Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 43 of 144
Found at i:13147781 original size:425 final size:425
Alignment explanation
Indices: 13146991--13147840 Score: 1583
Period size: 425 Copynumber: 2.0 Consensus size: 425
13146981 TGTATTACCA
*
13146991 CTATCTACTTTAGTTCCCTTCTTAACGAACCTCTTCATGCTTTTAGTGAGCAAGGCTAATTGCTT
1 CTATCTACTTTAGTTCCCTTCTTAACGAACCTCTTCATGCCTTTAGTGAGCAAGGCTAATTGCTT
13147056 TTTTATTTCATCAATATCCTCCACTGTTTATTTCGTTGTTGGGGTAGCTTTTTTAGCATTGAACA
66 TTTTATTTCATCAATATCCTCCACTGTTTATTTCGTTGTTGGGGTAGCTTTTTTAGCATTGAACA
*
13147121 TTTCGTTCTTCGACAAACCCATTTTGTCACATTTTTCTTCCTCTATGTTCAACTTAAAGGTTTGA
131 TTTCGTTCTTCGACAAACCCATTTTGTCACATTTTTCTTCCCCTATGTTCAACTTAAAGGTTTGA
*
13147186 AGTGAGCCTACTAACTCGTCTAGCTCGAGAGCGATAATATCTTTAACCTCATTTATTGTTGTGAC
196 AGTGAGCCTACTAACTCGTCTAGCTCGAGAGCCATAATATCTTTAACCTCATTTATTGTTGTGAC
* *
13147251 TTTAATGACGAAATGTTCTGGTAAAGACCTCAACATTTTCATACCAATTTATTATCAGAAAAAGC
261 TTTAATGACGAAATGTTCTGGTAAAGACCTCAACATTTGCATACCAAATTATTATCAGAAAAAGC
* *
13147316 TTACTAAGATAAAAAGCCTTATTAGAAATCTTGCACAATCTTGGATAAAACTTAGAGATAGTTTC
326 TTACCAAGATAAAAAGCCTTATTAGAAATCTTGCACAATCTTGGATAAAACTCAGAGATAGTTTC
13147381 ATTTTCAAACATTTTCAAAATTTCGAACCTAGTTG
391 ATTTTCAAACATTTTCAAAATTTCGAACCTAGTTG
* *
13147416 CTATCTACTTTAGTTCCCTTCTTAACGAACCTCTTTATGCCTTTGGTGAGCAAGGCTAATTGCTT
1 CTATCTACTTTAGTTCCCTTCTTAACGAACCTCTTCATGCCTTTAGTGAGCAAGGCTAATTGCTT
*
13147481 TTTTATTTCATCAATATCCTCCACTGTTTATTTCGTTTTTGGGGTAGCTTTTTTAGCATTGAACA
66 TTTTATTTCATCAATATCCTCCACTGTTTATTTCGTTGTTGGGGTAGCTTTTTTAGCATTGAACA
*
13147546 TTTCGTTCTTCGACAAACCCATTTTGTCACGTTTTTCTTCCCCTATGTTCAACTTAAAGGTTTGA
131 TTTCGTTCTTCGACAAACCCATTTTGTCACATTTTTCTTCCCCTATGTTCAACTTAAAGGTTTGA
*
13147611 AGTGAGCCTACTAACTCGTCTAGCTCGAGAGCCATAATATCTTTGACCTCATTTATTGTTGTGAC
196 AGTGAGCCTACTAACTCGTCTAGCTCGAGAGCCATAATATCTTTAACCTCATTTATTGTTGTGAC
*
13147676 TTTAATGACGAAATGTTCTGGTAAAGACCTCAATATTTGCATACCAAATTATTATCAGAAAAAGC
261 TTTAATGACGAAATGTTCTGGTAAAGACCTCAACATTTGCATACCAAATTATTATCAGAAAAAGC
13147741 TTACCAAGATAAAAAGCCTTATTAGAAATCTTGCACAATCTTGGATAAAACTCAGAGATAGTTTC
326 TTACCAAGATAAAAAGCCTTATTAGAAATCTTGCACAATCTTGGATAAAACTCAGAGATAGTTTC
13147806 ATTTTCAAACATTTTCAAAATTTCGAACCTAGTTG
391 ATTTTCAAACATTTTCAAAATTTCGAACCTAGTTG
13147841 TTAAAATCTG
Statistics
Matches: 412, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
425 412 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (425 bp):
CTATCTACTTTAGTTCCCTTCTTAACGAACCTCTTCATGCCTTTAGTGAGCAAGGCTAATTGCTT
TTTTATTTCATCAATATCCTCCACTGTTTATTTCGTTGTTGGGGTAGCTTTTTTAGCATTGAACA
TTTCGTTCTTCGACAAACCCATTTTGTCACATTTTTCTTCCCCTATGTTCAACTTAAAGGTTTGA
AGTGAGCCTACTAACTCGTCTAGCTCGAGAGCCATAATATCTTTAACCTCATTTATTGTTGTGAC
TTTAATGACGAAATGTTCTGGTAAAGACCTCAACATTTGCATACCAAATTATTATCAGAAAAAGC
TTACCAAGATAAAAAGCCTTATTAGAAATCTTGCACAATCTTGGATAAAACTCAGAGATAGTTTC
ATTTTCAAACATTTTCAAAATTTCGAACCTAGTTG
Found at i:13148630 original size:18 final size:18
Alignment explanation
Indices: 13148607--13148643 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13148597 TAAATTTTCG
*
13148607 AATTTGAATAACTCGAAT
1 AATTTGAATAAATCGAAT
13148625 AATTTGAATAAATCGAAT
1 AATTTGAATAAATCGAAT
13148643 A
1 A
13148644 TATTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTTGAATAAATCGAAT
Found at i:13151258 original size:42 final size:42
Alignment explanation
Indices: 13151177--13151263 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
13151167 TCCTCACCCG
* *
13151177 TGTAACTCACTGAGTTGTCCTACACGTCCGTGTGTCAGGCCA
1 TGTAACTCACTGAGTTGTCCTACACGTCCGTGCGCCAGGCCA
* * *
13151219 TGTAACTCTCTGAGTTG-CCATACATG-CCTGTGCGCCAGGCTA
1 TGTAACTCACTGAGTTGTCC-TACACGTCC-GTGCGCCAGGCCA
13151261 TGT
1 TGT
13151264 GCTAGGCCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
41 4 0.11
42 34 0.89
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAACTCACTGAGTTGTCCTACACGTCCGTGCGCCAGGCCA
Found at i:13153939 original size:43 final size:43
Alignment explanation
Indices: 13153849--13153942 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 43
13153839 TATAATTTTG
* * * * *
13153849 TGTAAGACCATGTCTGGGACATTGGCATAAATATGAGATTACG
1 TGTAAGACCATGTCTAGGACAGTGGCATAAAGATGAGATAACA
* ** *
13153892 TGTAAGACCCTGTCTAGGACAGTGGCATCGAGATGTGATAACA
1 TGTAAGACCATGTCTAGGACAGTGGCATAAAGATGAGATAACA
13153935 TGTAAGAC
1 TGTAAGAC
13153943 AATATCTGGG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTGGCATAAAGATGAGATAACA
Found at i:13154790 original size:38 final size:38
Alignment explanation
Indices: 13154728--13154803 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
13154718 AGTGTGGTTG
13154728 TTTTACATATTACAATGATATCCAAATGTGGCTGTTTT
1 TTTTACATATTACAATGATATCCAAATGTGGCTGTTTT
* * * * *
13154766 TTTTACATGTTATAATGTTGTCCAAATGTGGTTGTTTT
1 TTTTACATATTACAATGATATCCAAATGTGGCTGTTTT
13154804 ACATGTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.49
Consensus pattern (38 bp):
TTTTACATATTACAATGATATCCAAATGTGGCTGTTTT
Found at i:13154809 original size:34 final size:34
Alignment explanation
Indices: 13154720--13154823 Score: 102
Period size: 38 Copynumber: 2.9 Consensus size: 34
13154710 GGTATTAAAG
* * *
13154720 TGTGGTTGTTTTACATATTACAATGATATCCAAA
1 TGTGGTTGTTTTACATGTTATAATGATGTCCAAA
* *
13154754 TGTGGCTGTTTTTTTTACATGTTATAATGTTGTCCAAA
1 TGT-G--G-TTGTTTTACATGTTATAATGATGTCCAAA
*
13154792 TGTGGTTGTTTTACATG-TATAAATGCTGTCCA
1 TGTGGTTGTTTTACATGTTAT-AATGATGTCCA
13154824 TTTTTTAGCA
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
33 3 0.05
34 24 0.41
35 2 0.03
37 2 0.03
38 27 0.47
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (34 bp):
TGTGGTTGTTTTACATGTTATAATGATGTCCAAA
Found at i:13154945 original size:69 final size:69
Alignment explanation
Indices: 13154834--13154972 Score: 206
Period size: 69 Copynumber: 2.0 Consensus size: 69
13154824 TTTTTTAGCA
* * * * *
13154834 TATTAATGTTGTCCAAATTGGTACTTCAATGCTGTCCATTTTTTGTACAAATCTATGATGTCCGA
1 TATTAATGTTGTCCAAATTAGTACTTAAATGCTGTCCATTTTTGGTACAAATCAATGATGTCCAA
13154899 ATGT
66 ATGT
* * *
13154903 TATTAATGTTGTCCAAATTAGTACTTAAATGCTGTCTATTTTTGGTACAAGTCAATGCTGTCCAA
1 TATTAATGTTGTCCAAATTAGTACTTAAATGCTGTCCATTTTTGGTACAAATCAATGATGTCCAA
13154968 ATGT
66 ATGT
13154972 T
1 T
13154973 TTTACTACTG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (69 bp):
TATTAATGTTGTCCAAATTAGTACTTAAATGCTGTCCATTTTTGGTACAAATCAATGATGTCCAA
ATGT
Found at i:13154985 original size:69 final size:69
Alignment explanation
Indices: 13154834--13154989 Score: 186
Period size: 69 Copynumber: 2.3 Consensus size: 69
13154824 TTTTTTAGCA
** * * * * *
13154834 TATTAATGTTGTCCAAATTGGTACTTCAATGCTGTCCATTTTTTGTACAAATCTATGATGTCCGA
1 TATTAATACTGTCCAAATTAGTACTTAAATGCTGTCCATTTTTGGTACAAATCAATGATGTCCAA
13154899 ATGT
66 ATGT
** * * *
13154903 TATTAATGTTGTCCAAATTAGTACTTAAATGCTGTCTATTTTTGGTACAAGTCAATGCTGTCCAA
1 TATTAATACTGTCCAAATTAGTACTTAAATGCTGTCCATTTTTGGTACAAATCAATGATGTCCAA
13154968 ATGT
66 ATGT
* *
13154972 TTTTACTACTGTCCAAAT
1 TATTAATACTGTCCAAAT
13154990 ATTTGTGAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 75 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.42
Consensus pattern (69 bp):
TATTAATACTGTCCAAATTAGTACTTAAATGCTGTCCATTTTTGGTACAAATCAATGATGTCCAA
ATGT
Found at i:13164232 original size:290 final size:290
Alignment explanation
Indices: 13163702--13164252 Score: 978
Period size: 290 Copynumber: 1.9 Consensus size: 290
13163692 ATAAAACCCC
*
13163702 TGCTAATTTGAGGGACTGTTTTATATTGTAATTTTAATTATTTACTCTTGAAAATTAGGTCTGCT
1 TGCTAATTTGAGGGACTGTTTTATATTGTAATTTTAATTATTTACTCTTGAAAATTAGGACTGCT
13163767 AAGTTGATTGACTACTTCTGTAAACTTTGACATTTCTTTAAAGATGAGAGAAAGATTGATTTCCT
66 AAGTTGATTGACTACTTCTGTAAACTTTGACATTTCTTTAAAGATGAGAGAAAGATTGATTTCCT
* * *
13163832 GCTAAGCTGATCCATGTCTTACAGTCTTAGTTATCATTTTATTTTACTTTTTGTCTCGCTCGTAT
131 GCTAAGCTCATCCATGTATTACAGGCTTAGTTATCATTTTATTTTACTTTTTGTCTCGCTCGTAT
* *
13163897 ATCTTGATATGATTCTTGAATAAAGTTCTTGTCTGCTATGCTTATGACCTTTTTGCTATTTTGAA
196 ATCTTGATATGATTCTTGAATAAAGTTCTTGTCTGCTACGCTTATGACCTTTTTGCTATTCTGAA
13163962 TGCTTATTTATTTATTTATTTAGTTCGTTA
261 TGCTTATTTATTTATTTATTTAGTTCGTTA
13163992 TGCTAATTTGAGGGACTGTTTTATATTGTAATTTTAATTATTTACTCTTGAAAATTAGGGACTGC
1 TGCTAATTTGAGGGACTGTTTTATATTGTAATTTTAATTATTTACTCTTGAAAATTA-GGACTGC
* *
13164057 TAAGTTGATTGACTATTTCTGTAGACTTTGACATTTCTTTAAAGATGAGAGAAAGATTGATTTCC
65 TAAGTTGATTGACTACTTCTGTAAACTTTGACATTTCTTTAAAGATGAGAGAAAGATTGATTTCC
*
13164122 TGCTAAGCTCATCCATGTATTACAGGCTTAGTTGTCATTTTATTTTAC-TTTTGTCTCGCTCGTA
130 TGCTAAGCTCATCCATGTATTACAGGCTTAGTTATCATTTTATTTTACTTTTTGTCTCGCTCGTA
* * *
13164186 TATCTTGATATGATTCTTGAATAAAGTTCTTGTTTGCTACGCTTATGGCCTTTTTGTTATTCTGA
