size: 22 Copynumber: 6.4 Consensus size: 22
9178539 AATAATATAC
9178549 AATATAATATACTATACTACAT
1 AATATAATATACTATACTACAT
*
9178571 AATATAATATA--ATAATAC-T
1 AATATAATATACTATACTACAT
*
9178590 AATAGT-A-ATACTACAC--CAT
1 AATA-TAATATACTATACTACAT
* *
9178609 ACTAATAATAATACCATACTATCAT
1 AAT-ATAAT-ATACTATACTA-CAT
9178634 AATAT--TATACTATACTACTAT
1 AATATAATATACTATACTAC-AT
*
9178655 AATAATAATAATA-TATAATAACAT
1 AAT-ATAAT-ATACTATACT-ACAT
*
9178679 ACTATAAT
1 AATATAAT
9178687 GACAAAGAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 33
0.67 0.08 0.25
Matches are distributed among these distances:
18 4 0.04
19 10 0.11
20 12 0.13
21 15 0.17
22 21 0.24
23 5 0.06
24 12 0.13
25 10 0.11
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (22 bp):
AATATAATATACTATACTACAT
Found at i:9178619 original size:3 final size:3
Alignment explanation
Indices: 9178501--9178599 Score: 59
Period size: 3 Copynumber: 34.0 Consensus size: 3
9178491 AAACACAGAG
*
9178501 ATA A-A ATA ATA ATA ATA ATA ATA ATA GACT- ACA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA
* * *
9178546 TACA AT- ATA AT- ATA CT- ATA CTA CATA AT- ATA AT- ATA ATA ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* *
9178588 CTA ATA GTA ATA
1 ATA ATA ATA ATA
9178600 CTACACCATA
Statistics
Matches: 73, Mismatches: 12, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
2 11 0.15
3 56 0.77
4 5 0.07
5 1 0.01
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9178673 original size:16 final size:16
Alignment explanation
Indices: 9178501--9178675 Score: 67
Period size: 16 Copynumber: 10.4 Consensus size: 16
9178491 AAACACAGAG
9178501 ATAA-AATAATAATA-
1 ATAATAATAATAATAT
*
9178515 ATAATAATAATAGA-CT
1 ATAATAATAATA-ATAT
*
9178531 ACAATAATAATAATAT
1 ATAATAATAATAATAT
*
9178547 ACAAT-ATAAT-ATACT
1 ATAATAATAATAATA-T
*
9178562 ATACTACATAAT-ATAAT
1 ATAATA-ATAATAAT-AT
*
9178579 ATAATAATACTAATA-
1 ATAATAATAATAATAT
* * **
9178594 GTAATACTACACCATACT
1 ATAATAATA-ATAATA-T
*
9178612 AATAATAATACCATACTAT
1 -ATAATAATA--ATAATAT
*
9178631 CATAATATTATACTATACTACT
1 -ATAATA--ATA--ATAATA-T
9178653 ATAATAATAATAATAT
1 ATAATAATAATAATAT
9178669 ATAATAA
1 ATAATAA
9178676 CATACTATAA
Statistics
Matches: 124, Mismatches: 20, Indels: 32
0.70 0.11 0.18
Matches are distributed among these distances:
14 7 0.06
15 24 0.19
16 34 0.27
17 20 0.16
18 1 0.01
19 17 0.14
20 4 0.03
21 16 0.13
22 1 0.01
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.33
Consensus pattern (16 bp):
ATAATAATAATAATAT
Found at i:9180383 original size:33 final size:35
Alignment explanation
Indices: 9180309--9180376 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
9180299 AAAAAATTAA
*
9180309 TAAAGTCTCTCAATAGTTTGGTAAGACTTATTTTAAAG
1 TAAAGTCTCTCAATAGTTTAGTAAG---TATTTTAAAG
9180347 TAAA-TCTCTCAATAGTTTAGTAAG-ATTTTA
1 TAAAGTCTCTCAATAGTTTAGTAAGTATTTTA
9180377 TCGTAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 6 0.21
37 19 0.66
38 4 0.14
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (35 bp):
TAAAGTCTCTCAATAGTTTAGTAAGTATTTTAAAG
Found at i:9182358 original size:86 final size:85
Alignment explanation
Indices: 9182242--9182562 Score: 356
Period size: 86 Copynumber: 3.7 Consensus size: 85
9182232 AAGGTTTTCG
* * * **
9182242 GATTCGCAAGAAAAAAAGATTCGTAAGATTTCAAGTTTCGTAAAAGTCCTAGATTCATAAAGGTT
1 GATTCGCAAGAAAAAAAGATTCGCAAGATTTCAAGTTTCATAAAAGTTCTAGATTCGCAAAGGTT
*
9182307 TGAGGTTCGCAAGGACTTTTA
66 TCAGGTTCGCAA-GACTTTTA
* ** *
9182328 GATTCGTAAGAATGAAAGATTCGCAAGATTTCAAGTTTCATAAAAGTTCTAGATTTGCAAAGGTT
1 GATTCGCAAGAAAAAAAGATTCGCAAGATTTCAAGTTTCATAAAAGTTCTAGATTCGCAAAGGTT
*
9182393 TCAGGTTTGCAAGAGCTTTTA
66 TCAGGTTCGCAAGA-CTTTTA
* * * * *
9182414 AATTCGCAAGAAAAAAAGATTCGCAA-AGGTTCTAAGTTTCATAAAGGTTCTAGGTTCGCAAAGA
1 GATTCGCAAGAAAAAAAGATTCGCAAGA-TTTC-AAGTTTCATAAAAGTTCTAGATTCGCAAAGG
* **
9182478 TTTTAGGTTCAAAAAGACTTTTA
64 TTTCAGGTTC-GCAAGACTTTTA
* * * * * * *
9182501 GATTCGTAAGAAAGAAAGATTCACAAGATTTCAAGTTTCACAAAGGTTTTAGATTCACAAAG
1 GATTCGCAAGAAAAAAAGATTCGCAAGATTTCAAGTTTCATAAAAGTTCTAGATTCGCAAAG
9182563 ATGCAAGGAC
Statistics
Matches: 197, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
85 3 0.02
86 123 0.62
87 66 0.34
88 5 0.03
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (85 bp):
GATTCGCAAGAAAAAAAGATTCGCAAGATTTCAAGTTTCATAAAAGTTCTAGATTCGCAAAGGTT
TCAGGTTCGCAAGACTTTTA
Found at i:9182484 original size:17 final size:18
Alignment explanation
Indices: 9182464--9182506 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9182454 ATAAAGGTTC
*
9182464 TAGGTTCGCAAAGA-TTT
1 TAGGTTCGAAAAGACTTT
*
9182481 TAGGTTCAAAAAGACTTT
1 TAGGTTCGAAAAGACTTT
*
9182499 TAGATTCG
1 TAGGTTCG
9182507 TAAGAAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (18 bp):
TAGGTTCGAAAAGACTTT
Found at i:9182520 original size:173 final size:172
Alignment explanation
Indices: 9182243--9182555 Score: 439
Period size: 173 Copynumber: 1.8 Consensus size: 172
9182233 AGGTTTTCGG
* * * *
9182243 ATTCGCAAGAAAAAAAGATTCGTAAGATTTCAAGTTTCGTAAAAGTCCTAGATTCATAAAGGTTT
