Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 224 of 322
Found at i:74059192 original size:120 final size:118
Alignment explanation
Indices: 74058974--74059218 Score: 341
Period size: 120 Copynumber: 2.1 Consensus size: 118
74058964 GGACTAAGAT
*
74058974 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
* ** *
74059039 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* *
74059093 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTG
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT-
* * * *
74059158 TAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
64 AAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
74059212 CCGAAGG
1 CCGAAGG
74059219 TACGTGATTC
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
119 52 0.46
120 58 0.52
121 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:74067505 original size:43 final size:43
Alignment explanation
Indices: 74067457--74067539 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
74067447 GTAATTTATA
* *
74067457 TTGAAATGACAAAGATGAAAAATGAATATGAGATGAGAAAATG
1 TTGAAATGAAAAAGATGAAAAATGAATATGAAATGAGAAAATG
* * *
74067500 TTGAAATTAAAAAGATGAGAAATGATTATGAAATGAGAAA
1 TTGAAATGAAAAAGATGAAAAATGAATATGAAATGAGAAA
74067540 TGAAATATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.54, C:0.01, G:0.22, T:0.23
Consensus pattern (43 bp):
TTGAAATGAAAAAGATGAAAAATGAATATGAAATGAGAAAATG
Found at i:74073154 original size:45 final size:45
Alignment explanation
Indices: 74073090--74073203 Score: 185
Period size: 45 Copynumber: 2.6 Consensus size: 45
74073080 TGTACAGTAC
*
74073090 TATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAT
**
74073135 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAT
*
74073180 TATTCGGGCC-TCGAGCCTAGCAGG
1 TATTCGGGCCTTTGAGCCTAGCAGG
74073204 TGAAATGCCG
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 13 0.20
45 52 0.80
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAT
Found at i:74076603 original size:52 final size:52
Alignment explanation
Indices: 74076527--74076625 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
74076517 TTTCCTTCCT
74076527 ATCTGATGCTTTTACCTTTCGATGAATTTGACATAATTCTGGGAATGTGCTG
1 ATCTGATGCTTTTACCTTTCGATGAATTTGACATAATTCTGGGAATGTGCTG
*
74076579 ATCTGATGCTTTTACCTTTTGATGAATTTGACATAATTCTGGGAATG
1 ATCTGATGCTTTTACCTTTCGATGAATTTGACATAATTCTGGGAATG
74076626 GATTGGTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.41
Consensus pattern (52 bp):
ATCTGATGCTTTTACCTTTCGATGAATTTGACATAATTCTGGGAATGTGCTG
Found at i:74083961 original size:46 final size:46
Alignment explanation
Indices: 74083802--74083977 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
74083792 TGTAACCCGC
* * * *
74083802 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
74083848 CCATGAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * * *
74083898 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTTGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
74083941 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
74083978 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.58
47 26 0.25
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:74083969 original size:93 final size:93
Alignment explanation
Indices: 74083810--74083980 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
74083800 GCCCATAAGT
* * * *
74083810 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
74083875 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
74083903 GAACTCGGACTCAACTCAACAAGTTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
74083968 CGAGTTCGGATGC
66 CGAGTTCGGATGC
74083981 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:74089474 original size:5 final size:5
Alignment explanation
Indices: 74089464--74089520 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
74089454 AAGAGAAAAC
*
74089464 AAAGA AAAGA AAAGA AAAGGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAGA AAA-G-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
74089511 AAAGA AAAGA
1 AAAGA AAAGA
74089521 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:74089487 original size:21 final size:20
Alignment explanation
Indices: 74089463--74089520 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
74089453 AAAGAGAAAA
74089463 CAAAGAAAAGAAAAGAAAAGG
1 CAAA-AAAAGAAAAGAAAAGG
* *
74089484 CAAAAGAAGAAAAAGAAAATG
1 CAAAAAAAG-AAAAGAAAAGG
*
74089505 AAATAAAAAGAAAAGA
1 CAA-AAAAAGAAAAGA
74089521 GAGGCAAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.13
21 22 0.71
22 5 0.16
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.03
Consensus pattern (20 bp):
CAAAAAAAGAAAAGAAAAGG
Found at i:74091950 original size:30 final size:30
Alignment explanation
Indices: 74091916--74092003 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
74091906 CTAGCTTATA
* *
74091916 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
* * *
74091946 TTCAGCTTAGGAG-TATAATCTCAGCTCAAC
1 TTCAGCTTAAGAGCTA-AACCTTAGCTCAAC
* * *
74091976 TTTAGCTTAAGGGCTAAAGCTTAGCTCA
1 TTCAGCTTAAGAGCTAAACCTTAGCTCA
74092004 TTTTAGCTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.04
30 43 0.91
31 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (30 bp):
TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
Found at i:74093979 original size:30 final size:30
Alignment explanation
Indices: 74093945--74094001 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
74093935 TCCTTAAATC
*
74093945 AAACTTTTGTAAAATTACAATTTTGCCGCT
1 AAACTTTTGCAAAATTACAATTTTGCCGCT
* * *
74093975 AAACTTTTGCATATTTACACTTTTGCC
1 AAACTTTTGCAAAATTACAATTTTGCC
74094002 CCTAGGCTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCGCT
Found at i:74104933 original size:30 final size:30
Alignment explanation
Indices: 74104847--74104944 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 30
74104837 TTAAACTAAA
* * *
74104847 ATGAGTTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
74104877 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
74104907 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
74104937 ATGAGCTA
1 ATGAGCTA
74104945 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:74110192 original size:21 final size:21
Alignment explanation
Indices: 74110166--74110210 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
74110156 TCATGCCGAG
*
74110166 TCAACCAATCCATGCCCAAGA
1 TCAACCAATCCATCCCCAAGA
74110187 TCAACCAATCCATCCCCAAGA
1 TCAACCAATCCATCCCCAAGA
74110208 TCA
1 TCA
74110211 CATCAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.40, G:0.07, T:0.16
Consensus pattern (21 bp):
TCAACCAATCCATCCCCAAGA
Found at i:74115778 original size:24 final size:26
Alignment explanation
Indices: 74115725--74115798 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 26
74115715 TGAAAAAGCC
*
74115725 TTTGAAAAATGAAAAAGAAAATGAGA
1 TTTGAAAAATGAAAAAGAAAATGAAA
* *
74115751 -TTGAAAAA-GAGAACGAAAA-GAAA
1 TTTGAAAAATGAAAAAGAAAATGAAA
* * *
74115774 TTTG-AGAGTGAAAAAGAAGATGAAA
1 TTTGAAAAATGAAAAAGAAAATGAAA
74115799 AAGAAATTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
23 5 0.14
24 20 0.54
25 12 0.32
ACGTcount: A:0.59, C:0.01, G:0.23, T:0.16
Consensus pattern (26 bp):
TTTGAAAAATGAAAAAGAAAATGAAA
Found at i:74115799 original size:30 final size:31
Alignment explanation
Indices: 74115735--74115806 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
74115725 TTTGAAAAAT
* *
74115735 GAAAAAGAAA-ATGAGATTGAAAAAGAGAAC
1 GAAAAAGAAATTTGAGAGTGAAAAAGAGAAC
*
74115765 G-AAAAGAAATTTGAGAGTGAAAAAGA-AGAT
1 GAAAAAGAAATTTGAGAGTGAAAAAGAGA-AC
74115795 GAAAAAGAAATT
1 GAAAAAGAAATT
74115807 GAAACAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 9 0.25
30 17 0.47
31 10 0.28
ACGTcount: A:0.61, C:0.01, G:0.24, T:0.14
Consensus pattern (31 bp):
GAAAAAGAAATTTGAGAGTGAAAAAGAGAAC
Found at i:74118023 original size:20 final size:21
Alignment explanation
Indices: 74117981--74118025 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
74117971 AGCTCCTTCC
*
74117981 AGCTCAAATCCAGCTTATTTG
1 AGCTCAAATCCAGCTTATCTG
* *
74118002 AGCTC-AATCCATCTTGTCTG
1 AGCTCAAATCCAGCTTATCTG
74118022 AGCT
1 AGCT
74118026 AAACCGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (21 bp):
AGCTCAAATCCAGCTTATCTG
Found at i:74118076 original size:30 final size:31
Alignment explanation
Indices: 74118042--74118138 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
74118032 AGCTCACTCC
*
74118042 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
74118072 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
74118102 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
74118132 TAGCTCA
1 TAGCTCA
74118139 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:74119978 original size:18 final size:17
Alignment explanation
Indices: 74119945--74119978 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
74119935 ACAACTTGAA
*
74119945 TTTTTTTTAATTCGAAT
1 TTTTTTTTAATACGAAT
74119962 TTTTTTTTAACTACGAA
1 TTTTTTTTAA-TACGAA
74119979 CCTATTTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTTTTTAATACGAAT
Found at i:74122056 original size:29 final size:30
Alignment explanation
Indices: 74121974--74122057 Score: 107
Period size: 29 Copynumber: 2.8 Consensus size: 30
74121964 TTCTTTTGTT
* *
74121974 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCATTTTCTTTTTCAATC
* *
74122004 TCAAATTC-TTTTCATTCTCTTTTTCAATC
1 TCAATTTCTTTTTCATTTTCTTTTTCAATC
* *
74122033 TCATTTTCTTTTTCTTTTTCTTTTT
1 TCAATTTCTTTTTCATTTTCTTTTT
74122058 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
29 24 0.53
30 21 0.47
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.64
Consensus pattern (30 bp):
TCAATTTCTTTTTCATTTTCTTTTTCAATC
Found at i:74122075 original size:12 final size:12
Alignment explanation
Indices: 74122060--74122090 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
74122050 TTCTTTTTGC
74122060 TTTTCAAAGGCT
1 TTTTCAAAGGCT
74122072 TTTTCAAAGGCT
1 TTTTCAAAGGCT
74122084 TTTTCAA
1 TTTTCAA
74122091 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:74122170 original size:15 final size:15
Alignment explanation
Indices: 74122140--74122183 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
74122130 CTTGCCTCTC
*
74122140 TTTTCTTTTTATTTCA
1 TTTTCTTTTT-CTTCA
74122156 TTTTCTTTTTCTTCA
1 TTTTCTTTTTCTTCA
*
74122171 TTTGCTTTTTCTT
1 TTTTCTTTTTCTT
74122184 TTCTTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTCTTTTTCTTCA
Found at i:74122204 original size:21 final size:22
Alignment explanation