195 TATCTTGATATGATTCTTGAATAAAGTTCTTGTCTGCTACGCTTATGACCTTTTTGCTATTCTGA
13164251 AT
260 AT
13164253 ACTTTTTTTT
Statistics
Matches: 248, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
290 135 0.54
291 113 0.46
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (290 bp):
TGCTAATTTGAGGGACTGTTTTATATTGTAATTTTAATTATTTACTCTTGAAAATTAGGACTGCT
AAGTTGATTGACTACTTCTGTAAACTTTGACATTTCTTTAAAGATGAGAGAAAGATTGATTTCCT
GCTAAGCTCATCCATGTATTACAGGCTTAGTTATCATTTTATTTTACTTTTTGTCTCGCTCGTAT
ATCTTGATATGATTCTTGAATAAAGTTCTTGTCTGCTACGCTTATGACCTTTTTGCTATTCTGAA
TGCTTATTTATTTATTTATTTAGTTCGTTA
Found at i:13177855 original size:21 final size:22
Alignment explanation
Indices: 13177820--13177860 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13177810 ATATGATTGG
*
13177820 TTGAAAATTTTAAAAATAAATT
1 TTGAAAATATTAAAAATAAATT
*
13177842 TTGAAAA-ATTAAAACTAAA
1 TTGAAAATATTAAAAATAAA
13177861 AATATGTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (22 bp):
TTGAAAATATTAAAAATAAATT
Found at i:13181414 original size:59 final size:59
Alignment explanation
Indices: 13181322--13181469 Score: 287
Period size: 59 Copynumber: 2.5 Consensus size: 59
13181312 ACCACAACTT
13181322 AGATGGATAATGAGGATCCAAGAGTACAGACAATGTAGTTCGAGGCATTTATGAAAGAA
1 AGATGGATAATGAGGATCCAAGAGTACAGACAATGTAGTTCGAGGCATTTATGAAAGAA
*
13181381 AGATGGATAATGAGGATCCAAGAGTACAGACAATGTAGTTTGAGGCATTTATGAAAGAA
1 AGATGGATAATGAGGATCCAAGAGTACAGACAATGTAGTTCGAGGCATTTATGAAAGAA
13181440 AGATGGATAATGAGGATCCAAGAGTACAGA
1 AGATGGATAATGAGGATCCAAGAGTACAGA
13181470 TGTGTTGGAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 88 1.00
ACGTcount: A:0.41, C:0.09, G:0.28, T:0.22
Consensus pattern (59 bp):
AGATGGATAATGAGGATCCAAGAGTACAGACAATGTAGTTCGAGGCATTTATGAAAGAA
Found at i:13185956 original size:5 final size:6
Alignment explanation
Indices: 13185941--13185965 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13185931 CTATTTGGCG
13185941 GGGGGA GGGGGA GGGGGA GGGGGA G
1 GGGGGA GGGGGA GGGGGA GGGGGA G
13185966 TTTCCATATA
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:0.16, C:0.00, G:0.84, T:0.00
Consensus pattern (6 bp):
GGGGGA
Found at i:13186729 original size:19 final size:20
Alignment explanation
Indices: 13186688--13186729 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13186678 AATTCTTCTC
* *
13186688 TTTCTCTTGTTTTAGGGTAT
1 TTTCTCTTGTTTAACGGTAT
13186708 TTTCTCTTGTTTAACGGT-T
1 TTTCTCTTGTTTAACGGTAT
13186727 TTT
1 TTT
13186730 GGGAGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.62
Consensus pattern (20 bp):
TTTCTCTTGTTTAACGGTAT
Found at i:13189162 original size:50 final size:50
Alignment explanation
Indices: 13189069--13189258 Score: 209
Period size: 50 Copynumber: 3.7 Consensus size: 50
13189059 AATCTTGTAC
* * * **
13189069 TGCCAATACCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * *
13189119 TGCCCATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * *
13189169 GGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
13189225 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
13189259 AGATCTCTTT
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
50 81 0.71
53 1 0.01
56 32 0.28
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:13199024 original size:16 final size:16
Alignment explanation
Indices: 13199003--13199033 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13198993 AAAAATTATT
*
13199003 CAAAAACATAAAAATG
1 CAAAAAAATAAAAATG
13199019 CAAAAAAATAAAAAT
1 CAAAAAAATAAAAAT
13199034 AAAAAATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.03, T:0.13
Consensus pattern (16 bp):
CAAAAAAATAAAAATG
Found at i:13199191 original size:32 final size:31
Alignment explanation
Indices: 13199118--13199196 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
13199108 TTTTTATTAA
* * **
13199118 AAAAATAACAATTTGACTCTTTTTAAAGTATT
1 AAAAATCA-AATTTAACTCTTTTTAAAAAATT
* *
13199150 AATAGTCAAATTTAACTCTTTTTAAAAAAATT
1 AAAAATCAAATTTAACTCTTTTT-AAAAAATT
13199182 AAAAATCAAATTTAA
1 AAAAATCAAATTTAA
13199197 ATAAAAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 14 0.37
32 24 0.63
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (31 bp):
AAAAATCAAATTTAACTCTTTTTAAAAAATT
Found at i:13203502 original size:5 final size:5
Alignment explanation
Indices: 13203494--13203519 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13203484 TTTGATTTCT
13203494 TTCCC TTCCC TTCCC TTCCC TTCCC T
1 TTCCC TTCCC TTCCC TTCCC TTCCC T
13203520 ACTTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (5 bp):
TTCCC
Found at i:13203862 original size:22 final size:22
Alignment explanation
Indices: 13203837--13203927 Score: 139
Period size: 22 Copynumber: 4.1 Consensus size: 22
13203827 TTTTCACAAA
13203837 CAATTTCCTTCAAAAATTCTCT
1 CAATTTCCTTCAAAAATTCTCT
13203859 CAA-TTCCTTTCAAAAATTCTCT
1 CAATTTCC-TTCAAAAATTCTCT
* *
13203881 CAATTCCCTTCAAAATTTCTCT
1 CAATTTCCTTCAAAAATTCTCT
*
13203903 CAATTTCCTTCCAAAATTCTCT
1 CAATTTCCTTCAAAAATTCTCT
13203925 CAA
1 CAA
13203928 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
21 4 0.06
22 55 0.89
23 3 0.05
ACGTcount: A:0.31, C:0.30, G:0.00, T:0.40
Consensus pattern (22 bp):
CAATTTCCTTCAAAAATTCTCT
Found at i:13203933 original size:30 final size:30
Alignment explanation
Indices: 13203899--13203957 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
13203889 TTCAAAATTT
* *
13203899 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
13203929 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
13203958 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:13203943 original size:52 final size:51
Alignment explanation
Indices: 13203877--13203979 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
13203867 TTCAAAAATT
* * *
13203877 CTCTCAATTCCCTT-CAAAATTTCTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTCTCAATTTCCTTCAAAAAATCTC-CAAA
13203929 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
13203980 TCCATATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:13203968 original size:21 final size:22
Alignment explanation
Indices: 13203929--13203970 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13203919 TTCTCTCAAA
13203929 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
13203951 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
13203971 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:13204068 original size:27 final size:28
Alignment explanation
Indices: 13204014--13204067 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
13204004 TAAATTTCAT
13204014 TTTTTTAAGAAAATTTTAAAATTTTTTA
1 TTTTTTAAGAAAATTTTAAAATTTTTTA
13204042 TTTTTTAA-AATAATTTTAAAATTTTT
1 TTTTTTAAGAA-AATTTTAAAATTTTT
13204068 AATATTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTTTTAAGAAAATTTTAAAATTTTTTA
Found at i:13204075 original size:28 final size:28
Alignment explanation
Indices: 13204016--13204075 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
13204006 AATTTCATTT
* *
13204016 TTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTAAGAAAATTTTAAAATTTTTAATA
13204044 TTTTAA-AATAATTTTAAAATTTTTAATA
1 TTTTAAGAA-AATTTTAAAATTTTTAATA
13204072 TTTT
1 TTTT
13204076 CAACAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
TTTTAAGAAAATTTTAAAATTTTTAATA
Found at i:13204221 original size:24 final size:23
Alignment explanation
Indices: 13204159--13204221 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
13204149 TAAATTTAAA
*
13204159 TTTTAAAT-TTTTTTTAAGATAT
1 TTTTATATATTTTTTTAAGATAT
*
13204181 TTTTATTTATGTATTTTT-AGATAT
1 TTTTATATAT-T-TTTTTAAGATAT
13204205 TTATTAATATATTTTTT
1 TT-TT-ATATATTTTTT
13204222 GTTATAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 6 0.18
23 1 0.03
24 13 0.39
25 8 0.24
26 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (23 bp):
TTTTATATATTTTTTTAAGATAT
Found at i:13206062 original size:30 final size:28
Alignment explanation
Indices: 13206000--13206062 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
13205990 GATTTCGGGG
*
13206000 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGGTAAATAATAAA
* * *
13206028 AAAATCGGCCCATTTCGGTAATTTTATAAA
1 AAAAT-GGCCCATTCCGGTAA-ATAATAAA
13206058 AAAAT
1 AAAAT
13206063 TGGCTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 5 0.17
29 14 0.48
30 10 0.34
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (28 bp):
AAAATGGCCCATTCCGGTAAATAATAAA
Found at i:13210278 original size:26 final size:25
Alignment explanation
Indices: 13210234--13210282 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
13210224 TCTTATACCA
