Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 136 of 222
Found at i:44171485 original size:44 final size:43
Alignment explanation
Indices: 44171437--44171556 Score: 136
Period size: 44 Copynumber: 2.8 Consensus size: 43
44171427 ACCCGGAACT
* *
44171437 AAAAAGTTATCATGATGATTCTAATACAATTTTAAAATTACTAA
1 AAAAAATTATCATGATGATTCTAATACAATATTAAAATTACT-A
* *
44171481 AAAAAATTACCATGGTGATT-TAAATACAATATTAAAATTACTA
1 AAAAAATTATCATGATGATTCT-AATACAATATTAAAATTACTA
* * * *
44171524 AAAAGATTGT-ATGATGATTCGAATACAGTATTA
1 AAAAAATTATCATGATGATTCTAATACAATATTA
44171557 TCATGATGGT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 19 0.30
43 9 0.14
44 36 0.56
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.34
Consensus pattern (43 bp):
AAAAAATTATCATGATGATTCTAATACAATATTAAAATTACTA
Found at i:44171836 original size:3 final size:3
Alignment explanation
Indices: 44171828--44171886 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
44171818 ATATAAGAGT
44171828 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44171876 TTA TTA TTA TT
1 TTA TTA TTA TT
44171887 CGACTTAATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:44176194 original size:50 final size:50
Alignment explanation
Indices: 44176127--44176319 Score: 206
Period size: 50 Copynumber: 3.7 Consensus size: 50
44176117 TTTTCTTTAC
* * * **
44176127 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAATTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
44176177 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
44176227 TGCTAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
44176283 TGCCAATGTCATGTCCCAGACATGGTCCTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
44176320 TCTCCTTACC
Statistics
Matches: 117, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 81 0.69
53 2 0.02
56 34 0.29
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:44181563 original size:11 final size:11
Alignment explanation
Indices: 44181547--44181577 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
44181537 TCTCTCAAAA
44181547 TTCCTCTCAAT
1 TTCCTCTCAAT
44181558 TTCCTCTCAAT
1 TTCCTCTCAAT
44181569 TTCCT-TCAA
1 TTCCTCTCAA
44181578 AAATTCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.45
Consensus pattern (11 bp):
TTCCTCTCAAT
Found at i:44182771 original size:7 final size:7
Alignment explanation
Indices: 44182759--44182783 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44182749 AGTCGATTGA
44182759 TATTTAG
1 TATTTAG
44182766 TATTTAG
1 TATTTAG
44182773 TATTTAG
1 TATTTAG
44182780 TATT
1 TATT
44182784 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:44183461 original size:18 final size:18
Alignment explanation
Indices: 44183434--44183473 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
44183424 CAGGTGCGTT
*
44183434 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
44183452 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
44183470 TCCT
1 TCCT
44183474 TTTTCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:44184087 original size:114 final size:115
Alignment explanation
Indices: 44183679--44184150 Score: 883
Period size: 115 Copynumber: 4.1 Consensus size: 115
44183669 CCACATACTA
* **
44183679 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
44183744 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
44183795 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
44183860 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
*
44183910 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACCAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
44183975 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
44184025 AA-TAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
*
44184089 AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
44184139 AATTAATAATTT
1 AATTAATAATTT
44184151 CACAAACTTA
Statistics
Matches: 349, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
114 112 0.32
115 194 0.56
116 43 0.12
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (115 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
Found at i:44184093 original size:229 final size:231
Alignment explanation
Indices: 44183679--44184150 Score: 885
Period size: 229 Copynumber: 2.1 Consensus size: 231
44183669 CCACATACTA
* ** *
44183679 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACCAACAAT
44183744 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATCAATTAATAATTTTA
66 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATCAATTAATAATTTTA
44183809 CATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATA
131 CATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATA
*
44183874 ATTTGATAATTTTACTAATCATTAATACAATTTATC
196 ATTTGATAATTTTACTAACCATTAATACAATTTATC
44183910 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACCAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACCAACAAT
44183974 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATCAA-TAATAATTTTA
66 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATCAATTAATAATTTTA
44184038 CATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATA
131 CATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATA
44184103 ATTTGATAATTTTACTAACCATTAATACAATTTATC
196 ATTTGATAATTTTACTAACCATTAATACAATTTATC
44184139 AATTAATAATTT
1 AATTAATAATTT
44184151 CACAAACTTA
Statistics
Matches: 236, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
229 123 0.52
230 70 0.30
231 43 0.18
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (231 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACCAACAAT
TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATCAATTAATAATTTTA
CATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATA
ATTTGATAATTTTACTAACCATTAATACAATTTATC
Found at i:44187804 original size:14 final size:14
Alignment explanation
Indices: 44187785--44187814 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
44187775 CTAAATGAAC
44187785 GTATCTTTGAGTTA
1 GTATCTTTGAGTTA
44187799 GTATCTTTGAGTTA
1 GTATCTTTGAGTTA
44187813 GT
1 GT
44187815 TTGTAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.23, T:0.50
Consensus pattern (14 bp):
GTATCTTTGAGTTA
Found at i:44190649 original size:16 final size:16
Alignment explanation
Indices: 44190612--44190651 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
44190602 TTGATAAAAT
* *
44190612 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
44190628 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
44190644 TAAAATTA
1 TAAAATTA
44190652 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:44190684 original size:59 final size:63
Alignment explanation
Indices: 44190618--44190754 Score: 153
Period size: 66 Copynumber: 2.2 Consensus size: 63
44190608 AAATTAAAAC
*
44190618 TAATTGTTATTAAAAT-T-A-A-TTG-TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTAT
1 TAATTGTTATTAAAATCTAACATTTGATTAATAAAATTATCAAATTATTAATTGATTAATTG--T
**
44190677 TAATTGTTGTAACAAAATCTAACATTTGATTAATAAAATTATCAAATTATTAATTGTATTAATTG
1 TAATTG-T-TATTAAAATCTAACATTTGATTAATAAAATTATCAAATTATTAATTG-ATTAATTG
44190742 T
63 T
44190743 TAATTG-TATTAA
1 TAATTGTTATTAA
44190755 TTGTATTAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
59 6 0.09
60 1 0.02
61 7 0.11
62 1 0.02
63 5 0.08
64 1 0.02
65 3 0.05
66 33 0.52
68 7 0.11
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.47
Consensus pattern (63 bp):
TAATTGTTATTAAAATCTAACATTTGATTAATAAAATTATCAAATTATTAATTGATTAATTGT
Found at i:44190736 original size:9 final size:9
Alignment explanation
Indices: 44190724--44190767 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
44190714 ATTATCAAAT
44190724 TATTAATTG
1 TATTAATTG
44190733 TATTAATTG
1 TATTAATTG
44190742 --TTAATTG
1 TATTAATTG
44190749 TATTAATTG
1 TATTAATTG
44190758 TATTAATTG
1 TATTAATTG
44190767 T
1 T
44190768 TGTAACAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.21
9 26 0.79
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:44190745 original size:16 final size:16
Alignment explanation
Indices: 44190721--44190758 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
44190711 AAAATTATCA
*
44190721 AATTATTAATTGTATT
1 AATTGTTAATTGTATT
44190737 AATTGTTAATTGTATT
1 AATTGTTAATTGTATT
44190753 AATTGT
1 AATTGT
44190759 ATTAATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (16 bp):
AATTGTTAATTGTATT
Found at i:44190766 original size:84 final size:84
Alignment explanation
Indices: 44190655--44190851 Score: 371
Period size: 84 Copynumber: 2.4 Consensus size: 84
44190645 AAAATTATCA
*
44190655 AATTATTAATTG--TTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAATAAAATTA
1 AATTGTTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAATAAAATTA
44190718 TCAAATTATTAATTGTATT
66 TCAAATTATTAATTGTATT
44190737 AATTGTTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAATAAAATTA
1 AATTGTTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAATAAAATTA
44190802 TCAAATTATTAATTGTATT
66 TCAAATTATTAATTGTATT
44190821 AATTGTTAATTGTATTAATTGTATTAATTGT
1 AATTGTTAATTGTATTAATTGTATTAATTGT
44190852 ATTAATTGTT
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
82 11 0.10
84 101 0.90
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.48
Consensus pattern (84 bp):
AATTGTTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAATAAAATTA
TCAAATTATTAATTGTATT
Found at i:44190820 original size:9 final size:9
Alignment explanation
Indices: 44190808--44190860 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
44190798 ATTATCAAAT
44190808 TATTAATTG
1 TATTAATTG
44190817 TATTAATTG
1 TATTAATTG
44190826 --TTAATTG
1 TATTAATTG
44190833 TATTAATTG
1 TATTAATTG
44190842 TATTAATTG
1 TATTAATTG
44190851 TATTAATTG
1 TATTAATTG
44190860 T
1 T
44190861 TGTACCAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.17
9 35 0.83
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:44190836 original size:25 final size:26
Alignment explanation
Indices: 44190808--44190860 Score: 90
Period size: 25 Copynumber: 2.0 Consensus size: 26
44190798 ATTATCAAAT
44190808 TATTAATTGTATTAATTG-TTAATTG
1 TATTAATTGTATTAATTGATTAATTG
44190833 TATTAATTGTATTAATTGTATTAATTG
1 TATTAATTGTATTAATTG-ATTAATTG
44190860 T
1 T
44190861 TGTACCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 18 0.69
27 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (26 bp):
TATTAATTGTATTAATTGATTAATTG
Found at i:44191368 original size:9 final size:9
Alignment explanation
Indices: 44191351--44191411 Score: 86
Period size: 9 Copynumber: 6.8 Consensus size: 9
44191341 TGAAGAAACC
*
44191351 TCGTCGTCA
1 TCGTCCTCA
* *
44191360 TCATCGTCA
1 TCGTCCTCA
44191369 TCGTCCTCA
1 TCGTCCTCA
44191378 TCGTCCTCA
1 TCGTCCTCA
44191387 TCGTCCTCA
1 TCGTCCTCA
*
44191396 TTGTCCTCA
1 TCGTCCTCA
44191405 TCGTCCT
1 TCGTCCT
44191412 TTTTGCAACC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.11, C:0.39, G:0.13, T:0.36
Consensus pattern (9 bp):
TCGTCCTCA
Found at i:44193712 original size:92 final size:92
Alignment explanation
Indices: 44193555--44193869 Score: 513
Period size: 92 Copynumber: 3.3 Consensus size: 92
44193545 ATATATACAA
* *
44193555 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTTTAAATTATAGCTTA
1 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTA
44193620 TATGCATACTTTGATACAAATAGGTTT
66 TATGCATACTTTGATACAAATAGGTTT
44193647 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTA
1 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTA
44193712 TATGCATACTTTGATACAAATAGGTTT
66 TATGCATACTTTGATACAAATAGGTTT
*
44193739 ATATTTTATTAAATACACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTA
1 ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAA-T-T-G----
*
44193804 TAGCCTTATATGCATACTTTGATACAAATAGGTTC
59 TAG-CTTATATGCATACTTTGATACAAATAGGTTT
*
44193839 ATATTTTATTAAATATAGAAATAGGTTAAAA
1 ATATTTTATTAAATATACAAATAGGTTAAAA
44193870 ATTGTAGCTT
Statistics
Matches: 209, Mismatches: 6, Indels: 8
0.94 0.03 0.04
Matches are distributed among these distances:
92 144 0.69
93 1 0.00
94 1 0.00
95 1 0.00
99 3 0.01
100 59 0.28
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.38
Consensus pattern (92 bp):
ATATTTTATTAAATATACAAATAGGTTAAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTA
TATGCATACTTTGATACAAATAGGTTT
Found at i:44196218 original size:20 final size:20
Alignment explanation
Indices: 44196190--44196236 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
44196180 GTAGATTGGG
*
44196190 AAATGAAAACTAAAAC-TAAA
1 AAATAAAAACTAAAACAT-AA
*
44196210 AAATAAAAACTTAAACATAA
1 AAATAAAAACTAAAACATAA
44196230 AAATAAA
1 AAATAAA
44196237 TATATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (20 bp):
AAATAAAAACTAAAACATAA
Found at i:44199583 original size:51 final size:50
Alignment explanation
Indices: 44199501--44199796 Score: 222
Period size: 51 Copynumber: 5.7 Consensus size: 50
44199491 GATGAACACG
**
44199501 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATTGTCACA
* * * * * * *
44199552 TGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAA-ATATT-GTCACA
** * *
44199603 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATTGTCACA
* *
44199654 TGTGTAGTACTAAGTGAACTATGTGAAGGCTACTACGTGAATCG-TAAAAACTTGATCACA
1 TGTGTAGTAC----T--A--A-GTGAAGGCTACTACGTGTATCGATAAATA-TTG-TCACA
* * * *
44199714 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATA-TTG-TCACA
* *
44199764 TGTGTAGTACTATGTGGAGGCTACTACGTGTAT
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTAT
44199797 TGAATGATAA
Statistics
Matches: 200, Mismatches: 30, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
50 43 0.22
51 108 0.54
52 2 0.01
54 1 0.00
55 1 0.00
56 1 0.00
58 1 0.00
59 6 0.03
60 37 0.19
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATATTGTCACA
Found at i:44199684 original size:60 final size:59
Alignment explanation
Indices: 44199615--44199731 Score: 173
Period size: 60 Copynumber: 1.9 Consensus size: 59
44199605 TGTAGTACTG
* *
44199615 TGTGAAGGCTACTACGTGAATCGATAAATGA-TGGTCACATGTGTAGTACTAAGTGAACTA
1 TGTGAAGGCTACTACGTGAATCG-TAAA-AACTGATCACATGTGTAGTACTAAGTGAACTA
*
44199675 TGTGAAGGCTACTACGTGAATCGTAAAAACTTGATCACATGTGTAGTACTATGTGAA
1 TGTGAAGGCTACTACGTGAATCGTAAAAAC-TGATCACATGTGTAGTACTAAGTGAA
44199732 GGCTACTACG
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 1 0.02
59 4 0.08
60 47 0.90
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (59 bp):
TGTGAAGGCTACTACGTGAATCGTAAAAACTGATCACATGTGTAGTACTAAGTGAACTA
Found at i:44199775 original size:50 final size:51
Alignment explanation
Indices: 44199671--44199793 Score: 212
Period size: 50 Copynumber: 2.4 Consensus size: 51
44199661 TACTAAGTGA
*
44199671 ACTATGTGAAGGCTACTACGTGAATCGTAAAAACTTGATCACATGTGTAGT
1 ACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCACATGTGTAGT
*
44199722 ACTATGTGAAGGCTACTACGTGAACCGT-AAAACTTGATCACGTGTGTAGT
1 ACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCACATGTGTAGT
*
44199772 ACTATGTGGAGGCTACTACGTG
1 ACTATGTGAAGGCTACTACGTG
44199794 TATTGAATGA
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
50 42 0.61
51 27 0.39
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (51 bp):
ACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCACATGTGTAGT
Found at i:44203390 original size:18 final size:18
Alignment explanation
Indices: 44203367--44203418 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
44203357 AAAATACGAG
*
44203367 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
44203385 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
44203403 AAATAATGTTCACATT
1 AAATGATGTTCACATT
44203419 GATGGAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:44205346 original size:3 final size:3
Alignment explanation
Indices: 44205340--44205365 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44205330 ATGTTGATGA
44205340 TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TG
44205366 AATCAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:44245077 original size:6 final size:6
Alignment explanation
Indices: 44245027--44245078 Score: 74
Period size: 6 Copynumber: 9.2 Consensus size: 6
44245017 TCTAAAACTC
*
44245027 ATAAAA ATAAA- ATAAA- ATAAA- ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
44245072 ATAAAT A
1 ATAAAT A
44245079 GTCATATTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 15 0.33
6 30 0.67
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (6 bp):
ATAAAT
Found at i:44259624 original size:3 final size:3
Alignment explanation
Indices: 44259616--44259716 Score: 202
Period size: 3 Copynumber: 33.7 Consensus size: 3
44259606 GAATTCACTA
44259616 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
44259664 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
44259712 CTT CT
1 CTT CT
44259717 AAGCCAACAT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 98 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:44261371 original size:3 final size:3
Alignment explanation
Indices: 44261357--44261430 Score: 89
Period size: 3 Copynumber: 24.7 Consensus size: 3
44261347 CAAATAAAAC
*
44261357 TAA TAA TGA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
44261403 TAG TAA TAA -AA CTAA T-T TAA TAA TAA TA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA
44261431 GAAATAACAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 3 0.05
3 53 0.87
4 5 0.08
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:44264396 original size:17 final size:17
Alignment explanation
Indices: 44264374--44264409 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
44264364 TGTTGACTAG
44264374 ATTGGTTAAGTGCAATT
1 ATTGGTTAAGTGCAATT
44264391 ATTGGTTAAGTGCAATT
1 ATTGGTTAAGTGCAATT
44264408 AT
1 AT