Indices: 74122136--74122205 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 22
74122126 GCCTCTTGCC
*
74122136 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTTCTTTCATTT
74122159 TCT-TTTTC--TTCATTTGC-TTT
1 TCTCTTTTCTTTTC-TTT-CATTT
74122179 T-TCTTTTCTTTTCTTT-ATTT
1 TCTCTTTTCTTTTCTTTCATTT
74122199 TCTCTTT
1 TCTCTTT
74122206 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 16
0.70 0.02 0.29
Matches are distributed among these distances:
19 3 0.08
20 16 0.41
21 9 0.23
22 8 0.21
23 3 0.08
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (22 bp):
TCTCTTTTCTTTTCTTTCATTT
Found at i:74124415 original size:30 final size:30
Alignment explanation
Indices: 74124381--74124477 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
74124371 TAAACTAAAA
*
74124381 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
* * * * * *
74124411 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCATGAGCTAAAGT
* *
74124441 TGAGCTAAGGTTTAGCTCATGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCATGAGCT-AAAGT
74124471 TGAGCTA
1 TGAGCTA
74124478 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
Found at i:74124519 original size:20 final size:21
Alignment explanation
Indices: 74124494--74124538 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
74124484 AGCTCGGTTT
*
74124494 AGCTCAGACAAGATGGA-TTG
1 AGCTCAAACAAGATGGATTTG
* *
74124514 AGCTCAAATAAGCTGGATTTG
1 AGCTCAAACAAGATGGATTTG
74124535 AGCT
1 AGCT
74124539 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (21 bp):
AGCTCAAACAAGATGGATTTG
Found at i:74126498 original size:28 final size:27
Alignment explanation
Indices: 74126436--74126558 Score: 183
Period size: 28 Copynumber: 4.5 Consensus size: 27
74126426 ATTAAGTCCA
* *
74126436 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAATCAACTCG
74126463 CACACTTAGTGCTACATAATCATACTCG
1 CACACTTAGTGCTACATAATCA-ACTCG
*
74126491 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAATC-AACTCG
* *
74126519 CACACTTAGTGCTACATAGTCAATTCG
1 CACACTTAGTGCTACATAATCAACTCG
74126546 CACACTTAGTGCT
1 CACACTTAGTGCT
74126559 GCACAATTTA
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
27 38 0.42
28 51 0.57
29 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (27 bp):
CACACTTAGTGCTACATAATCAACTCG
Found at i:74126547 original size:55 final size:55
Alignment explanation
Indices: 74126436--74126558 Score: 185
Period size: 55 Copynumber: 2.2 Consensus size: 55
74126426 ATTAAGTCCA
* *
74126436 CACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCG
1 CACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCATACTCG
* * *
74126491 CACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCA-ATTCG
1 CACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCATACTCG
74126546 CACACTTAGTGCT
1 CACACTTAGTGCT
74126559 GCACAATTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 35 0.56
56 27 0.44
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (55 bp):
CACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCATACTCG
Found at i:74129315 original size:6 final size:6
Alignment explanation
Indices: 74129304--74129505 Score: 184
Period size: 6 Copynumber: 33.2 Consensus size: 6
74129294 AACCAAAATG
* *
74129304 AGAATC AGAATC AGAATC AGTAA-C AGGATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
74129352 AGTAA-C AGAATC AGAATC AGAATC AAAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
74129401 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATC AGAATC AGAATT
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
* * *
74129449 AG-GTGAC AGAATC AGAATC AGAATC AGTATC AGGTAA-C AGAATC AAAATC
1 AGAAT--C AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
74129499 AGAATC A
1 AGAATC A
74129506 ATATCAGGTA
Statistics
Matches: 161, Mismatches: 18, Indels: 34
0.76 0.08 0.16
Matches are distributed among these distances:
5 10 0.06
6 135 0.84
7 12 0.07
8 4 0.02
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:74129528 original size:31 final size:31
Alignment explanation
Indices: 74129304--74129524 Score: 243
Period size: 31 Copynumber: 7.0 Consensus size: 31
74129294 AACCAAAATG
*
74129304 AGAATCAGAATCAGA-ATCA-GTAACAGGATC
1 AGAATCAGAATCA-ATATCAGGTAACAGAATC
*
74129334 AGAATCAGAATCAATATTA-GTAACAGAATC
1 AGAATCAGAATCAATATCAGGTAACAGAATC
* * *
74129364 AGAATCAGAATCAAAATTAGGTGACAGAATC
1 AGAATCAGAATCAATATCAGGTAACAGAATC
* * *
74129395 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATC
1 AGAATCAGAATCAATATCAG-GT---AA-CAGAATC
* *
74129431 AGAATCAGAATCAGA-ATTAGGTGACAGAATC
1 AGAATCAGAATCA-ATATCAGGTAACAGAATC
*
74129462 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAATATCAGGTAACAGAATC
*
74129493 AAAATCAGAATCAATATCAGGTAACAGAATC
1 AGAATCAGAATCAATATCAGGTAACAGAATC
74129524 A
1 A
74129525 AAATATGAAT
Statistics
Matches: 162, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
29 1 0.01
30 44 0.27
31 90 0.56
32 2 0.01
35 2 0.01
36 23 0.14
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAATATCAGGTAACAGAATC
Found at i:74129728 original size:26 final size:27
Alignment explanation
Indices: 74129665--74129738 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
74129655 GCTCAGTTAT
* * *
74129665 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
74129692 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
74129718 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
74129739 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:74129941 original size:22 final size:21
Alignment explanation
Indices: 74129897--74129956 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
74129887 GCAAATACGT
*
74129897 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCAT-ATCAGG
* *
74129919 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAAAGCCATAT-CAGG
**
74129941 TTAACACAAAGCCATA
1 TTGGCACAAAGCCATA
74129957 ATTAGAAGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
TTGGCACAAAGCCATATCAGG
Found at i:74130444 original size:27 final size:27
Alignment explanation
Indices: 74130388--74130509 Score: 165
Period size: 27 Copynumber: 4.6 Consensus size: 27
74130378 GGGGCAAAAT
* * * *
74130388 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
74130414 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74130441 GGTAATTCTACCCTAAAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74130468 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
74130495 GGTAATTCTACCCTA
1 GGTAATTCTACCCTA
74130510 TATTTTAGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 15 0.18
27 70 0.82
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:74130510 original size:27 final size:27
Alignment explanation
Indices: 74130406--74130511 Score: 167
Period size: 27 Copynumber: 3.9 Consensus size: 27
74130396 TACCCCACAA
* *
74130406 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
*
74130433 GGTATTTCGGTAATTCTACCCTAAAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
* *
74130460 GGTATTGCGATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
74130487 GGTATTTCGGTAATTCTACCCTATA
1 GGTATTTCGGTAATTCTACCCTATA
74130512 TTTTAGTAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTATAGG
Found at i:74130577 original size:27 final size:27
Alignment explanation
Indices: 74130510--74130847 Score: 222
Period size: 27 Copynumber: 12.5 Consensus size: 27
74130500 TTCTACCCTA
* **
74130510 TATTTTAGTAATTCCACAAA-TCAGGGG
1 TATTTTGGTAATTTTACAAACT-AGGGG
74130537 TATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
*** *
74130564 TATTTTGGTAATTTTATTGA-TCGAGGG
1 TATTTTGGTAATTTTACAAACTAG-GGG
** * *
74130591 TATTTTGGTAATTTTGTAAACCAAGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
* ** *
74130618 TATTTTAGTAATTTTGTAAA-TCGAGGG
1 TATTTTGGTAATTTTACAAACTAG-GGG
*** * **
74130645 TAAAATGGTAATTCTATCTTA-TAGGGG
1 TATTTTGGTAATTTTA-CAAACTAGGGG
* * *
74130672 -ATTTTAAGTAATTTTA-AAAATCGAGGG
1 TATTTT-GGTAATTTTACAAACTAG-GGG
*** ** *
74130699 TATTTCAATAATTTTAC-AGGTCAAGGG
1 TATTTTGGTAATTTTACAAACT-AGGGG
** * * *
74130726 TATTTCAGTAATTTCACAAATTAGGGA
1 TATTTTGGTAATTTTACAAACTAGGGG
74130753 TATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
* * *
74130780 TATTTTGATAATTTTACAAACCAAGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
74130807 TATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
74130834 TATTTTGGTAATTT
1 TATTTTGGTAATTT
74130848 GGTAAATTAA
Statistics
Matches: 241, Mismatches: 58, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
25 1 0.00
26 6 0.02
27 224 0.93
28 10 0.04
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAACTAGGGG
Found at i:74130592 original size:54 final size:54
Alignment explanation
Indices: 74130510--74130847 Score: 301
Period size: 54 Copynumber: 6.3 Consensus size: 54
74130500 TTCTACCCTA
**
74130510 TATTTTAGTAATTCCACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTAGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAACTAGGGG
* *** ** * *
74130564 TATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGG
1 TATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTAGGGG
** *** * **
74130618 TATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATCTTA-TAGGGG
1 TATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA-CAAACTAGGGG
* *** ** *
74130672 -ATTTTAAGTAATTTTAAAAATCGAGGGTATTTCAATAATTTTAC-AGGTCAAGGG
1 TATTTT-AGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACT-AGGGG
* * *
74130726 TATTTCAGTAATTTCACAAAT-TAGGGATATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTAGTAATTTTACAAATCGAGGG-TATTTTGGTAATTTTACAAACTAGGGG
* *
74130780 TATTTT-GATAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTAG-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTAGGGG
*
74130834 TATTTTGGTAATTT
1 TATTTTAGTAATTT
74130848 GGTAAATTAA
Statistics
Matches: 223, Mismatches: 50, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
53 12 0.05
54 198 0.89
55 13 0.06
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
TATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTAGGGG
Found at i:74138569 original size:35 final size:36
Alignment explanation
Indices: 74138422--74138567 Score: 174
Period size: 35 Copynumber: 4.2 Consensus size: 36
74138412 GTCTACGAAA
* * *
74138422 GGTATCATC-CATACCAAGTTGTAAAACGTAGGTAT
1 GGTATTATCTCATACCGAGTTGTGAAACGTAGGTAT
* *
74138457 GGTATTAACT-ATACTGAGTTGTGAAACGTAGGTAT
1 GGTATTATCTCATACCGAGTTGTGAAACGTAGGTAT
* **
74138492 GGTATTATC-CATACTGAGTTAAGAAACGTAGGTAT
1 GGTATTATCTCATACCGAGTTGTGAAACGTAGGTAT
* *
74138527 GGCATT-TCTCATACCGAGTTGTGAAATGTAGGTAT
1 GGTATTATCTCATACCGAGTTGTGAAACGTAGGTAT