1 ATTCGCAAGAAAAAAAGATTCGAAAGATTTCAAGTTTCATAAAAGTCCTAGATTCACAAAGATTT
** * * * *
9182308 GAGGTTCGCAAGGACTTTTAGATTCGTAAGAATGAAAGATTCGCAAGATTTCAAGTTTCATAAAA
66 GAGGTTCAAAAAGACTTTTAGATTCGTAAGAAAGAAAGATTCACAAGATTTCAAGTTTCACAAAA
9182373 GTTCTAGATTTGCAAAGGTTTCAGGTTTGCAAGAGCTTTTAA
131 GTTCTAGATTTGCAAAGGTTTCAGGTTTGCAAGAGCTTTTAA
* * * * *
9182415 ATTCGCAAGAAAAAAAGATTCGCAAAG-GTTCTAAGTTTCATAAAGGTTCTAGGTTCGCAAAGAT
1 ATTCGCAAGAAAAAAAGATTCG-AAAGATTTC-AAGTTTCATAAAAGTCCTAGATTCACAAAGAT
*
9182479 TTTAGGTTCAAAAAGACTTTTAGATTCGTAAGAAAGAAAGATTCACAAGATTTCAAGTTTCACAA
64 TTGAGGTTCAAAAAGACTTTTAGATTCGTAAGAAAGAAAGATTCACAAGATTTCAAGTTTCACAA
* *
9182544 AGGTTTTAGATT
129 AAGTTCTAGATT
9182556 CACAAAGATG
Statistics
Matches: 121, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
172 25 0.21
173 96 0.79
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (172 bp):
ATTCGCAAGAAAAAAAGATTCGAAAGATTTCAAGTTTCATAAAAGTCCTAGATTCACAAAGATTT
GAGGTTCAAAAAGACTTTTAGATTCGTAAGAAAGAAAGATTCACAAGATTTCAAGTTTCACAAAA
GTTCTAGATTTGCAAAGGTTTCAGGTTTGCAAGAGCTTTTAA
Found at i:9182710 original size:78 final size:78
Alignment explanation
Indices: 9182524--9182717 Score: 241
Period size: 77 Copynumber: 2.5 Consensus size: 78
9182514 GAAAGATTCA
* * * * *
9182524 CAAGATTTCAAGTTTCACAAAGGTTTTAGATTCACAAAGATGCAAGGACTTTCAAATTCACAAGA
1 CAAGATTTTAAGTTTCACAAAGGTTCTAGATTCATAAAAATGCAAGGACTTTCAAATTCACAAAA
9182589 ATGAAAAATTCGT
66 ATGAAAAATTCGT
* * * *
9182602 -AAGATTTTAAGGTTCATAAAGGTTCTAGATTCGTAAAAATGCAAGGACTTTCAGATTCACAAAA
1 CAAGATTTTAAGTTTCACAAAGGTTCTAGATTCATAAAAATGCAAGGACTTTCAAATTCAC-AAA
*
9182666 AAT-AAAATATT-TT
65 AATGAAAA-ATTCGT
* *
9182679 CAAGATTTTAAGTTTCGCAGAGGTTCTAGATTCATAAAA
1 CAAGATTTTAAGTTTCACAAAGGTTCTAGATTCATAAAA
9182718 GTTTTATAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
77 57 0.58
78 41 0.42
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (78 bp):
CAAGATTTTAAGTTTCACAAAGGTTCTAGATTCATAAAAATGCAAGGACTTTCAAATTCACAAAA
ATGAAAAATTCGT
Found at i:9184020 original size:496 final size:496
Alignment explanation
Indices: 9183082--9184074 Score: 1752
Period size: 496 Copynumber: 2.0 Consensus size: 496
9183072 AAACATAATG
*
9183082 TATGTAATGCTAATGTCATGAAATTTCAATTATGGTAATAAAGTTCTTAAGACTCCATCAATCCT
1 TATGGAATGCTAATGTCATGAAATTTCAATTATGGTAATAAAGTTCTTAAGACTCCATCAATCCT
*
9183147 TTTTAGCTTTTCATTATTAATAATCTCAGAGCAAACTTCATCAGATGATCCATATCATTCTTTTT
66 TTTTAGCTTTTCATTATTAATAATCTCAAAGCAAACTTCATCAGATGATCCATATCATTCTTTTT
*
9183212 ATCTGATCATAATTCACAGGTCATGTTAACCAATATATTACAAGATTCATCATTGGGTCACCTTA
131 ATCTAATCATAATTCACAGGTCATGTTAACCAATATATTACAAGATTCATCATTGGGTCACCTTA
* *
9183277 TTTACTCCCTTGTAAATCATTTTCTCATACTTTTTTCATTTATCTGATCTTAGATTTCTTTTAGA
196 TTTACTCCCTTGTAAATCACTTTCTCATACTTTTTTCATTTATCTGATCTTAGATTTCTTTCAGA
* *
9183342 AGAATGGAAAACTCTTTAATGACAAATGTCATTCATTTATTTGCTATCATTCAAATTAGTGACAG
261 AAAATGGAAAACTCTTTAATGACAAATGTCATTCATTTATTTGCTATCATTCAAATCAGTGACAG
* *
9183407 ACATGATACATTTCTTTGGTTCATTCAAAGAATGTTCATTTAGTAAAAAATAAGAAAAATGGGTT
326 ACATGATACATTTCTTTGGTTCATTCAAAGAATGTTCATTTAGTAAAAAATAAAAAAAATGGGTC
* * *
9183472 TTTATTATTGAAAGAACAAAATGTATGGTCAAGAACAACTCAAGAATAAATAAAGGCAAAATGTT
391 TTTATTATTGAAAGAACAAAAGGTAGGGTCAAGAACAACTCAAGAATAAATAAAGGCAAAATGCT
9183537 GTGATTTATTCAAATAGGATATTAACATCCAAAATAACAAT
456 GTGATTTATTCAAATAGGATATTAACATCCAAAATAACAAT
* * *
9183578 TATGGAATGCTAATGTCATGAAATTTCAATTATGGTAATAAAGTTCTTAAGACTCTATCAGTCTT
1 TATGGAATGCTAATGTCATGAAATTTCAATTATGGTAATAAAGTTCTTAAGACTCCATCAATCCT
**
9183643 TTTTAGCTTTTCATTATTAATAATCTCAAAGCAAACTTTGTCAGATGATCCATATCATTCTTTTT
66 TTTTAGCTTTTCATTATTAATAATCTCAAAGCAAACTTCATCAGATGATCCATATCATTCTTTTT
*
9183708 ATCTAATCATAATTCACAGGTCATGTTAACCAATCTATTACAAGATTCATCATTGGGTCACCTTA
131 ATCTAATCATAATTCACAGGTCATGTTAACCAATATATTACAAGATTCATCATTGGGTCACCTTA
* *
9183773 TTTGCTCCCTTGTAAATCACTTTCTTATACTTTTTTCATTTATCTGATCTTAGATTTCTTTCAGA
196 TTTACTCCCTTGTAAATCACTTTCTCATACTTTTTTCATTTATCTGATCTTAGATTTCTTTCAGA
* * *
9183838 AAAATGGAGAACTCTTTAATGACAAATGTCATTCATTTATTTGTTATCATTTAAATCAGTGACAG
261 AAAATGGAAAACTCTTTAATGACAAATGTCATTCATTTATTTGCTATCATTCAAATCAGTGACAG
* *
9183903 ACATGATACATTTTTTTGGTTCATTCAAAGAATGTTCATTTAGTAAAGAATAAAAAAAATGGGTC
326 ACATGATACATTTCTTTGGTTCATTCAAAGAATGTTCATTTAGTAAAAAATAAAAAAAATGGGTC
*
9183968 TTTATTATTGAAAGAACAAAAGGTAGGGTCAATAACAACTCAAGAATAAATAAAGGCAAAATGCT
391 TTTATTATTGAAAGAACAAAAGGTAGGGTCAAGAACAACTCAAGAATAAATAAAGGCAAAATGCT
9184033 GTGATTTATTCAAATAGGATATTAACATCCAAAATAACAAT
456 GTGATTTATTCAAATAGGATATTAACATCCAAAATAACAAT
9184074 T
1 T
9184075 GTTCAGACAA
Statistics
Matches: 471, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
496 471 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (496 bp):
TATGGAATGCTAATGTCATGAAATTTCAATTATGGTAATAAAGTTCTTAAGACTCCATCAATCCT
TTTTAGCTTTTCATTATTAATAATCTCAAAGCAAACTTCATCAGATGATCCATATCATTCTTTTT
ATCTAATCATAATTCACAGGTCATGTTAACCAATATATTACAAGATTCATCATTGGGTCACCTTA
TTTACTCCCTTGTAAATCACTTTCTCATACTTTTTTCATTTATCTGATCTTAGATTTCTTTCAGA
AAAATGGAAAACTCTTTAATGACAAATGTCATTCATTTATTTGCTATCATTCAAATCAGTGACAG
