Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 292 of 444
Found at i:84360189 original size:49 final size:49
Alignment explanation
Indices: 84360121--84360410 Score: 517
Period size: 49 Copynumber: 5.9 Consensus size: 49
84360111 ACATCGTCCA
*
84360121 TTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATACACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
*
84360170 TTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
*
84360219 TTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
84360268 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
**
84360317 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATTTACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
* *
84360366 TTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATACA
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
84360411 TCTCATACAT
Statistics
Matches: 232, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 232 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
Found at i:84371292 original size:31 final size:30
Alignment explanation
Indices: 84371246--84371309 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
84371236 ATATAAAAAC
*
84371246 TTTAAATGTTTAATTAAAATTTTCAAAATT
1 TTTAAAGGTTTAATTAAAATTTTCAAAATT
* **
84371276 TTTAAAGGATTTAATTATAATTTTTTAAATT
1 TTTAAAGG-TTTAATTAAAATTTTCAAAATT
84371307 TTT
1 TTT
84371310 GGAGGGCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (30 bp):
TTTAAAGGTTTAATTAAAATTTTCAAAATT
Found at i:84373625 original size:33 final size:30
Alignment explanation
Indices: 84373587--84373662 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 30
84373577 CAAAATTCGA
*
84373587 ATTTAATTTTTAATTTA-GTTTATTTTCCAATTT
1 ATTTAATTTTTAATTTATG-TT-GTTT-CAA-TT
84373620 ATTTAATTATTT-ATTTATGTTGTTTCAATT
1 ATTTAATT-TTTAATTTATGTTGTTTCAATT
84373650 ATTTAATTTTTAA
1 ATTTAATTTTTAA
84373663 ACATTTCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
29 3 0.08
30 11 0.28
31 3 0.08
32 3 0.08
33 15 0.38
34 4 0.10
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (30 bp):
ATTTAATTTTTAATTTATGTTGTTTCAATT
Found at i:84377075 original size:4 final size:4
Alignment explanation
Indices: 84377066--84377111 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
84377056 TTGCTTGTAC
* *
84377066 ATAA ATAA ATAA ATAA ATAA CATGA A-AA ATAA ATAA ATGA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATAA ATAA AT
84377112 CCTTAAGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 2 0.06
4 31 0.86
5 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:84377095 original size:16 final size:16
Alignment explanation
Indices: 84377066--84377111 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
84377056 TTGCTTGTAC
*
84377066 ATAAATAAATAAATAA
1 ATAAATGAATAAATAA
84377082 ATAACATGAA-AAATAA
1 ATAA-ATGAATAAATAA
84377098 ATAAATGAATAAAT
1 ATAAATGAATAAAT
84377112 CCTTAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 5 0.19
16 18 0.67
17 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (16 bp):
ATAAATGAATAAATAA
Found at i:84379846 original size:124 final size:125
Alignment explanation
Indices: 84379569--84379866 Score: 458
Period size: 124 Copynumber: 2.4 Consensus size: 125
84379559 TTAATTATGG
** * *
84379569 AAAAAAGCTCCCATGTGGATACTCTTTTGCTAC-GTAGTCTTTGAAAAAATAATTTTGAGAAGAT
1 AAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTATCTG-AAAAATAATTTTGAGAAGAT
*
84379633 GTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCCAGCAAAATTACGG
65 GTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCCAGCAAAATTACGA
*
84379694 AAAAAAGCTCCCATGTGGACGCTATTTTGCTACAGTAGTATCTGAAAAATAATTTTGAGAAGATG
1 AAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAATAATTTTGAGAAGATG
* * *
84379759 TTTCT-AAACAAATAGTGTC-AAAACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACGA
66 TTTCTGAAA-AAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCCAGCAAAATTACGA
* *
84379818 AAAAAAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGTATCTGAAAAA
1 AAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAA
84379867 GCCTTAGGCT
Statistics
Matches: 159, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
124 85 0.53
125 66 0.42
126 8 0.05
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (125 bp):
AAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAATAATTTTGAGAAGATG
TTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCCAGCAAAATTACGA
Found at i:84381393 original size:34 final size:34
Alignment explanation