74138562 GGTATT
1 GGTATT
74138568 TCAATGAGGA
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
34 2 0.02
35 92 0.98
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (36 bp):
GGTATTATCTCATACCGAGTTGTGAAACGTAGGTAT
Found at i:74142050 original size:23 final size:23
Alignment explanation
Indices: 74142024--74142072 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
74142014 GGTTGAAGTT
74142024 AGTTTTGTGGCTTTAAATGATGG
1 AGTTTTGTGGCTTTAAATGATGG
*
74142047 AGTTTTGTGGCTTTAAATGATTG
1 AGTTTTGTGGCTTTAAATGATGG
74142070 AGT
1 AGT
74142073 GATACTTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.29, T:0.45
Consensus pattern (23 bp):
AGTTTTGTGGCTTTAAATGATGG
Found at i:74149023 original size:27 final size:27
Alignment explanation
Indices: 74148993--74149170 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
74148983 ATATTGAGTC
* * * *
74148993 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
74149020 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
74149047 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
74149075 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
74149102 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
74149129 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
74149156 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
74149171 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:74149132 original size:82 final size:81
Alignment explanation
Indices: 74149014--74149169 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
74149004 TGCTATATAA
* *
74149014 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
74149079 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
74149096 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
74149160 CACTTAGTGC
65 CACTTAGTGC
74149170 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:74157212 original size:27 final size:27
Alignment explanation
Indices: 74157182--74157359 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
74157172 ATATTGAGTC
* * * *
74157182 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
74157209 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
74157236 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
74157264 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
74157291 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
74157318 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
74157345 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
74157360 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:74157321 original size:82 final size:81
Alignment explanation
Indices: 74157203--74157358 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
74157193 TGCTATATAA
* *
74157203 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
74157268 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
74157285 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
74157349 CACTTAGTGC
65 CACTTAGTGC
74157359 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:74160529 original size:10 final size:10
Alignment explanation
Indices: 74160514--74160569 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
74160504 AAGAACTACA
*
74160514 ATTTTTTTCT
1 ATTTTTTACT
*
74160524 ATTTTTTATT
1 ATTTTTTACT
*
74160534 ATTTTGTTGCT
1 ATTTT-TTACT
*
74160545 ATTTTTCACT
1 ATTTTTTACT
74160555 ATTTTGTTACT
1 ATTTT-TTACT
74160566 ATTT
1 ATTT
74160570 CACAATTATG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
10 21 0.57
11 16 0.43
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (10 bp):
ATTTTTTACT
Found at i:74160547 original size:11 final size:11
Alignment explanation
Indices: 74160522--74160569 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
74160512 CAATTTTTTT
74160522 CTATTTT-TTA
1 CTATTTTGTTA
* *
74160532 TTATTTTGTTG
1 CTATTTTGTTA
*
74160543 CTATTTT-TCA
1 CTATTTTGTTA
74160553 CTATTTTGTTA
1 CTATTTTGTTA
74160564 CTATTT
1 CTATTT
74160570 CACAATTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
10 14 0.47
11 16 0.53
ACGTcount: A:0.17, C:0.10, G:0.06, T:0.67
Consensus pattern (11 bp):
CTATTTTGTTA
Found at i:74160547 original size:21 final size:21
Alignment explanation
Indices: 74160514--74160569 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
74160504 AAGAACTACA
* * *
74160514 ATTTT-TTTCTATTTTTTATT
1 ATTTTGTTACTATTTTTCACT
*
74160534 ATTTTGTTGCTATTTTTCACT
1 ATTTTGTTACTATTTTTCACT
74160555 ATTTTGTTACTATTT
1 ATTTTGTTACTATTT
74160570 CACAATTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (21 bp):
ATTTTGTTACTATTTTTCACT
Found at i:74171195 original size:16 final size:16
Alignment explanation
Indices: 74171174--74171219 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
74171164 AATTGGGTTG
74171174 AGAAAATTATTTAATT
1 AGAAAATTATTTAATT
*
74171190 AGAAAATTAATTAATT
1 AGAAAATTATTTAATT
74171206 --AAAATTAATTTAAT
1 AGAAAATT-ATTTAAT
74171220 AAATAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 6 0.22
16 15 0.56
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (16 bp):
AGAAAATTATTTAATT
Found at i:74173483 original size:29 final size:29
Alignment explanation
Indices: 74173451--74173632 Score: 215
Period size: 29 Copynumber: 6.3 Consensus size: 29
74173441 GTCACCATCA
74173451 CTTTTCATAATCGATAGCCGAAGCTATCC
1 CTTTTCATAATCGATAGCCGAAGCTATCC
* *
74173480 CTTTTCATTATCGATAGTCGAAGCTATCC
1 CTTTTCATAATCGATAGCCGAAGCTATCC
*
74173509 CTTTTCATATTCGATAGCCGAAGCTATCC
1 CTTTTCATAATCGATAGCCGAAGCTATCC
* *
74173538 CTTTTCATATTCGATAGCTGAAGCTATCC
1 CTTTTCATAATCGATAGCCGAAGCTATCC
** * * * * *
74173567 CTTTTCATGTTTGATGGTCGTTA-CCATCC
1 CTTTTCATAATCGATAGCCG-AAGCTATCC
*
74173596 CTATTT-ATAATCGATAGCAGAAGCTATCC
1 CT-TTTCATAATCGATAGCCGAAGCTATCC
74173625 CTTTTCAT
1 CTTTTCAT
74173633 TAGTCGATGG
Statistics
Matches: 128, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.03
29 120 0.94
30 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (29 bp):
CTTTTCATAATCGATAGCCGAAGCTATCC
Found at i:74173564 original size:87 final size:87
Alignment explanation
Indices: 74173451--74173632 Score: 244
Period size: 87 Copynumber: 2.1 Consensus size: 87
74173441 GTCACCATCA
*
74173451 CTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCAT-TATCGATAGTCG-AAGCTATCCCT-TT
1 CTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATGT-TCGATAGTCGTAA-CCATCCCTATT
* *
74173513 TCATATTCGATAGCCGAAGCTATCC
64 T-ATAATCGATAGCAGAAGCTATCC
* * * * *
74173538 CTTTTCATATTCGATAGCTGAAGCTATCCCTTTTCATGTTTGATGGTCGTTACCATCCCTATTTA
1 CTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATGTTCGATAGTCGTAACCATCCCTATTTA
74173603 TAATCGATAGCAGAAGCTATCC
66 TAATCGATAGCAGAAGCTATCC
74173625 CTTTTCAT
1 CTTTTCAT
74173633 TAGTCGATGG
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
87 79 0.94
88 5 0.06
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (87 bp):
CTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATGTTCGATAGTCGTAACCATCCCTATTTA
TAATCGATAGCAGAAGCTATCC
Found at i:74181140 original size:29 final size:29
Alignment explanation
Indices: 74180899--74181132 Score: 269
Period size: 29 Copynumber: 8.1 Consensus size: 29
74180889 GGTCGTCACC
* * **
74180899 ATCCTTTTTCATAATCGATAGCAAAAGCT
1 ATCCCTTTTCATAATTGATAGCCGAAGCT
* *
74180928 ATCCCTTTTCAT-ATTCGATAGCTGGAGCT
1 ATCCCTTTTCATAATT-GATAGCCGAAGCT
*
74180957 ATCCCTTTTCAT-ATTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATT-GATAGCCGAAGCT
* *
74180986 ATCTCC-TTTCATATTTGATAGCTGAAGCT
1 ATC-CCTTTTCATAATTGATAGCCGAAGCT
** * * * *
74181015 ATCCCTTTTCATGTTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTGATAGCCG-AAGCT
74181044 ATCCCTTTTCATAATTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTGATAGCCGAAGCT
74181073 ATCCCTTTTCATAATTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTGATAGCCGAAGCT
74181102 ATCCCTTTTCATAATTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTGATAGCCGAAGCT
74181131 AT
1 AT
74181133 TCATTTTCTT
Statistics
Matches: 176, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
28 5 0.03
29 166 0.94
30 5 0.03
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATTGATAGCCGAAGCT
Found at i:74183427 original size:28 final size:27
Alignment explanation
Indices: 74183364--74183515 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
74183354 ATATTAAGTC
* *
74183364 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
74183391 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
74183419 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
74183446 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
74183474 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
74183501 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
74183516 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:74183448 original size:55 final size:55
Alignment explanation
Indices: 74183364--74183540 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
74183354 ATATTAAGTC
* * *
74183364 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
74183419 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
74183474 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
74183530 CGCACACTTAG
1 CGCACACTTAG
74183541 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:74216443 original size:28 final size:28
Alignment explanation
Indices: 74216375--74216614 Score: 349
Period size: 28 Copynumber: 8.5 Consensus size: 28
74216365 CATGAGATTG
* * *
74216375 GCACTAAGTGTGCGGGTTTAAAT-TGTTCA
1 GCACTAAGTGTGCGAGTTTGATTATG-T-A
74216404 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
74216432 GCACTAAGTGTGCAAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGT-A
74216461 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
74216489 GCACTAAGTGTGCAAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGT-A
74216518 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
74216546 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
* *
74216574 GCACTAATTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
74216601 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
74216615 GACTTAATAT
Statistics
Matches: 197, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
27 23 0.12
28 97 0.49
29 75 0.38
30 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATGTA
Found at i:74216464 original size:57 final size:57
Alignment explanation
Indices: 74216403--74216613 Score: 363
Period size: 57 Copynumber: 3.7 Consensus size: 57
74216393 TAAATTGTTC
74216403 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
74216460 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