ACATGATACATTTCTTTGGTTCATTCAAAGAATGTTCATTTAGTAAAAAATAAAAAAAATGGGTC
TTTATTATTGAAAGAACAAAAGGTAGGGTCAAGAACAACTCAAGAATAAATAAAGGCAAAATGCT
GTGATTTATTCAAATAGGATATTAACATCCAAAATAACAAT
Found at i:9184268 original size:16 final size:14
Alignment explanation
Indices: 9184240--9184329 Score: 61
Period size: 15 Copynumber: 6.7 Consensus size: 14
9184230 TTAAGTATTC
9184240 CTTTTTTTTTCTTG
1 CTTTTTTTTTCTTG
9184254 CTTTTGTTTTATCTT-
1 CTTTT-TTTT-TCTTG
* *
9184269 TTTTTTTTCTTCTTT
1 CTTTTTTT-TTCTTG
*
9184284 CTTTTTGCTTT-TTG
1 CTTTTT-TTTTCTTG
9184298 -TTTTTTTTT-TT-
1 CTTTTTTTTTCTTG
9184309 -TTTTTTTTT-TT-
1 CTTTTTTTTTCTTG
9184320 CTTTTTTTTT
1 CTTTTTTTTT
9184330 GGCACACTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
11 11 0.17
12 14 0.22
13 5 0.08
14 14 0.22
15 16 0.25
16 5 0.08
ACGTcount: A:0.01, C:0.10, G:0.04, T:0.84
Consensus pattern (14 bp):
CTTTTTTTTTCTTG
Found at i:9184269 original size:12 final size:11
Alignment explanation
Indices: 9184254--9184328 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 11
9184244 TTTTTTCTTG
9184254 CTTTTGTTTTAT
1 CTTTT-TTTTAT
*
9184266 CTTTTTTTTTT
1 CTTTTTTTTAT
*
9184277 CTTCTTTCTTTTT
1 CTT-TTT-TTTAT
9184290 GCTTTTTGTTT-T
1 -CTTTTT-TTTAT
9184302 -TTTTTTTT-T
1 CTTTTTTTTAT
9184311 -TTTTTTTT-T
1 CTTTTTTTTAT
9184320 CTTTTTTTT
1 CTTTTTTTT
9184329 TGGCACACTT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
9 13 0.23
10 13 0.23
11 8 0.14
12 9 0.16
13 11 0.19
14 3 0.05
ACGTcount: A:0.01, C:0.09, G:0.04, T:0.85
Consensus pattern (11 bp):
CTTTTTTTTAT
Found at i:9184275 original size:30 final size:31
Alignment explanation
Indices: 9184241--9184310 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
9184231 TAAGTATTCC
9184241 TTTTTTTTTCTTGC-TTTTG-TTTTATCTTTT
1 TTTTTTTTTCTTGCTTTTTGCTTTT-TCTTTT
* * *
9184271 TTTTTTCTTCTTTCTTTTTGCTTTTTGTTTT
1 TTTTTTTTTCTTGCTTTTTGCTTTTTCTTTT
9184302 TTTTTTTTT
1 TTTTTTTTT
9184311 TTTTTTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 12 0.35
31 18 0.53
32 4 0.12
ACGTcount: A:0.01, C:0.10, G:0.06, T:0.83
Consensus pattern (31 bp):
TTTTTTTTTCTTGCTTTTTGCTTTTTCTTTT
Found at i:9184282 original size:14 final size:14
Alignment explanation
Indices: 9184241--9184329 Score: 80
Period size: 14 Copynumber: 6.6 Consensus size: 14
9184231 TAAGTATTCC
9184241 TTTTTTTTTCTTGC-
1 TTTTTTTTTCTT-CT
* *
9184255 TTTTGTTTT-ATCT
1 TTTTTTTTTCTTCT
9184268 TTTTTTTTTCTTCT
1 TTTTTTTTTCTTCT
* *
9184282 TTCTTTTTGCTT-T
1 TTTTTTTTTCTTCT
9184295 TTGTTTTTTT-TT-T
1 TT-TTTTTTTCTTCT
*
9184308 TTTTTTTTTTTTCT
1 TTTTTTTTTCTTCT
9184322 TTTTTTTT
1 TTTTTTTT
9184330 GGCACACTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
12 8 0.13
13 19 0.31
14 35 0.56
ACGTcount: A:0.01, C:0.09, G:0.04, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTCTTCT
Found at i:9184342 original size:1 final size:1
Alignment explanation
Indices: 9184267--9184329 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
9184257 TTGTTTTATC
* * * ** * *
9184267 TTTTTTTTTTCTTCTTTCTTTTTGCTTTTTGTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9184330 GGCACACTTT
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (1 bp):
T
Found at i:9188115 original size:14 final size:14
Alignment explanation
Indices: 9188098--9188127 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9188088 ATTTGAAAAG
*
9188098 ATTTTTTTTTTTTT
1 ATTTTTATTTTTTT
9188112 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
9188126 AT
1 AT
9188128 GCCTATAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:9192945 original size:22 final size:26
Alignment explanation
Indices: 9192913--9192971 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
9192903 TTTAATACTA
9192913 AATATTTTTAATA-T-AAAAC-TA-TT
1 AATA-TTTTAATAGTAAAAACATATTT
*
9192936 ATTATTTTAATAGTAAAAACATATTT
1 AATATTTTAATAGTAAAAACATATTT
9192962 AATATTTTAA
1 AATATTTTAA
9192972 AAATTCATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 8 0.27
23 4 0.13
24 5 0.17
25 2 0.07
26 11 0.37
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
AATATTTTAATAGTAAAAACATATTT
Found at i:9193247 original size:24 final size:24
Alignment explanation
Indices: 9193188--9193247 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
9193178 AAATTTTTTT
*
9193188 ATATTTTTAATATTTCAATAACAA
1 ATATTTTTTATATTTCAATAACAA
* *
9193212 ATATTTTGTATATTT-AATAATAA
1 ATATTTTTTATATTTCAATAACAA
9193235 ATCATTTTTTATA
1 AT-ATTTTTTATA
9193248 GTTATGTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 9 0.29
24 22 0.71
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (24 bp):
ATATTTTTTATATTTCAATAACAA
Found at i:9195015 original size:2 final size:2
Alignment explanation
Indices: 9195008--9195040 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9194998 GTTAACTTTG
9195008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9195041 AAGAGGAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9195617 original size:45 final size:45
Alignment explanation
Indices: 9195553--9195643 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
9195543 TGACTGATTG