Indices: 84381355--84381423 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
84381345 GCAAGGTTTG
*
84381355 GATAGCTAAGTAGAAGGTGTTGGAAAATATATAT
1 GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
84381389 GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
1 GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
84381423 G
1 G
84381424 GTATGTGGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.28
Consensus pattern (34 bp):
GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
Found at i:84383328 original size:131 final size:129
Alignment explanation
Indices: 84382980--84383353 Score: 621
Period size: 126 Copynumber: 2.9 Consensus size: 129
84382970 ACATTTATTT
* * * * *
84382980 TAATAAAAATTATTGGTTAATTTAAAAGTACATTTATTGTATTAAAATTAAAAAAGTAAAGTACA
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAGTAAAGTACA
*
84383045 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
66 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATAAATATAAAAA
*
84383109 TAAT-AAAAATATTGGCTAATTTAAAAGAATA-TT-TTTTAATAAAATTAAAAAAGTAAAGTACA
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAGTAAAGTACA
84383171 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAAA
66 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAA-TAAATATAAAAA
*
84383236 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAATGTAC
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATT-AAAAAAGTAAAGTAC
84383301 AATTAAAATATTAAAAACAACTTTTATTTTATT-ATATGAAACTATATAAAAAA
65 AATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAAA
84383354 AGTTTCTATA
Statistics
Matches: 230, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
126 78 0.34
127 18 0.08
128 49 0.21
129 6 0.03
130 15 0.07
131 64 0.28
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (129 bp):
TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAGTAAAGTACA
ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATAAATATAAAAA
Found at i:84383485 original size:21 final size:22
Alignment explanation
Indices: 84383455--84383497 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
84383445 TCTTGGTTTA
**
84383455 GCTTCCGGTGGGGGTTGTGGTT
1 GCTTCCGGTGGGGACTGTGGTT
84383477 GCTT-CGGTGGGGACTGTGGTT
1 GCTTCCGGTGGGGACTGTGGTT
84383498 CCTCTGACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.02, C:0.14, G:0.49, T:0.35
Consensus pattern (22 bp):
GCTTCCGGTGGGGACTGTGGTT
Found at i:84383786 original size:18 final size:18
Alignment explanation
Indices: 84383760--84383802 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
84383750 GATTGGGAAA
* *
84383760 AGGAAACATAAAAGGATT
1 AGGATACATAAAAGGACT
* *
84383778 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGACT
84383796 AGGATAC
1 AGGATAC
84383803 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGACT
Found at i:84384433 original size:7 final size:7
Alignment explanation
Indices: 84384421--84384460 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
84384411 TTATATATGT
84384421 AATACTA
1 AATACTA
84384428 AATACTA
1 AATACTA
84384435 AATACTA
1 AATACTA
*
84384442 AATATTA
1 AATACTA
84384449 AATACTA
1 AATACTA
84384456 AATAC
1 AATAC
84384461 GAAACGACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (7 bp):
AATACTA
Found at i:84385652 original size:9 final size:11
Alignment explanation
Indices: 84385625--84385664 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
84385615 TTGACAAAAA
84385625 TTGAGAGAATT
1 TTGAGAGAATT
84385636 TTGAGAGAATT
1 TTGAGAGAATT
*
84385647 TGGAGAGAATT
1 TTGAGAGAATT
*
84385658 GTGAGAG
1 TTGAGAG
84385665 GACTATTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (11 bp):
TTGAGAGAATT
Found at i:84388252 original size:17 final size:17
Alignment explanation
Indices: 84388210--84388261 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
84388200 TAATATTAAG
84388210 TTAAATTT-TTA-G-AT
1 TTAAATTTATTATGTAT
*
84388224 TTAATTTTTATTATGTAT
1 TTAA-ATTTATTATGTAT
*
84388242 TTAAATTTATTATTTAT
1 TTAAATTTATTATGTAT
84388259 TTA
1 TTA
84388262 TTCAACAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 4 0.13
15 3 0.10
16 3 0.10
17 15 0.48
18 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (17 bp):
TTAAATTTATTATGTAT
Found at i:84400669 original size:21 final size:21
Alignment explanation
Indices: 84400645--84400699 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
84400635 GTGTAGTTTA
84400645 AAGACACGCCCGTGTCTCTCT
1 AAGACACGCCCGTGTCTCTCT
84400666 AAGACACGCCCGTGTCTCTCT
1 AAGACACGCCCGTGTCTCTCT
84400687 AAGACACGCCCGT
1 AAGACACGCCCGT