*
13210234 ATTTTACTTTAGTAAAATTTTGACG
1 ATTTTACTTCAGTAAAATTTTGACG
13210259 ATTTTACTTGCAGTAAAATTTTGA
1 ATTTTACTT-CAGTAAAATTTTGA
13210283 GAAAATTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (25 bp):
ATTTTACTTCAGTAAAATTTTGACG
Found at i:13213423 original size:22 final size:21
Alignment explanation
Indices: 13213390--13213438 Score: 80
Period size: 22 Copynumber: 2.3 Consensus size: 21
13213380 TGAGTACTTC
*
13213390 TGATCAGTGACAAGTGATAAG
1 TGATCAGGGACAAGTGATAAG
13213411 TAGATCAGGGACAAGTGATAAG
1 T-GATCAGGGACAAGTGATAAG
13213433 TGATCA
1 TGATCA
13213439 TACGTAAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.22
Consensus pattern (21 bp):
TGATCAGGGACAAGTGATAAG
Found at i:13220394 original size:16 final size:16
Alignment explanation
Indices: 13220373--13220424 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
13220363 TACAGTAGAC
13220373 TTAATTAGTTTATAAA
1 TTAATTAGTTTATAAA
*
13220389 TTAATT-CTTTGATAGAA
1 TTAATTAGTTT-ATA-AA
* *
13220406 GTAATTAGTTTATACA
1 TTAATTAGTTTATAAA
13220422 TTA
1 TTA
13220425 TTAATACACA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 3 0.11
16 12 0.43
17 10 0.36
18 3 0.11
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (16 bp):
TTAATTAGTTTATAAA
Found at i:13225281 original size:18 final size:18
Alignment explanation
Indices: 13225238--13225288 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
13225228 AATCAGGATC
*
13225238 CTATCCCAAAAAATCAGT
1 CTATCCCTAAAAATCAGT
* *
13225256 TTATCCCTAGAAATCAGT
1 CTATCCCTAAAAATCAGT
*
13225274 CTATCCCTACAAATC
1 CTATCCCTAAAAATC
13225289 TGGAACAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.27
Consensus pattern (18 bp):
CTATCCCTAAAAATCAGT
Found at i:13230365 original size:20 final size:20
Alignment explanation
Indices: 13230340--13230377 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13230330 AATATTTCCA
13230340 AAATATATA-ATAATAAATTT
1 AAATATATATATAA-AAATTT
13230360 AAATATATATATAAAAAT
1 AAATATATATATAAAAAT
13230378 AAATAATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATATATATAAAAATTT
Found at i:13230380 original size:18 final size:19
Alignment explanation
Indices: 13230340--13230382 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
13230330 AATATTTCCA
13230340 AAATATATAATAATAAATTT
1 AAATATATAATAATAAA-TT
13230360 AAATATATATATAA-AAA-T
1 AAATATATA-ATAATAAATT
13230378 AAATA
1 AAATA
13230383 ATGTGTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
20 12 0.55
21 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATATAATAATAAATT
Found at i:13236539 original size:29 final size:29
Alignment explanation
Indices: 13236484--13236541 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
13236474 ATAATTAAAT
*
13236484 TAAATTAAAATTTCATGTATAAAATTGCA
1 TAAATTAAAATTTCATGAATAAAATTGCA
* *
13236513 TAAAGTTAAAA-TTCATGAATGACATTGCA
1 TAAA-TTAAAATTTCATGAATAAAATTGCA
13236542 CATTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (29 bp):
TAAATTAAAATTTCATGAATAAAATTGCA
Found at i:13239747 original size:22 final size:22
Alignment explanation
Indices: 13239723--13239764 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
13239713 GTTCTTGCGT
13239723 TTTTTATTTT-CTTTATTTTTC
1 TTTTTATTTTACTTTATTTTTC
*
13239744 TTTTTATTTTATTTTATTTTT
1 TTTTTATTTTACTTTATTTTT
13239765 GTTTGTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTATTTTACTTTATTTTTC
Found at i:13240668 original size:16 final size:15
Alignment explanation
Indices: 13240649--13240678 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13240639 TACTTACATT
13240649 TTTATATACTATATAA
1 TTTATATAC-ATATAA
13240665 TTTATATACATATA
1 TTTATATACATATA
13240679 CACATACGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTATATACATATAA
Found at i:13248190 original size:3 final size:3
Alignment explanation
Indices: 13248182--13248211 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13248172 TGATGAAATG
13248182 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
13248212 ATAGCAGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13252000 original size:21 final size:21
Alignment explanation
Indices: 13251962--13252001 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13251952 TCAATATTGG
* *
13251962 TAAATAGATAGTTAAACTAAC
1 TAAATACATACTTAAACTAAC
*
13251983 TAAATACATACTTTAACTA
1 TAAATACATACTTAAACTA
13252002 CTTGATCTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (21 bp):
TAAATACATACTTAAACTAAC
Found at i:13252537 original size:11 final size:11
Alignment explanation
Indices: 13252516--13252544 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13252506 GTTCACAAGG
13252516 CATAT-TCAAT
1 CATATATCAAT
13252526 CATATATCAAT
1 CATATATCAAT
13252537 CATATATC
1 CATATATC
13252545 CAACCCACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (11 bp):
CATATATCAAT
Found at i:13255727 original size:13 final size:14
Alignment explanation
Indices: 13255699--13255727 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13255689 TACAATTCTC
13255699 AATATTAAAAACAT
1 AATATTAAAAACAT
13255713 AATATTAAAAA-AT
1 AATATTAAAAACAT
13255726 AA
1 AA
13255728 AAAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AATATTAAAAACAT
Found at i:13261107 original size:3 final size:3
Alignment explanation
Indices: 13261099--13261153 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
13261089 AACTAATATA
* * * * * *
13261099 AAT AAT AAT ACT AAT AGT TAT AGT AAC ATT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13261147 AAT AAT A
1 AAT AAT A
13261154 GTAGTTAAGT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:13261832 original size:7 final size:7
Alignment explanation
Indices: 13261795--13261842 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
13261785 TATCAATCGG
13261795 AAAAAGA
1 AAAAAGA
*
13261802 ACACAATGA
1 A-A-AAAGA
13261811 AAAAGAGA
1 AAAA-AGA
*
13261819 AAGAAGA
1 AAAAAGA
13261826 AAAAAGA
1 AAAAAGA
13261833 AAAAAGA
1 AAAAAGA
13261840 AAA
1 AAA
13261843 CCTCTTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 22 0.65
8 7 0.21
9 5 0.15
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:13262394 original size:39 final size:39
Alignment explanation
Indices: 13262340--13262420 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
13262330 ATGCAATCGA
*
13262340 TTTGTTCATCTTTAAAGCTTTACTTAAACTTTTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTAAACTATTGTTTTC
*
13262379 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTAAACTATTGTTTTC
13262418 TTT
1 TTT
13262421 TCACTTTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.20, C:0.15, G:0.09, T:0.57
Consensus pattern (39 bp):
TTTGTTCATCTTTAAAGCTTTACTTAAACTATTGTTTTC
Found at i:13262842 original size:30 final size:30
Alignment explanation
Indices: 13262740--13263007 Score: 468
Period size: 30 Copynumber: 8.9 Consensus size: 30
13262730 GAATATAAAC
13262740 TATA-TTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
*
13262769 TATATATCTTTTATTTTTAAAATACACTACA
1 TATAT-TTTTTTATTTTTAAAATACACTACA
13262800 TATATATTTTTTATTTTTAAAATACACTACA
1 TATAT-TTTTTTATTTTTAAAATACACTACA
13262831 TATATTTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
* *
13262861 TATATTTTTTTATTTTTAAAATATATTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
*
13262891 TATA-TTTTTTATTTTTAAAATACAATACA
1 TATATTTTTTTATTTTTAAAATACACTACA
13262920 TATATTTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
13262950 TATATTTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
13262980 TATATTTTTTTATTTTTAAAATACACTA
1 TATATTTTTTTATTTTTAAAATACACTA
13263008 ATACAGTGTA
Statistics
Matches: 229, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
29 31 0.14
30 139 0.61
31 59 0.26
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (30 bp):
TATATTTTTTTATTTTTAAAATACACTACA
Found at i:13262925 original size:89 final size:89
Alignment explanation
Indices: 13262740--13263004 Score: 451
Period size: 89 Copynumber: 2.9 Consensus size: 89
13262730 GAATATAAAC
*
13262740 TATA-TTTTTTATTTTTAAAATACACTACATATATATCTTTTATTTTTAAAATACACTACATATA
1 TATATTTTTTTATTTTTAAAATACACTACATATAT-TTTTTTATTTTTAAAATACACTAC--ATA
*
13262804 TATTTTTTATTTTTAAAATACACTACA
63 TATTTTTTATTTTTAAAATACAATACA
* *
13262831 TATATTTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATATATTACATATAT
1 TATATTTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATATAT
13262896 TTTTTATTTTTAAAATACAATACA
66 TTTTTATTTTTAAAATACAATACA
13262920 TATATTTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATATAT
1 TATATTTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATATA-