*
9195553 TTCATACCCTATATATTGCTTGTCCTATCCTAACCCTCAGTTGTC
1 TTCATACCCTATATATTGCTTGTCCTATCCTAACCCTCAATTGTC
*
9195598 TTCATACCCTATATATTGCTTGTCCTATCCTAGCCCTCAATTGTC
1 TTCATACCCTATATATTGCTTGTCCTATCCTAACCCTCAATTGTC
9195643 T
1 T
9195644 CTGTCTGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.20, C:0.31, G:0.09, T:0.41
Consensus pattern (45 bp):
TTCATACCCTATATATTGCTTGTCCTATCCTAACCCTCAATTGTC
Found at i:9197037 original size:10 final size:11
Alignment explanation
Indices: 9197012--9197036 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9197002 CTTTTCATAG
9197012 TTTTATTTAAT
1 TTTTATTTAAT
9197023 TTTTATTTAAT
1 TTTTATTTAAT
9197034 TTT
1 TTT
9197037 AGTTATTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATTTAAT
Found at i:9197770 original size:18 final size:18
Alignment explanation
Indices: 9197749--9197785 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9197739 TTTCATGAAA
* *
9197749 TAATTATATTTTTAATAT
1 TAATTACATTTTAAATAT
9197767 TAATTACATTTTAAATAT
1 TAATTACATTTTAAATAT
9197785 T
1 T
9197786 TTTTTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATTACATTTTAAATAT
Found at i:9197820 original size:24 final size:22
Alignment explanation
Indices: 9197791--9197869 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 22
9197781 ATATTTTTTT
9197791 TATTAAATTAATAC-TTTAAGTTAA
1 TATTAAA-TAATACATTT-A-TTAA
9197815 TATTAAATAATACATTTATTAA
1 TATTAAATAATACATTTATTAA
*
9197837 TA-T-AATAATATATTATTATTTAA
1 TATTAAATAATACA-T-TTA-TTAA
9197860 TATTAAATAA
1 TATTAAATAA
9197870 ATAATAAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
20 8 0.17
21 2 0.04
22 9 0.19
23 13 0.27
24 11 0.23
25 5 0.10
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (22 bp):
TATTAAATAATACATTTATTAA
Found at i:9197850 original size:16 final size:16
Alignment explanation
Indices: 9197814--9197851 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9197804 CTTTAAGTTA
9197814 ATATTAAATAATACAT
1 ATATTAAATAATACAT
*
9197830 TTATTAATATAATA-AT
1 ATATTAA-ATAATACAT
9197846 ATATTA
1 ATATTA
9197852 TTATTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTAAATAATACAT
Found at i:9199625 original size:22 final size:22
Alignment explanation
Indices: 9199597--9199644 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9199587 GATTTGTAAA
** *
9199597 ACCTTCAAATGTAATCTCTAAG
1 ACCTTCAAACATAATCTCCAAG
*
9199619 ACCTTCAGACATAATCTCCAAG
1 ACCTTCAAACATAATCTCCAAG
9199641 ACCT
1 ACCT
9199645 CCGACATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.27
Consensus pattern (22 bp):
ACCTTCAAACATAATCTCCAAG
Found at i:9199721 original size:22 final size:21
Alignment explanation
Indices: 9199690--9199761 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
9199680 AAGATTTTCA
* *
9199690 AGCATGATTTGTAAAACCTTCG
1 AGCATAATTT-TAAGACCTTCG
*
9199712 AGCATAATTTTCAAGACC-TCT
1 AGCATAATTTT-AAGACCTTCG
*
9199733 AGGCATGATTTATAAGACCTTCG
1 A-GCATAATTT-TAAGACCTTCG
9199756 AGCATA
1 AGCATA
9199762 TTCCCTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 4 0.10
22 32 0.80
23 4 0.10
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (21 bp):
AGCATAATTTTAAGACCTTCG
Found at i:9199778 original size:44 final size:44
Alignment explanation
Indices: 9199691--9199778 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
9199681 AGATTTTCAA
* ** *
9199691 GCATGATTTGTAAAACCTTCGAGCATAATTTTCAAGACCTCTAG
1 GCATGATTTATAAAACCTTCGAGCATAATTCCCAAAACCTCTAG
* *
9199735 GCATGATTTATAAGACCTTCGAGCAT-ATTCCCTAAAACTTCTAG
1 GCATGATTTATAAAACCTTCGAGCATAATTCCC-AAAACCTCTAG
9199779 ACATAATCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
43 4 0.11
44 33 0.89
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (44 bp):
GCATGATTTATAAAACCTTCGAGCATAATTCCCAAAACCTCTAG
Found at i:9199783 original size:22 final size:22
Alignment explanation
Indices: 9199756--9199818 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
9199746 AAGACCTTCG
* *
9199756 AGCATATTCCCTAAAACTTCT-
1 AGCATAATCCCTAAAACCTCTA
*
9199777 AGACATAATCCCCAAAACCTCTA
1 AG-CATAATCCCTAAAACCTCTA
*
9199800 AGCATAATCCCTAAGACCT
1 AGCATAATCCCTAAAACCT
9199819 TCGGGCATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.38, C:0.32, G:0.06, T:0.24
Consensus pattern (22 bp):
AGCATAATCCCTAAAACCTCTA
Found at i:9199826 original size:22 final size:22
Alignment explanation
Indices: 9199801--9199881 Score: 58
Period size: 22 Copynumber: 3.7 Consensus size: 22
9199791 AAACCTCTAA
9199801 GCATAATCCCTAAGACCTTCGG
1 GCATAATCCCTAAGACCTTCGG
*** *
9199823 GCATAATTTGTAAGACC-TCTAG
1 GCATAATCCCTAAGACCTTC-GG
* ** * *
9199845 GTATAATCTTTAAGA-CTCCGA
1 GCATAATCCCTAAGACCTTCGG
9199866 GCATAATCCCTAAGAC
1 GCATAATCCCTAAGAC
9199882 TTCTAAACAT
Statistics
Matches: 43, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
21 15 0.35
22 28 0.65
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (22 bp):
GCATAATCCCTAAGACCTTCGG
Found at i:9200377 original size:44 final size:45
Alignment explanation
Indices: 9200310--9200426 Score: 139
Period size: 44 Copynumber: 2.6 Consensus size: 45