44264410 CAATGACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.42
Consensus pattern (17 bp):
ATTGGTTAAGTGCAATT
Found at i:44265022 original size:11 final size:11
Alignment explanation
Indices: 44265006--44265030 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44264996 CACCCTTAAT
44265006 GAATACAAAAG
1 GAATACAAAAG
44265017 GAATACAAAAG
1 GAATACAAAAG
44265028 GAA
1 GAA
44265031 GTACGAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.20, T:0.08
Consensus pattern (11 bp):
GAATACAAAAG
Found at i:44267352 original size:29 final size:28
Alignment explanation
Indices: 44267319--44267419 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 28
44267309 TTACATTTTG
*
44267319 TATAA-TTTTCTTACGACTTTATAAAATTT
1 TATAATTTTTTTTA-GA-TTTATAAAATTT
* * *
44267348 TATAATTTTTTTTTATATTTCTATATATTT
1 TATAA-TTTTTTTTAGATTTATA-AAATTT
*
44267378 TATAATTTTTTTAAGATTTTTATAAAATTT
1 TATAATTTTTTTTAGA--TTTATAAAATTT
*
44267408 TATAACTTTTTT
1 TATAATTTTTTT
44267420 ATATTTTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
29 19 0.33
30 27 0.47
31 12 0.21
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
TATAATTTTTTTTAGATTTATAAAATTT
Found at i:44267380 original size:30 final size:30
Alignment explanation
Indices: 44267344--44267478 Score: 108
Period size: 30 Copynumber: 4.7 Consensus size: 30
44267334 ACTTTATAAA
*
44267344 ATTTTATAATTTTTTTTTATATTTCTATAT
1 ATTTTATAATTTTTTTTTATATTTTTATAT
* * *
44267374 ATTTTATAA-TTTTTTTAAGATTTTTATAAA
1 ATTTTATAATTTTTTTTTATATTTTTAT-AT
* *
44267404 ATTTTATAACTTTTTTATAT-TTTTTACTAT
1 ATTTTATAATTTTTTTTTATATTTTTA-TAT
*
44267434 -TTTTAT-A-TTTTTTCTA-ATTTTTA-AT
1 ATTTTATAATTTTTTTTTATATTTTTATAT
44267459 -TTTTA-ATATTTTATTTTTAT
1 ATTTTATA-ATTTT-TTTTTAT
44267479 TAAAATTTAA
Statistics
Matches: 86, Mismatches: 10, Indels: 19
0.75 0.09 0.17
Matches are distributed among these distances:
25 7 0.08
26 1 0.01
27 17 0.20
28 6 0.07
29 21 0.24
30 26 0.30
31 8 0.09
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (30 bp):
ATTTTATAATTTTTTTTTATATTTTTATAT
Found at i:44267387 original size:9 final size:9
Alignment explanation
Indices: 44267357--44267456 Score: 62
Period size: 9 Copynumber: 10.7 Consensus size: 9
44267347 TTATAATTTT
44267357 TTTTTAT-A
1 TTTTTATAA
*
44267365 TTTCTAT-A
1 TTTTTATAA
44267373 TATTTTATAA
1 T-TTTTATAA
*
44267383 TTTTTTTAAGA
1 TTTTTAT-A-A
44267394 TTTTTATAAA
1 TTTTTAT-AA
*
44267404 ATTTTATAA
1 TTTTTATAA
*
44267413 CTTTTTTATAT
1 --TTTTTATAA
44267424 TTTTTACT-A
1 TTTTTA-TAA
*
44267433 TTTTTATAT
1 TTTTTATAA
*
44267442 TTTTTCTAA
1 TTTTTATAA
44267451 TTTTTA
1 TTTTTA
44267457 ATTTTTAATA
Statistics
Matches: 72, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
8 9 0.12
9 36 0.50
10 11 0.15
11 16 0.22
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:44267418 original size:10 final size:10
Alignment explanation
Indices: 44267336--44267440 Score: 56
Period size: 10 Copynumber: 10.6 Consensus size: 10
44267326 TTCTTACGAC
*
44267336 TTTATAAAAT
1 TTTATAAATT
*
44267346 TTTATAATTTT
1 TTTATAA-ATT
* *
44267357 TTTTTATATT
1 TTTATAAATT
* *
44267367 TCTATATA-T
1 TTTATAAATT
44267376 TTTAT-AATT
1 TTTATAAATT
*
44267385 TTTTTAAGATT
1 TTTATAA-ATT
*
44267396 TTTATAAAAT
1 TTTATAAATT
*
44267406 TTTATAACTT
1 TTTATAAATT
*
44267416 TTT-TATATT
1 TTTATAAATT
*
44267425 TTT-TACTATT
1 TTTATA-AATT
44267435 TTTATA
1 TTTATA
44267441 TTTTTTCTAA
Statistics
Matches: 73, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
8 1 0.01
9 19 0.26
10 36 0.49
11 17 0.23
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTATAAATT
Found at i:44267436 original size:18 final size:18
Alignment explanation
Indices: 44267415--44267462 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
44267405 TTTTATAACT
44267415 TTTTTATATTTTTTACT-A
1 TTTTTATATTTTTT-CTAA
44267433 TTTTTATATTTTTTCTAA
1 TTTTTATATTTTTTCTAA
44267451 TTTTTA-ATTTTT
1 TTTTTATATTTTT
44267463 AATATTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTATATTTTTTCTAA
Found at i:44267469 original size:9 final size:9
Alignment explanation
Indices: 44267356--44267470 Score: 51
Period size: 10 Copynumber: 12.4 Consensus size: 9
44267346 TTTATAATTT
*
44267356 TTTTTTATA
1 TTTTTAATA
*
44267365 TTTCTATATA
1 TTTTTA-ATA
*
44267375 TTTTATAATT
1 TTTT-TAATA
*
44267385 TTTTTAAGA
1 TTTTTAATA
*
44267394 TTTTTATAAAA
1 -TTTT-TAATA
44267405 TTTTATAACT-
1 TTTT-TAA-TA
44267415 TTTTT-ATA
1 TTTTTAATA
*
44267423 TTTTTTACTA
1 -TTTTTAATA
44267433 TTTTT-ATA
1 TTTTTAATA
**
44267441 TTTTTTCTAA
1 TTTTTAAT-A
44267451 TTTTT-A-A
1 TTTTTAATA
44267458 TTTTTAATA
1 TTTTTAATA
44267467 TTTT
1 TTTT
44267471 ATTTTTATTA
Statistics
Matches: 82, Mismatches: 12, Indels: 24
0.69 0.10 0.20
Matches are distributed among these distances:
7 7 0.09
8 9 0.11
9 24 0.29
10 36 0.44
11 6 0.07
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:44267840 original size:15 final size:17
Alignment explanation
Indices: 44267810--44267842 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
44267800 AAAAAGTATT
44267810 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
44267827 TTAAAAA-A-TTTAAAA
1 TTAAAAATATTTTAAAA
44267842 T
1 T
44267843 ATATATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:44271442 original size:21 final size:21
Alignment explanation
Indices: 44271403--44271442 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44271393 ATTATTTTTA
*
44271403 ATATATTTTATGTGTATATGC
1 ATATATTTTATGTGAATATGC
* *
44271424 ATATATTTTTTTTGAATAT
1 ATATATTTTATGTGAATAT
44271443 TCTATTATAT
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:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (21 bp):
ATATATTTTATGTGAATATGC
Found at i:44276728 original size:15 final size:15
Alignment explanation
Indices: 44276685--44276730 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
44276675 TAAGCAAACC
*
44276685 TATTAATTATAAT-T
1 TATTAATTAAAATAT
*
44276699 TATTAAATAAAAATAT
1 TATT-AATTAAAATAT
44276715 TATTAATTAAAATAT
1 TATTAATTAAAATAT
44276730 T
1 T
44276731 GTTTCGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTAATTAAAATAT
Found at i:44276885 original size:32 final size:32
Alignment explanation
Indices: 44276849--44276911 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
44276839 TTTTAAACTT
* * *
44276849 ATAAATTGATTATTTGAATTTAATAACTCATG
1 ATAAATTAATTAATTAAATTTAATAACTCATG
*
44276881 ATAAATTAATTAATTAAATTTGATAACTCAT
1 ATAAATTAATTAATTAAATTTAATAACTCAT
44276912 ACTGGTTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATTAAATTTAATAACTCATG
Found at i:44278781 original size:19 final size:19
Alignment explanation
Indices: 44278757--44278804 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
44278747 TTGTTTAAGT
* *
44278757 TTAATATATTTTAATTTTA
1 TTAATATATTTCAATATTA
44278776 TTAATACTATTTCAATATTA
1 TTAATA-TATTTCAATATTA
44278796 -TAATATATT
1 TTAATATATT
44278805 ATTATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATATTTCAATATTA
Found at i:44278843 original size:22 final size:20
Alignment explanation
Indices: 44278802--44278845 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
44278792 ATTATAATAT
*
44278802 ATTATTATTTTGAATCTATC
1 ATTATTATTTTAAATCTATC
*
44278822 ATTATTATATTATAAATTTATC
1 ATTATTAT-TT-TAAATCTATC
44278844 AT
1 AT
44278846 GTTTTATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 2 0.10
22 10 0.50
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTATTATTTTAAATCTATC
Found at i:44279164 original size:29 final size:29
Alignment explanation
Indices: 44279132--44279198 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
44279122 ATTTTATCTC
* *
44279132 TTTCAA-ATATTTTAACATTTTTTAATTTA
1 TTTCAACATATTTCAACA-TTGTTAATTTA
* *
44279161 TTTCAACTTATTTCAATATTGTTAATTTA
1 TTTCAACATATTTCAACATTGTTAATTTA
*
44279190 TTTTAACAT
1 TTTCAACAT
44279199 TTTAATTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 23 0.74
30 8 0.26
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (29 bp):
TTTCAACATATTTCAACATTGTTAATTTA
Found at i:44279205 original size:18 final size:19
Alignment explanation
Indices: 44279168--44279205 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44279158 TTATTTCAAC
*
44279168 TTATTTCAATATTGTTAAT
1 TTATTTCAACATTGTTAAT
*
44279187 TTATTTTAACATT-TTAAT
1 TTATTTCAACATTGTTAAT
44279205 T
1 T
44279206 CATATATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (19 bp):
TTATTTCAACATTGTTAAT
Found at i:44280457 original size:19 final size:17
Alignment explanation
Indices: 44280433--44280468 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
44280423 GATTAGTTTC
44280433 CAATTCAACAAATTCGATT
1 CAATTCAA-AAATT-GATT
44280452 CAATTCAAAAATTGATT
1 CAATTCAAAAATTGATT
44280469 GTTGCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (17 bp):
CAATTCAAAAATTGATT
Found at i:44286675 original size:24 final size:26