13262985 TTTTTTATTTTTAAAATACA
65 TTTTTTATTTTTAAAATACA
13263005 CTAATACAGT
Statistics
Matches: 166, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
89 91 0.55
90 20 0.12
91 25 0.15
92 30 0.18
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.54
Consensus pattern (89 bp):
TATATTTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATATAT
TTTTTATTTTTAAAATACAATACA
Found at i:13265128 original size:22 final size:22
Alignment explanation
Indices: 13265090--13265156 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
13265080 CCAAGAACAA
13265090 AGCAAAAAAAGAGGGGAGAAACC
1 AGCAAAAAAAGA-GGGAGAAACC
*
13265113 AGCAAAAAAAGAGGGACAAACC
1 AGCAAAAAAAGAGGGAGAAACC
* *
13265135 AGCAAGAACA-AGGGAGAAACC
1 AGCAAAAAAAGAGGGAGAAACC
13265156 A
1 A
13265157 ACAAGAACGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.28
22 17 0.43
23 12 0.30
ACGTcount: A:0.57, C:0.16, G:0.27, T:0.00
Consensus pattern (22 bp):
AGCAAAAAAAGAGGGAGAAACC
Found at i:13265154 original size:21 final size:21
Alignment explanation
Indices: 13265103--13265176 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 21
13265093 AAAAAAAGAG
* *
13265103 GGGAGAAACCAGCAAAAAAAGA
1 GGGAGAAACCAGCAAGAACA-A
*
13265125 GGGACAAACCAGCAAGAACAA
1 GGGAGAAACCAGCAAGAACAA
* *
13265146 GGGAGAAACCAACAAGAACGAT
1 GGGAGAAACCAGCAAGAAC-AA
13265168 GGGAGAAAC
1 GGGAGAAAC
13265177 TGTTGTTTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 18 0.40
22 27 0.60
ACGTcount: A:0.53, C:0.18, G:0.28, T:0.01
Consensus pattern (21 bp):
GGGAGAAACCAGCAAGAACAA
Found at i:13265174 original size:22 final size:21
Alignment explanation
Indices: 13265103--13265176 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
13265093 AAAAAAAGAG
* *
13265103 GGGAGAAACCAGCAAAAAAAGA
1 GGGAGAAACCAGC-AAGAACGA
* *
13265125 GGGACAAACCAGCAAGAACAA
1 GGGAGAAACCAGCAAGAACGA
*
13265146 GGGAGAAACCAACAAGAACGA
1 GGGAGAAACCAGCAAGAACGA
13265167 TGGGAGAAAC
1 -GGGAGAAAC
13265177 TGTTGTTTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 23 0.52
22 21 0.48
ACGTcount: A:0.53, C:0.18, G:0.28, T:0.01
Consensus pattern (21 bp):
GGGAGAAACCAGCAAGAACGA
Found at i:13266563 original size:20 final size:20
Alignment explanation
Indices: 13266538--13266578 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13266528 CCCATGCTCT
*
13266538 TATTAAAAATTATAAAAAAA
1 TATTAAAAATTAGAAAAAAA
**
13266558 TATTAAATTTTAGAAAAAAA
1 TATTAAAAATTAGAAAAAAA
13266578 T
1 T
13266579 TAAATTTTAA
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:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TATTAAAAATTAGAAAAAAA
Found at i:13266574 original size:18 final size:19
Alignment explanation
Indices: 13266553--13266607 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
13266543 AAAATTATAA
13266553 AAAAATATTAAATTTTA-G
1 AAAAATATTAAATTTTATG
* *
13266571 AAAAAAATTAAATTTTAATT
1 AAAAATATTAAATTTT-ATG
*
13266591 AAAAATATAAAATTTTA
1 AAAAATATTAAATTTTA
13266608 AAATTTATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 15 0.48
19 2 0.06
20 14 0.45
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAATATTAAATTTTATG
Found at i:13266582 original size:38 final size:38
Alignment explanation
Indices: 13266539--13266624 Score: 88
Period size: 38 Copynumber: 2.3 Consensus size: 38
13266529 CCATGCTCTT
*
13266539 ATTAAAAATTATAA-AAAAATATTAAATTTTAGAAAAAA
1 ATTAAAAATTATAATAAAAATATAAAATTTTA-AAAAAA
* ***
13266577 ATT--AAATTTTAATTAAAAATATAAAATTTTAAAATTT
1 ATTAAAAATTATAA-TAAAAATATAAAATTTTAAAAAAA
13266614 ATTAAAAATTA
1 ATTAAAAATTA
13266625 CAATTTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
36 8 0.21
37 6 0.16
38 19 0.50
39 5 0.13
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (38 bp):
ATTAAAAATTATAATAAAAATATAAAATTTTAAAAAAA
Found at i:13266594 original size:20 final size:19
Alignment explanation
Indices: 13266544--13266608 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 19
13266534 CTCTTATTAA
* *
13266544 AAATTATAA-AAAAATATT
1 AAATTTTAAGAAAAAAATT
13266562 AAATTTT-AGAAAAAAATT
1 AAATTTTAAGAAAAAAATT
* * *
13266580 AAATTTTAATTAAAAATATA
1 AAATTTTAA-GAAAAAAATT
13266600 AAATTTTAA
1 AAATTTTAA
13266609 AATTTATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 1 0.03
18 21 0.54
19 1 0.03
20 16 0.41
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAATTTTAAGAAAAAAATT
Found at i:13266633 original size:27 final size:27
Alignment explanation
Indices: 13266578--13266631 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
13266568 TAGAAAAAAA
*
13266578 TTAAATTTTAATTAAAAATATAAAATT
1 TTAAAATTTAATTAAAAATATAAAATT
*
13266605 TTAAAATTT-ATTAAAAAT-TACAATT
1 TTAAAATTTAATTAAAAATATAAAATT
13266630 TT
1 TT
13266632 TTTTATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.32
26 9 0.36
27 8 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TTAAAATTTAATTAAAAATATAAAATT
Found at i:13267000 original size:18 final size:18
Alignment explanation
Indices: 13266954--13267049 Score: 97
Period size: 19 Copynumber: 5.1 Consensus size: 18
13266944 TTATAAAAAA
13266954 TATATTTTTTA-AATATTT
1 TATATTTTTTACAAT-TTT
*
13266972 CTATATATTTTA-AATATTT
1 -TATATTTTTTACAAT-TTT
13266991 TATATTTTTTTACAAGTTTT
1 TATA-TTTTTTACAA-TTTT
*
13267011 TATATTTTTTACGATTTT
1 TATATTTTTTACAATTTT
*
13267029 TATATTTTTTTCTAATTTT
1 TATATTTTTTAC-AATTTT
13267048 TA
1 TA
13267050 ATAAAATTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
18 19 0.28
19 39 0.57
20 9 0.13
21 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (18 bp):
TATATTTTTTACAATTTT
Found at i:13267358 original size:87 final size:87
Alignment explanation
Indices: 13267145--13267352 Score: 265
Period size: 87 Copynumber: 2.4 Consensus size: 87
13267135 AATTTTTAAT
* *
13267145 AAAAGCATGGGCTTAATTGCTTTTTTCGAAAAAGTTTGAGGGTA-TTTTTGATGCATTTTGAAAG
1 AAAAGCATGGGCTTAATTGCTTTTTT--AAAAAGTTTGAGGG-ACTTTTTGATGAATTTTAAAAG
* *
13267209 TTCAAGTACTCAATTGAGTGCAAAA
63 TTCAAATACTCAAATGAGTGCAAAA
* * **
13267234 AAAAGTAGGGGCTTAATTGCTTTTTTTTAAAGTTTGAGGGACTTTTTGATGAATTTTAAAAGTTC
1 AAAAGCATGGGCTTAATTGCTTTTTTAAAAAGTTTGAGGGACTTTTTGATGAATTTTAAAAGTTC
*
13267299 AAATGCTCAAATGAGTGCAAAAA
66 AAATACTCAAATGAGTGC-AAAA
* * *
13267322 AAAAGCATGAGCTTAATTACTTTTTAAAAAA
1 AAAAGCATGGGCTTAATTGCTTTTTTAAAAA
13267353 ATTGAGAGCT
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
86 1 0.01
87 48 0.48
88 28 0.28
89 24 0.24
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (87 bp):
AAAAGCATGGGCTTAATTGCTTTTTTAAAAAGTTTGAGGGACTTTTTGATGAATTTTAAAAGTTC
AAATACTCAAATGAGTGCAAAA
Found at i:13270179 original size:17 final size:17
Alignment explanation
Indices: 13270114--13270175 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
13270104 AATATTGAAA
13270114 AATAT-AATATTTTATT
1 AATATAAATATTTTATT
*
13270130 AATTTTAAATATTTT-TT
1 AA-TATAAATATTTTATT
* *
13270147 AAATAAAAATATATTATT
1 -AATATAAATATTTTATT
13270165 AATAT-AATATT
1 AATATAAATATT
13270176 ATTAAACTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
16 7 0.19
17 17 0.47
18 12 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATAAATATTTTATT
Found at i:13273613 original size:19 final size:19
Alignment explanation
Indices: 13273589--13273631 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
13273579 CCAAACTATA
13273589 TCCCTTATTTTAAATTCCT
1 TCCCTTATTTTAAATTCCT
13273608 TCCCTTATTTTAAATTCCT
1 TCCCTTATTTTAAATTCCT
13273627 TCCCT
1 TCCCT
13273632 AACTATCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (19 bp):
TCCCTTATTTTAAATTCCT
Found at i:13286209 original size:21 final size:21
Alignment explanation
Indices: 13286168--13286209 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13286158 TTCAAAAAAG
* *
13286168 TTAAATTTTTTTTTGATATTT
1 TTAAATTTTTATTTGAAATTT
13286189 TTAAATTTTTGATTT-AAATTT
1 TTAAATTTTT-ATTTGAAATTT
13286210 ACCGTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTAAATTTTTATTTGAAATTT
Found at i:13286989 original size:2 final size:2
Alignment explanation
Indices: 13286982--13287010 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13286972 CCACTCCCAA
13286982 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13287011 GATTTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13293707 original size:206 final size:199
Alignment explanation
Indices: 13293264--13293730 Score: 591
Period size: 206 Copynumber: 2.3 Consensus size: 199
13293254 ATGTTATAAT
*
13293264 TTGATTTGTAAGAGTTTATGACAAATTATGTAAAAGAAGAGAAAAATTAAAACATTTCGTGTTTT
1 TTGATTAGTAAGAGTTTATGACAAATTATGTAAAAGAAGAGAAAAATTAAAACATTTCGTGTTTT
* * * *
13293329 GTGAATTATAATAACAGGGCAAAGTTTGAACAATCAAGACTAGTGTGACTTGAACCCAAGCTACA