9200300 CCACTGGATG
* * * *
9200310 TAATCTTCAAGACCTTTAAGCATAATTTAT-AAGATCTTCGAGTA
1 TAATCTTCAAGACCTTTAGGCATAATTTATCAAGACCTCCAAGTA
**
9200354 TAATCTTCAAGATTTTTAGGCATAATTT-TCAAGACCTCCAAGTA
1 TAATCTTCAAGACCTTTAGGCATAATTTATCAAGACCTCCAAGTA
* * *
9200398 TAATCTCCAAAACCTTTAGGCATGATTTA
1 TAATCTTCAAGACCTTTAGGCATAATTTA
9200427 AAAAACATAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.02
44 59 0.98
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (45 bp):
TAATCTTCAAGACCTTTAGGCATAATTTATCAAGACCTCCAAGTA
Found at i:9200598 original size:38 final size:39
Alignment explanation
Indices: 9200545--9200648 Score: 115
Period size: 37 Copynumber: 2.7 Consensus size: 39
9200535 TTAGATTTGA
* * * *
9200545 TCATTTAAAATTTCAAGCCTTAATTGTGGGGGAG-GTTT
1 TCATTTAAAGTTTCAAGCCTTAGTTGTGGGGGAGCATCT
* * *
9200583 TCATTTAAAGCTTCAAACCTTAGTTAT-GGGGAGCATCT
1 TCATTTAAAGTTTCAAGCCTTAGTTGTGGGGGAGCATCT
*
9200621 T-ATTTAAAGTTTCATGCCTTAGTTGTGG
1 TCATTTAAAGTTTCAAGCCTTAGTTGTGG
9200649 ATGAGCTTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
37 27 0.51
38 26 0.49
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (39 bp):
TCATTTAAAGTTTCAAGCCTTAGTTGTGGGGGAGCATCT
Found at i:9201579 original size:32 final size:32
Alignment explanation
Indices: 9201530--9201607 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
9201520 TATATGGTAT
*
9201530 TTATTTTTGCATG--AATTTGCATGACTAATA
1 TTATATTTGCATGATAATTTGCATGACTAATA
** *
9201560 TTATATTTGCATGATAATTTGTTTGCCTAATA
1 TTATATTTGCATGATAATTTGCATGACTAATA
*
9201592 TATATATTCGCATGAT
1 T-TATATTTGCATGAT
9201608 TTATTTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
30 12 0.30
32 15 0.38
33 13 0.32
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.47
Consensus pattern (32 bp):
TTATATTTGCATGATAATTTGCATGACTAATA
Found at i:9201636 original size:24 final size:24
Alignment explanation
Indices: 9201609--9201865 Score: 217
Period size: 24 Copynumber: 10.7 Consensus size: 24
9201599 TCGCATGATT
* *
9201609 TATTTAATTGCATGATTATTAACA
1 TATTTATTTGCATGATTATTAATA
* *
9201633 TATTTATTTGCATTATTACCTAATA
1 TATTTATTTGCATGATTA-TTAATA
*
9201658 TATTTATGTGTGAATTGTATGTTATTAATA
1 TATTTAT-T-TGCA-TG-A--TTATTAATA
*
9201688 TATTTATTTACATG---ATTAATA
1 TATTTATTTGCATGATTATTAATA
**
9201709 TATTTATTTATATGATTTATT-A-A
1 TATTTATTTGCATGA-TTATTAATA
9201732 TA--TATTTGCATGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
*
9201754 TATTTAATTGCATGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
* * *
9201778 TATTTATTTGTATGATTA-TATTT
1 TATTTATTTGCATGATTATTAATA
9201801 TATTTGA-TTGCATGATTATTAATA
1 TATTT-ATTTGCATGATTATTAATA
* *
9201825 TATTTAATTGCTTGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
* * *
9201849 TGTTCATTTGTATGATT
1 TATTTATTTGCATGATT
9201866 TCTTGATTAG
Statistics
Matches: 189, Mismatches: 26, Indels: 36
0.75 0.10 0.14
Matches are distributed among these distances:
20 5 0.03
21 30 0.16
22 3 0.02
23 22 0.12
24 89 0.47
25 14 0.07
26 1 0.01
27 5 0.03
28 3 0.02
29 2 0.01
30 12 0.06
31 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (24 bp):
TATTTATTTGCATGATTATTAATA
Found at i:9201707 original size:21 final size:21
Alignment explanation
Indices: 9201681--9201806 Score: 105
Period size: 21 Copynumber: 5.8 Consensus size: 21
9201671 ATTGTATGTT
*
9201681 ATTAATATATTTATTTACATG
1 ATTAATATATTTATTTGCATG
**
9201702 ATTAATATATTTATTTATATG
1 ATTAATATATTTATTTGCATG
* *
9201723 ATTTAT-TAATATATTTGCATG
1 ATTAATAT-ATTTATTTGCATG
*
9201744 ATTATTAATATATTTAATTGCATG
1 ---ATTAATATATTTATTTGCATG
*
9201768 ATTATTAATATATTTATTTGTATG
1 ---ATTAATATATTTATTTGCATG
9201792 ATT-ATAT-TTTATTTG
1 ATTAATATATTTATTTG
9201807 ATTGCATGAT
Statistics
Matches: 90, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
19 8 0.09
20 5 0.06
21 38 0.42
24 38 0.42
25 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTAATATATTTATTTGCATG
Found at i:9201717 original size:55 final size:56
Alignment explanation
Indices: 9201614--9201719 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 56
9201604 TGATTTATTT
* * *
9201614 AATTGCATGATTATTAACATATTTATTTGCATTATTACCTAATATATTTATGTGTG
1 AATTGCATGATTATTAACATATTTATTTACATGATTACATAATATATTTATGTGTG
* * *
9201670 AATTGTATG-TTATTAATATATTTATTTACATGATTA-ATATATTTATTTAT
1 AATTGCATGATTATTAACATATTTATTTACATGATTACATA-ATATATTTAT
9201720 ATGATTTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
54 2 0.05
55 33 0.77
56 8 0.19
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (56 bp):
AATTGCATGATTATTAACATATTTATTTACATGATTACATAATATATTTATGTGTG
Found at i:9201815 original size:47 final size:47
Alignment explanation
Indices: 9201670--9201849 Score: 169
Period size: 47 Copynumber: 3.9 Consensus size: 47
9201660 TTTATGTGTG
* **
9201670 AATTGTATG-TTATTAATATATTTATTTACATGA-T-TAATATATTT
1 AATTGCATGATTATTAATATATTTATTTGTATGATTATAATATATTT
* ** *
9201714 ATTTATATGATTTATT-A-ATA--TATTTGCATGATTATTAATATATTT
1 AATTGCATGA-TTATTAATATATTTATTTGTATGATTA-TAATATATTT
* *
9201759 AATTGCATGATTATTAATATATTTATTTGTATGATTATATTTTATTT