84400700 ATTGTCATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.22, C:0.38, G:0.20, T:0.20
Consensus pattern (21 bp):
AAGACACGCCCGTGTCTCTCT
Found at i:84402758 original size:12 final size:13
Alignment explanation
Indices: 84402733--84402761 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
84402723 AATCTCTAAT
84402733 TTTTCCCTTTTTC
1 TTTTCCCTTTTTC
84402746 TTTTCCC-TTTTC
1 TTTTCCCTTTTTC
84402758 TTTT
1 TTTT
84402762 TCTCCCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCCCTTTTTC
Found at i:84402862 original size:13 final size:13
Alignment explanation
Indices: 84402829--84402872 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
84402819 TTTTATGTTT
*
84402829 TATTATATGATT-
1 TATTATATTATTA
*
84402841 TATTTTATTATTA
1 TATTATATTATTA
*
84402854 TATTATATTAATA
1 TATTATATTATTA
84402867 TATTAT
1 TATTAT
84402873 TATATTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:84406114 original size:36 final size:36
Alignment explanation
Indices: 84406074--84406146 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
84406064 GGAATACATC
84406074 AGGAAATTCACATACAGTTCAGATTTTACTACATTT
1 AGGAAATTCACATACAGTTCAGATTTTACTACATTT
*
84406110 AGGAAATTCGCATACAGTTCAGATTTTACTACATTT
1 AGGAAATTCACATACAGTTCAGATTTTACTACATTT
84406146 A
1 A
84406147 CTTTCCACCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (36 bp):
AGGAAATTCACATACAGTTCAGATTTTACTACATTT
Found at i:84419140 original size:17 final size:18
Alignment explanation
Indices: 84419089--84419140 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
84419079 TATTAAAAAA
84419089 TAATTAAATAATAAATAAG
1 TAATTAAA-AATAAATAAG
* *
84419108 TAATTTTAATACTAAATAAG
1 TAA--TTAAAAATAAATAAG
84419128 T-ATTAAAAATAAA
1 TAATTAAAAATAAA
84419141 AAAATATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 9 0.33
19 4 0.15
20 10 0.37
21 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
TAATTAAAAATAAATAAG
Found at i:84422147 original size:17 final size:16
Alignment explanation
Indices: 84422125--84422156 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
84422115 TTGATTAAAT
84422125 TATTAAAATATTATATA
1 TATTAAAATA-TATATA
84422142 TATTAAAATATATAT
1 TATTAAAATATATAT
84422157 TAAACGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTAAAATATATATA
Found at i:84423028 original size:16 final size:16
Alignment explanation
Indices: 84422992--84423027 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
84422982 ATCTCATATC
*
84422992 TAAAACTTTGATATTA
1 TAAAACTTTGATAATA
84423008 TAAAAC-TTGATAATA
1 TAAAACTTTGATAATA
84423023 TAAAA
1 TAAAA
84423028 AAAAATGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (16 bp):
TAAAACTTTGATAATA
Found at i:84433839 original size:6 final size:6
Alignment explanation
Indices: 84433828--84433943 Score: 214
Period size: 6 Copynumber: 19.3 Consensus size: 6
84433818 TACGTTTGAA
84433828 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
84433876 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
* *
84433924 ATATGT ATATAT AGATGT AT
1 ATATGT ATATGT ATATGT AT
84433944 GTTTGTGACT
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 106 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:84434599 original size:89 final size:93
Alignment explanation
Indices: 84434435--84434692 Score: 299
Period size: 89 Copynumber: 2.9 Consensus size: 93
84434425 AATTATTCAA
* *
84434435 AATATCAAAATGGTAATTAAACAAATTGTCCC--ATTTAGATTAAATTATAATTAAAATAAGTTT
1 AATATCAAAATGGTAATTAAACCAATTGTCCCGTACTTAGATTAAATTATAATTAAAATAAGTTT
* *
84434498 AA-ATATGTCTTAATTAA-T-TAA-AA-T
66 AATA-ATGCCTTAATTAACTATAACAACC
*
84434522 AATATCAAAATGGTAATTAAACCAATTGTCCCGTACTTAAATTAAATTATAATTAAAATAAGTTT
1 AATATCAAAATGGTAATTAAACCAATTGTCCCGTACTTAGATTAAATTATAATTAAAATAAGTTT
84434587 AATAATGCCTTAATTAACTAACTAACTAAGCC
66 AATAATGCCTTAATTAACT-A-TAAC-AA-CC
* *
84434619 AATATCAAAATGGTAATTAAACCAA-T-T---GT-CTTAGATTAATTTATAATTAAAATAAGTAT
1 AATATCAAAATGGTAATTAAACCAATTGTCCCGTACTTAGATTAAATTATAATTAAAATAAGTTT
* *
84434678 ACTTATGCCTTAATT
66 AATAATGCCTTAATT
84434693 TTTAACTATA
Statistics
Matches: 150, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
87 31 0.21
89 43 0.29
90 2 0.01
91 40 0.27
92 2 0.01
93 3 0.02
95 3 0.02
96 1 0.01
97 25 0.17
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.36
Consensus pattern (93 bp):
AATATCAAAATGGTAATTAAACCAATTGTCCCGTACTTAGATTAAATTATAATTAAAATAAGTTT
AATAATGCCTTAATTAACTATAACAACC
Found at i:84434703 original size:24 final size:25
Alignment explanation
Indices: 84434675--84434725 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