66 GTGAATTACAATAACAGGGCAAAGCTCGAACAATCAAGACTAGTGAGACTTGAACCCAAGCTACA
* * ** * * * *
13293394 CTTGGAGCAGTGAATACGTTTGACTACTAGGGTAAAATTATTTTGTAAGTAAATAAATTAAAGGT
131 CCTGGAGCAGTAAATACCCTTGACCACTAGGGCAAAATCAATTTGTAAGTAAATAAATTAAAGGT
*
13293459 TAAA
196 CAAA
* *
13293463 TTGATTAGTAAGAGTTTATGACAAATTATGTAAAAGAAGAGAAAAAATAAAACATTTTGTGTTTT
1 TTGATTAGTAAGAGTTTATGACAAATTATGTAAAAGAAGAGAAAAATTAAAACATTTCGTGTTTT
* *
13293528 GTGAATTACAATAATAGGGCAAAGCTCGAACAA-CTAATGTGACTAGTGAGATTTG-ACCATCAG
66 GTGAATTACAATAACAGGGCAAAGCTCGAACAATC-AA---GACTAGTGAGACTTGAACC--CA-
* * * *
13293591 GGCAGTATACCTGGGGCAGTAAATACCCTTGACCA-TCAGGGCAAAGCTCAATTTGTAAG-AAAT
124 AGC--TACACCTGGAGCAGTAAATACCCTTGACCACT-AGGGCAAA-ATCAATTTGTAAGTAAAT
* *
13293654 GAATTAAATGTCAAA
185 AAATTAAAGGTCAAA
13293669 TTGATTAGTAAGAGTTTATGACAAATTATGTAAAAGAAGAGAAAAATTAAAACATTTCGTGT
1 TTGATTAGTAAGAGTTTATGACAAATTATGTAAAAGAAGAGAAAAATTAAAACATTTCGTGT
13293731 GCTCTAATTT
Statistics
Matches: 231, Mismatches: 26, Indels: 15
0.85 0.10 0.06
Matches are distributed among these distances:
198 1 0.00
199 93 0.40
201 3 0.01
202 13 0.06
203 2 0.01
204 2 0.01
205 1 0.00
206 106 0.46
207 10 0.04
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (199 bp):
TTGATTAGTAAGAGTTTATGACAAATTATGTAAAAGAAGAGAAAAATTAAAACATTTCGTGTTTT
GTGAATTACAATAACAGGGCAAAGCTCGAACAATCAAGACTAGTGAGACTTGAACCCAAGCTACA
CCTGGAGCAGTAAATACCCTTGACCACTAGGGCAAAATCAATTTGTAAGTAAATAAATTAAAGGT
CAAA
Found at i:13298267 original size:31 final size:31
Alignment explanation
Indices: 13298229--13298289 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
13298219 TTTTTAATCT
* * *
13298229 ACATTAATCTTTAAACTTAACAACTTTTCTC
1 ACATTAATCCTAAAAATTAACAACTTTTCTC
*
13298260 ACATTAATCCTAAAAATTAACAATTTTTCT
1 ACATTAATCCTAAAAATTAACAACTTTTCT
13298290 TAATTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (31 bp):
ACATTAATCCTAAAAATTAACAACTTTTCTC
Found at i:13300251 original size:21 final size:21
Alignment explanation
Indices: 13300227--13300275 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
13300217 ATAGCAGTGC
13300227 TTAATTATTATAGTAGTAAGA
1 TTAATTATTATAGTAGTAAGA
* * * * *
13300248 TTAAATATTGTAGTGGTGATA
1 TTAATTATTATAGTAGTAAGA
13300269 TTAATTA
1 TTAATTA
13300276 ATATTAATTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (21 bp):
TTAATTATTATAGTAGTAAGA
Found at i:13323664 original size:29 final size:30
Alignment explanation
Indices: 13323605--13323662 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13323595 TCCGAGCCTT
*
13323605 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
13323635 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
13323663 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:13323892 original size:13 final size:13
Alignment explanation
Indices: 13323874--13323905 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13323864 TTTCCAGCAA
13323874 TTATGAATTTATT
1 TTATGAATTTATT
13323887 TTATGAATTTATT
1 TTATGAATTTATT
*
13323900 TGATGA
1 TTATGA
13323906 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:13324113 original size:50 final size:50
Alignment explanation
Indices: 13324000--13324241 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
13323990 ATTTGGGTAA
* * *
13324000 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
13324056 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
13324106 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
13324156 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
13324206 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
13324242 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:13324189 original size:100 final size:103
Alignment explanation
Indices: 13324000--13324249 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
13323990 ATTTGGGTAA
13324000 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
13324065 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
13324106 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
13324168 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
13324206 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
13324250 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:13327168 original size:104 final size:104
Alignment explanation
Indices: 13326988--13327254 Score: 462
Period size: 104 Copynumber: 2.6 Consensus size: 104
13326978 TAACCGTTAT
* * *
13326988 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCATCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
13327053 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
13327092 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
13327157 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
13327196 CGGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
13327255 TTTATATACA
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 154 1.00
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:13327616 original size:29 final size:29
Alignment explanation
Indices: 13327583--13327646 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
13327573 TAATCCACCA
13327583 CCCAACTTTTTGAAAAATTACAATTTTG-C
1 CCCAAC-TTTTGAAAAATTACAATTTTGTC
* * *
13327612 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGTC
13327642 CCCAA
1 CCCAA
13327647 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGTC
Found at i:13327620 original size:30 final size:30
Alignment explanation
Indices: 13327590--13327646 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
13327580 CCACCCAACT
13327590 TTTTGAAAAATTACAATTTTG-CCCCAAAC
1 TTTTGAAAAATTACAATTTTGTCCCCAAAC
* * *
13327619 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGTCCCCAA
13327647 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGTCCCCAAAC
Found at i:13336072 original size:13 final size:13
Alignment explanation
Indices: 13336054--13336085 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13336044 TTTCCAGCAA
13336054 TTATGAATTTATT
1 TTATGAATTTATT
13336067 TTATGAATTTATT
1 TTATGAATTTATT
*
13336080 TGATGA
1 TTATGA
13336086 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:13336293 original size:50 final size:50
Alignment explanation
Indices: 13336180--13336470 Score: 492
Period size: 50 Copynumber: 5.7 Consensus size: 50
13336170 ATTTGGGTAA
* * *
13336180 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
13336236 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
13336286 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
13336336 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
13336386 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
13336436 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
13336471 TTTGGCATGT
Statistics
Matches: 230, Mismatches: 5, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
50 185 0.80
52 1 0.00
53 3 0.01
55 2 0.01
56 39 0.17
ACGTcount: A:0.26, C:0.24, G:0.32, T:0.18
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:13338711 original size:29 final size:29
Alignment explanation
Indices: 13338666--13338722 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
13338656 CAACGGTGCC
* *
13338666 TTCGAACCAATAACTCAGATATCACTTGG
1 TTCGAACCAACAACTCAGATACCACTTGG
*
13338695 TTCGAACCAACAGCTCAGATACCACTTG
1 TTCGAACCAACAACTCAGATACCACTTG
13338723 TCACGGGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (29 bp):
TTCGAACCAACAACTCAGATACCACTTGG
Found at i:13344475 original size:203 final size:202
Alignment explanation
Indices: 13344120--13344520 Score: 615
Period size: 203 Copynumber: 2.0 Consensus size: 202
13344110 TCACGTTGCG
*
13344120 TAATAATTATTGGCCGACTTGATAAGATGTTTTATTTAAACTAAGGAAAATGCACAAGTTTTTCT
1 TAATAATCATTGGCCGACTTGATAAGATGTTTTATTTAAACTAAGGAAAATGCACAAGTTTTTCT
* ** * *
13344185 AAAATTAGTTAGAATAGGAGTTTTAAAAGAATTTGGACGTTTCACTTTGCCATTTCAGTGACCAA
66 AAAATTAGTTAGAATAGGAGTTTTAAAAGAATCTAAACATTTCACTTTGCCATTTCAGTAACCAA
* *
13344250 TGTAACCTTCAGCATTTGGCTATAACGTCTAGGCCAGGTTTGGCG-TGTTACAGAATTTTGTTCT
131 TGTAACCTTCAGCATCTGGCTATAACGTCTAGGCCAGATTTGG-GATGTTACAGAATTTTGTTCT
13344314 TTGTCGTC
195 TTGTCGTC
* * *
13344322 TAATAATCCTTGGCCTACTTGATAAGATGTTTTTATTTAAACTAAGTAAAATGCACAAGTTTTTC
1 TAATAATCATTGGCCGACTTGATAAGATG-TTTTATTTAAACTAAGGAAAATGCACAAGTTTTTC
* * * * *
13344387 TAATATTATTTAGAATTGGAGTTTTAAAAGAATCTAAATATTTCACTTTGCCATTTCGGTAACCA
65 TAAAATTAGTTAGAATAGGAGTTTTAAAAGAATCTAAACATTTCACTTTGCCATTTCAGTAACCA
* *
13344452 ATGTAACCTTCAGCATCTGGCTATGACGTCTAGGCTAGATTTGGGATGTTACAGAATTTTGTTCT
130 ATGTAACCTTCAGCATCTGGCTATAACGTCTAGGCCAGATTTGGGATGTTACAGAATTTTGTTCT
13344517 TTGT
195 TTGT
13344521 TTAACTTGGA