Alignment explanation
Indices: 44286648--44286709 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
44286638 TGGCTCGTAT
* *
44286648 AAGCTTCCCGTTA-ATGGCTCTC-TG
1 AAGCTTCCCGTTACATGACTCACATG
*
44286672 AAGCTTCCCATTACATGACTCACATG
1 AAGCTTCCCGTTACATGACTCACATG
44286698 AA-CTTCCCGTTA
1 AAGCTTCCCGTTA
44286710 TATAGCTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 12 0.38
25 16 0.50
26 4 0.12
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.31
Consensus pattern (26 bp):
AAGCTTCCCGTTACATGACTCACATG
Found at i:44291488 original size:18 final size:18
Alignment explanation
Indices: 44291453--44291486 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44291443 TTTTGAATGG
*
44291453 AATATACATTTTATTTTA
1 AATATACATATTATTTTA
44291471 AATATA-ATATTATTTT
1 AATATACATATTATTTT
44291487 TATTTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
AATATACATATTATTTTA
Found at i:44294920 original size:54 final size:54
Alignment explanation
Indices: 44294840--44294954 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
44294830 TCGTAATAGG
*
44294840 ACACACGGACGTGTCCTAGCCTGTGTGTCT-GACCGTGCAACACACTGACTTGAC
1 ACACACGGACGTGTCCTAGCCTGTGTGT-TAGACCGTACAACACACTGACTTGAC
* ** * * * *
44294894 ACACACGGTCGTGTTGTAGGCC-GTGTGTTAGCCCGTATAACTCACTGACTTGAG
1 ACACACGGACGTGTCCTA-GCCTGTGTGTTAGACCGTACAACACACTGACTTGAC
44294948 ACACACG
1 ACACACG
44294955 ACTATGTCGC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 1 0.02
54 47 0.92
55 3 0.06
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (54 bp):
ACACACGGACGTGTCCTAGCCTGTGTGTTAGACCGTACAACACACTGACTTGAC
Found at i:44295767 original size:40 final size:40
Alignment explanation
Indices: 44295723--44295863 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
44295713 ACGGATGTGC
* * *
44295723 ACAGGGGCATGTATGTGTATTCAAGGGTATCAAAGTGCAA
1 ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
* * * *
44295763 ACAGGTGCACGCATGTGCATTCAGGGGTATCGAAGTACAA
1 ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
* *
44295803 ACAGTGGCATGTATGTGCATTC-AGGAGTACCGAAGTACAA
1 ACAGGGGCATGTATGTGCATTCAAGG-GTATCGAAGTACAA
* **
44295843 ACATGGGCAAATATGTGCATT
1 ACAGGGGCATGTATGTGCATT
44295864 TAGGGGCACT
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 2 0.02
40 81 0.98
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.23
Consensus pattern (40 bp):
ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
Found at i:44302685 original size:15 final size:15
Alignment explanation
Indices: 44302665--44302695 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44302655 GACCGGTTAA
44302665 AAGCCCTGTTAACTG
1 AAGCCCTGTTAACTG
44302680 AAGCCCTGTTAACTG
1 AAGCCCTGTTAACTG
44302695 A
1 A
44302696 TGCACCAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (15 bp):
AAGCCCTGTTAACTG
Found at i:44305759 original size:29 final size:29
Alignment explanation
Indices: 44305726--44305787 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 29
44305716 AAAAACGGAG
44305726 TTAGATCGTGGAAAAGAAAAAGTA-CTAGA
1 TTAGATCGTGGAAAAGAAAAAGTATC-AGA
44305755 TTAGATCGTGGAAAAGAAAAAGTATCAGA
1 TTAGATCGTGGAAAAGAAAAAGTATCAGA
44305784 TTAG
1 TTAG
44305788 TAGTTTACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.23
Consensus pattern (29 bp):
TTAGATCGTGGAAAAGAAAAAGTATCAGA
Found at i:44306303 original size:24 final size:24
Alignment explanation
Indices: 44306271--44306329 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
44306261 GCTATCCGGT
*
44306271 GCTACCCGTTAATTGCTCTTCGGA
1 GCTACCCGTTAATTACTCTTCGGA
*
44306295 GCTACCCGTTAATTACTCTTTGGA
1 GCTACCCGTTAATTACTCTTCGGA
44306319 GCTACCCGTTA
1 GCTACCCGTTA
44306330 TAGCCTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.34
Consensus pattern (24 bp):
GCTACCCGTTAATTACTCTTCGGA
Found at i:44306340 original size:24 final size:22
Alignment explanation
Indices: 44306271--44306356 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 22
44306261 GCTATCCGGT
* *
44306271 GCTACCCGTTAATTGCTCTTCGGA
1 GCTACCCGTT-A-TACTCTTTGGA
44306295 GCTACCCGTTAATTACTCTTTGGA
1 GCTACCCGTT-A-TACTCTTTGGA
*
44306319 GCTACCCGTTATAGCCTTTTTGTGA
1 GCTACCCGTTATA--CTCTTTG-GA
*
44306344 GCTTCCCGTTATA
1 GCTACCCGTTATA
44306357 TTGCCCGGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
22 2 0.04
23 1 0.02
24 38 0.69
25 14 0.25
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (22 bp):
GCTACCCGTTATACTCTTTGGA
Found at i:44306411 original size:24 final size:24
Alignment explanation
Indices: 44306341--44306411 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
44306331 AGCCTTTTTG
* ***
44306341 TGAGCTTCCCGTTATATTGCCCGGA
1 TGAGCTTCCCGTTATAGTG-CTTAA
* *
44306366 TAAGCTTCCCGTTACAAG-GCTTAA
1 TGAGCTTCCCGTTA-TAGTGCTTAA
44306390 TGAGCTTCCCGTTATAGTGCTT
1 TGAGCTTCCCGTTATAGTGCTT
44306412 GAGAGAAAGC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.53
25 14 0.39
26 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (24 bp):
TGAGCTTCCCGTTATAGTGCTTAA
Found at i:44310708 original size:13 final size:13
Alignment explanation
Indices: 44310692--44310721 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44310682 TTTTTACATT
*
44310692 TTAATTTTCTTAG
1 TTAATTTACTTAG
44310705 TTAATTTACTTAG
1 TTAATTTACTTAG
44310718 TTAA
1 TTAA
44310722 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:44311551 original size:20 final size:20
Alignment explanation
Indices: 44311523--44311560 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44311513 ATACTTAAAC
44311523 AAAAAGTAT-TGATATCTTAT
1 AAAAAGTATCT-ATATCTTAT
*
44311543 AAAAGGTATCTATATCTT
1 AAAAAGTATCTATATCTT
44311561 TGCACAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AAAAAGTATCTATATCTTAT
Found at i:44321747 original size:21 final size:22
Alignment explanation
Indices: 44321700--44321748 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
44321690 TCGCCATCTT
44321700 CTTCAACACTACTATTTAAACC
1 CTTCAACACTACTATTTAAACC
* * * *
44321722 TTTCATCACT-CTCTTTTAACC
1 CTTCAACACTACTATTTAAACC
44321743 CTTCAA
1 CTTCAA
44321749 TAGATGCATC
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTTCAACACTACTATTTAAACC
Found at i:44321883 original size:48 final size:47
Alignment explanation
Indices: 44321790--44321893 Score: 136
Period size: 48 Copynumber: 2.2 Consensus size: 47
44321780 CTCACCACCC
*
44321790 TCACCACCTTCACTGCCAACAACCTCAACACCCTCCCCACCTAAACTT
1 TCACCACC-TCACTGCCAACAACCTCAACACCCTCCCCACCTAAACCT
* * **
44321838 TCACCACTCTCACTGCCAGCAACCTTAACACCCTCCCCATTTAAACCT
1 TCACCAC-CTCACTGCCAACAACCTCAACACCCTCCCCACCTAAACCT
*
44321886 TCAACACC
1 TCACCACC
44321894 CTCAACACCT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
47 1 0.02
48 47 0.96
49 1 0.02
ACGTcount: A:0.29, C:0.48, G:0.03, T:0.20
Consensus pattern (47 bp):
TCACCACCTCACTGCCAACAACCTCAACACCCTCCCCACCTAAACCT
Found at i:44322866 original size:28 final size:29
Alignment explanation
Indices: 44322748--44322872 Score: 87
Period size: 29 Copynumber: 4.4 Consensus size: 29
44322738 TCAAAAATTG
*** *
44322748 AAAACCCTAAACAAAAGCCCCCAAAATCA
1 AAAACCCTAAACAAAAATTCCCAAACTCA
* * *
44322777 AAATACCCT--A-AAAAATCCCCAAAATTA
1 AAA-ACCCTAAACAAAAATTCCCAAACTCA
* * * * * *
44322804 AAATCCTTAATCGAAAATTCCCAAATTCG
1 AAAACCCTAAACAAAAATTCCCAAACTCA
*
44322833 ACAA-CCTAAACAAAAATTCCCAAACTCA
1 AAAACCCTAAACAAAAATTCCCAAACTCA
44322861 AAAACCCTAAAC
1 AAAACCCTAAAC
44322873 CGAAATAATA
Statistics
Matches: 72, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
26 3 0.04
27 17 0.24
28 23 0.32
29 24 0.33
30 5 0.07
ACGTcount: A:0.52, C:0.30, G:0.02, T:0.16
Consensus pattern (29 bp):
AAAACCCTAAACAAAAATTCCCAAACTCA
Found at i:44323028 original size:2 final size:2
Alignment explanation
Indices: 44323021--44323045 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44323011 TTCACTGTCT
44323021 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 T
44323046 TGATTAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:44330371 original size:21 final size:22
Alignment explanation
Indices: 44330346--44330391 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
44330336 TCAAAAGTTG
44330346 AAAAAT-TATATTTTAAAATAAT
1 AAAAATATATA-TTTAAAATAAT
* *
44330368 AAAAATATATATTTGAAATTAT
1 AAAAATATATATTTAAAATAAT
44330390 AA
1 AA
44330392 TGCGAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAAATATATATTTAAAATAAT
Found at i:44338077 original size:20 final size:20
Alignment explanation
Indices: 44338052--44338117 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
44338042 TAATGGAAAG
44338052 AAATCAAAGGATTGAGAATC
1 AAATCAAAGGATTGAGAATC
* * * **
44338072 AAATCAATGTAATG-GAAAG
1 AAATCAAAGGATTGAGAATC
*
44338091 AAATCAAAAGATTGAGAATC
1 AAATCAAAGGATTGAGAATC
44338111 AAATCAA
1 AAATCAA
44338118 TGTAAACAAG
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
19 13 0.38
20 21 0.62
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCAAAGGATTGAGAATC
Found at i:44338095 original size:39 final size:39
Alignment explanation
Indices: 44338041--44338122 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
44338031 AAGCAAAACA
*
44338041 GTAATGGAAAGAAATCAAAGGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
44338080 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
44338119 GTAA
1 GTAA
44338123 ACAAGATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.21
Consensus pattern (39 bp):
GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
Found at i:44338096 original size:19 final size:19
Alignment explanation
Indices: 44338040--44338098 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
44338030 GAAGCAAAAC
44338040 AGTAATGGAAAGAAATCAA
1 AGTAATGGAAAGAAATCAA
* * **
44338059 AGGATTGAGAATCAAATCAA
1 AGTAATG-GAAAGAAATCAA
*
44338079 TGTAATGGAAAGAAATCAA
1 AGTAATGGAAAGAAATCAA
44338098 A
1 A
44338099 AGATTGAGAA
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.54, C:0.07, G:0.20, T:0.19
Consensus pattern (19 bp):
AGTAATGGAAAGAAATCAA
Found at i:44338312 original size:3 final size:3
Alignment explanation
Indices: 44338304--44338329 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44338294 TTTTATTTAT
44338304 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
44338330 TTCTCCTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44339006 original size:48 final size:48
Alignment explanation
Indices: 44338952--44339111 Score: 128
Period size: 48 Copynumber: 3.2 Consensus size: 48
44338942 TTTTTAAGTT
*
44338952 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTATA
** * * *
44339000 TATATATGTACGTA-TATATATAAT-ACTTTCTATACATATTT-TATAATTTCTATA
1 TATATATGTAATTATTAT-TTTTATGA--TT-TAT--ATATTTAT-TAA-CT-TATA
* * * *
44339054 TATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTATA
44339102 TATATATGTA
1 TATATATGTA
44339112 CGTATATATT
Statistics
Matches: 84, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
47 4 0.05
48 29 0.35
49 3 0.04
50 12 0.14
51 2 0.02
52 11 0.13
53 2 0.02
54 17 0.20
55 4 0.05
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (48 bp):
TATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTATA
Found at i:44339038 original size:20 final size:20
Alignment explanation
Indices: 44339015--44339065 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
44339005 ATGTACGTAT
*
44339015 ATATATAATACTTTCTATAC
1 ATATATAATAATTTCTATAC
* * *
44339035 ATATTTTATAATTTCTATAT
1 ATATATAATAATTTCTATAC
44339055 ATATAT-ATAAT
1 ATATATAATAAT
44339066 CATTATCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATATAATAATTTCTATAC
Found at i:44344220 original size:17 final size:17
Alignment explanation
Indices: 44344191--44344227 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
44344181 ATATATATAT
44344191 ATTTAAAATTT-AATTA
1 ATTTAAAATTTAAATTA
44344207 ATTTAAATATTTAAATTA
1 ATTTAAA-ATTTAAATTA
44344225 ATT
1 ATT
44344228 GAGTCAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAAATTTAAATTA
Found at i:44354921 original size:25 final size:25
Alignment explanation
Indices: 44354890--44354964 Score: 69
Period size: 32 Copynumber: 2.7 Consensus size: 25
44354880 AAGATATTCG
*
44354890 AAATATTTTAATATAATTTAATATA
1 AAATATTTTAATATAATTTAAAATA
44354915 AAATATTTAATTTCAAAATATAATTTAAAATA
1 AAATA--T--TTT---AATATAATTTAAAATA
*
44354947 AAATATTTGAATATAATT
1 AAATATTTTAATATAATT
44354965 ATATTAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
25 14 0.34
27 1 0.02
28 2 0.05
29 3 0.07
30 1 0.02
32 20 0.49
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (25 bp):
AAATATTTTAATATAATTTAAAATA
Found at i:44354994 original size:14 final size:14
Alignment explanation
Indices: 44354959--44354987 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44354949 ATATTTGAAT
44354959 ATAATTATATTAAA
1 ATAATTATATTAAA
44354973 ATAATTATATTAAA
1 ATAATTATATTAAA
44354987 A
1 A
44354988 ATATTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATTATATTAAA
Found at i:44355680 original size:12 final size:12
Alignment explanation
Indices: 44355663--44355688 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44355653 CTTTTCCCTT
44355663 CCATCGGTTCTG
1 CCATCGGTTCTG
44355675 CCATCGGTTCTG
1 CCATCGGTTCTG
44355687 CC
1 CC
44355689 GTCGCTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.38, G:0.23, T:0.31
Consensus pattern (12 bp):
CCATCGGTTCTG
Found at i:44358627 original size:18 final size:17
Alignment explanation
Indices: 44358604--44358656 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
44358594 ATATATTATG
*
44358604 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
44358622 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
44358639 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
44358657 TTAATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:44358853 original size:39 final size:41
Alignment explanation
Indices: 44358802--44358903 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 41
44358792 TTTCCTTATA
* * *
44358802 CTATTACACCTCTATTCTATTCAACCAAACACAAGAA-TAT
1 CTATTACGCCTCTATTCTATTCAACCAAACAAAAGAATTAC
44358842 C-ATTACGCCTCTATTCCATTCTATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTC---T--ATTCTATTCAACCAAACAAAAGAATTAC
44358887 CTATTACGCCTCTATTC
1 CTATTACGCCTCTATTC
44358904 CATTACGCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
39 9 0.17
40 1 0.02
41 4 0.08
42 1 0.02
43 1 0.02
44 23 0.44
45 3 0.06
46 10 0.19
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.31
Consensus pattern (41 bp):
CTATTACGCCTCTATTCTATTCAACCAAACAAAAGAATTAC
Found at i:44358865 original size:44 final size:46
Alignment explanation
Indices: 44358815--44358907 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
44358805 TTACACCTCT
* *
44358815 ATTCTATTCAACCAAACACAAGAA-TATC-ATTACGCCTCTATTCC
1 ATTCTATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
44358859 ATTCTATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCTATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
44358905 ATT
1 ATT
44358908 ACGCATCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.51
45 3 0.07
46 19 0.42
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31
Consensus pattern (46 bp):
ATTCTATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:44358910 original size:16 final size:16
Alignment explanation
Indices: 44358889--44358941 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
44358879 AGAATTACCT
*
44358889 ATTACGCCTCTATTCC
1 ATTACGCATCTATTCC
44358905 ATTACGCATCTATTCC
1 ATTACGCATCTATTCC
* *
44358921 ATTACACTTCTATTCC
1 ATTACGCATCTATTCC
44358937 ATTAC
1 ATTAC
44358942 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.32, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACGCATCTATTCC
Found at i:44359008 original size:116 final size:116
Alignment explanation
Indices: 44358851--44359071 Score: 275
Period size: 116 Copynumber: 1.9 Consensus size: 116
44358841 TCATTACGCC
* ** * *
44358851 TCTATTCCATTCTATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTAC-GCATC
1 TCTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACAACTCTATTACATTACAAC-TC
44358915 TATTCCATTACA-CTTCTATTCCATTACAGCGAACCAAACGTGCTGTTACAGT
65 TATTCCATTACAGC-TCTATTCCATTACAGCGAACCAAACGTGCTGTTACAGT
* * *** ** *
44358967 TCTATTTCATTCCATTCAACCAAATAGTTGAATTATTTATTACAACTCTATTATATTACAACTCT
1 TCTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACAACTCTATTACATTACAACTCT
* *
44359032 ATTCCATTATAGCTCTATTCTATTACAGCGAACCAAACGT
66 ATTCCATTACAGCTCTATTCCATTACAGCGAACCAAACGT
44359072 AGTGTAAAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
116 86 0.98
117 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (116 bp):
TCTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACAACTCTATTACATTACAACTCT
ATTCCATTACAGCTCTATTCCATTACAGCGAACCAAACGTGCTGTTACAGT
Found at i:44359025 original size:16 final size:16
Alignment explanation
Indices: 44359000--44359058 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 16
44358990 ATAGTTGAAT
44359000 TATT-TATTACAACTC
1 TATTCTATTACAACTC
*
44359015 TATTATATTACAACTC
1 TATTCTATTACAACTC
* * *
44359031 TATTCCATTATAGCTC
1 TATTCTATTACAACTC
44359047 TATTCTATTACA
1 TATTCTATTACA
44359059 GCGAACCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 4 0.11
16 33 0.89
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.46
Consensus pattern (16 bp):
TATTCTATTACAACTC
Found at i:44359296 original size:19 final size:19
Alignment explanation
Indices: 44359274--44359311 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
44359264 ATTGATATAT
44359274 CTTATAAAAATAATAAAAA
1 CTTATAAAAATAATAAAAA
* *
44359293 CTTATAAATATTATAAAAA
1 CTTATAAAAATAATAAAAA
44359312 TAAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
CTTATAAAAATAATAAAAA
Found at i:44359306 original size:28 final size:27