1 AATTGCATGATTATTAATATATTTATTTGTATGATTATAATATATTT
* *
9201806 GATTGCATGATTATTAATATATTTAATTGCT-TGATTATTAATAT
1 AATTGCATGATTATTAATATATTTATTTG-TATGATTA-TAATAT
9201850 GTTCATTTGT
Statistics
Matches: 112, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 10 0.09
43 1 0.01
44 15 0.13
45 19 0.17
46 8 0.07
47 41 0.37
48 18 0.16
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.54
Consensus pattern (47 bp):
AATTGCATGATTATTAATATATTTATTTGTATGATTATAATATATTT
Found at i:9201830 original size:71 final size:68
Alignment explanation
Indices: 9201671--9201866 Score: 247
Period size: 71 Copynumber: 2.9 Consensus size: 68
9201661 TTATGTGTGA
* * * *
9201671 ATTGTATG-TTATTAATATATTTATTTACATG---ATTAATATATTTATTTATATGATTTATTAA
1 ATTGCATGATTATTAATATATTTAATTGCATGATTATTAATATATTTATTTGTATGATTTATTAA
9201732 TAT
66 TAT
9201735 ATTTGCATGATTATTAATATATTTAATTGCATGATTATTAATATATTTATTTGTATGATTATATT
1 A-TTGCATGATTATTAATATATTTAATTGCATGATTATTAATATATTTATTTGTATGATT-TA-T
* *
9201800 TTATTT
63 TAATAT
* * *
9201806 GATTGCATGATTATTAATATATTTAATTGCTTGATTATTAATATGTTCATTTGTATGATTT
1 -ATTGCATGATTATTAATATATTTAATTGCATGATTATTAATATATTTATTTGTATGATTT
9201867 CTTGATTAGT
Statistics
Matches: 115, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
64 1 0.01
65 6 0.05
66 21 0.18
69 23 0.20
70 3 0.03
71 60 0.52
72 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (68 bp):
ATTGCATGATTATTAATATATTTAATTGCATGATTATTAATATATTTATTTGTATGATTTATTAA
TAT
Found at i:9201873 original size:56 final size:56
Alignment explanation
Indices: 9201813--9201921 Score: 164
Period size: 56 Copynumber: 1.9 Consensus size: 56
9201803 TTTGATTGCA
* * * *
9201813 TGATTATTAATATATTTAATTGCTTGATTATTAATATGTTCATTTGTATGATTTCT
1 TGATTAGTAATATATTTAATTACCTGATTATTAATATATTCATTTGTATGATTTCT
* *
9201869 TGATTAGTAATATATTTAATTACCTGATTATTAATATATTTATTTGTGTGATT
1 TGATTAGTAATATATTTAATTACCTGATTATTAATATATTCATTTGTATGATT
9201922 ATATTTGATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (56 bp):
TGATTAGTAATATATTTAATTACCTGATTATTAATATATTCATTTGTATGATTTCT
Found at i:9201926 original size:18 final size:18
Alignment explanation
Indices: 9201903--9201955 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
9201893 TGATTATTAA
**
9201903 TATATTTATTTGTGTGAT
1 TATATTTATTTGCATGAT
9201921 TATATTTGA-TTGCATGAT
1 TATATTT-ATTTGCATGAT
*
9201939 TATATATATTTGCATGA
1 TATATTTATTTGCATGA
9201956 ATGATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.53
Consensus pattern (18 bp):
TATATTTATTTGCATGAT
Found at i:9202065 original size:35 final size:35
Alignment explanation
Indices: 9201993--9202113 Score: 163
Period size: 35 Copynumber: 3.4 Consensus size: 35
9201983 AAGATCATTA
* *
9201993 ATATTATTGTATGATAATTTTTGCATGGTATGATTTT
1 ATATTATTGCATGAT--TTATTGCATGGTATGATTTT
* * *
9202030 ATATTATTGTATGATTTATTACATGGTATGCTTTT
1 ATATTATTGCATGATTTATTGCATGGTATGATTTT
*
9202065 ATATTATTGCATGATTTATTGCATGATATGATTTT
1 ATATTATTGCATGATTTATTGCATGGTATGATTTT
9202100 AT-TTATTGCATGAT
1 ATATTATTGCATGAT
9202114 ATAGTTTTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
34 12 0.16
35 50 0.65
37 15 0.19
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.53
Consensus pattern (35 bp):
ATATTATTGCATGATTTATTGCATGGTATGATTTT
Found at i:9202085 original size:12 final size:12
Alignment explanation
Indices: 9202068--9202145 Score: 58
Period size: 12 Copynumber: 6.8 Consensus size: 12
9202058 TGCTTTTATA
9202068 TTATTGCATGAT
1 TTATTGCATGAT
9202080 TTATTGCATGAT
1 TTATTGCATGAT
* *
9202092 ATGATT---TTAT
1 -TTATTGCATGAT
9202102 TTATTGCATGAT
1 TTATTGCATGAT
* **
9202114 ATAGTTTTAT-A-
1 TTA-TTGCATGAT
9202125 TTATTGCATGAT
1 TTATTGCATGAT
9202137 TTATTGCAT
1 TTATTGCAT
9202146 TGTATGATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
9 4 0.08
10 7 0.14
11 3 0.06
12 27 0.55
13 8 0.16
ACGTcount: A:0.27, C:0.06, G:0.14, T:0.53
Consensus pattern (12 bp):
TTATTGCATGAT
Found at i:9202123 original size:57 final size:58
Alignment explanation
Indices: 9202043--9202177 Score: 197
Period size: 57 Copynumber: 2.3 Consensus size: 58
9202033 TTATTGTATG
* *
9202043 ATTTATTACATGGTATGCTTTTATATTATTGCATGATTTATTGCA-TGATATGATTT-T
1 ATTTATTGCATGATATGCTTTTATATTATTGCATGATTTATTGCATTG-TATGATTTAT
9202100 ATTTATTGCATGATATAG-TTTTATATTATTGCATGATTTATTGCATTGTATGATTTAAT
1 ATTTATTGCATGATAT-GCTTTTATATTATTGCATGATTTATTGCATTGTATGATTT-AT
9202159 ATTTATTGCATGAT-TGCTT
1 ATTTATTGCATGATATGCTT
9202178 GATATTTTTG
Statistics
Matches: 71, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
57 50 0.70
58 6 0.08
59 15 0.21
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.53
Consensus pattern (58 bp):
ATTTATTGCATGATATGCTTTTATATTATTGCATGATTTATTGCATTGTATGATTTAT
Found at i:9202132 original size:23 final size:22
Alignment explanation
Indices: 9202078--9202136 Score: 93
Period size: 22 Copynumber: 2.6 Consensus size: 22
9202068 TTATTGCATG
9202078 ATTTATTGCATGATATGATTTT
1 ATTTATTGCATGATATGATTTT
9202100 ATTTATTGCATGATAT-AGTTTT
1 ATTTATTGCATGATATGA-TTTT
9202122 ATATTATTGCATGAT
1 AT-TTATTGCATGAT