Statistics
Matches: 179, Mismatches: 18, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
202 27 0.15
203 152 0.85
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (202 bp):
TAATAATCATTGGCCGACTTGATAAGATGTTTTATTTAAACTAAGGAAAATGCACAAGTTTTTCT
AAAATTAGTTAGAATAGGAGTTTTAAAAGAATCTAAACATTTCACTTTGCCATTTCAGTAACCAA
TGTAACCTTCAGCATCTGGCTATAACGTCTAGGCCAGATTTGGGATGTTACAGAATTTTGTTCTT
TGTCGTC
Found at i:13344910 original size:16 final size:17
Alignment explanation
Indices: 13344878--13344918 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
13344868 ACCTTAAGAA
*
13344878 GTAATTTAGGATAAATC
1 GTAATTTAAGATAAATC
13344895 GTAATTTAAG-TAAATC
1 GTAATTTAAGATAAATC
13344911 GTAATTTA
1 GTAATTTA
13344919 TCCCGGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (17 bp):
GTAATTTAAGATAAATC
Found at i:13357409 original size:2 final size:2
Alignment explanation
Indices: 13357402--13357440 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13357392 AAATCCAAAT
13357402 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13357441 CCGAATTACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13358388 original size:13 final size:14
Alignment explanation
Indices: 13358366--13358398 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
13358356 TATAACATAA
*
13358366 ATTAAAAAAATGTC
1 ATTAAAAAAATGCC
13358380 ATTAAAAAAATGCC
1 ATTAAAAAAATGCC
13358394 ATTAA
1 ATTAA
13358399 TTATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (14 bp):
ATTAAAAAAATGCC
Found at i:13361305 original size:81 final size:83
Alignment explanation
Indices: 13361215--13361435 Score: 227
Period size: 83 Copynumber: 2.7 Consensus size: 83
13361205 TTTTATCATT
* * * *
13361215 TATTCATTTATAATTTCATCCCTTT-TTA-GGGACTAAAA-AG-ATTTTTTTTATATTTT-GAGG
1 TATTAATTTATAATTTCAT-CATTTATAAGGGGACTAAAATAGTA-ATTTTTTAT-TTTTGGAGG
*
13361275 TCAAAGTGCAATTTCACCATA
63 TCAAAGTGAAATTTCACCATA
* * * *
13361296 TATTAATTTACAATTTCATTATTTATAAGGGGTCTAAAATAGTAATTTTTTATTTTTGGTGGTCA
1 TATTAATTTATAATTTCATCATTTATAAGGGGACTAAAATAGTAATTTTTTATTTTTGGAGGTCA
13361361 AAGTGAAATTTCACCATA
66 AAGTGAAATTTCACCATA
* * * * * * * *
13361379 TATTAATTTATAATTTTATTATTGATTAGGGGATTGAAATAGCAATTTTTCATTTTT
1 TATTAATTTATAATTTCATCATTTATAAGGGGACTAAAATAGTAATTTTTTATTTTT
13361436 AGGGCCAAGG
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
80 3 0.03
81 19 0.16
82 13 0.11
83 81 0.69
84 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (83 bp):
TATTAATTTATAATTTCATCATTTATAAGGGGACTAAAATAGTAATTTTTTATTTTTGGAGGTCA
AAGTGAAATTTCACCATA
Found at i:13361371 original size:83 final size:82
Alignment explanation
Indices: 13361258--13361435 Score: 241
Period size: 83 Copynumber: 2.1 Consensus size: 82
13361248 TAAAAAGATT
* *
13361258 TTTTTTATATTTTGAGGTCAAAGTGCAATTTCACCATATATTAATTTACAATTTCATTATTTATA
1 TTTTTTAT-TTTTGAGGTCAAAGTGAAATTTCACCATATATTAATTTACAATTTCATTATTGATA
*
13361323 AGGGG-TCTAAAATAGTAA
65 AGGGGAT-TAAAATAGCAA
* * * *
13361341 TTTTTTATTTTTGGTGGTCAAAGTGAAATTTCACCATATATTAATTTATAATTTTATTATTGATT
1 TTTTTTATTTTT-GAGGTCAAAGTGAAATTTCACCATATATTAATTTACAATTTCATTATTGATA
*
13361406 AGGGGATTGAAATAGCAA
65 AGGGGATTAAAATAGCAA
*
13361424 TTTTTCATTTTT
1 TTTTTTATTTTT
13361436 AGGGCCAAGG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
82 4 0.05
83 79 0.94
84 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (82 bp):
TTTTTTATTTTTGAGGTCAAAGTGAAATTTCACCATATATTAATTTACAATTTCATTATTGATAA
GGGGATTAAAATAGCAA
Found at i:13374236 original size:17 final size:17
Alignment explanation
Indices: 13374214--13374267 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 17
13374204 TCAAAAAGTT
13374214 AAAACCTCAAACTTTAA
1 AAAACCTCAAACTTTAA
**
13374231 AAAACCT-AAACTAAAA
1 AAAACCTCAAACTTTAA
13374247 AAAACC-CAAACTTTGAA
1 AAAACCTCAAACTTT-AA
13374264 AAAA
1 AAAA
13374268 TCCAAACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.61, C:0.20, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAACCTCAAACTTTAA
Found at i:13374449 original size:175 final size:173
Alignment explanation
Indices: 13374124--13374449 Score: 406
Period size: 175 Copynumber: 1.9 Consensus size: 173
13374114 ACATGTTGAG
* * * * * * *
13374124 ATTAGAGGTGGCAAAATGGGTCTGAGCTTGAGAACCCGACCCAAAAAACTTGAGACCGAACTCGT
1 ATTAAAGGTAGCAAAATGGGCCCGAGCATGAGAACCCGACCCAAAAAACTCGAGACCGAACTCAT
** * * *
13374189 TTTAAACTGATTTGATCAAAAAGTTAAAACCTCAAACTTTAAAAAACCTAAACTAAAAAAAACCC
66 TTTAAACCAATTTGACCAAAAAGTCAAAAACTCAAACTTTAAAAAACCTAAACTAAAAAAAACCC
13374254 AAACTTTGAAAAAATCCAAACAATTAACCCAAACATCCCTAAA
131 AAACTTTGAAAAAATCCAAACAATTAACCCAAACATCCCTAAA
* * *
13374297 ATTAAAGGTAGCAAAATGGGCCCGAGCATGAGAACCCGACCTGAAAAAACTCGGGATCGAACTCA
1 ATTAAAGGTAGCAAAATGGGCCCGAGCATGAGAACCCGACC-CAAAAAACTCGAGACCGAACTCA
* *
13374362 TTTTACACCCAATTTGACCAAAAAGTCAAAAATTCAAA-TTTCAAAAAATCC-AAACTCAAAAAA
65 TTTTA-AACCAATTTGACCAAAAAGTCAAAAACTCAAACTTT-AAAAAA-CCTAAACT-AAAAAA
* * *
13374425 GACCTAAAC-TTGAAAAATTCCAAAC
126 AACCCAAACTTTGAAAAAATCCAAAC
13374450 CTAAAAAAAT
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
173 36 0.28
174 26 0.20
175 51 0.40
176 15 0.12
ACGTcount: A:0.46, C:0.22, G:0.13, T:0.20
Consensus pattern (173 bp):
ATTAAAGGTAGCAAAATGGGCCCGAGCATGAGAACCCGACCCAAAAAACTCGAGACCGAACTCAT
TTTAAACCAATTTGACCAAAAAGTCAAAAACTCAAACTTTAAAAAACCTAAACTAAAAAAAACCC
AAACTTTGAAAAAATCCAAACAATTAACCCAAACATCCCTAAA
Found at i:13382082 original size:44 final size:44
Alignment explanation
Indices: 13382033--13382122 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
13382023 GTAGGTCAAA
* * *
13382033 TAATATTAAAATAAGC-TACACTAATTAGAGTTTAAGTGAAAAAC
1 TAATATTAAAATAA-CTTACACTAATCAGAATTCAAGTGAAAAAC
* *
13382077 TAATATTAAAATAACTTACAGTAATCAGAATTCAAGTGAGAAAC
1 TAATATTAAAATAACTTACACTAATCAGAATTCAAGTGAAAAAC
13382121 TA
1 TA
13382123 GAAATAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (44 bp):
TAATATTAAAATAACTTACACTAATCAGAATTCAAGTGAAAAAC
Found at i:13390744 original size:17 final size:18
Alignment explanation
Indices: 13390717--13390762 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
13390707 ATATTATTTT
13390717 TATAT-TATTATAAT-TG
1 TATATATATTATAATGTG
* *
13390733 TGTATATATTAT-GTGTG
1 TATATATATTATAATGTG
13390750 TATATATATTATA
1 TATATATATTATA
13390763 TGCATATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATGTG
Found at i:13391199 original size:13 final size:13
Alignment explanation
Indices: 13391181--13391211 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
13391171 ACAACTTTTG
13391181 ATTTAGATGGTAA
1 ATTTAGATGGTAA
13391194 ATTTAGATGGTAA
1 ATTTAGATGGTAA
13391207 ATTTA
1 ATTTA
13391212 AGGTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (13 bp):
ATTTAGATGGTAA
Found at i:13402505 original size:57 final size:57
Alignment explanation
Indices: 13402417--13402530 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
13402407 CATTAGCAAT
13402417 GATTAAGTAAATTTAATCTCAACTGCTGTTTTTATGCACCATGGAAAAGATGATAGA
1 GATTAAGTAAATTTAATCTCAACTGCTGTTTTTATGCACCATGGAAAAGATGATAGA
*
13402474 GATTAAGTAAATTTAATCTCAACTGCTGTTTTTATGCACCATTGAAAAGATGATAGA
1 GATTAAGTAAATTTAATCTCAACTGCTGTTTTTATGCACCATGGAAAAGATGATAGA
13402531 TTTGATAGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (57 bp):
GATTAAGTAAATTTAATCTCAACTGCTGTTTTTATGCACCATGGAAAAGATGATAGA
Found at i:13405539 original size:17 final size:17
Alignment explanation
Indices: 13405517--13405551 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13405507 AAAAACAGAC
13405517 CATACTCGTATCAAACA
1 CATACTCGTATCAAACA
* *
13405534 CATACTTGTATCCAACA
1 CATACTCGTATCAAACA
13405551 C
1 C
13405552 TGAATTCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.31, G:0.06, T:0.26
Consensus pattern (17 bp):
CATACTCGTATCAAACA
Found at i:13412202 original size:24 final size:24
Alignment explanation
Indices: 13412170--13412219 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
13412160 ATTTCCCGTA
13412170 AAAAAAAAATGCCTAACCTAAATC
1 AAAAAAAAATGCCTAACCTAAATC
13412194 AAAAAAAAATGCCTAACCTAAATC
1 AAAAAAAAATGCCTAACCTAAATC
13412218 AA
1 AA
13412220 TAGAAACACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.60, C:0.20, G:0.04, T:0.16
Consensus pattern (24 bp):
AAAAAAAAATGCCTAACCTAAATC
Found at i:13413408 original size:23 final size:27
Alignment explanation
Indices: 13413380--13413440 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 27
13413370 TTACTTAAAC
13413380 AAATATGT-ATA-TTTATA-TAA-TTA
1 AAATATGTCATATTTTATACTAAGTTA
13413403 AAATAT-TCATATTTTATACTAAGTTA
1 AAATATGTCATATTTTATACTAAGTTA
13413429 AAATATGTCATA
1 AAATATGTCATA
13413441 AGTCCTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 1 0.03