* *
74216517 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATAT-
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
* * *
74216573 AGCACTAATTGTGCGAG-TTGATTATATAGCACTGAGTGTGC
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGC
74216614 GGACTTAATA
Statistics
Matches: 149, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
55 22 0.15
56 16 0.11
57 111 0.74
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (57 bp):
AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
Found at i:74233939 original size:44 final size:44
Alignment explanation
Indices: 74233871--74233972 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
74233861 GTCCAACTAT
* * * * *
74233871 GGTCTTACACATGTTTACCATGATGCCATAACATCTTTCAACCAT
1 GGTCTTACTCAT-TATATCATGATGACATAACATCTTTCAACCAG
* * * *
74233916 GTTCTTACTCATTATATCATGATGAGATAGCATCTTTCAACTAG
1 GGTCTTACTCATTATATCATGATGACATAACATCTTTCAACCAG
74233960 GGTCTTACTCATT
1 GGTCTTACTCATT
74233973 TTAGGTGCAT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 37 0.79
45 10 0.21
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (44 bp):
GGTCTTACTCATTATATCATGATGACATAACATCTTTCAACCAG
Found at i:74240965 original size:18 final size:17
Alignment explanation
Indices: 74240921--74240968 Score: 78
Period size: 19 Copynumber: 2.7 Consensus size: 17
74240911 CAGCCCGCCA
74240921 CAAAATTCTTGTGTGAC
1 CAAAATTCTTGTGTGAC
74240938 CAAAATTTCTCTGTGTGAC
1 CAAAA-TTCT-TGTGTGAC
74240957 CAAAATTCTTGT
1 CAAAATTCTTGT
74240969 TTAAAAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.28
18 8 0.28
19 13 0.45
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (17 bp):
CAAAATTCTTGTGTGAC
Found at i:74242923 original size:28 final size:28
Alignment explanation
Indices: 74242881--74243087 Score: 310
Period size: 28 Copynumber: 7.4 Consensus size: 28
74242871 CTATTCAGTA
* *
74242881 ACAGT-ACAGTGTGGGCCATAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
74242908 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
74242936 ATAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
74242964 ACAGTAACAATGTAGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
74242992 ACAGTAACAATGTGGGCCTTATCCAAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
74243020 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
74243048 ATAG-AATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAATGTGGGCCTTAGCCCAAT
*
74243076 ACAGTAATAATG
1 ACAGTAACAATG
74243088 CAGTGCAATA
Statistics
Matches: 162, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
27 7 0.04
28 153 0.94
29 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:74243223 original size:26 final size:26
Alignment explanation
Indices: 74243194--74243243 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
74243184 ACCAATATCA
*
74243194 CAGCAAAGCTGCTAGTAATAGTATTG
1 CAGCAAAGCTGCCAGTAATAGTATTG
74243220 CAGCAAAGCTGCCAGTAATAGTAT
1 CAGCAAAGCTGCCAGTAATAGTAT
74243244 ATGTGGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAATAGTATTG
Found at i:74243261 original size:27 final size:26
Alignment explanation
Indices: 74243207--74243263 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
74243197 CAAAGCTGCT
**
74243207 AGTAATAGTATTGCAGCAAAGCTGCC
1 AGTAATAGTATTGCAGCAAAGCCACC
**
74243233 AGTAATAGTATATGTGGCAAAGCCACC
1 AGTAATAGTAT-TGCAGCAAAGCCACC
74243260 AGTA
1 AGTA
74243264 GGTCCACAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
AGTAATAGTATTGCAGCAAAGCCACC
Found at i:74243506 original size:27 final size:27
Alignment explanation
Indices: 74243476--74243617 Score: 176
Period size: 27 Copynumber: 5.3 Consensus size: 27
74243466 GGGTATAACA
** *
74243476 GTCATTTTACCCTATAAGGGTCTTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
74243503 GTCATTTTATCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
74243530 ATCATTCTACCTTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
74243557 GTCATCTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
74243584 GTCAATTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
74243611 ATCATTT
1 GTCATTT
74243618 ATTGACATCT
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:74245304 original size:11 final size:11
Alignment explanation
Indices: 74245288--74245324 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
74245278 AATAGAGAAT
*
74245288 GATGCTTGATG
1 GATGCTTGAGG
74245299 GATGCTTGAGG
1 GATGCTTGAGG
*
74245310 GATGATTGAGG
1 GATGCTTGAGG
74245321 GATG
1 GATG
74245325 AGAAGGTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.05, G:0.43, T:0.30
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:74247201 original size:131 final size:131
Alignment explanation
Indices: 74246967--74247228 Score: 524
Period size: 131 Copynumber: 2.0 Consensus size: 131
74246957 GTTTAATCTC
74246967 CAAAGAACTAAGTTTTCATGGTAAACATTACTAAAGCTAAGATCATACAAGCATTCCATTCTTCA
1 CAAAGAACTAAGTTTTCATGGTAAACATTACTAAAGCTAAGATCATACAAGCATTCCATTCTTCA
74247032 AGATAACATACTTTCACTTAAATAAAATCATCATTCATACTTGCATACAAACTATCTCAGTAACA
66 AGATAACATACTTTCACTTAAATAAAATCATCATTCATACTTGCATACAAACTATCTCAGTAACA
74247097 A
131 A
74247098 CAAAGAACTAAGTTTTCATGGTAAACATTACTAAAGCTAAGATCATACAAGCATTCCATTCTTCA
1 CAAAGAACTAAGTTTTCATGGTAAACATTACTAAAGCTAAGATCATACAAGCATTCCATTCTTCA
74247163 AGATAACATACTTTCACTTAAATAAAATCATCATTCATACTTGCATACAAACTATCTCAGTAACA
66 AGATAACATACTTTCACTTAAATAAAATCATCATTCATACTTGCATACAAACTATCTCAGTAACA
74247228 A
131 A
74247229 GAATATCTCT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (131 bp):
CAAAGAACTAAGTTTTCATGGTAAACATTACTAAAGCTAAGATCATACAAGCATTCCATTCTTCA
AGATAACATACTTTCACTTAAATAAAATCATCATTCATACTTGCATACAAACTATCTCAGTAACA
A
Found at i:74266589 original size:25 final size:25
Alignment explanation
Indices: 74266561--74266631 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
74266551 TGAACACACC
*
74266561 CATATTCACAACTCGTGTGAGCATT
1 CATATTCACAACTCATGTGAGCATT
* *
74266586 CATATTCACAACTTATGTGAGGATT
1 CATATTCACAACTCATGTGAGCATT
* *
74266611 CATATTCATAGCTCATGTGAG
1 CATATTCACAACTCATGTGAG
74266632 AATTTCTATC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (25 bp):
CATATTCACAACTCATGTGAGCATT
Found at i:74269170 original size:54 final size:54
Alignment explanation
Indices: 74269107--74269215 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
74269097 GTCAAATATG
*
74269107 ATCACAAGGCATTACACTATCATAGGTTATTGTGACATATATATCTAGACTCAT
1 ATCACAAGGCATCACACTATCATAGGTTATTGTGACATATATATCTAGACTCAT
74269161 ATCACAAGGCATCACACTATCATAGGTTATTGTGACATATATATCTAGACTCAT
1 ATCACAAGGCATCACACTATCATAGGTTATTGTGACATATATATCTAGACTCAT
74269215 A
1 A
74269216 GGCACTATGT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (54 bp):
ATCACAAGGCATCACACTATCATAGGTTATTGTGACATATATATCTAGACTCAT
Found at i:74277074 original size:17 final size:17
Alignment explanation
Indices: 74277052--74277086 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
74277042 TTCTTGTACC
74277052 TTAATTAACTATCCAAA
1 TTAATTAACTATCCAAA
74277069 TTAATTAACTATCCAAA
1 TTAATTAACTATCCAAA
74277086 T
1 T
74277087 GAAAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAATTAACTATCCAAA
Found at i:74278808 original size:7 final size:7
Alignment explanation
Indices: 74278765--74278790 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
74278755 ACTTTCTATA
74278765 ATATAAT
1 ATATAAT
74278772 ATATAAT
1 ATATAAT
74278779 ATATAAT
1 ATATAAT
74278786 ATATA
1 ATATA
74278791 TTACCTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:74287395 original size:21 final size:19
Alignment explanation
Indices: 74287366--74287421 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
74287356 TCAAAAGAAA
74287366 TTTTCTTCTCCATT-TTCATT
1 TTTTCTTCT-C-TTCTTCATT
74287386 TTTTGCTTCTCTTCTTCATT
1 TTTT-CTTCTCTTCTTCATT
74287406 TTTT-TT-TCTT-TTCATT
1 TTTTCTTCTCTTCTTCATT
74287422 GGCCAGCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.18
17 4 0.12
18 2 0.06
19 2 0.06
20 15 0.44
21 5 0.15
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTCTTCTCTTCTTCATT
Found at i:74292818 original size:21 final size:22
Alignment explanation
Indices: 74292776--74292818 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
74292766 AAACCACAAA
* *
74292776 ATATAATTTTAATAACTTTAAT
1 ATATAATTTTAATAAATCTAAT
*
74292798 ATATATTTTTAA-AAATCTAAT
1 ATATAATTTTAATAAATCTAAT
74292819 GGTACCCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATAATTTTAATAAATCTAAT
Found at i:74293811 original size:30 final size:30
Alignment explanation
Indices: 74293754--74293816 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
74293744 AAATATGGGC
* * *
74293754 TTATCTGGATACAAATCAAAGGGTAAGGGT
1 TTATCTGGATACAAATCAAAAGATAAGGCT
* *
74293784 TTATTTGGATACAAATTAAAAGATAAGGCT
1 TTATCTGGATACAAATCAAAAGATAAGGCT
74293814 TTA
1 TTA
74293817 AGAAAACTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (30 bp):
TTATCTGGATACAAATCAAAAGATAAGGCT
Found at i:74295141 original size:20 final size:19
Alignment explanation
Indices: 74295116--74295158 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
74295106 TTCCCTTTCC
74295116 TTTTT-CTTTTTTTGATTATT
1 TTTTTCCTTTTTTT-ATT-TT
74295136 TTTTTCCTTTTTTTATTTT
1 TTTTTCCTTTTTTTATTTT
74295155 TTTT
1 TTTT
74295159 ACTTCGCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 8 0.36
21 8 0.36
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (19 bp):
TTTTTCCTTTTTTTATTTT
Found at i:74302556 original size:25 final size:25
Alignment explanation
Indices: 74302522--74302576 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
74302512 AAGAAGAAAG
* * *
74302522 AAAATAAAAAAATAAAATCTAATCT
1 AAAAAAAAAAAAGAAAACCTAATCT
*
74302547 AAAAAAAAAAGAGAAAACCTAATCT
1 AAAAAAAAAAAAGAAAACCTAATCT
74302572 AAAAA
1 AAAAA
74302577 TGAAAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.71, C:0.09, G:0.04, T:0.16
Consensus pattern (25 bp):
AAAAAAAAAAAAGAAAACCTAATCT
Found at i:74302598 original size:15 final size:16
Alignment explanation
Indices: 74302572--74302612 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
74302562 AACCTAATCT
74302572 AAAAATGAAAAGAAAA-
1 AAAAA-GAAAAGAAAAG
*
74302588 TAAAAGAAAAGAAAAG
1 AAAAAGAAAAGAAAAG
74302604 AAAAAGAAA
1 AAAAAGAAA
74302613 GGAACACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (16 bp):
AAAAAGAAAAGAAAAG
Found at i:74302610 original size:6 final size:5
Alignment explanation
Indices: 74302573--74302612 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
74302563 ACCTAATCTA
*
74302573 AAAATG AAAAG AAAAT AAAAG AAAAG AAAAG AAAAAG AAA
1 AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAA
74302613 GGAACACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (5 bp):
AAAAG
Found at i:74304335 original size:6 final size:6
Alignment explanation
Indices: 74304324--74304371 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
74304314 ATTTTGCAAA
* *
74304324 AATATG AATATG AATATG AATATG AATTTG GAT-TG AAT-TG AATA-G
1 AATATG AATATG AATATG AATATG AATATG AATATG AATATG AATATG
74304369 AAT
1 AAT
74304372 GGTTATTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
5 13 0.34
6 25 0.66
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (6 bp):
AATATG
Found at i:74304640 original size:30 final size:30
Alignment explanation
Indices: 74304604--74304887 Score: 177
Period size: 30 Copynumber: 9.2 Consensus size: 30
74304594 TCATCAACCA
* **
74304604 ATGAAAAGGGATGGCTTCGGCTATTGAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* *
74304634 ATGAAAAGGGATGG-TGACGACTATC-AATA
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
*
74304663 ATGAAAAGGGATGG-TGAT-GACCATCAAATT
1 ATGAAAAGGGATGGCT--TCGACTATCAAATT
* * *
74304693 ATGAAAATGGATGGCTTCGACAATCGAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
*
74304723 ATGAAAAGGGATAGCTTCGACTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * *
74304753 ATGGAAAGGGATGG-TGGT-GACCATCACCACCATCAACA
1 ATGAAAAGGGATGGCT--TCGACTATCA--A--AT----T
* * *
74304791 ATGAAAAGGGATGG-TGACGACCATCGAATT
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
* **
74304821 ATGAAAAGGGATGGCTTCAACTATCAAAAC
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * * * *
74304851 ATGGAAAGGGATAGCTTCGGCTATCGAACT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
74304881 ATGAAAA
1 ATGAAAA
74304888 AAGGTGGTAA
Statistics
Matches: 200, Mismatches: 37, Indels: 34
0.74 0.14 0.13
Matches are distributed among these distances:
29 27 0.14
30 142 0.71
31 3 0.01
32 1 0.00
34 4 0.02
36 1 0.00
37 1 0.00
38 21 0.10
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCGACTATCAAATT
Found at i:74304709 original size:89 final size:90
Alignment explanation
Indices: 74304604--74304862 Score: 247
Period size: 98 Copynumber: 2.8 Consensus size: 90
74304594 TCATCAACCA
* * * *
74304604 ATGAAAAGGGATGGCTTCGGCTATTGAATTATGAAAAGGGAT-GGTGACGACTATC-AATAATGA
1 ATGAAAAGGGATGGCTTCGACAATCGAATTATGAAAAGGGATAGCT-ACGACTATCAAATAATGA
74304667 AAAGGGATGGTGATGACCATCAAATT
65 AAAGGGATGGTGATGACCATCAAATT
* * * *
74304693 ATGAAAATGGATGGCTTCGACAATCGAATTATGAAAAGGGATAGCTTCGACTATCAAATTATGGA
1 ATGAAAAGGGATGGCTTCGACAATCGAATTATGAAAAGGGATAGCTACGACTATCAAATAATGAA
* *
74304758 AAGGGATGGTGGTGACCATCACCACCATCAACA
66 AAGGGATGGTGATGACCATCA--A--AT----T
* * * * *
74304791 ATGAAAAGGGATGG-TGACGACCATCGAATTATGAAAAGGGATGGCTTCAACTATCAAA-ACATG
1 ATGAAAAGGGATGGCT-TCGACAATCGAATTATGAAAAGGGATAGCTACGACTATCAAATA-ATG
*
74304854 GAAAGGGAT
64 AAAAGGGAT
74304863 AGCTTCGGCT
Statistics
Matches: 142, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
89 46 0.32
90 29 0.20
92 1 0.01
94 2 0.01
97 1 0.01
98 63 0.44
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (90 bp):
ATGAAAAGGGATGGCTTCGACAATCGAATTATGAAAAGGGATAGCTACGACTATCAAATAATGAA
AAGGGATGGTGATGACCATCAAATT
Found at i:74304904 original size:128 final size:128
Alignment explanation
Indices: 74304656--74304904 Score: 311
Period size: 128 Copynumber: 1.9 Consensus size: 128
74304646 GGTGACGACT
* * * * *
74304656 ATCAATAATGAAAAGGGATGGTGATGACCATCAAATTATGAAAATGGATGGCTTCGACAATCGAA
1 ATCAACAATGAAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATGGCTTCAACAATCAAA
** * * * ****
74304721 TTATGAAAAGGGATAGCTTCGACTATCAAATTATGGAAAGGGATGGTGGTGACCATCACCACC
66 ACATGAAAAGGGATAGCTTCGACTATCAAACTATGAAAAAGGATGGTAACAACCATCACCACC
* *
74304784 ATCAACAATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATGGCTTCAACTATCAAA
1 ATCAACAATGAAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATGGCTTCAACAATCAAA
* * *
74304849 ACATGGAAAGGGATAGCTTCGGCTATCGAACTATGAAAAAAGG-TGGTAACAACCAT
66 ACATGAAAAGGGATAGCTTCGACTATCAAACTATG-AAAAAGGATGGTAACAACCAT
74304905 TGTGATTTTA
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
128 96 0.95
129 5 0.05
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (128 bp):
ATCAACAATGAAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATGGCTTCAACAATCAAA
ACATGAAAAGGGATAGCTTCGACTATCAAACTATGAAAAAGGATGGTAACAACCATCACCACC
Found at i:74311527 original size:306 final size:304
Alignment explanation
Indices: 74311104--74311656 Score: 892
Period size: 306 Copynumber: 1.8 Consensus size: 304
74311094 TAATAGCCCG
* *
74311104 TTTTAAGTGAAATTAGAATAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTATTATTAT
1 TTTTAAGTGAAATCAGAACAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTATTATTAT
* *
74311169 TATTTTAATGTCTACAGCATGTTAGTATCACCGTATAAAAATTTCGTTAAGAAATTTTACCATTT
66 TATTTTAATGTCTACAGCATGTTAGTATCACCATATAAAAATTTCATTAAGAAATTTTACCATTT
* *
74311234 GCATGCTTAATTTGATAAAAAGGACTAAATTGCAAAAGATGCAAAATTAGAGTTCTGTAAATTAA
131 GCATGCTTAATTTGATAAAAAAGACTAAATTGCAAAAGATACAAAATTAGAGTTCTGTAAATTAA
* * * *
74311299 AGGCACTAAATGGATATATAATTACTGTGTAAGAGT-CTTTATGTGGTAATTAGACCATTTTTTG
196 AGACACTAAATGGATATAGAATTAATGTCTAAGAGTGC-TTATGTGGTAATTAGACCATTTTTTG
74311363 TTTAAGTGGAAAAATATGGCCATTAAATTAAGTTGTAACAACCCA
260 TTTAAGTGGAAAAATATGGCCATTAAATTAAGTTGTAACAACCCA
* *
74311408 TTTTTAGTGAAATCAGAACAGTGGTTTTGGGACCATAAATCTGACGTGAAAATATTTATTTTATT
1 TTTTAAGTGAAATCAGAACAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTA--TTATT
* *
74311473 ATTATTTTAATGTCTGCAGCATGTTAGTATCACCATATAAAAATTTTATTAAGAAATTTTACCAT
64 ATTATTTTAATGTCTACAGCATGTTAGTATCACCATATAAAAATTTCATTAAGAAATTTTACCAT
* * * * *
74311538 TTGCATGCTTAATTTGATAAAAAAGAGTGAATTGCAAAAGGTACAAAATTAGAGTTTTTTAAATT
129 TTGCATGCTTAATTTGATAAAAAAGACTAAATTGCAAAAGATACAAAATTAGAGTTCTGTAAATT
*
74311603 AACGACACTAAATGGATATAGAATTAATGTCTAAGAGTGCTTATGTGGTAATTA
194 AAAGACACTAAATGGATATAGAATTAATGTCTAAGAGTGCTTATGTGGTAATTA
74311657 TTGTTTATTT
Statistics
Matches: 226, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
304 54 0.24
306 171 0.76
307 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (304 bp):
TTTTAAGTGAAATCAGAACAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTATTATTAT
TATTTTAATGTCTACAGCATGTTAGTATCACCATATAAAAATTTCATTAAGAAATTTTACCATTT
GCATGCTTAATTTGATAAAAAAGACTAAATTGCAAAAGATACAAAATTAGAGTTCTGTAAATTAA
AGACACTAAATGGATATAGAATTAATGTCTAAGAGTGCTTATGTGGTAATTAGACCATTTTTTGT
TTAAGTGGAAAAATATGGCCATTAAATTAAGTTGTAACAACCCA
Found at i:74312590 original size:30 final size:30
Alignment explanation
Indices: 74312543--74312879 Score: 106
Period size: 30 Copynumber: 11.3 Consensus size: 30
74312533 TCATCAACCA
* * *
74312543 ATGAAAAGAGATGGCTTCAGGTATCAAAAT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * *
74312573 ATGGAAAGGGATAGCTTCAGCTATCGAATT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * *
74312603 ATGAAAAGGGAT-G-GTCACGACCATCAACA-
1 ATGAAAAGGGATAGCTTCA-G-CTATCAAAAT
* * ** * **
74312632 ATGAAAAGAGATGGCGAC-GACCAT-TGAAT
1 ATGAAAAGGGATAGCTTCAG-CTATCAAAAT
* * * **
74312661 TTTACAAAGGGATGGCTTTGGCTAT-AAAATT
1 ATGA-AAAGGGATAGCTTCAGCTATCAAAA-T
* *
74312692 ATGAAAATGGATGGCTTC-GACTATCAAAATT
1 ATGAAAAGGGATAGCTTCAG-CTATCAAAA-T
* * *
74312723 ATGAAAAGGAACAGCTTCAGCTATCAAATT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * * *
74312753 ATGAAAAAGGAT-G-GTGACGACCATCAACAAT
1 ATGAAAAGGGATAGCTTCA-G-CTATCAA-AAT
* * * *
74312784 -T-AAAAGGGAT-G-GTGACGACCATCAAATT
1 ATGAAAAGGGATAGCTTCA-G-CTATCAAAAT
* * * *
74312812 ATTAAAAGGGATGGCTTCGGCTATCAAAAC
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * *
74312842 ATGAAAATGGATAGCTTCAGCTATCGAACT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
74312872 ATGAAAAG
1 ATGAAAAG
74312880 TAGTGGTAAC
Statistics
Matches: 231, Mismatches: 58, Indels: 36
0.71 0.18 0.11
Matches are distributed among these distances:
28 8 0.03
29 48 0.21
30 135 0.58
31 38 0.16
32 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCAGCTATCAAAAT
Found at i:74312793 original size:29 final size:29
Alignment explanation
Indices: 74312745--74312825 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 29
74312735 AGCTTCAGCT
* *
74312745 ATCAAATTATGAAAAAGGATGGTGACGACC
1 ATCAAA-TATTAAAAGGGATGGTGACGACC
74312775 ATCAACA-ATTAAAAGGGATGGTGACGACC
1 ATCAA-ATATTAAAAGGGATGGTGACGACC
74312804 ATCAAATTATTAAAAGGGATGG
1 ATCAAA-TATTAAAAGGGATGG
74312826 CTTCGGCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 1 0.02
29 25 0.54
30 19 0.41
31 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.21
Consensus pattern (29 bp):
ATCAAATATTAAAAGGGATGGTGACGACC
Found at i:74312820 original size:150 final size:149
Alignment explanation
Indices: 74312543--74312879 Score: 448
Period size: 150 Copynumber: 2.3 Consensus size: 149
74312533 TCATCAACCA
* * * * *
74312543 ATGAAAA-GAGATGGCTTCAGGTATCAAAATATGGAAAGGGATAGCTTCAGCTATCGAATTATGA
1 ATGAAAATG-GATGGCTTCAGCTATCAAAATATGAAAAGGAACAGCTTCAGCTATCAAATTATGA
* **
74312607 AAAGGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATTGAATTTTACAAAGGG
65 AAAAGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATCAAATTTTACAAAGGG
* *
74312672 ATGGCTTTGGCTAT-AAAATT
130 ATGGCTTCGGCTATCAAAA-C
74312692 ATGAAAATGGATGGCTTC-GACTATCAAAATTATGAAAAGGAACAGCTTCAGCTATCAAATTATG
1 ATGAAAATGGATGGCTTCAG-CTATCAAAA-TATGAAAAGGAACAGCTTCAGCTATCAAATTATG
* * * *
74312756 AAAAAGGATGGTGACGACCATCAACAATTAAAAGGGATGGTGACGACCATCAAATTATTA-AAAG
64 AAAAAGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATCAAATT-TTACAAAG
74312820 GGATGGCTTCGGCTATCAAAAC
128 GGATGGCTTCGGCTATCAAAAC
* * *
74312842 ATGAAAATGGATAGCTTCAGCTATCGAACTATGAAAAG
1 ATGAAAATGGATGGCTTCAGCTATCAAAATATGAAAAG
74312880 TAGTGGTAAC
Statistics
Matches: 165, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
148 1 0.01
149 33 0.20
150 123 0.75
151 8 0.05
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (149 bp):
ATGAAAATGGATGGCTTCAGCTATCAAAATATGAAAAGGAACAGCTTCAGCTATCAAATTATGAA
AAAGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATCAAATTTTACAAAGGGA
TGGCTTCGGCTATCAAAAC
Found at i:74314103 original size:20 final size:20
Alignment explanation
Indices: 74314064--74314104 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
74314054 CCCTATAGTT
*
74314064 TAAAAATTTTAATCTTTTTC
1 TAAAAATTTTAATCTGTTTC
* *
74314084 TAAAAATTTTTATGTGTTTC
1 TAAAAATTTTAATCTGTTTC
74314104 T
1 T
74314105 GATTTGTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
TAAAAATTTTAATCTGTTTC
Found at i:74315537 original size:14 final size:15
Alignment explanation
Indices: 74315514--74315542 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