84434665 TTAAAATAAG
84434675 TATACTTATGCCTTAA-TTTTTAAC
1 TATACTTATGCCTTAATTTTTTAAC
84434699 TATACTTATGCCTTAATTTTTTAAC
1 TATACTTATGCCTTAATTTTTTAAC
84434724 TA
1 TA
84434726 ACTAACTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (25 bp):
TATACTTATGCCTTAATTTTTTAAC
Found at i:84436639 original size:20 final size:20
Alignment explanation
Indices: 84436616--84436664 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
84436606 GAACCACTCA
*
84436616 ATTTACTTTCTTACCATTCC
1 ATTTACTTACTTACCATTCC
* *
84436636 ATTTACTTACTTTCCATTTC
1 ATTTACTTACTTACCATTCC
84436656 ATTTACTTA
1 ATTTACTTA
84436665 GCATAAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:84443304 original size:21 final size:21
Alignment explanation
Indices: 84443278--84443319 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
84443268 AATTATTTTT
* *
84443278 ATATATTTTATTACGATATTA
1 ATATATGTTATTAAGATATTA
84443299 ATATATGTTATTAAGATATTA
1 ATATATGTTATTAAGATATTA
84443320 GTTATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (21 bp):
ATATATGTTATTAAGATATTA
Found at i:84451993 original size:25 final size:25
Alignment explanation
Indices: 84451965--84452012 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
84451955 TTACAGGATT
**
84451965 GGCGCCAGAGACTTGGTGTACCATC
1 GGCGCCAGAGACTCAGTGTACCATC
* *
84451990 GGCGTCGGAGACTCAGTGTACCA
1 GGCGCCAGAGACTCAGTGTACCA
84452013 CATACTCAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (25 bp):
GGCGCCAGAGACTCAGTGTACCATC
Found at i:84455807 original size:22 final size:23
Alignment explanation
Indices: 84455767--84455810 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
84455757 AAAAAAAACC
84455767 TATGTTAAATATATTTTTGAAAAT
1 TATGTTAAATATA-TTTTGAAAAT
84455791 TATGTTAAATATA-TTTGAAA
1 TATGTTAAATATATTTTGAAA
84455811 TTCAAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (23 bp):
TATGTTAAATATATTTTGAAAAT
Found at i:84457567 original size:46 final size:45
Alignment explanation
Indices: 84457458--84457670 Score: 193
Period size: 46 Copynumber: 4.5 Consensus size: 45
84457448 TATGAGAGCC
* *
84457458 AGTGTAAGATCATGTCTGGGACATGGCATCGGTA-TTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC-G-ACTCGAGATGTA-AGCT
* *
84457506 AGTGTAAGGCATGTCTGGGACATGCAACGACCTCGAGATGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CTCGAGATGTAAGCT
*
84457552 AGTGTAAGACGTGTCTGGGACATGCATCGACTACGAGATGT--G-T
1 AGTGTAAGACATGTCTGGGACATGCATCGACT-CGAGATGTAAGCT
* * *
84457595 CAGTGTAAGACTATGTCTGGGACATGGCATCGGCACGAATATGTGAGAGCT
1 -AGTGTAAGAC-ATGTCTGGGACAT-GCATCGACTCG-AGATGT-A-AGCT
84457646 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
84457671 GTGTCGGCCT
Statistics
Matches: 140, Mismatches: 11, Indels: 27
0.79 0.06 0.15
Matches are distributed among these distances:
43 1 0.01
44 12 0.09
45 17 0.12
46 61 0.44
47 15 0.11
48 8 0.06
49 1 0.01
50 23 0.16
51 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATGTAAGCT
Found at i:84463745 original size:49 final size:50
Alignment explanation
Indices: 84463685--84463819 Score: 166
Period size: 49 Copynumber: 2.7 Consensus size: 50
84463675 TGGGTAAAGT
* * * * *
84463685 GCCGATACCATGTCCCAGACATGGTCTTACACTGGCTATCATC-T-TCGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTATCA-CATAACCAG
* * * *
84463734 GCCGATGCCATGTACTAGACATGGTCTTACACTAACTCTCACATAACCAT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTATCACATAACCAG
84463784 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAC
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAC
84463820 ACATCTTGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
48 1 0.01
49 36 0.49
50 36 0.49
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (50 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTATCACATAACCAG
Found at i:84463847 original size:22 final size:22
Alignment explanation
Indices: 84463819--84463862 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
84463809 CTTACACTGA
*
84463819 CACATCTTGTAGCTGATGCATG
1 CACATCTCGTAGCTGATGCATG
84463841 CACATCTCGTAGCTGATGCATG
1 CACATCTCGTAGCTGATGCATG
84463863 TCCCAGACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (22 bp):
CACATCTCGTAGCTGATGCATG
Found at i:84463919 original size:46 final size:45
Alignment explanation
Indices: 84463852--84464022 Score: 189
Period size: 46 Copynumber: 3.7 Consensus size: 45
84463842 ACATCTCGTA
* *
84463852 GCTGATGCATGTCCCAGACATGTCTTATACTGGTTTACGTCTTGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGTCT-CGTCTTGAG