23 9 0.27
24 6 0.18
25 3 0.09
26 9 0.27
27 5 0.15
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (27 bp):
AAATATGTCATATTTTATACTAAGTTA
Found at i:13413817 original size:15 final size:15
Alignment explanation
Indices: 13413797--13413848 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
13413787 CCTTTATAAC
13413797 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
13413812 ATTTATAATTGTAATAGAT
1 ATTTATTA-T-TAAT--AT
*
13413831 ATTTATTATCAATAT
1 ATTTATTATTAATAT
13413846 ATT
1 ATT
13413849 AATATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:13416706 original size:50 final size:50
Alignment explanation
Indices: 13416642--13416739 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
13416632 ATCAATATGA
13416642 AAGATCCAACTAATCTACTAAAAAAATAAAGTAGAATATATATGCAACAG
1 AAGATCCAACTAATCTACTAAAAAAATAAAGTAGAATATATATGCAACAG
*
13416692 AAGATCCAACTAATCTACTAAAAAAATAAAGTAGAATATATATTCAAC
1 AAGATCCAACTAATCTACTAAAAAAATAAAGTAGAATATATATGCAAC
13416740 TAATCTACTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.23
Consensus pattern (50 bp):
AAGATCCAACTAATCTACTAAAAAAATAAAGTAGAATATATATGCAACAG
Found at i:13418207 original size:2 final size:2
Alignment explanation
Indices: 13418200--13418242 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
13418190 CAACAACCAC
13418200 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
13418242 G
1 G
13418243 GGAAGTTCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13424297 original size:21 final size:21
Alignment explanation
Indices: 13424271--13424318 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
13424261 TTTATACATT
13424271 TAGAAATTCGGACTTCTAATC
1 TAGAAATTCGGACTTCTAATC
* **
13424292 TAGAAATTTGGACTTCTGGTC
1 TAGAAATTCGGACTTCTAATC
13424313 TAGAAA
1 TAGAAA
13424319 CTTCACATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (21 bp):
TAGAAATTCGGACTTCTAATC
Found at i:13425250 original size:16 final size:17
Alignment explanation
Indices: 13425231--13425267 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
13425221 CAATGAAGAA
13425231 TATTATTT-AAATTTAT
1 TATTATTTAAAATTTAT
13425247 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
13425263 TATTA
1 TATTA
13425268 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:13426445 original size:20 final size:19
Alignment explanation
Indices: 13426420--13426457 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
13426410 TTTTAAATAC
13426420 TTTTAAAATAACTTTTTTAT
1 TTTTAAAATAA-TTTTTTAT
13426440 TTTTAAAATAATTTTTTA
1 TTTTAAAATAATTTTTTA
13426458 ATGTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTAAAATAATTTTTTAT
Found at i:13426464 original size:20 final size:20
Alignment explanation
Indices: 13426421--13426464 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13426411 TTTAAATACT
*
13426421 TTTAAAATAACTTTTTTATT
1 TTTAAAATAACTTTTTTATG
13426441 TTTAAAATAA-TTTTTTAATG
1 TTTAAAATAACTTTTTT-ATG
13426461 TTTA
1 TTTA
13426465 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTAAAATAACTTTTTTATG
Found at i:13442081 original size:16 final size:15
Alignment explanation
Indices: 13442060--13442089 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13442050 ATTCTACCAA
13442060 AACATCATTTATTTTT
1 AACATCATTT-TTTTT
13442076 AACATCATTTTTTT
1 AACATCATTTTTTT
13442090 GTAAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (15 bp):
AACATCATTTTTTTT
Found at i:13444184 original size:46 final size:46
Alignment explanation
Indices: 13444105--13444193 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
13444095 AGGCTCCCCT
* * * *
13444105 TGCGAGCCCTCCTTGGCATATGCGAACTGGGACCATGAGCTCCTCG
1 TGCGAGCACTCCTCGGCATATGCGAACTAGGACCATGAACTCCTCG
* *
13444151 TGCGAGCACTCCTCGGCATATGCGAAGTAGGACCGTGAACTCC
1 TGCGAGCACTCCTCGGCATATGCGAACTAGGACCATGAACTCC
13444194 CTTTGCTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.20
Consensus pattern (46 bp):
TGCGAGCACTCCTCGGCATATGCGAACTAGGACCATGAACTCCTCG
Found at i:13444498 original size:20 final size:19
Alignment explanation
Indices: 13444473--13444523 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
13444463 TCTTTAAAAA
13444473 TTTTACAATTTTTCTATAT-T
1 TTTTACAATTTTT-TA-ATGT
*
13444493 TTTTACAAATTTTTAATGT
1 TTTTACAATTTTTTAATGT
13444512 TTTTAACAATTT
1 TTTT-ACAATTT
13444524 ACCATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 2 0.07
19 7 0.26
20 18 0.67
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTACAATTTTTTAATGT
Found at i:13447247 original size:30 final size:30
Alignment explanation
Indices: 13447191--13447247 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
13447181 ATCCGTAATA
* *
13447191 AATTTTAATTTTTAAAAATATTTATTTCAT
1 AATTTTAATTATTAAAAATATATATTTCAT
*
13447221 AATTTTAA-TATTAATAATATGATATTT
1 AATTTTAATTATTAAAAATAT-ATATTT
13447248 TATGTTGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTTTAATTATTAAAAATATATATTTCAT
Found at i:13461973 original size:6 final size:6
Alignment explanation
Indices: 13461949--13462074 Score: 50
Period size: 6 Copynumber: 21.0 Consensus size: 6
13461939 GCCAGTGAGT
* *
13461949 GAAGGA GAA-GA -AA-GA GAAGGA GAA-GA AAAGAAGA GAAGGA GGAGGA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAG--GA GAAGGA GAAGGA
* * * * *
13461995 GAAGGA GAGGGCA GGAAGG- GAAGG- GAAGAA GAAAGAA AAAAGA GAAGGA
1 GAAGGA GAAGG-A -GAAGGA GAAGGA GAAGGA G-AAGGA GAAGGA GAAGGA
* * *
13462044 GAATAGA GAGAGG- GAAGAA GAAAGA GAAGGA
1 GAA-GGA GA-AGGA GAAGGA GAAGGA GAAGGA
13462075 AAAAAATAAA
Statistics
Matches: 90, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
4 4 0.04
5 19 0.21
6 46 0.51
7 11 0.12
8 10 0.11
ACGTcount: A:0.55, C:0.01, G:0.44, T:0.01
Consensus pattern (6 bp):
GAAGGA
Found at i:13462822 original size:16 final size:16
Alignment explanation
Indices: 13462792--13462843 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
13462782 TTCATATTTA
13462792 TTATGTT-TTGCTTATG
1 TTATGTTATTG-TTATG
*
13462808 TTATGTTATTGTTATA
1 TTATGTTATTGTTATG
* * *
13462824 TTTTTTTATTGGTATG
1 TTATGTTATTGTTATG
13462840 TTAT
1 TTAT
13462844 TTTTATTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 26 0.90
17 3 0.10
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.65
Consensus pattern (16 bp):
TTATGTTATTGTTATG
Found at i:13462827 original size:27 final size:27
Alignment explanation
Indices: 13462792--13462855 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
13462782 TTCATATTTA
* *
13462792 TTATGTTTTGCTTA-TGTTATGTTATTG
1 TTATATTTT-CTTATTGGTATGTTATTG
* *
13462819 TTATATTTTTTTATTGGTATGTTATTT
1 TTATATTTTCTTATTGGTATGTTATTG
13462846 TTATTATTTT
1 TTA-TATTTT
13462856 AACATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 3 0.10
27 22 0.71
28 6 0.19
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.69
Consensus pattern (27 bp):
TTATATTTTCTTATTGGTATGTTATTG
Found at i:13462967 original size:20 final size:20
Alignment explanation
Indices: 13462942--13462981 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13462932 CGTAAAATGA
*
13462942 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
13462962 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
13462982 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:13462971 original size:34 final size:35
Alignment explanation
Indices: 13462927--13462993 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
13462917 CAGTAAAATA
*
13462927 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
13462961 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
13462994 CTAGTGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:13465994 original size:24 final size:24
Alignment explanation
Indices: 13465919--13465995 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
13465909 TAAAACACTA
*
13465919 AAATTGGAACAAACTTTGTAATAC
1 AAATTGGAACAAACTTTGTAATAT
* * **
13465943 AAATT--AA-ATACATTACAATATT
1 AAATTGGAACAAACTTTGTAATA-T
13465965 AAAAATTGGAACAAACTTTGTAATAT
1 --AAATTGGAACAAACTTTGTAATAT
13465991 AAATT
1 AAATT
13465996 AGGTACATTG
Statistics
Matches: 38, Mismatches: 9, Indels: 12
0.64 0.15 0.20
Matches are distributed among these distances:
21 9 0.24
22 2 0.05
24 15 0.39
26 3 0.08
27 9 0.24
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (24 bp):
AAATTGGAACAAACTTTGTAATAT
Found at i:13483132 original size:24 final size:24
Alignment explanation
Indices: 13483097--13483143 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13483087 TGTTGCTTTG
13483097 CTATTGTTTTTATA-ACTTCTTTTA
1 CTATTGTTTTTATATA-TTCTTTTA
13483121 CTATT-TTCTTTATATATTCTTTT
1 CTATTGTT-TTTATATATTCTTTT