74315504 TTTTTTTATA
74315514 AAAAATAAATAAAAT
1 AAAAATAAATAAAAT
74315529 AAAAA-AAATAAAAT
1 AAAAATAAATAAAAT
74315543 CACTCACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAATAAATAAAAT
Found at i:74318330 original size:27 final size:28
Alignment explanation
Indices: 74318300--74318417 Score: 129
Period size: 27 Copynumber: 4.4 Consensus size: 28
74318290 ATTAGAGTTC
74318300 GCCACAAAGGCT-A-TCTATACAGAGTAT
1 GCCACAAAGGCTGATTC-ATACAGAGTAT
* *
74318327 GCCA-AAAAGATGATTCATACAGAGTAT
1 GCCACAAAGGCTGATTCATACAGAGTAT
* *
74318354 GCCACAAAGG-TGATTCATACAGACTAC
1 GCCACAAAGGCTGATTCATACAGAGTAT
*
74318381 GCCACAAAGGC-GATTCATTCAGAGTAT
1 GCCACAAAGGCTGATTCATACAGAGTAT
**
74318408 GTTACAAAGG
1 GCCACAAAGG
74318418 ATGACAGGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.06
27 66 0.86
28 6 0.08
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (28 bp):
GCCACAAAGGCTGATTCATACAGAGTAT
Found at i:74319530 original size:16 final size:16
Alignment explanation
Indices: 74319509--74319544 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
74319499 ATGAAGGGCG
74319509 TAATGGAATAGAGGCA
1 TAATGGAATAGAGGCA
*
74319525 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCA
74319541 TAAT
1 TAAT
74319545 AGCAAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.31, T:0.22
Consensus pattern (16 bp):
TAATGGAATAGAGGCA
Found at i:74319856 original size:22 final size:21
Alignment explanation
Indices: 74319831--74319882 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
74319821 TAGATATTCT
*
74319831 TAATATTAA-ATTACTAAAATCA
1 TAATATTAATACTA-TAAAAT-A
74319853 TAATATATAATACTATAAAATA
1 TAATAT-TAATACTATAAAATA
74319875 TAAT-TTAA
1 TAATATTAA
74319883 CATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATACTATAAAATA
Found at i:74319892 original size:121 final size:119
Alignment explanation
Indices: 74319757--74320047 Score: 485
Period size: 120 Copynumber: 2.4 Consensus size: 119
74319747 TTAATCATAT
74319757 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
74319822 -AGATATTCTTAATATTAAATTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAGATATTCTT-ATATGAAATTACTAAAATCAT-A-ATATAATACTATAAAATATAA
74319878 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * *
74319943 AAATATATTCTTATATGGATTTACTAAAATCATAATATAATACTATAAAATATAA
66 -AAGATATTCTTATATGAAATTACTAAAATCATAATATAATACTATAAAATATAA
* *
74319998 TTTAAAATAAATATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
74320048 CTAAAGTTTG
Statistics
Matches: 162, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
120 69 0.43
121 66 0.41
122 18 0.11
123 9 0.06
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (119 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAGATATTCTTATATGAAATTACTAAAATCATAATATAATACTATAAAATATAA
Found at i:74320019 original size:26 final size:27
Alignment explanation
Indices: 74319974--74320041 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
74319964 TACTAAAATC
*
74319974 ATAATATAATACTATAAAATATAATTTA
1 ATAATA-AATATTATAAAATATAATTTA
*
74320002 A-AATAAATATTATTAAATATAATTTA
1 ATAATAAATATTATAAAATATAATTTA
74320028 ATAA-AAATA-TATAA
1 ATAATAAATATTATAA
74320042 TTTAATCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.11
26 25 0.69
27 6 0.17
28 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (27 bp):
ATAATAAATATTATAAAATATAATTTA
Found at i:74337216 original size:105 final size:106
Alignment explanation
Indices: 74337085--74337282 Score: 301
Period size: 105 Copynumber: 1.9 Consensus size: 106
74337075 ATGGATTAAG
* * * *
74337085 ATTTAAGAGGATTTTTGGCTATTTGGTCAAACGAAAAAATCGAAACTCAGCACATTAGGGCACGT
1 ATTTAAGAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGAGCACGT
74337150 TTCCTCGAAATT-CCAAACGCAAAATATTCTCTTACTCTAAA
66 TTCCTCG-AATTCCCAAACGCAAAATATTCTCTTACTCTAAA
* *
74337191 ATTTAA-AGGATATTTGGCTATTTGGTCGAACGAAAAAATTGAAACCCAACACATTAGAGCACGT
1 ATTTAAGAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGAGCACGT
* *
74337255 TTTCTCGAATTCCCAAATGCAAAATATT
66 TTCCTCGAATTCCCAAACGCAAAATATT
74337283 GCCTTTATTA
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
104 4 0.05
105 73 0.88
106 6 0.07
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (106 bp):
ATTTAAGAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGAGCACGT
TTCCTCGAATTCCCAAACGCAAAATATTCTCTTACTCTAAA
Found at i:74337980 original size:10 final size:10
Alignment explanation
Indices: 74337953--74337988 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
74337943 GTAAAAGATA
*
74337953 TATATATTTG
1 TATATATATG
*
74337963 TATGTATATG
1 TATATATATG
74337973 TATATATATG
1 TATATATATG
74337983 TATATA
1 TATATA
74337989 AAAATTGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (10 bp):
TATATATATG
Found at i:74338400 original size:20 final size:20
Alignment explanation
Indices: 74338377--74338453 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 20
74338367 ATAACATAAT
74338377 AAAATAAAATAATATATATA
1 AAAATAAAATAATATATATA
74338397 AAAAGCT-AAATAGATATATA-A
1 AAAA--TAAAATA-ATATATATA
*
74338418 AATAATATAATAATAATAATAGTA
1 AA-AATAAAATAAT-AT-ATA-TA
*
74338442 ATAATAAAATAA
1 AAAATAAAATAA
74338454 CAATAGAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
20 7 0.16
21 14 0.31
22 13 0.29
23 9 0.20
24 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAATAAAATAATATATATA
Found at i:74338425 original size:12 final size:13
Alignment explanation
Indices: 74338404--74338445 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
74338394 ATAAAAAGCT
74338404 AAATAGATAT-ATA
1 AAATA-ATATAATA
74338417 AAATAATATAATA
1 AAATAATATAATA
74338430 ATAATAATAGTAATA
1 A-AATAATA-TAATA
74338445 A
1 A
74338446 TAAAATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.15
13 9 0.35
14 7 0.27
15 6 0.23
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (13 bp):
AAATAATATAATA
Found at i:74338430 original size:3 final size:3
Alignment explanation
Indices: 74338414--74338458 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
74338404 AAATAGATAT
* *
74338414 ATA A-A ATA AT- ATA ATA ATA ATA ATA GTA ATA ATA A-A ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
74338459 GAAAAGGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:74338458 original size:20 final size:20
Alignment explanation
Indices: 74338420--74338459 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
74338410 ATATATAAAA
*
74338420 TAATATAATAATAATAATAG
1 TAATATAATAATAACAATAG
74338440 TAATAATAA-AATAACAATAG
1 TAAT-ATAATAATAACAATAG
74338460 AAAAGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (20 bp):
TAATATAATAATAACAATAG
Found at i:74340546 original size:11 final size:11
Alignment explanation
Indices: 74340530--74340555 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
74340520 ATTTTTTTAA
74340530 TTTTAAAATAC
1 TTTTAAAATAC
74340541 TTTTAAAATAC
1 TTTTAAAATAC
74340552 TTTT
1 TTTT
74340556 TTTTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:74341646 original size:6 final size:6
Alignment explanation
Indices: 74341635--74341659 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
74341625 TTATGTAGCT
74341635 AGGTAC AGGTAC AGGTAC AGGTAC A
1 AGGTAC AGGTAC AGGTAC AGGTAC A
74341660 AAACACAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (6 bp):
AGGTAC
Found at i:74352814 original size:57 final size:56
Alignment explanation
Indices: 74352713--74352828 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 56
74352703 ATCGAAATGG
* * *
74352713 TGAAAATGGAGAAATGCGAAACATTTGAAAATTATTATGGTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAAT-CGAAAAATTTGAAAATGATAATGGTTTCTCCAAAATAAAAA
* *
74352770 TGAAAATGGAGAAAT-GAAATAATTTGGAAATGATAATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATCGAAA-AATTTGAAAATGATAATGG-TTTCTCCAAAATAAAAA
74352827 TG
1 TG
74352829 GAGAAATAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
55 4 0.08
56 15 0.29
57 33 0.63
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (56 bp):
TGAAAATGGAGAAATCGAAAAATTTGAAAATGATAATGGTTTCTCCAAAATAAAAA
Found at i:74352828 original size:51 final size:51
Alignment explanation
Indices: 74352766--74352879 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 51
74352756 CTCCAAAATA
* * *
74352766 AAAATGAAAATGGAGAAAT-GAAATAATTTGGAAATG-ATAATGGTTTTCTCC
1 AAAATGAAAATGGAGAAATAG-AACAATTTGGAAATGAAT-ATGGTTTCCCCC
* *
74352817 AAAATGAAAATGGAGAAATAGAACCATTTGGAAATGAATGTGGTTTCCCCC
1 AAAATGAAAATGGAGAAATAGAACAATTTGGAAATGAATATGGTTTCCCCC
*
74352868 AAACTGAAAATG
1 AAAATGAAAATG
74352880 AAATTGATCT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
51 52 0.95
52 3 0.05
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (51 bp):
AAAATGAAAATGGAGAAATAGAACAATTTGGAAATGAATATGGTTTCCCCC
Found at i:74353154 original size:20 final size:20
Alignment explanation
Indices: 74353129--74353170 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
74353119 TCAAATTATA
74353129 AAGTATTGAATTAAAAGTCT
1 AAGTATTGAATTAAAAGTCT
74353149 AAGTATTGAATTAAAAGTCT
1 AAGTATTGAATTAAAAGTCT
74353169 AA
1 AA
74353171 AAAGTGCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (20 bp):
AAGTATTGAATTAAAAGTCT
Found at i:74366676 original size:17 final size:19
Alignment explanation
Indices: 74366629--74366677 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
74366619 AATAGTATTT
*
74366629 TATTAATTTAATATTAAAG
1 TATTATTTTAATATTAAAG
*
74366648 TGATTATCTTAATATTAAA-
1 T-ATTATTTTAATATTAAAG
74366667 T-TTATTTTAAT
1 TATTATTTTAAT
74366678 GCTTATCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 9 0.35
19 2 0.08
20 15 0.58
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (19 bp):
TATTATTTTAATATTAAAG
Found at i:74385945 original size:39 final size:38
Alignment explanation
Indices: 74385889--74385970 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 38
74385879 AAGGGTTGAA
* *
74385889 GTTTAGGTTTATAGTTTATATATGTTTTATGATTCAGG
1 GTTTAGGTTTAGAGTTTATATATGTTTCATGATTCAGG
* * *
74385927 GTTTAGGGTTTAGGGTTTATATATGTTTCATGGTTTAGG
1 GTTTA-GGTTTAGAGTTTATATATGTTTCATGATTCAGG
74385966 GTTTA
1 GTTTA
74385971 AGGAATATGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 5 0.13
39 33 0.87
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (38 bp):
GTTTAGGTTTAGAGTTTATATATGTTTCATGATTCAGG
Found at i:74385985 original size:21 final size:22
Alignment explanation
Indices: 74385956--74386002 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
74385946 TATATGTTTC
*
74385956 ATGGTTTA-GGGTTTAAGGAAT
1 ATGGGTTAGGGGTTTAAGGAAT
* *
74385977 ATGGGTTAGGGGTTTAGGGATT