** ** *
84463898 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACT-GGTCTCGTCTTGAG
* * ** *
84463944 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGG-TCTCGTCTTGAG
84463992 GCTGATGCATGTCCCAGACATGTCTTACACT
1 GCTGATGCATGTCCCAGACATGTCTTACACT
84464023 AGCTCACACA
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 52 0.50
47 31 0.30
48 20 0.19
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (45 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGTCTCGTCTTGAG
Found at i:84464019 original size:94 final size:92
Alignment explanation
Indices: 84463855--84464025 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 92
84463845 TCTCGTAGCT
* * * **
84463855 GATGCATGTCCCAGACATGTCTTATACTGGTTTACGTCTTGAGGCTGATGCATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGTCTACATAATGAGGCTGATGCATGTCCCAGACATG
84463920 TCTTACACTAGCACTCGTCTCAATGCC
66 TCTTACACTAGCACTCGTCTCAATGCC
*
84463947 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCTGATGCATGTCCCAGAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGG-TCTACATAATGAGGCTGATGCATGTCCCAGAC
84464011 ATGTCTTACACTAGC
63 ATGTCTTACACTAGC
84464026 TCACACAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
92 4 0.06
93 14 0.20
94 50 0.71
95 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGTCTACATAATGAGGCTGATGCATGTCCCAGACATG
TCTTACACTAGCACTCGTCTCAATGCC
Found at i:84464833 original size:123 final size:123
Alignment explanation
Indices: 84464614--84464860 Score: 404
Period size: 123 Copynumber: 2.0 Consensus size: 123
84464604 TAACCAAGAC
* * *
84464614 TGTAACATCCCGATTTTAGGCTTAGTCAGAACAGTGGTTTTGGGACCACAAATTCGATGAGGAAA
1 TGTAACATCCCAATTTTAGGCTTAGTCAGAACAGTGGTTTTGGGACCACAAATTAGATGAGAAAA
* * *
84464679 ATTTCATTTTTATTATATTTTTATGGTCTACGATTTCACGTAATGATTTTGTGAAAAT
66 ATTTCATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAAAT
* * *
84464737 TGTAACATCCCAATTTTAGGCTTAGTCGGAATAGTGGTTTTGGGACCACAAATTAGATGATAAAA
1 TGTAACATCCCAATTTTAGGCTTAGTCAGAACAGTGGTTTTGGGACCACAAATTAGATGAGAAAA
*
84464802 ATTTTATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAAAT
66 ATTTCATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAAAT
84464860 T
1 T
84464861 TCGTTCGAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 114 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (123 bp):
TGTAACATCCCAATTTTAGGCTTAGTCAGAACAGTGGTTTTGGGACCACAAATTAGATGAGAAAA
ATTTCATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAAAT
Found at i:84473056 original size:2 final size:2
Alignment explanation
Indices: 84473049--84473073 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
84473039 TGAGTTGATG
84473049 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
84473074 ATTATTTATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84478590 original size:28 final size:29
Alignment explanation
Indices: 84478537--84478597 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 29
84478527 TATGCATGAC
84478537 TATAAATGTGAATTGGGCCTAATGGGCCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
*
84478566 TATAAATGTG-ATTGGGCCTAGTGGGCCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
84478594 TATA
1 TATA
84478598 CAAGTATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTAATGGGCCA
Found at i:84480703 original size:18 final size:18
Alignment explanation
Indices: 84480680--84480715 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
84480670 TCCGTAAATA
84480680 TTATTAATTAATATTTAC
1 TTATTAATTAATATTTAC
84480698 TTATTAATTAATATTTAC
1 TTATTAATTAATATTTAC
84480716 GAGTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATTAATTAATATTTAC
Found at i:84480722 original size:18 final size:18
Alignment explanation
Indices: 84480682--84480739 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
84480672 CGTAAATATT
*
84480682 ATTAATTAATATTTACTT
1 ATTAATTAATATTTACTG
84480700 ATTAATTAATATTTAC-G
1 ATTAATTAATATTTACTG
84480717 AGTTAATTATGATATTATACTG
1 A-TTAATTA--ATATT-TACTG
84480739 A
1 A
84480740 ATTTTGGTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 1 0.03
18 23 0.68
20 5 0.15
21 3 0.09
22 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (18 bp):
ATTAATTAATATTTACTG
Found at i:84481134 original size:8 final size:8
Alignment explanation
Indices: 84481121--84481149 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
84481111 AAATTAAAAT
84481121 TAAAATTA
1 TAAAATTA
84481129 TAAAATTA
1 TAAAATTA
84481137 TAAAATTA
1 TAAAATTA
84481145 TAAAA
1 TAAAA
84481150 GATATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
TAAAATTA
Found at i:84485376 original size:37 final size:36