13483144 CGCTGCCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 2 0.10
24 18 0.86
25 1 0.05
ACGTcount: A:0.19, C:0.13, G:0.02, T:0.66
Consensus pattern (24 bp):
CTATTGTTTTTATATATTCTTTTA
Found at i:13485422 original size:21 final size:21
Alignment explanation
Indices: 13485396--13485441 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13485386 TTTGATTTTG
*
13485396 ATTTTAAA-ATATATAAATATT
1 ATTTTAAATAT-TAAAAATATT
*
13485417 ATTTTAGATATTAAAAATATT
1 ATTTTAAATATTAAAAATATT
13485438 ATTT
1 ATTT
13485442 AATTGCTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTTTAAATATTAAAAATATT
Found at i:13502092 original size:26 final size:26
Alignment explanation
Indices: 13502053--13502116 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
13502043 TTAAATAATC
*
13502053 ATTATTTTAT-TTTAAAT-AATACAAAA
1 ATTATTTT-TCTTT-AATCAATAAAAAA
13502079 ATTATTTTTCTTTAATCAATAAAAAA
1 ATTATTTTTCTTTAATCAATAAAAAA
13502105 ACTTTATTTTTC
1 A--TTATTTTTC
13502117 ATATCATCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 4 0.12
26 20 0.61
28 9 0.27
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTATTTTTCTTTAATCAATAAAAAA
Found at i:13502958 original size:18 final size:17
Alignment explanation
Indices: 13502928--13502966 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
13502918 GATCTGGTGC
* *
13502928 TGTTTCTTTTTTTTTTT
1 TGTTTCTTATTTTTGTT
13502945 TGTTCTCTTATTTTTGTT
1 TGTT-TCTTATTTTTGTT
13502963 TGTT
1 TGTT
13502967 ATGATTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.03, C:0.08, G:0.10, T:0.79
Consensus pattern (17 bp):
TGTTTCTTATTTTTGTT
Found at i:13511732 original size:42 final size:41
Alignment explanation
Indices: 13511670--13511792 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 41
13511660 GAGCAGATTG
* *
13511670 TTTCATGCTTCCTTGCTGCACGTTTGTGAGTAAGCTGATATT
1 TTTCATGC-TCCTTGCTGCACGTTTGTGAGCAAGCTAATATT
* *
13511712 TTTCATGCTCCTTTGTTGCACGTTTGTTAGCAAGCTAATATT
1 TTTCATGCTCC-TTGCTGCACGTTTGTGAGCAAGCTAATATT
* *
13511754 TTTCATGTTTCCTTGCTACACGTTTGTGAGCAAGCTAAT
1 TTTCATG-CTCCTTGCTGCACGTTTGTGAGCAAGCTAAT
13511793 GTTCAAAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
41 3 0.04
42 65 0.92
43 3 0.04
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (41 bp):
TTTCATGCTCCTTGCTGCACGTTTGTGAGCAAGCTAATATT
Found at i:13511867 original size:20 final size:20
Alignment explanation
Indices: 13511842--13511884 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
13511832 AATTGTTCGT
13511842 ATCGATTGATAATATTTTGA
1 ATCGATTGATAATATTTTGA
* *
13511862 ATCGATTGCTAATTTTTTGA
1 ATCGATTGATAATATTTTGA
13511882 ATC
1 ATC
13511885 AATTTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (20 bp):
ATCGATTGATAATATTTTGA
Found at i:13527457 original size:139 final size:139
Alignment explanation
Indices: 13527203--13527483 Score: 445
Period size: 139 Copynumber: 2.0 Consensus size: 139
13527193 GAATGAGAGA
* *
13527203 AAGTGACAAAATGAATACTTATCGAATCGAGCGAGTTCAATCGTCGACCACGATGGAGGCATAAA
1 AAGTGACAAAACGAATACTTACCGAATCGAGCGAGTTCAATCGTCGACCACGATGGAGGCATAAA
* * * * * *
13527268 AGAAATCAAAAGAAAAGAGGGAGGAACCGATGAAAATTCGGCAGACAAGGGGTGAATAAACGTCA
66 AGAAATCAAAAGAAAAAAGGGAGGAAACAATAAAAATTCGACAGAAAAGGGGTGAATAAACGTCA
*
13527333 GAATGATGG
131 GAACGATGG
* * *
13527342 AAGTGGCAAAACGAATACTTACCGAATTGAGCGAGTTCAATCGTCGAGCACGATGGAGGCATAAA
1 AAGTGACAAAACGAATACTTACCGAATCGAGCGAGTTCAATCGTCGACCACGATGGAGGCATAAA
*
13527407 AGAAATCAAAAGAAAAAAGGGAGGAAACAATAAAAATTCGACAGAAAAGGGGTGAATAAATGTCA
66 AGAAATCAAAAGAAAAAAGGGAGGAAACAATAAAAATTCGACAGAAAAGGGGTGAATAAACGTCA
13527472 GAACGATGG
131 GAACGATGG
13527481 AAG
1 AAG
13527484 AAATTTTGGG
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
139 129 1.00
ACGTcount: A:0.44, C:0.14, G:0.27, T:0.15
Consensus pattern (139 bp):
AAGTGACAAAACGAATACTTACCGAATCGAGCGAGTTCAATCGTCGACCACGATGGAGGCATAAA
AGAAATCAAAAGAAAAAAGGGAGGAAACAATAAAAATTCGACAGAAAAGGGGTGAATAAACGTCA
GAACGATGG
Found at i:13532467 original size:20 final size:21
Alignment explanation
Indices: 13532422--13532461 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13532412 ACTTATAATA
*
13532422 ATATTTATATTAATACATTAC
1 ATATTTATATTAATACACTAC
13532443 ATATTTAT-TTAATACACTA
1 ATATTTATATTAATACACTA
13532462 TCTATTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTTATATTAATACACTAC
Found at i:13535166 original size:15 final size:15
Alignment explanation
Indices: 13535146--13535178 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13535136 AACATAAGAA
13535146 TATATTTTTTATATT
1 TATATTTTTTATATT
*
13535161 TATATTTTTTATCTT
1 TATATTTTTTATATT
13535176 TAT
1 TAT
13535179 TTTACCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
TATATTTTTTATATT
Found at i:13542904 original size:24 final size:24
Alignment explanation
Indices: 13542858--13542902 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
13542848 TTATTTATTA
13542858 GTAAAAAATATTTAAAAATAAATT
1 GTAAAAAATATTTAAAAATAAATT
13542882 GTAAAAAA-A-TTAAAAAGTAAA
1 GTAAAAAATATTTAAAAA-TAAA
13542903 ATCCATTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (24 bp):
GTAAAAAATATTTAAAAATAAATT
Found at i:13546968 original size:20 final size:20
Alignment explanation
Indices: 13546934--13546975 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
13546924 AACTATTTAA
** *
13546934 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
13546954 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
13546974 AT
1 AT
13546976 GTGTTTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:13549298 original size:103 final size:104
Alignment explanation
Indices: 13549119--13549383 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
13549109 AACCGTTATT
* * * *
13549119 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
13549184 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
13549222 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
13549287 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
13549326 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
13549384 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:13549745 original size:30 final size:29
Alignment explanation
Indices: 13549711--13549775 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
13549701 TAATCCACCA
13549711 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
13549741 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
13549771 CCCAA
1 CCCAA
13549776 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:13549749 original size:31 final size:30
Alignment explanation
Indices: 13549718--13549775 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13549708 CCACCCAACT
13549718 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
13549748 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
13549776 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:13556837 original size:104 final size:104
Alignment explanation
Indices: 13556715--13556938 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
13556705 AATGGATATC
13556715 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
13556780 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
13556819 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
13556884 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
13556923 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
13556939 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:13557300 original size:29 final size:29
Alignment explanation
Indices: 13557267--13557330 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
13557257 TAATCCACCA
13557267 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
13557296 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
13557326 CCCAA
1 CCCAA
13557331 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:13557304 original size:30 final size:30
Alignment explanation
Indices: 13557274--13557330 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13557264 CCACCCAACT
13557274 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
13557303 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
13557331 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:13565900 original size:22 final size:21
Alignment explanation
Indices: 13565871--13565918 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
13565861 ATAATATTTT
13565871 ATTATTAATATAATTCTA-AAA
1 ATTATTAA-ATAATTCTATAAA
* *
13565892 ATTAGTTAAATATTTTTATAAA
1 ATTA-TTAAATAATTCTATAAA
13565914 ATTAT
1 ATTAT
13565919 AAAACCCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTATTAAATAATTCTATAAA
Done.