1 ATGGGTTAGGGGTTTAAGGAAT
74385999 ATGG
1 ATGG
74386003 TGTAAGAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.36
Consensus pattern (22 bp):
ATGGGTTAGGGGTTTAAGGAAT
Found at i:74388525 original size:31 final size:31
Alignment explanation
Indices: 74388487--74388566 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
74388477 AAGGATTTTA
74388487 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
*
74388518 ATTGGTTTTTGCTA-CTAAGATGGTACCTTTT
1 ATTGGTTTTTGC-AGCTAAGATGGTACCTTCT
* *
74388549 ATTGTTTTTTGCTGCTAA
1 ATTGGTTTTTGCAGCTAA
74388567 ATCAACCATG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.19, C:0.14, G:0.20, T:0.47
Consensus pattern (31 bp):
ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
Found at i:74389096 original size:15 final size:15
Alignment explanation
Indices: 74389060--74389101 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
74389050 ATAAATATTT
* *
74389060 ATATACATTTTTAAT
1 ATATATATTTTTAAA
74389075 ATATATATTTTTAAA
1 ATATATATTTTTAAA
*
74389090 ATTTATATTTTT
1 ATATATATTTTT
74389102 TTCATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATATATTTTTAAA
Found at i:74389096 original size:17 final size:18
Alignment explanation
Indices: 74389076--74389113 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
74389066 ATTTTTAATA
74389076 TATATATTTTT-AAAATT
1 TATATATTTTTCAAAATT
* *
74389093 TATATTTTTTTCATAATT
1 TATATATTTTTCAAAATT
74389111 TAT
1 TAT
74389114 CAATCATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TATATATTTTTCAAAATT
Found at i:74389175 original size:12 final size:12
Alignment explanation
Indices: 74389160--74389228 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 12
74389150 ATCATATCAT
74389160 AACTTATATATA
1 AACTTATATATA
*
74389172 AACTTACATAATACA
1 AACTT--AT-ATATA
*
74389187 TAACTTAAATAATA
1 -AACTTATAT-ATA
* *
74389201 TA-TAATATATA
1 AACTTATATATA
74389212 AACTTATATATA
1 AACTTATATATA
74389224 AACTT
1 AACTT
74389229 GCATAACTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
11 4 0.09
12 22 0.51
13 3 0.07
14 5 0.12
15 4 0.09
16 5 0.12
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (12 bp):
AACTTATATATA
Found at i:74389193 original size:16 final size:16
Alignment explanation
Indices: 74389172--74389205 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
74389162 CTTATATATA
*
74389172 AACTTACATAATACAT
1 AACTTAAATAATACAT
*
74389188 AACTTAAATAATATAT
1 AACTTAAATAATACAT
74389204 AA
1 AA
74389206 TATATAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (16 bp):
AACTTAAATAATACAT
Found at i:74389256 original size:20 final size:19
Alignment explanation
Indices: 74389231--74389305 Score: 61
Period size: 20 Copynumber: 4.1 Consensus size: 19
74389221 ATAAACTTGC
*
74389231 ATAACTTATATAATAACATA
1 ATAACTTACATAAT-ACATA
74389251 ATAACTTACATAATAC---
1 ATAACTTACATAATACATA
* * *
74389267 ATAGCCTACAT-A-ACTTAA
1 ATAACTTACATAATACAT-A
74389285 ATAACTTACATAATACATA
1 ATAACTTACATAATACATA
74389304 AT
1 AT
74389306 CTTCCTAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
14 2 0.05
15 1 0.02
16 9 0.21
18 9 0.21
19 6 0.14
20 16 0.37
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.32
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:74389332 original size:41 final size:41
Alignment explanation
Indices: 74389287--74389629 Score: 220
Period size: 41 Copynumber: 8.4 Consensus size: 41
74389277 TAACTTAAAT
* *
74389287 AACTTACATAATACATAATCTT-CCTAACTTACATTATACAC
1 AACTTACATAATACATAA-CTTACATAACTTACATAATACAC
*
74389328 AACTTACATAATACATTACTTACATAACTTACATAAT--AC
1 AACTTACATAATACATAACTTACATAACTTACATAATACAC
* * * *
74389367 -A-TTAC-T--TACATAACTTACTTTACTTACAGTACTTACAT
1 AACTTACATAATACATAACTTACATAACTTACA-TA-ATACAC
* *
74389405 AA--TACATAATACATAACTTACATAACATACA-ATATACAT
1 AACTTACATAATACATAACTTACATAACTTACATA-ATACAC
* *
74389444 AACTTACATTACTTACAGT-ACTTACATAA--TACATAACTTACAT
1 AACTTACA-TA-ATACA-TAACTTACATAACTTACATAA--TACAC
* * * *
74389487 AACATACA-ATATACATAACTTACATAACATACATAATATAT
1 AACTTACATA-ATACATAACTTACATAACTTACATAATACAC
* * *
74389528 AACTTACAT-A-ACATACAATATACATAACTTACACAACTTACAT
1 AACTTACATAATACATA-ACT-TACATAACTTACATAA--TACAC
* * *
74389571 AACATACATAATACATAACTTACATAA--TACACAACTTACAT
1 AACTTACATAATACATAACTTACATAACTTACATAA--TACAC
74389612 AACTTACATAATACATAA
1 AACTTACATAATACATAA
74389630 AAATATAGCA
Statistics
Matches: 249, Mismatches: 26, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
34 19 0.08
35 2 0.01
36 2 0.01
37 4 0.02
38 5 0.02
39 17 0.07
40 7 0.03
41 129 0.52
42 3 0.01
43 52 0.21
44 4 0.02
45 5 0.02
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (41 bp):
AACTTACATAATACATAACTTACATAACTTACATAATACAC
Found at i:74389333 original size:16 final size:16
Alignment explanation
Indices: 74389312--74389613 Score: 110
Period size: 16 Copynumber: 18.7 Consensus size: 16
74389302 TAATCTTCCT
*
74389312 AACTTACATTATACAC
1 AACTTACATAATACAC
*
74389328 AACTTACATAATACAT
1 AACTTACATAATACAC
* *
74389344 TACTTACATAACTTACAT
1 AACTTACATAA--TACAC
* *
74389362 AA--TACATTACTTACAT
1 AACTTACA-TA-ATACAC
* * *
74389378 AACTTACTTTACTTACAG
1 AACTTAC-ATA-ATACAC
* *
74389396 TACTTACATAATACAT
1 AACTTACATAATACAC
*
74389412 AA--TACATAACTTACAT
1 AACTTACATAA--TACAC
* *
74389428 AACATACA-ATATACAT
1 AACTTACATA-ATACAC
* *
74389444 AACTTACATTACTTACAG
1 AACTTACA-TA-ATACAC
* *
74389462 TACTTACATAATACAT
1 AACTTACATAATACAC
* *
74389478 AACTTACATAACATAC
1 AACTTACATAATACAC
*
74389494 AA-TATACATAACTTACAT
1 AACT-TACATAA--TACAC
* * *
74389512 AACATACATAATATAT
1 AACTTACATAATACAC
* *
74389528 AACTTACATAACATAC
1 AACTTACATAATACAC
74389544 AA-TATACATAACTTACAC
1 AACT-TACATAA--TACAC
74389562 AACTTAC---ATA-AC
1 AACTTACATAATACAC
*
74389574 -A--TACATAATACAT
1 AACTTACATAATACAC
74389587 AACTTACATAATACAC
1 AACTTACATAATACAC
74389603 AACTTACATAA
1 AACTTACATAA
74389614 CTTACATAAT
Statistics
Matches: 222, Mismatches: 35, Indels: 58
0.70 0.11 0.18
Matches are distributed among these distances:
9 3 0.01
11 1 0.00
12 5 0.02
13 3 0.01
14 8 0.04
15 3 0.01
16 132 0.59
17 7 0.03
18 59 0.27
19 1 0.00
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:74389351 original size:9 final size:9
Alignment explanation
Indices: 74389339--74389470 Score: 92
Period size: 9 Copynumber: 14.6 Consensus size: 9
74389329 ACTTACATAA
74389339 TACATTACT
1 TACATTACT
*
74389348 TACATAACT
1 TACATTACT
*
74389357 TACA-TA-A
1 TACATTACT
74389364 TACATTACT
1 TACATTACT
*
74389373 TACATAACT
1 TACATTACT
*
74389382 TACTTTACT
1 TACATTACT
*
74389391 TACAGTACT
1 TACATTACT
74389400 TACATAATACAT
1 TACAT--TAC-T
*
74389412 AATACATAACT
1 --TACATTACT
* *
74389423 TACATAACA
1 TACATTACT
*
74389432 TACAATA--
1 TACATTACT
*
74389439 TACATAACT
1 TACATTACT
74389448 TACATTACT
1 TACATTACT
*
74389457 TACAGTACT
1 TACATTACT
74389466 TACAT
1 TACAT
74389471 AATACATAAC
Statistics
Matches: 95, Mismatches: 19, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
7 9 0.09
8 3 0.03
9 71 0.75
11 4 0.04
12 3 0.03
14 5 0.05
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (9 bp):
TACATTACT
Found at i:74389377 original size:75 final size:74
Alignment explanation
Indices: 74389251--74389597 Score: 269
Period size: 75 Copynumber: 4.7 Consensus size: 74
74389241 TAATAACATA
* * *
74389251 ATAACTTACATAATACATAGCCTACATAACTTAAATAACTTACA-TA-ATACATAATCTT-CCTA
1 ATAACTTACATAATACATA-CTTACATAACTTACATAA--TACATTACTTACATAA-CTTACCTA
74389313 ACTTACATTATAC
62 ACTTACATTATAC
* * *
74389326 ACAACTTACATAATACATTACTTACATAACTTACATAATACATTACTTACATAACTTACTTTACT
1 ATAACTTACATAATACA-TACTTACATAACTTACATAATACATTACTTACATAACTTACCTAACT
*
74389391 TACAGTACTTAC
65 TACATTA--TAC
* * * *
74389403 ATAA--TACATAATACATAACTTACATAACATACA-ATATACATAACTTACATTACTTACAGT-A
1 ATAACTTACATAATACAT-ACTTACATAACTTACATA-ATACATTACTTACATAACTTAC-CTAA
*
74389464 CTTACATAATAC
63 CTTACATTATAC
* * *
74389476 ATAACTTACAT-A-ACATACAATATACATAACTTACATAACATACA-TA-ATATATAACTTACAT
1 ATAACTTACATAATACATAC--T-TACATAACTTACAT-A-ATACATTACTTACATAACTTACCT
* *
74389537 AACATACAATATAC
61 AACTTACATTATAC
* *
74389551 ATAACTTAC-----ACA-ACTTACATAACATACATAATACATAACTTACATAA
1 ATAACTTACATAATACATACTTACATAACTTACATAATACATTACTTACATAA
74389598 TACACAACTT
Statistics
Matches: 225, Mismatches: 28, Indels: 45
0.76 0.09 0.15
Matches are distributed among these distances:
66 5 0.02
67 2 0.01
68 19 0.08
69 1 0.00
71 2 0.01
72 5 0.02
73 15 0.07
74 10 0.04
75 150 0.67
76 4 0.02
77 12 0.05
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (74 bp):
ATAACTTACATAATACATACTTACATAACTTACATAATACATTACTTACATAACTTACCTAACTT
ACATTATAC
Found at i:74389403 original size:109 final size:108
Alignment explanation
Indices: 74389279--74389629 Score: 416
Period size: 109 Copynumber: 3.2 Consensus size: 108
74389269 AGCCTACATA
* * * * *
74389279 ACTTAAATAACTTACATAATACATAATCTTCCTAACTTACATTATACACAACT-TACATAA-TAC
1 ACTTACATAACTTACATAATACATAAT-TTCATAACTTACATAACATACAA-TATACATAACTAC
* **
74389342 ATTACTTACATAACTTACATAATACATTACTTACATAACTTACTTT
64 ATTACTTACATAACTTACATAATACATAACTTACATAAC-TACAAT
*
74389388 ACTTACAGT-ACTTACATAATACATAA-TACATAACTTACATAACATACAATATACATAACTTAC
1 ACTTACA-TAACTTACATAATACATAATTTCATAACTTACATAACATACAATATACATAAC-TAC
74389451 ATTACTTACAGT-ACTTACATAATACATAACTTACATAACATACAAT
64 ATTACTTACA-TAACTTACATAATACATAACTTACATAAC-TACAAT
*
74389497 A--TACATAACTTACATAACATACATAATAT-ATAACTTACATAACATACAATATACATAACTTA
1 ACTTACATAACTTACAT-A-ATACATAATTTCATAACTTACATAACATACAATATACATAAC-TA
** *
74389559 CACAACTTACATAACATACATAATACATAACTTACATAA-TACACA-
63 CATTACTTACATAACTTACATAATACATAACTTACATAACTACA-AT
74389604 ACTTACATAACTTACATAATACATAA
1 ACTTACATAACTTACATAATACATAA
74389630 AAATATAGCA
Statistics
Matches: 214, Mismatches: 15, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
106 2 0.01
107 50 0.23
108 4 0.02
109 156 0.73
110 2 0.01
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (108 bp):
ACTTACATAACTTACATAATACATAATTTCATAACTTACATAACATACAATATACATAACTACAT
TACTTACATAACTTACATAATACATAACTTACATAACTACAAT
Found at i:74389614 original size:25 final size:25
Alignment explanation
Indices: 74389224--74389629 Score: 220
Period size: 25 Copynumber: 16.4 Consensus size: 25
74389214 CTTATATATA
*
74389224 AACTTGCATAACTT--AT-ATA-AT
1 AACTTACATAACTTACATAATACAT
*
74389245 AACATA-ATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* * *
74389269 AGCCTACATAACTTAAATAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
*
74389296 AA--TACATAATCTT-CCTAACTTACAT
1 AACTTACATAA-CTTACATAA--TACAT
* *
74389321 TA--TACACAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