Alignment explanation
Indices: 84485323--84485417 Score: 120
Period size: 37 Copynumber: 2.6 Consensus size: 36
84485313 ACATATGCCG
* *
84485323 TGGCGTGTTACTGGTTGGATTAGCTCTT-TGGAGTATT
1 TGGCGTGTTAC-GGTTGGATTAGCCCTTAT-GAGCATT
*
84485360 TGGCGTGTTAACGGTTGGGTTAGCCCTTATGAGCATT
1 TGGCGTGTT-ACGGTTGGATTAGCCCTTATGAGCATT
*
84485397 TGGCGTGTTTCGGTTGGATTA
1 TGGCGTGTTACGGTTGGATTA
84485418 CTTGTGTACT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
36 10 0.20
37 38 0.75
38 3 0.06
ACGTcount: A:0.14, C:0.13, G:0.34, T:0.40
Consensus pattern (36 bp):
TGGCGTGTTACGGTTGGATTAGCCCTTATGAGCATT
Found at i:84489004 original size:47 final size:47
Alignment explanation
Indices: 84488906--84489033 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
84488896 AATCGATAAG
* * * *
84488906 TACCTATACCATGACCCATAGCCAAAGCAAGGTAACTTATCCCAGAG
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAGAA
* * ****
84488953 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTTTTTGAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAGAA
*
84489000 TACCTATACCATAGCCCATAGCCAAATCAAGGTA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTA
84489034 TTATCAGCAC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAGAA
Found at i:84489662 original size:29 final size:29
Alignment explanation
Indices: 84489598--84489663 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
84489588 ATTTTATTTA
* *
84489598 TTTCACAATTTAACCCCTTAATTTACACT
1 TTTCTCAATTTAACCCCTTAATATACACT
* * *
84489627 TTTCTCAATTTAA-TCCTTAATATGCATT
1 TTTCTCAATTTAACCCCTTAATATACACT
84489655 TTTACTCAA
1 TTT-CTCAA
84489664 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTTAATATACACT
Found at i:84490670 original size:21 final size:21
Alignment explanation
Indices: 84490646--84490688 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
84490636 ACAAAAATAA
*
84490646 TATATAGT-AGAGTCAACTAAT
1 TATATAGTCAGAGT-AACAAAT
*
84490667 TATATTGTCAGAGTAACAAAT
1 TATATAGTCAGAGTAACAAAT
84490688 T
1 T
84490689 CGTTGGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (21 bp):
TATATAGTCAGAGTAACAAAT
Found at i:84502465 original size:40 final size:40
Alignment explanation
Indices: 84502363--84502520 Score: 208
Period size: 40 Copynumber: 3.9 Consensus size: 40
84502353 TTCGAATGGT
* * * * *
84502363 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAA
*
84502404 ATTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
* * *
84502444 ATCTGGGTTAATTCCCAAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
* *
84502484 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTAC
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
84502521 TATAACTGGG
Statistics
Matches: 102, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 75 0.74
41 27 0.26
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:84502530 original size:80 final size:81
Alignment explanation
Indices: 84502367--84502543 Score: 216
Period size: 80 Copynumber: 2.2 Consensus size: 81
84502357 AATGGTATCC
* * * * * *
84502367 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATTCGGGTTAAGTCCCGAAGGCATTTGT
1 GGGCTATGTCCCAAAGGCATTTGTGCTAAGTGACCAAATCCGGGTTAAGTCCCGAAGGCATTTGC
*
84502432 GCGAGTTACCAAATCT
66 GCGAATTACCAAATCT
* * *
84502448 GGGTTAAT-TCCCAAAGGCATTTGTGC-GAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 GGGCT-ATGTCCCAAAGGCATTTGTGCTAAGTGACCAAATCCGGGTTAAGTCCCGAAGGCATTTG
*
84502511 CGCGAATTACTATAA-CT
65 CGCGAATTACCA-AATCT
84502528 GGGCTATGTCCCAAAG
1 GGGCTATGTCCCAAAG
84502544 ACAATCGAGC
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.02
80 56 0.69
81 22 0.27
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (81 bp):
GGGCTATGTCCCAAAGGCATTTGTGCTAAGTGACCAAATCCGGGTTAAGTCCCGAAGGCATTTGC
GCGAATTACCAAATCT
Found at i:84502539 original size:40 final size:40
Alignment explanation
Indices: 84502374--84502539 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 40
84502364 TCCGGGCTAA
* * * * *
84502374 GTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT-TCGGGTTAA
1 GTCCCGAAGGCATTTGTGC-GAGTTACCAAATCT-GGGTTAT
84502415 GTCCCGAAGGCATTTGTGCGAGTTACCAAATCTGGGTTAAT
1 GTCCCGAAGGCATTTGTGCGAGTTACCAAATCTGGGTT-AT
* * *
84502456 -TCCCAAAGGCATTTGTGCGAGTTACCAAATCCGGGTTAA
1 GTCCCGAAGGCATTTGTGCGAGTTACCAAATCTGGGTTAT
* * * *
84502495 GTCCCGAAGGCATTTGCGCGAATTACTATAA-CTGGGCTAT
1 GTCCCGAAGGCATTTGTGCGAGTTACCA-AATCTGGGTTAT
84502535 GTCCC
1 GTCCC
84502540 AAAGACAATC
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 83 0.78
41 22 0.21