Alignment explanation
Indices: 44359234--44359327 Score: 104
Period size: 28 Copynumber: 3.5 Consensus size: 27
44359224 AAAGAGTTAT
*
44359234 TAAAAATTAAAAATATT-TAAAAATAA
1 TAAAAATTATAAATATTATAAAAATAA
* *
44359260 T-AAAATTGATATATCTTATAAAAATAA
1 TAAAAATT-ATAAATATTATAAAAATAA
44359287 TAAAAACTTATAAATATTATAAAAATAA
1 TAAAAA-TTATAAATATTATAAAAATAA
* *
44359315 -AAATATAATAAAT
1 TAAAAATTATAAAT
44359328 TCTAACAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
25 6 0.11
26 14 0.25
27 14 0.25
28 21 0.37
29 2 0.04
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (27 bp):
TAAAAATTATAAATATTATAAAAATAA
Found at i:44359340 original size:34 final size:34
Alignment explanation
Indices: 44359277--44359345 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
44359267 GATATATCTT
*
44359277 ATAAAAATAATAAAAACTTATAAATATTATAAAA
1 ATAAAAATAATAAAAACTTATAAAAATTATAAAA
*
44359311 ATAAAAAT-ATAATAAA-TTCTAACAAATTATAAAA
1 ATAAAAATAATAA-AAACTTATAA-AAATTATAAAA
44359345 A
1 A
44359346 AAATTATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 9 0.29
34 22 0.71
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (34 bp):
ATAAAAATAATAAAAACTTATAAAAATTATAAAA
Found at i:44359430 original size:19 final size:20
Alignment explanation
Indices: 44359337--44359450 Score: 67
Period size: 19 Copynumber: 5.8 Consensus size: 20
44359327 TTCTAACAAA
*
44359337 TTATAAAAAAAATTATAAAAC
1 TTATAAAAAATATTA-AAAAC
* * *
44359358 TAAT-AAACATATTTAAAA-
1 TTATAAAAAATATTAAAAAC
* * * *
44359376 TTTTTAAAATTTTATAAAAAC
1 TTATAAAAAATAT-TAAAAAC
* *
44359397 GTA-AAAAAATCTTAAAAAC
1 TTATAAAAAATATTAAAAAC
44359416 TTATAAAAAA-ATTAAAAA-
1 TTATAAAAAATATTAAAAAC
* *
44359434 TCATAAAAAGTATTAAA
1 TTATAAAAAATATTAAA
44359451 TATTATTTAA
Statistics
Matches: 69, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
18 10 0.14
19 31 0.45
20 24 0.35
21 4 0.06
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
TTATAAAAAATATTAAAAAC
Found at i:44359475 original size:45 final size:45
Alignment explanation
Indices: 44359419--44359505 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
44359409 TAAAAACTTA
*
44359419 TAAAAAAATTAAAAATCATA-AAAAGTATTAAATATTATTTAATGT
1 TAAAAAAATTAAAAATCATATAAAAGTATAAAAT-TTATTTAATGT
* * **
44359464 TAAAAATATTAAAATTCATATAAACTTATAAAATTTATTTAA
1 TAAAAAAATTAAAAATCATATAAAAGTATAAAATTTATTTAA
44359506 AAATCATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 26 0.72
46 10 0.28
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.38
Consensus pattern (45 bp):
TAAAAAAATTAAAAATCATATAAAAGTATAAAATTTATTTAATGT
Found at i:44359570 original size:19 final size:19
Alignment explanation
Indices: 44359501--44359654 Score: 77
Period size: 19 Copynumber: 7.9 Consensus size: 19
44359491 ATAAAATTTA
* *
44359501 TTTA-AAAATCATAAAAAC
1 TTTATAAAATTATTAAAAC
* *
44359519 -TTATAAATATTATAAAAAA
1 TTTATAAA-ATTATTAAAAC
*
44359538 TTCTA-ATAATTTATTAAAAC
1 TT-TATA-AAATTATTAAAAC
* *
44359558 TTTATGAAATTATTAAAATATA
1 TTTATAAAATTATT-AAA-A-C
* *
44359580 TTTAAAAAATCA-TAAAAC
1 TTTATAAAATTATTAAAAC
* *
44359598 -TTATAAATATTATAAAAAA
1 TTTATAAA-ATTATTAAAAC
*
44359617 TTCTA-ATAATTTATTAAAAC
1 TT-TATA-AAATTATTAAAAC
44359637 TTTATAAAATTATTAAAA
1 TTTATAAAATTATTAAAA
44359655 TATATTTAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 29
0.67 0.13 0.19
Matches are distributed among these distances:
17 9 0.09
18 6 0.06
19 36 0.36
20 31 0.31
21 10 0.10
22 9 0.09
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (19 bp):
TTTATAAAATTATTAAAAC
Found at i:44359597 original size:79 final size:80
Alignment explanation
Indices: 44359482--44359697 Score: 321
Period size: 79 Copynumber: 2.7 Consensus size: 80
44359472 TTAAAATTCA
* *
44359482 TATAAACTTA-TAAAATTTATTT-AAAAATCATAAAAACTTATAAATATTATAAAAAATTCTAAT
1 TATAAAATTATTAAAATATATTTAAAAAATCATAAAAACTTATAAATATTATAAAAAATTCTAAT
44359545 AATTTATTAAAACTT
66 AATTTATTAAAACTT
*
44359560 TATGAAATTATTAAAATATATTTAAAAAATCAT-AAAACTTATAAATATTATAAAAAATTCTAAT
1 TATAAAATTATTAAAATATATTTAAAAAATCATAAAAACTTATAAATATTATAAAAAATTCTAAT
44359624 AATTTATTAAAACTT
66 AATTTATTAAAACTT
** * * *
44359639 TATAAAATTATTAAAATATATTTAAAATTTTATAAAAGATTTATAAACATTCATAAAAA
1 TATAAAATTATTAAAATATATTTAAAAAATCATAAAA-ACTTATAAATATT-ATAAAAA
44359698 TTTATAAAAA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
78 8 0.06
79 86 0.69
80 12 0.10
81 11 0.09
82 7 0.06
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (80 bp):
TATAAAATTATTAAAATATATTTAAAAAATCATAAAAACTTATAAATATTATAAAAAATTCTAAT
AATTTATTAAAACTT
Found at i:44359681 original size:11 final size:10
Alignment explanation
Indices: 44359474--44359708 Score: 96
Period size: 10 Copynumber: 23.5 Consensus size: 10
44359464 TAAAAATATT
*
44359474 AAAATTCATA
1 AAAATTTATA
* *
44359484 TAAACTTAT-
1 AAAATTTATA
44359493 AAAATTTATTTA
1 AAAATTTA--TA
*
44359505 AAAA-TCATA
1 AAAATTTATA
*
44359514 AAAACTTATA
1 AAAATTTATA
*
44359524 AATA-TTATA
1 AAAATTTATA
* *
44359533 AAAAATTCTA
1 AAAATTTATA
*
44359543 ATAATTTATTA
1 AAAATTTA-TA
*
44359554 AAACTTTAT-
1 AAAATTTATA
*
44359563 GAAA-TTATTA
1 AAAATTTA-TA
44359573 AAATATATT-TA
1 AAA-AT-TTATA
* *
44359584 AAAAATCAT-
1 AAAATTTATA
*
44359593 AAAACTTATA
1 AAAATTTATA
*
44359603 AATA-TTATA
1 AAAATTTATA
* *
44359612 AAAAATTCTA
1 AAAATTTATA
*
44359622 ATAATTTATTA
1 AAAATTTA-TA
*
44359633 AAACTTTAT-
1 AAAATTTATA
44359642 AAAA-TTATTA
1 AAAATTTA-TA
44359652 AAATATATT-TA
1 AAA-AT-TTATA
*
44359663 AAATTTTATA
1 AAAATTTATA
44359673 AAAGATTTATA
1 AAA-ATTTATA
* *
44359684 AACATTCATA
1 AAAATTTATA
44359694 AAAATTTATA
1 AAAATTTATA
44359704 AAAAT
1 AAAAT
44359709 AATAAATTAT
Statistics
Matches: 166, Mismatches: 37, Indels: 44
0.67 0.15 0.18
Matches are distributed among these distances:
8 6 0.04
9 45 0.27
10 68 0.41
11 39 0.23
12 4 0.02
13 4 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (10 bp):
AAAATTTATA
Found at i:44359725 original size:17 final size:16
Alignment explanation
Indices: 44359691--44359723 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44359681 ATAAACATTC
44359691 ATAAAAATTTATAAAA
1 ATAAAAATTTATAAAA
44359707 ATAATAAA-TTATAAAA
1 ATAA-AAATTTATAAAA
44359723 A
1 A
44359724 ATGTTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAAATTTATAAAA
Found at i:44363521 original size:13 final size:13
Alignment explanation
Indices: 44363503--44363527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44363493 CAAATAGTGT
44363503 ATAAATATATATC
1 ATAAATATATATC
44363516 ATAAATATATAT
1 ATAAATATATAT
44363528 ATGTATGGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAATATATATC
Found at i:44363727 original size:3 final size:3
Alignment explanation
Indices: 44363719--44363769 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
44363709 ATGTATAGGT
* * *
44363719 ATA ATA ATA GTA ATA ATA ATA ATA CTA ATA AT- ATA ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44363766 ATA A
1 ATA A
44363770 CAAAAATAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44363734 original size:9 final size:8
Alignment explanation
Indices: 44363718--44363759 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
44363708 TATGTATAGG
44363718 TATAATAA
1 TATAATAA
44363726 TAGTAAT-A
1 TA-TAATAA
44363734 -ATAATAA
1 TATAATAA
44363741 TACTAATAA
1 TA-TAATAA
44363750 TATAATAA
1 TATAATAA
44363758 TA
1 TA
44363760 ATGATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 4 0.13
7 2 0.07
8 12 0.40
9 12 0.40
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (8 bp):
TATAATAA
Found at i:44364819 original size:50 final size:49
Alignment explanation
Indices: 44364762--44364921 Score: 142
Period size: 50 Copynumber: 3.2 Consensus size: 49
44364752 GCCGTCGTAA
44364762 CTTCAATCTATTCCACTGCACCACTAAGGGAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTATTCCACTGCA-CACTAAGGGAGTAAGATTCGCCGTTGTGG
* ** * * * *** * * *
44364812 CTTCAATCTTTTTAAATTGCA-ATGTCAAGGAAACCAGATTTGCCGTCGTGA
1 CTTCAATC-TATTCCACTGCACA-CT-AAGGGAGTAAGATTCGCCGTTGTGG
* *
44364863 CTTCAATCTGTTCCACTGCACTACTAAGGGAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTATTCCACTGCAC-ACTAAGGGAGTAAGATTCGCCGTTGTGG
44364913 CTTCAATCT
1 CTTCAATCT
44364922 TTTTAAATTA
Statistics
Matches: 80, Mismatches: 25, Indels: 10
0.70 0.22 0.09
Matches are distributed among these distances:
49 1 0.01
50 43 0.54
51 35 0.44
52 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (49 bp):
CTTCAATCTATTCCACTGCACACTAAGGGAGTAAGATTCGCCGTTGTGG
Found at i:44364883 original size:101 final size:101
Alignment explanation
Indices: 44364708--44365026 Score: 514
Period size: 101 Copynumber: 3.2 Consensus size: 101
44364698 GGAGTAAGAT
* *
44364708 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAACTTCAATCTAT
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTGACTTCAATCTGT
44364773 TCCACTGCACCACTAAGGGAGTAAGATTCGCCGTTG