9202137 TTATTGCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 1 0.03
22 22 0.63
23 12 0.34
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.53
Consensus pattern (22 bp):
ATTTATTGCATGATATGATTTT
Found at i:9202161 original size:35 final size:36
Alignment explanation
Indices: 9202100--9202173 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
9202090 ATATGATTTT
*
9202100 ATTTATTGCATGATATAGTTTTATA-TTATTGCATG
1 ATTTATTGCATGATATAGTTTAATATTTATTGCATG
9202135 ATTTATTGCATTG-TAT-GATTTAATATTTATTGCATG
1 ATTTATTGCA-TGATATAG-TTTAATATTTATTGCATG
9202171 ATT
1 ATT
9202174 GCTTGATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
34 1 0.03
35 19 0.54
36 15 0.43
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (36 bp):
ATTTATTGCATGATATAGTTTAATATTTATTGCATG
Found at i:9204884 original size:18 final size:18
Alignment explanation
Indices: 9204861--9204898 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9204851 GGGGTTTGGA
9204861 TTAGGCGTTAAGGTAGGT
1 TTAGGCGTTAAGGTAGGT
9204879 TTAGGCGTTAAGGTAGGT
1 TTAGGCGTTAAGGTAGGT
9204897 TT
1 TT
9204899 TAGGGTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.37, T:0.37
Consensus pattern (18 bp):
TTAGGCGTTAAGGTAGGT
Found at i:9205009 original size:8 final size:8
Alignment explanation
Indices: 9204989--9205038 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
9204979 TTTAAGGTTT
9204989 GTTTT-AG
1 GTTTTAAG
9204996 GATTTTAAG
1 G-TTTTAAG
9205005 GTTTTAAG
1 GTTTTAAG
9205013 G-TTT-AG
1 GTTTTAAG
*
9205019 GTTTTTAG
1 GTTTTAAG
*
9205027 GGTTTAAG
1 GTTTTAAG
9205035 GTTT
1 GTTT
9205039 AAAATCTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
6 3 0.08
7 7 0.19
8 23 0.64
9 3 0.08
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (8 bp):
GTTTTAAG
Found at i:9205024 original size:15 final size:16
Alignment explanation
Indices: 9204999--9205038 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
9204989 GTTTTAGGAT
9204999 TTTAAGG-TTTTAAGG
1 TTTAAGGTTTTTAAGG
*
9205014 TTT-AGGTTTTTAGGG
1 TTTAAGGTTTTTAAGG
9205029 TTTAAGGTTT
1 TTTAAGGTTT
9205039 AAAATCTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 13 0.59
16 6 0.27
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (16 bp):
TTTAAGGTTTTTAAGG
Found at i:9205032 original size:7 final size:7
Alignment explanation
Indices: 9204960--9205118 Score: 56
Period size: 7 Copynumber: 22.1 Consensus size: 7
9204950 AAGTTTAAGC
9204960 TTTAGGG
1 TTTAGGG
9204967 -TTA-GG
1 TTTAGGG
*
9204972 TTTAGAG
1 TTTAGGG
*
9204979 TTTAAGG
1 TTTAGGG
*
9204986 TTT--GT
1 TTTAGGG
*
9204991 TTTAGGAT
1 TTTAGG-G
*
9204999 TTTAAGGT
1 TTT-AGGG
*
9205007 TTTAAGG
1 TTTAGGG
*
9205014 TTTAGGTT
1 TTTAGG-G
9205022 TTTAGGG
1 TTTAGGG
*
9205029 TTTAAGG
1 TTTAGGG
***
9205036 TTTAAAA
1 TTTAGGG
9205043 TCTTAGGG
1 T-TTAGGG
*
9205051 TTTAGGA
1 TTTAGGG
*
9205058 TATTAGAG
1 T-TTAGGG
*
9205066 TTTAGGT
1 TTTAGGG
*
9205073 TTTAGGA
1 TTTAGGG
* *
9205080 CTTACAGG
1 TTTA-GGG
9205088 TTTAGGG
1 TTTAGGG
*
9205095 TTTTAGGA
1 -TTTAGGG
9205103 TATTAGGG
1 T-TTAGGG
9205111 TTTAGGG
1 TTTAGGG
9205118 T
1 T
9205119 GGAATTTCGA
Statistics
Matches: 112, Mismatches: 28, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
5 6 0.05
6 6 0.05
7 58 0.52
8 39 0.35
9 3 0.03
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:9205032 original size:22 final size:23
Alignment explanation
Indices: 9204991--9205039 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
9204981 TAAGGTTTGT
*
9204991 TTTAGGATTTTAAGGTTTTAAGG
1 TTTAGGATTTTAAGGGTTTAAGG
*
9205014 TTTAGG-TTTTTAGGGTTTAAGG
1 TTTAGGATTTTAAGGGTTTAAGG
9205036 TTTA
1 TTTA
9205040 AAATCTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (23 bp):
TTTAGGATTTTAAGGGTTTAAGG
Found at i:9205063 original size:15 final size:14
Alignment explanation
Indices: 9205045--9205116 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
9205035 GTTTAAAATC
9205045 TTAGGGTTTAGGATA
1 TTAGGGTTTAGG-TA
* *
9205060 TTAGAGTTTAGGTT
1 TTAGGGTTTAGGTA
* *
9205074 TTAGGACTTACAGGT-
1 TTAGG-GTT-TAGGTA
9205089 TTAGGGTTTTAGGATA
1 TTAGGG-TTTAGG-TA
9205105 TTAGGGTTTAGG
1 TTAGGGTTTAGG
9205117 GTGGAATTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 8 0.18
15 27 0.60
16 10 0.22
ACGTcount: A:0.24, C:0.03, G:0.32, T:0.42
Consensus pattern (14 bp):
TTAGGGTTTAGGTA
Found at i:9205070 original size:22 final size:22
Alignment explanation
Indices: 9205045--9205118 Score: 87
Period size: 22 Copynumber: 3.3 Consensus size: 22
9205035 GTTTAAAATC
9205045 TTAGGGTTTAGGATATTAGAGT
1 TTAGGGTTTAGGATATTAGAGT
* * *
9205067 TTAGGTTTTAGGA-CTTACAGGT
1 TTAGGGTTTAGGATATTAGA-GT
*
9205089 TTAGGGTTTTAGGATATTAGGGT
1 TTAGGG-TTTAGGATATTAGAGT
9205112 TTAGGGT
1 TTAGGGT
9205119 GGAATTTCGA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 4 0.10
22 20 0.48
23 15 0.36
24 3 0.07
ACGTcount: A:0.23, C:0.03, G:0.32, T:0.42
Consensus pattern (22 bp):
TTAGGGTTTAGGATATTAGAGT
Found at i:9207286 original size:23 final size:22
Alignment explanation
Indices: 9207260--9207313 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