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (40 bp):
GTCCCGAAGGCATTTGTGCGAGTTACCAAATCTGGGTTAT
Found at i:84515073 original size:43 final size:43
Alignment explanation
Indices: 84514964--84515074 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 43
84514954 CGCCAAAGTC
* * * *
84514964 CCAGACGTGGCCTTACATGT-AATCAAATATCGATGCCACTGT
1 CCAGACATGGTCTTACATGTAAATCAAATATCAAAGCCACTGT
* *
84515006 CCTAGACAGGGTCTTACACG-AAATCAAATA-CAAAGCCGA-TGT
1 CC-AGACATGGTCTTACATGTAAATCAAATATCAAAGCC-ACTGT
84515048 CTCAGACATGGTCTTACATGTAAATCA
1 C-CAGACATGGTCTTACATGTAAATCA
84515075 TATGCCAATG
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
42 26 0.46
43 30 0.54
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (43 bp):
CCAGACATGGTCTTACATGTAAATCAAATATCAAAGCCACTGT
Found at i:84522208 original size:46 final size:45
Alignment explanation
Indices: 84522144--84522310 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 45
84522134 CTCTTAGCCG
**
84522144 ATGCATGTCCTGGACATGTCTTACACTGGCTTACGTTACAAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTTACAAGGCCA
* * * *
84522190 ATGCATGTCCCAGGCATGTCTTACACTAGCACTCGTCT-CAATGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGC-TTCGT-TACAAGGCCA
** * * *** *
84522236 ATGCCATGTCTGAGACATGGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTTACAAGGCCA
84522284 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
84522311 AGCTCACATA
Statistics
Matches: 95, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
46 49 0.52
47 25 0.26
48 21 0.22
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTTCGTTACAAGGCCA
Found at i:84522321 original size:46 final size:45
Alignment explanation
Indices: 84522097--84522321 Score: 131
Period size: 46 Copynumber: 4.9 Consensus size: 45
84522087 TATCCGTGTT
* * *
84522097 GATGCGATGTCCCAGACATGGTCTTACACT-G-ACACA-ACTCTTAGCC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTAGCTCACATA--ATTGGCC
** * * * *
84522143 GATGCATGTCCTGGACATGTCTTACACTGGCTTACGTTACA-AGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCAC-ATA-ATTGGCC
* * *
84522189 AATGCATGTCCCAGGCATGTCTTACACTAGCACTCGTC-TCAA-T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAG--CTC-ACAT-AATTGGCC
* ** * *
84522235 AATGCCATGTCTGAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACATAAT-TGGCC
84522283 GATGCATGTCCCAGACATGTCTTACACTAGCTCACATAA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCACATAA
84522322 GTGACCAAAA
Statistics
Matches: 139, Mismatches: 26, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 65 0.47
47 26 0.19
48 21 0.15
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCACATAATTGGCC
Found at i:84523848 original size:40 final size:40
Alignment explanation
Indices: 84523803--84523970 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
84523793 CGGAATATAA
84523803 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
84523843 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
84523883 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
84523923 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
84523963 CCGGATAT
1 CCGGATAT
84523971 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84527843 original size:40 final size:40
Alignment explanation
Indices: 84527798--84527962 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
84527788 CGGAATATAA
84527798 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
84527838 CCGGATAGAATAACTCGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
84527877 CCGGAT-TAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
84527916 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
84527955 CCGGATAT
1 CCGGATAT
84527963 CATTCAATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
38 16 0.16
39 43 0.42
40 44 0.43
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84527911 original size:39 final size:39
Alignment explanation
Indices: 84527814--84527921 Score: 123
Period size: 39 Copynumber: 2.7 Consensus size: 39
84527804 ATAATCACGT
* *
84527814 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATTAG-ACAACTA
*
84527854 GCACGAATGCCTTC-GGTCTTAGCCCGGATTAG-CCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATTAGACAACTA
*
84527892 GCACAATTGCCTTCGGGTCTTAACCCGGAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGAT
84527922 ATAATTTCCA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
37 2 0.03
38 14 0.23
39 28 0.47
40 16 0.27
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATTAGACAACTA
Found at i:84535850 original size:40 final size:40