66 TCCACTGCACCACTAAGGGAGTAAGATTCGCCGTTG
* **
44364809 TGGCTTCAATCTTTTTAAATTGCAATGTCAAGGAAACCAGATTTGCCGTCGTGACTTCAATCTGT
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTGACTTCAATCTGT
* *
44364874 TCCACTGCACTACTAAGGGAGTAAGATCCGCCGTTG
66 TCCACTGCACCACTAAGGGAGTAAGATTCGCCGTTG
* *
44364910 TGGCTTCAATCTTTTTAAATTACAATGTCAGGGAAACCAGATCCGCCGTCGTGACTTTAATCTGT
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTGACTTCAATCTGT
* * *
44364975 TCTACTGCACCGCT-AGGGAAGTAAGATTCGCCATTG
66 TCCACTGCACCACTAAGGG-AGTAAGATTCGCCGTTG
44365011 TGGCTTCAATCTTTTT
1 TGGCTTCAATCTTTTT
44365027 CACTGTAATG
Statistics
Matches: 200, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
100 4 0.02
101 196 0.98
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (101 bp):
TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTGACTTCAATCTGT
TCCACTGCACCACTAAGGGAGTAAGATTCGCCGTTG
Found at i:44364943 original size:50 final size:50
Alignment explanation
Indices: 44364708--44364972 Score: 180
Period size: 51 Copynumber: 5.2 Consensus size: 50
44364698 GGAGTAAGAT
44364708 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCG
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAA-CAGATCCGCCGTCG
** * ** * * * * * *
44364759 TAACTTCAATC-TATTCCACTGCACCA-CTAAGGGAGTA-AGATTCGCCGTTG
1 TGGCTTCAATCTTTTTAAATTGCA--ATGTCAGGGA-AACAGATCCGCCGTCG
* **
44364809 TGGCTTCAATCTTTTTAAATTGCAATGTCAAGGAAACCAGATTTGCCGTCG
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAA-CAGATCCGCCGTCG
* * ** * * * * * *
44364860 TGACTTCAATC-TGTTCCACTGCACTACTAAGGGAGTA-AGATCCGCCGTTG
1 TGGCTTCAATCTTTTTAAATTGCAAT-GTCAGGGA-AACAGATCCGCCGTCG
*
44364910 TGGCTTCAATCTTTTTAAATTACAATGTCAGGGAAACCAGATCCGCCGTCG
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAA-CAGATCCGCCGTCG
* *
44364961 TGACTTTAATCT
1 TGGCTTCAATCT
44364973 GTTCTACTGC
Statistics
Matches: 153, Mismatches: 49, Indels: 24
0.68 0.22 0.11
Matches are distributed among these distances:
49 3 0.02
50 68 0.44
51 79 0.52
52 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (50 bp):
TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACAGATCCGCCGTCG
Found at i:44367882 original size:12 final size:12
Alignment explanation
Indices: 44367865--44367891 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44367855 AGGCTAAGGT
44367865 AGCCAACGCATC
1 AGCCAACGCATC
44367877 AGCCAACGCATC
1 AGCCAACGCATC
44367889 AGC
1 AGC
44367892 TATCTGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.41, G:0.19, T:0.07
Consensus pattern (12 bp):
AGCCAACGCATC
Found at i:44370054 original size:23 final size:23
Alignment explanation
Indices: 44370020--44370091 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 23
44370010 TGAACAAAAT
*
44370020 ATGATTATGAAATA-AATAAAAGA
1 ATGATTATGAAAAAGAAT-AAAGA
44370043 ATGATGTA-GAAAAAGAATAAAGA
1 ATGAT-TATGAAAAAGAATAAAGA
*
44370066 ATAATTACTCGAAAAAGAATGAAAGA
1 ATGATTA-T-GAAAAAGAAT-AAAGA
44370092 CTACTGGCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 2 0.05
23 19 0.46
24 5 0.12
25 10 0.24
26 5 0.12
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.21
Consensus pattern (23 bp):
ATGATTATGAAAAAGAATAAAGA
Found at i:44377669 original size:3 final size:3
Alignment explanation
Indices: 44377661--44377719 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
44377651 ATGTATAGGT
* * *
44377661 ATA ATA ATA GTA ATA ATA ATA CTA ATA AT- ATA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
44377708 ACA AAA ATA ATA
1 ATA ATA ATA ATA
44377720 GCAGCTTAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:44377705 original size:17 final size:17
Alignment explanation
Indices: 44377661--44377707 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
44377651 ATGTATAGGT
*
44377661 ATAATAATAGTAATAATA
1 ATAATAATAAT-ATAATA
*
44377679 ATACTAATAATATAATA
1 ATAATAATAATATAATA
*
44377696 ATAATGATAATA
1 ATAATAATAATA
44377708 ACAAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (17 bp):
ATAATAATAATATAATA
Found at i:44384269 original size:9 final size:9
Alignment explanation
Indices: 44384257--44384352 Score: 51
Period size: 10 Copynumber: 10.9 Consensus size: 9
44384247 GTAGAGATTT
44384257 TAATTTTTA
1 TAATTTTTA
44384266 TAA-TTTTA
1 TAATTTTTA
*
44384274 T--TTATTA
1 TAATTTTTA
*
44384281 TAATATTTA
1 TAATTTTTA
*
44384290 TAATATATTA
1 TAAT-TTTTA
*
44384300 TTATTCTTTA
1 TAATT-TTTA
*
44384310 TAAGTTTATA
1 TAA-TTTTTA
*
44384320 TCAATTTTAA
1 T-AATTTTTA
44384330 T-A-TTTTA
1 TAATTTTTA
*
44384337 -AATTTTAA
1 TAATTTTTA
44384345 TAATTTTT
1 TAATTTTT
44384353 CTGATATATA
Statistics
Matches: 63, Mismatches: 14, Indels: 20
0.65 0.14 0.21
Matches are distributed among these distances:
7 10 0.16
8 11 0.17
9 18 0.29
10 20 0.32
11 4 0.06
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (9 bp):
TAATTTTTA
Found at i:44384273 original size:15 final size:16
Alignment explanation
Indices: 44384253--44384289 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
44384243 GATTGTAGAG
44384253 ATTTTAATTT-TTATA
1 ATTTTAATTTATTATA
44384268 ATTTT-ATTTATTATA
1 ATTTTAATTTATTATA
44384283 ATATTTA
1 AT-TTTA
44384290 TAATATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 12 0.63
16 3 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTAATTTATTATA
Found at i:44384342 original size:15 final size:16
Alignment explanation
Indices: 44384322--44384351 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44384312 AGTTTATATC
44384322 AATTTTAAT-ATTTTA
1 AATTTTAATAATTTTA
44384337 AATTTTAATAATTTT
1 AATTTTAATAATTTT
44384352 TCTGATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTTTAATAATTTTA
Found at i:44387479 original size:32 final size:32
Alignment explanation
Indices: 44387436--44387512 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
44387426 CAAAATAAAT
**
44387436 TATGAAAAGTTACGAATGTGAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
44387468 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
44387500 GATGAAAAGTTAC
1 TATGAAAAGTTAC
44387513 ACACATGCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:44391987 original size:32 final size:32
Alignment explanation
Indices: 44391944--44392020 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
44391934 CAAAATAAAT
** *
44391944 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
44391976 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
44392008 GATGAAAAGTTAC
1 TATGAAAAGTTAC
44392021 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:44397033 original size:20 final size:21
Alignment explanation
Indices: 44396994--44397033 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
44396984 ATGATGACAC
* *
44396994 GGATGTAATTTTGTATTGAGT
1 GGATGTAATTTAGTAATGAGT
44397015 GGAT-TAATTTAGTAATGAG
1 GGATGTAATTTAGTAATGAG
44397034 GTGTGTTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (21 bp):
GGATGTAATTTAGTAATGAGT
Found at i:44401476 original size:40 final size:40
Alignment explanation
Indices: 44401432--44401510 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
44401422 TCGACCACGT
*
44401432 GCACATAGTGTGTGATATTCTCGAGTATCCAATATTATTA
1 GCACATAGTGTGTGAGATTCTCGAGTATCCAATATTATTA
*
44401472 GCACATAGTGTGTGAGATTCTCGAGTGTCCAATATTATT
1 GCACATAGTGTGTGAGATTCTCGAGTATCCAATATTATT
44401511 CTAGTGGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (40 bp):
GCACATAGTGTGTGAGATTCTCGAGTATCCAATATTATTA
Found at i:44410026 original size:24 final size:24
Alignment explanation
Indices: 44409983--44410032 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
44409973 ATATAAATTG
*
44409983 TAAATATTTGTAAACAATAACTAT
1 TAAATATTTGTAAACAATAACCAT
44410007 TAAATATTAT-TAAA-ATATAACCAT
1 TAAATATT-TGTAAACA-ATAACCAT
44410031 TA
1 TA
44410033 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 1 0.04
24 21 0.91
25 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAATATTTGTAAACAATAACCAT
Found at i:44413505 original size:18 final size:18
Alignment explanation
Indices: 44413482--44413523 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
44413472 GTAACATTTT
* *
44413482 AAAACTTTAATAGTTGTG
1 AAAACTTTAACAATTGTG
*
44413500 AAAACTTTAACAATTTTG
1 AAAACTTTAACAATTGTG
44413518 AAAACT
1 AAAACT
44413524 AATGCTCGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (18 bp):
AAAACTTTAACAATTGTG
Found at i:44419740 original size:14 final size:14
Alignment explanation
Indices: 44419687--44419741 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
44419677 AAATTGAATC
44419687 AAATTAACATATATA
1 AAATT-ACATATATA
*
44419702 AAATTCTACA-AAATCA
1 AAA-T-TACATATAT-A
44419718 AAA-TACATATATA
1 AAATTACATATATA
44419731 AAATTACATAT
1 AAATTACATAT
44419742 TATGCAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
13 8 0.24
14 10 0.30
15 6 0.18
16 8 0.24
17 1 0.03
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATTACATATATA
Found at i:44423564 original size:24 final size:24
Alignment explanation
Indices: 44423532--44423580 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
44423522 CAGGAAATAA
44423532 CCCATTATTTCATAACCTTAGATT
1 CCCATTATTTCATAACCTTAGATT
44423556 CCCATTATTTCATAACCTTAGATT
1 CCCATTATTTCATAACCTTAGATT
44423580 C
1 C
44423581 TAGCTCTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.04, T:0.41
Consensus pattern (24 bp):
CCCATTATTTCATAACCTTAGATT
Found at i:44432013 original size:20 final size:19
Alignment explanation
Indices: 44431958--44432002 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
44431948 CATTTCGTTG
*
44431958 AGCTCCAATTAGCTCATTTCC
1 AGCTCC-ATGAGCTCATTT-C
*
44431979 AGCTCCATGAACTCATTTC
1 AGCTCCATGAGCTCATTTC
44431998 AGCTC
1 AGCTC
44432003 ATTTGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.31
Consensus pattern (19 bp):
AGCTCCATGAGCTCATTTC
Found at i:44434217 original size:25 final size:25
Alignment explanation
Indices: 44434099--44434217 Score: 80
Period size: 25 Copynumber: 4.7 Consensus size: 25
44434089 ATTCGGGAAT
44434099 GCTCATACGAG-CATATAAACGAGAA
1 GCTCATACGAGCCATAT-AACGAGAA
* * *
44434124 GCTCTCTCTCGAGCCATATAA-AAGGAA
1 GCTC-AT-ACGAGCCATATAACGA-GAA
** * *
44434151 GCTCATGTGAGCCATGTAACGGGAA
1 GCTCATACGAGCCATATAACGAGAA
* * * *
44434176 GCTTATCCGGGCTATATAACGAGAA
1 GCTCATACGAGCCATATAACGAGAA
*
44434201 GCTCATAAGAGCCATAT
1 GCTCATACGAGCCATAT
44434218 TTAGGAAACT
Statistics
Matches: 68, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
25 47 0.69
26 3 0.04
27 13 0.19
28 5 0.07
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (25 bp):
GCTCATACGAGCCATATAACGAGAA
Found at i:44434262 original size:25 final size:25
Alignment explanation
Indices: 44434234--44434287 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
44434224 AACTTCGGAT
* *
44434234 AGCCATATATCGGGAAGTTCAAGCG
1 AGCCATATATCGGGAAGATCAAGAG
*
44434259 AGCC--ATATCGGGAAGATCTAGAG
1 AGCCATATATCGGGAAGATCAAGAG
44434282 AGCCAT
1 AGCCAT
44434288 TAATCAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
23 20 0.83
25 4 0.17
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (25 bp):
AGCCATATATCGGGAAGATCAAGAG
Found at i:44434270 original size:23 final size:23
Alignment explanation
Indices: 44434240--44434287 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
44434230 GGATAGCCAT
* *
44434240 ATATCGGGAAGTTCAAGCGAGCC
1 ATATCGGGAAGATCAAGAGAGCC
*
44434263 ATATCGGGAAGATCTAGAGAGCC
1 ATATCGGGAAGATCAAGAGAGCC
44434286 AT
1 AT
44434288 TAATCAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (23 bp):
ATATCGGGAAGATCAAGAGAGCC
Found at i:44434337 original size:26 final size:26
Alignment explanation
Indices: 44434280--44434329 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
44434270 GAAGATCTAG
44434280 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
* *
44434306 AGAGCCTTTAATCAGGAAGCTCAC
1 AGAGCCATTAATCAAGAAGCTCAC
44434330 GACAAGCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAAGAAGCTCACAA
Found at i:44437893 original size:51 final size:50
Alignment explanation
Indices: 44437838--44437936 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 50
44437828 AATTTAATTA
** * *
44437838 AAAATTTT-ATTTCAAAAAATAAAAATTTTAATGATTTTAACAATAAAATCT
1 AAAATTTTAATTT-AAAAAATAAAAAAATTAA-AATTTTAAAAATAAAATCT
*
44437889 AAAATTTTAAATTTAAAAAGTAAAAAAATTAAAATTTTAAAAATAAAA
1 AAAATTTT-AATTTAAAAAATAAAAAAATTAAAATTTTAAAAATAAAA
44437937 ATAAAAATAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 22 0.54
52 15 0.37
53 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (50 bp):
AAAATTTTAATTTAAAAAATAAAAAAATTAAAATTTTAAAAATAAAATCT
Found at i:44437944 original size:51 final size:52
Alignment explanation
Indices: 44437836--44437953 Score: 118
Period size: 51 Copynumber: 2.3 Consensus size: 52
44437826 TGAATTTAAT
** * *
44437836 TAAAAATTTT--ATTTCAAAAAATAAAAATTTTAATGATTTTAACAATAAAA
1 TAAAAATTTTAAATTTCAAAAAATAAAAAAATTAATAATTTTAAAAATAAAA
* *
44437886 TCTAAAATTTTAAATTT-AAAAAGTAAAAAAATTAA-AATTTTAAAAATAAAAA
1 T-AAAAATTTTAAATTTCAAAAAATAAAAAAATTAATAATTTTAAAAAT-AAAA
**
44437938 TAAAAATACTAAATTT
1 TAAAAATTTTAAATTT
44437954 TAAATATACA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
50 1 0.02
51 30 0.55
52 20 0.36
53 4 0.07
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (52 bp):
TAAAAATTTTAAATTTCAAAAAATAAAAAAATTAATAATTTTAAAAATAAAA
Found at i:44441497 original size:140 final size:140
Alignment explanation
Indices: 44441241--44441538 Score: 443
Period size: 140 Copynumber: 2.1 Consensus size: 140
44441231 AATATTTTAA
* *
44441241 TGTCGGCCCAAAAGTATCGGTATAGTATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
1 TGTCGGCCCAAAAGTGTCGGCATAGTATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
* *
44441306 CATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACA
66 CATGCATATCCCAACCCTTATAAAAAGAGTTGACCAAAGCGTATGTCGGCAAGTCTATCCCAACA
*
44441371 CTAAGGAAAG
131 CTAAGAAAAG
* * * * ** *
44441381 TGTTGGCCCAAAAGTGTCGGCATAGTGTTGGACAAAGTCGACTCTTATTTAAGTGTTGTCTTAGG
1 TGTCGGCCCAAAAGTGTCGGCATAGTATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
* * *
44441446 TATGCATATCTCAACCCTTATAAAAAGATTTGACCAAAGCGTATGTCGGCAAGTCTATCCCAACA
66 CATGCATATCCCAACCCTTATAAAAAGAGTTGACCAAAGCGTATGTCGGCAAGTCTATCCCAACA
*
44441511 CTTAGAAAAG
131 CTAAGAAAAG
*
44441521 TGTCGGACCAAAAGTGTC
1 TGTCGGCCCAAAAGTGTC
44441539 ATCTTAGGAC
Statistics
Matches: 140, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (140 bp):
TGTCGGCCCAAAAGTGTCGGCATAGTATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
CATGCATATCCCAACCCTTATAAAAAGAGTTGACCAAAGCGTATGTCGGCAAGTCTATCCCAACA
CTAAGAAAAG
Found at i:44441773 original size:43 final size:43
Alignment explanation
Indices: 44441725--44441840 Score: 187
Period size: 43 Copynumber: 2.7 Consensus size: 43
44441715 GTGTTGCTAA
* *
44441725 CTTTAGCAGCGCTTATCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
44441768 CTTTAGCGGCGTTTTTCCCACAAACGCCGCTAAAGACCAATAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
44441811 CTTTAGCGGTGCTTTTCCCACAAACGCCGC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGC
44441841 CAAAAACATG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:44441872 original size:16 final size:16
Alignment explanation
Indices: 44441851--44441881 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44441841 CAAAAACATG
44441851 AATTAAAAAATATTTT
1 AATTAAAAAATATTTT
*
44441867 AATTAAATAATATTT
1 AATTAAAAAATATTT
44441882 ATTTCTATCA
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTAAAAAATATTTT
Found at i:44442067 original size:18 final size:18
Alignment explanation
Indices: 44442044--44442103 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
44442034 TTAAAACAAG
44442044 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
44442062 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
44442079 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
44442097 TTACATT
1 TTACATT
44442104 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:44446467 original size:57 final size:53
Alignment explanation
Indices: 44446351--44446479 Score: 249
Period size: 53 Copynumber: 2.4 Consensus size: 53
44446341 TATTATTTTT
*
44446351 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATCTGTTG
44446404 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATCTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATCTGTTG
44446457 CTTTTATTTATTTATTTATCAAT
1 CTTTTATTTATTTATTTATCAAT
44446480 GTTTTTTTTA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
53 75 1.00
ACGTcount: A:0.29, C:0.13, G:0.05, T:0.53
Consensus pattern (53 bp):
CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATCTGTTG
Found at i:44446733 original size:21 final size:21
Alignment explanation
Indices: 44446717--44446777 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
44446707 CACTAACTCT
*
44446717 TAACCTCTAACCTCTAACCCC
1 TAACCTCTAACCCCTAACCCC
44446738 TAACCT-TAAACCCCTAA-CCC
1 TAACCTCT-AACCCCTAACCCC
44446758 TAA-CTACTAACCCCTAACCC
1 TAACCT-CTAACCCCTAACCC
44446778 TTAAACCCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 2 0.06
20 16 0.46
21 17 0.49
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (21 bp):
TAACCTCTAACCCCTAACCCC
Found at i:44446768 original size:34 final size:36
Alignment explanation
Indices: 44446717--44446785 Score: 108
Period size: 34 Copynumber: 2.0 Consensus size: 36
44446707 CACTAACTCT
44446717 TAACCTCTAACCTCTAACCCCTAA-CCTTAAACCCC
1 TAACCTCTAACCTCTAACCCCTAACCCTTAAACCCC
44446752 TAACC-CTAA-CTACTAACCCCTAACCCTTAAACCC
1 TAACCTCTAACCT-CTAACCCCTAACCCTTAAACCC
44446786 TAAACATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 2 0.06
34 15 0.47
35 15 0.47
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.22
Consensus pattern (36 bp):
TAACCTCTAACCTCTAACCCCTAACCCTTAAACCCC
Done.