9207250 TTTATTTTCA
* *
9207260 TCTTCTTTTTCTTATTTTCCCTT
1 TCTTCTTTTTCTT-TTTACACTT
*
9207283 TCTTTTTTTTCTTTTTACACTT
1 TCTTCTTTTTCTTTTTACACTT
*
9207305 TTTTCTTTT
1 TCTTCTTTT
9207314 CTGTATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (22 bp):
TCTTCTTTTTCTTTTTACACTT
Found at i:9207297 original size:20 final size:19
Alignment explanation
Indices: 9207241--9207297 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
9207231 CTCTCTTTAA
9207241 CTTT-TTTTTTTTATTTTC
1 CTTTCTTTTTTTTATTTTC
* *
9207259 ATCTTCTTTTTCTTATTTTCC
1 CT-TTCTTTTTTTTATTTT-C
*
9207280 CTTTCTTTTTTTTCTTTT
1 CTTTCTTTTTTTTATTTT
9207298 TACACTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 26 0.84
21 2 0.06
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (19 bp):
CTTTCTTTTTTTTATTTTC
Found at i:9207814 original size:7 final size:7
Alignment explanation
Indices: 9207802--9207826 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9207792 TTTTTTCCTA
9207802 TTTTTAT
1 TTTTTAT
9207809 TTTTTAT
1 TTTTTAT
9207816 TTTTTAT
1 TTTTTAT
9207823 TTTT
1 TTTT
9207827 ATGCCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:9208429 original size:4 final size:4
Alignment explanation
Indices: 9208413--9208441 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
9208403 ATTAGGGGTT
9208413 TTTA TTT- TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
9208442 AAATAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:9208690 original size:8 final size:7
Alignment explanation
Indices: 9208671--9208707 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
9208661 AAATGATAAA
9208671 TAAAAAT
1 TAAAAAT
*
9208678 CAAAAAGT
1 TAAAAA-T
9208686 TAAAAAT
1 TAAAAAT
9208693 TAAAAAT
1 TAAAAAT
9208700 TAAAAAT
1 TAAAAAT
9208707 T
1 T
9208708 TGGTACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (7 bp):
TAAAAAT
Found at i:9208707 original size:14 final size:15
Alignment explanation
Indices: 9208671--9208707 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
9208661 AAATGATAAA
*
9208671 TAAAAATCAAAAAGT
1 TAAAAATTAAAAAGT
9208686 TAAAAATTAAAAA-T
1 TAAAAATTAAAAAGT
9208700 TAAAAATT
1 TAAAAATT
9208708 TGGTACATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (15 bp):
TAAAAATTAAAAAGT
Found at i:9209522 original size:28 final size:28
Alignment explanation
Indices: 9209451--9209521 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
9209441 AAATTATAAT
* * *
9209451 AAAATATTTAATATGATATTTAAATTTT
1 AAAATTTTTAATATAATATTTAAATTTA
9209479 AAAATTTTTAATATAATATTTAAA-TTA
1 AAAATTTTTAATATAATATTTAAATTTA
9209506 AAAA-TTTT-ATATAATA
1 AAAATTTTTAATATAATA
9209522 AAAATATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 8 0.20
26 4 0.10
27 6 0.15
28 22 0.55
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (28 bp):
AAAATTTTTAATATAATATTTAAATTTA
Found at i:9209943 original size:2 final size:2
Alignment explanation
Indices: 9209936--9209960 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9209926 ATTTACTCAT
9209936 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9209961 TAATACTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9210690 original size:10 final size:9
Alignment explanation
Indices: 9210678--9210712 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
9210668 CTTTATTTTT
9210678 TTTTCTTTC
1 TTTTCTTTC
9210687 TTTTCATTTC
1 TTTTC-TTTC
*
9210697 TTATCTTTC
1 TTTTCTTTC
9210706 TTTTCTT
1 TTTTCTT
9210713 CTATGGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:9212812 original size:24 final size:24
Alignment explanation
Indices: 9212769--9212828 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
9212759 TGAAGAGTGA
9212769 TATTAACTATTATTAAAATAAATAG
1 TATTAA-TATTATTAAAATAAATAG
*
9212794 TTTTAATATT-TTAATAATAAATAG
1 TATTAATATTATTAA-AATAAATAG
9212818 TATT-ATATTAT
1 TATTAATATTAT
9212829 CATTTTAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 9 0.29
24 17 0.55
25 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (24 bp):
TATTAATATTATTAAAATAAATAG
Found at i:9213284 original size:19 final size:19
Alignment explanation
Indices: 9213260--9213300 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9213250 TTCAAATATC
9213260 TAATATTAATATAATATT-T
1 TAATATTAA-ATAATATTAT
*
9213279 TAATATTAAATATTATTAT
1 TAATATTAAATAATATTAT
9213298 TAA
1 TAA
9213301 AATATTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTAAATAATATTAT
Found at i:9213304 original size:47 final size:50
Alignment explanation
Indices: 9213210--9213305 Score: 126
Period size: 47 Copynumber: 2.0 Consensus size: 50
9213200 AATATGTTAA
* *
9213210 AATATTAATATAAAATATTTATTAATAGTAAATAATATTTTTCAAATATCT
1 AATATTAATAT-AAATATTTATTAATAGTAAATAATATTATTAAAATATCT
* *
9213261 AATATTAATAT-AATA-TT-TTAATATTAAATATTATTATTAAAATAT
1 AATATTAATATAAATATTTATTAATAGTAAATAATATTATTAAAATAT
9213306 TACTATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 24 0.59
48 2 0.05
49 4 0.10
51 11 0.27
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (50 bp):
AATATTAATATAAATATTTATTAATAGTAAATAATATTATTAAAATATCT
Done.