*
74389344 TACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* * *
74389369 TACTTACATAACTTACTTTACTTACAGT
1 AACTTACATAACTTAC-ATA-ATACA-T
74389397 -ACTTACATAA--TACATAATACAT
1 AACTTACATAACTTACATAATACAT
*
74389419 AACTTACATAACATACA-ATATACAT
1 AACTTACATAACTTACATA-ATACAT
* *
74389444 AACTTACATTACTTACAGTACTTACAT
1 AACTTACATAACTTACA-TA-ATACAT
74389471 AA--TACATAACTTACAT-A-ACAT
1 AACTTACATAACTTACATAATACAT
*
74389492 ACAATATACATAACTTACATAACATACAT
1 A-ACT-TACATAACTTACAT-A-ATACAT
*
74389521 AA--TATATAACTTACAT-A-ACAT
1 AACTTACATAACTTACATAATACAT
* *
74389542 ACAATATACATAACTTACACAACTTACAT
1 A-ACT-TACATAACTTACATAA--TACAT
*
74389571 AACATACATAA--TACATAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
*
74389596 AA--TACACAACTTACATAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
74389621 AA--TACATAA
1 AACTTACATAA
74389630 AAATATAGCA
Statistics
Matches: 317, Mismatches: 30, Indels: 72
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.02
21 14 0.04
22 6 0.02
23 30 0.09
24 13 0.04
25 192 0.61
26 6 0.02
27 35 0.11
28 4 0.01
29 10 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:74389647 original size:50 final size:50
Alignment explanation
Indices: 74389238--74389629 Score: 283
Period size: 50 Copynumber: 7.7 Consensus size: 50
74389228 TGCATAACTT
* * * *
74389238 ATATA-ATAACATA-ATAACTTACATAATACATAGCCTACATAACTTA-A
1 ATATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
* * * *
74389285 ATAACTTACATAA--TACATAATCTT-CCTAACTTACAT--TATACACAACTTAC-
1 AT-A--TACATAACTTACATAA-CTTACATAA--TACATAACATACATAACATACA
* * * * *
74389335 ATAATACATTACTTACATAACTTACATAATACATTACTTACATAACTTACT
1 AT-ATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
* *
74389386 TTACTTACAGT-ACTTACATAA--TACATAATACATAACTTACATAACATACA
1 ATA--TACA-TAACTTACATAACTTACATAATACATAACATACATAACATACA
*
74389436 ATATACATAACTTACATTACTTACAGTACTTACATAATACATAACTTACATAACATACA
1 ATATACATAACTTAC---A--T--A--ACTTACATAATACATAACATACATAACATACA
* * *
74389495 ATATACATAACTTACATAACATACATAATATATAACTTACATAACATACA
1 ATATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
* *
74389545 ATATACATAACTTACACAACTTACATAACATACAT-A-ATACATAACTTAC-
1 ATATACATAACTTACATAACTTACAT-A-ATACATAACATACATAACATACA
*
74389594 ATAATACACAACTTACATAACTTACATAATACATAA
1 AT-ATACATAACTTACATAACTTACATAATACATAA
74389630 AAATATAGCA
Statistics
Matches: 288, Mismatches: 23, Indels: 66
0.76 0.06 0.18
Matches are distributed among these distances:
47 3 0.01
48 28 0.10
49 9 0.03
50 162 0.56
51 11 0.04
52 25 0.09
53 2 0.01
54 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
59 44 0.15
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (50 bp):
ATATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
Found at i:74391641 original size:184 final size:184
Alignment explanation
Indices: 74391332--74391699 Score: 736
Period size: 184 Copynumber: 2.0 Consensus size: 184
74391322 ATATTGTAGG
74391332 TACTTTCGTCCGGTCAAAAAGTTTGACGCCTTCAACTTTTTGAAATTACACATAGGAAGAAAGAT
1 TACTTTCGTCCGGTCAAAAAGTTTGACGCCTTCAACTTTTTGAAATTACACATAGGAAGAAAGAT
74391397 GGATCTCCTATGACTCCTGAAGCTGCAGAAATTATGGTACGTTTACTTAATATGGTTTGACTTGT
66 GGATCTCCTATGACTCCTGAAGCTGCAGAAATTATGGTACGTTTACTTAATATGGTTTGACTTGT
74391462 TTTAGTTATTTATAGTGTTTATTTTCTAATGGTTTAATCCATTGCTTGTAATGC
131 TTTAGTTATTTATAGTGTTTATTTTCTAATGGTTTAATCCATTGCTTGTAATGC
74391516 TACTTTCGTCCGGTCAAAAAGTTTGACGCCTTCAACTTTTTGAAATTACACATAGGAAGAAAGAT
1 TACTTTCGTCCGGTCAAAAAGTTTGACGCCTTCAACTTTTTGAAATTACACATAGGAAGAAAGAT
74391581 GGATCTCCTATGACTCCTGAAGCTGCAGAAATTATGGTACGTTTACTTAATATGGTTTGACTTGT
66 GGATCTCCTATGACTCCTGAAGCTGCAGAAATTATGGTACGTTTACTTAATATGGTTTGACTTGT
74391646 TTTAGTTATTTATAGTGTTTATTTTCTAATGGTTTAATCCATTGCTTGTAATGC
131 TTTAGTTATTTATAGTGTTTATTTTCTAATGGTTTAATCCATTGCTTGTAATGC
74391700 AACTACTGTT
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 184 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (184 bp):
TACTTTCGTCCGGTCAAAAAGTTTGACGCCTTCAACTTTTTGAAATTACACATAGGAAGAAAGAT
GGATCTCCTATGACTCCTGAAGCTGCAGAAATTATGGTACGTTTACTTAATATGGTTTGACTTGT
TTTAGTTATTTATAGTGTTTATTTTCTAATGGTTTAATCCATTGCTTGTAATGC
Found at i:74392643 original size:42 final size:42
Alignment explanation
Indices: 74392447--74392639 Score: 255
Period size: 42 Copynumber: 4.5 Consensus size: 42
74392437 AATAGCGACA
74392447 TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
1 TTTGT-GGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
* *
74392490 TTTGTTGGAAAAGCACCGCTAAAAGTCATGTTCTTTAGCGGCA
1 TTTG-TGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
*
74392533 TTTGTGGGAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
1 TTTGTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
* * * **
74392575 TTCGTAGAAAAAGCGCCGCT-AAAGAACATG-AGTTTAGCGGCG
1 TTTGT-GGAAAAGCGCCGCTAAAAG-TCATGTTCTTTAGCGGCG
74392617 TTTGTGGAAAAAGCGCCGCTAAA
1 TTTGTGG-AAAAGCGCCGCTAAA
74392640 GAACGTGACC
Statistics
Matches: 132, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
41 1 0.01
42 69 0.52
43 61 0.46
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (42 bp):
TTTGTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
Found at i:74392661 original size:85 final size:85
Alignment explanation
Indices: 74392439--74392639 Score: 271
Period size: 85 Copynumber: 2.4 Consensus size: 85
74392429 CACCAAACAA
* * * *
74392439 TAGCGACATTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTTGGAAAAGC
1 TAGCGGCATTTGT-GGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGC
* *
74392504 ACCGCTAAAAGTCATGTTCTT
65 ACCGCTAAAAGACATGTACTT
* *
74392525 TAGCGGCATTTGTGGGAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCG
1 TAGCGGCATTTGTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCA
*
74392590 CCGCT-AAAGAACATG-AGTT
66 CCGCTAAAAG-ACATGTACTT
*
74392609 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAA
1 TAGCGGCATTTGTGG-AAAAGCGCCGCTAAA
74392640 GAACGTGACC
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
84 20 0.20
85 70 0.69
86 12 0.12
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (85 bp):
TAGCGGCATTTGTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCA
CCGCTAAAAGACATGTACTT
Found at i:74401891 original size:12 final size:13
Alignment explanation
Indices: 74401874--74401905 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
74401864 TATTTGTTCA
74401874 TTATTTTTATT-T
1 TTATTTTTATTAT
74401886 TTATTTTTATTAT
1 TTATTTTTATTAT
74401899 TT-TTTTT
1 TTATTTTT
74401906 GAAACGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:74409881 original size:29 final size:29
Alignment explanation
Indices: 74409808--74410047 Score: 248
Period size: 29 Copynumber: 8.2 Consensus size: 29
74409798 GTGTGCTAAA
* * *
74409808 CGATGGTCGAAACCATCCCTTTTCTTTAAT
1 CGATGGTCGTAACCATCCCTTTTC-ATATT
* *
74409838 CGATGGTTGTTACCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* *
74409867 CGATGGTCGTCACCATCCCTTTCCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* **
74409896 CGATGGTCATCCCCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
** * * *
74409925 CGATGGTCAAAACCATCTCTTTTCTCTAAT
1 CGATGGTCGTAACCATCCCTTTTC-ATATT
* * *
74409955 CAATGGTTG-AAGCCATCCTTTTTCATATT
1 CGATGGTCGTAA-CCATCCCTTTTCATATT
*
74409984 CGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* * *
74410013 CGATGATCGAAACCATTCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
74410042 CGATGG
1 CGATGG
74410048 GCGTCGATAC
Statistics
Matches: 174, Mismatches: 33, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
29 133 0.76
30 41 0.24
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (29 bp):
CGATGGTCGTAACCATCCCTTTTCATATT
Found at i:74410014 original size:117 final size:117
Alignment explanation
Indices: 74409808--74410047 Score: 349
Period size: 117 Copynumber: 2.1 Consensus size: 117
74409798 GTGTGCTAAA
* * * *
74409808 CGATGGTCGAAACCATCCCTTTTCTTTAATCGATGGTTGTTACCATCCCTTTTCATATTCGATGG
1 CGATGGTCAAAACCATCCCTTTTCTCTAATCAATGGTTGTAACCATCCCTTTTCATATTCGATGG
* **
74409873 TCGTCACCATCCCTTTCCATATTCGATGGTC-ATCCCCATCCCTTTTCATATT
66 TCGTCACCATCCCTTTCCATATTCGATGATCGA-AACCATCCCTTTTCATATT
* *
74409925 CGATGGTCAAAACCATCTCTTTTCTCTAATCAATGGTTG-AAGCCATCCTTTTTCATATTCGATG
1 CGATGGTCAAAACCATCCCTTTTCTCTAATCAATGGTTGTAA-CCATCCCTTTTCATATTCGATG
* *
74409989 GTCGTCACCATCCCTTTTCATATTCGATGATCGAAACCATTCCTTTTCATATT
65 GTCGTCACCATCCCTTTCCATATTCGATGATCGAAACCATCCCTTTTCATATT
74410042 CGATGG
1 CGATGG
74410048 GCGTCGATAC
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
116 1 0.01
117 108 0.98
118 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (117 bp):
CGATGGTCAAAACCATCCCTTTTCTCTAATCAATGGTTGTAACCATCCCTTTTCATATTCGATGG
TCGTCACCATCCCTTTCCATATTCGATGATCGAAACCATCCCTTTTCATATT
Found at i:74413732 original size:20 final size:20
Alignment explanation
Indices: 74413709--74413752 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
74413699 AAATACAGAC
74413709 AAAACCACTAAAATCTTTTT
1 AAAACCACTAAAATCTTTTT
* * * *
74413729 AAAACTACTTATATTTTTTT
1 AAAACCACTAAAATCTTTTT
74413749 AAAA
1 AAAA
74413753 GATGGGAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAACCACTAAAATCTTTTT
Found at i:74413983 original size:4 final size:4
Alignment explanation
Indices: 74413976--74414003 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
74413966 CATGTTATTT
74413976 CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC
74414004 AATTTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
CATC
Found at i:74415605 original size:110 final size:110
Alignment explanation
Indices: 74415467--74415715 Score: 292
Period size: 110 Copynumber: 2.3 Consensus size: 110
74415457 TATTCGGGCA
* * *
74415467 ATGGATTGTGGATCC-TCACTAGACCATATAGGGATACTACATCCCGATA-TACTGGGGATAACC
1 ATGGATTGTGGATCCTTC-CTAGACCATATAGGGATACTACATCCC-ACACCACTAGGGATAACC
*
74415530 CCAAAT-GACCATCCCACTTGAAACGATAGATGATTCCTCTTCT-AGCT
64 CC-AATCAACCATCCCACTTGAAACGATAGATGATTCCTCTTCTGA-CT
* * * * *
74415577 ATGGATTGTGGATCCTTCCTAGATCATATTGGGATCCTATATTCCACACCACTAGGGATAACCCC
1 ATGGATTGTGGATCCTTCCTAGACCATATAGGGATACTACATCCCACACCACTAGGGATAACCCC
** *
74415642 AATCAACCATCCCACTTGAATTGATAGATGATTCTTCTTCTGACT
66 AATCAACCATCCCACTTGAAACGATAGATGATTCCTCTTCTGACT
* *
74415687 GTGGATCGTGGATCCTTCCT-GAACCATAT
1 ATGGATTGTGGATCCTTCCTAG-ACCATAT
74415716 TGGGTTAACC
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
109 6 0.05
110 110 0.92
111 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (110 bp):
ATGGATTGTGGATCCTTCCTAGACCATATAGGGATACTACATCCCACACCACTAGGGATAACCCC
AATCAACCATCCCACTTGAAACGATAGATGATTCCTCTTCTGACT
Done.