Alignment explanation
Indices: 84535805--84535972 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
84535795 CGGAATATAA
84535805 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
84535845 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
84535885 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
84535925 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
84535965 CCGGATAT
1 CCGGATAT
84535973 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84540558 original size:42 final size:44
Alignment explanation
Indices: 84540491--84540581 Score: 132
Period size: 42 Copynumber: 2.1 Consensus size: 44
84540481 GAAAGCTTGT
* *
84540491 AATCAAATATCGATGCCACTATCCCAGACAGGGTCTTACATG-A
1 AATCAAATATCGATGCCAATATCCCAGACAGGGTCTTACACGTA
* *
84540534 AATCAAATA-CGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATATCGATGCCAATATCCCAGACAGGGTCTTACACGTA
84540577 AATCA
1 AATCA
84540582 TATGCCAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 28 0.65
43 15 0.35
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.23
Consensus pattern (44 bp):
AATCAAATATCGATGCCAATATCCCAGACAGGGTCTTACACGTA
Found at i:84545465 original size:28 final size:26
Alignment explanation
Indices: 84545409--84545519 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 26
84545399 CAGCATGGCT
* *
84545409 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
84545435 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
84545463 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
84545490 ACCATATCAGATAATTTGTGGCATAGCC
1 ACCAGAACAGATAA--TGTGGCAGAGCC
84545518 AC
1 AC
84545520 TAGGACGCTT
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.51
28 30 0.40
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:84545493 original size:55 final size:54
Alignment explanation
Indices: 84545409--84545519 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 54
84545399 CAGCATGGCT
*
84545409 ACCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCC
1 ACCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCC
* * * *
84545463 ACCAGAACAGATATATGTGGCAGAGCCACCATATCAGATAATTTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCC
84545518 AC
1 AC
84545520 TAGGACGCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 20 0.40
55 30 0.60
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
ACCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCC
Found at i:84549898 original size:9 final size:8
Alignment explanation
Indices: 84549867--84549899 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
84549857 AGCCCCTAAT
84549867 TCACAAAA
1 TCACAAAA
84549875 TCACAAAA
1 TCACAAAA
84549883 TCACAAAA
1 TCACAAAA
84549891 TACACAAAA
1 T-CACAAAA
84549900 GTTCTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (8 bp):
TCACAAAA
Found at i:84554316 original size:16 final size:16
Alignment explanation
Indices: 84554295--84554328 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
84554285 AGCTTCACAA
84554295 TCCTTTCTCACAATAC
1 TCCTTTCTCACAATAC
84554311 TCCTTTCTCACAATAC
1 TCCTTTCTCACAATAC
84554327 TC
1 TC
84554329 AGAGCTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (16 bp):
TCCTTTCTCACAATAC
Found at i:84556410 original size:651 final size:651
Alignment explanation
Indices: 84555168--84556470 Score: 2570
Period size: 651 Copynumber: 2.0 Consensus size: 651
84555158 ATTTCTTTGA
84555168 CATAGACTAAAATGATTTACTTGTAGATCTCTTTCTCACATCTCTAGCTTCTGAGTTAGCTTTTC
1 CATAGACTAAAATGATTTACTTGTAGATCTCTTTCTCACATCTCTAGCTTCTGAGTTAGCTTTTC
84555233 TTTTCTCTTTTCCTAGCTCTTCAGCTTTATACGCTCGTTCAACAAGCACTACAAATTCTTTTATT
66 TTTTCTCTTTTCCTAGCTCTTCAGCTTTATACGCTCGTTCAACAAGCACTACAAATTCTTTTATT
84555298 TCTAAAATCCCGACTAACAAATGGATATATTCATTCAAACCATCCTCGAATCTCTTGCACATGAT
131 TCTAAAATCCCGACTAACAAATGGATATATTCATTCAAACCATCCTCGAATCTCTTGCACATGAT
84555363 TGCTTCAGTCAAAACATATTCTCGTTCATACTAACTCAGTCTCACAAATTCTCACTTTTATTCTG
196 TGCTTCAGTCAAAACATATTCTCGTTCATACTAACTCAGTCTCACAAATTCTCACTTTTATTCTG
84555428 TAACGGACATACGACCTTATTTTAAATCAAGAAACTCTTTGCGTTTCTAATCGATGAATCTCTGA
261 TAACGGACATACGACCTTATTTTAAATCAAGAAACTCTTTGCGTTTCTAATCGATGAATCTCTGA
84555493 CTGATGTATTTCTTCTGAAATTCAGCTTGGAAGAAATCCTAAGTAACTCGTTCTCTCAAAACTAC
326 CTGATGTATTTCTTCTGAAATTCAGCTTGGAAGAAATCCTAAGTAACTCGTTCTCTCAAAACTAC
84555558 GGATATCAACGTCTTCCACCAATGATACGTCGTATCTCTCAAAAGTGAAATGGTAGATTTTAGGC
391 GGATATCAACGTCTTCCACCAATGATACGTCGTATCTCTCAAAAGTGAAATGGTAGATTTTAGGC
84555623 ATTCGACTGGAGTTAATGACAATTCATCGAACACTCGTATCGTATTCTCTAACCAAAATTCAACT
456 ATTCGACTGGAGTTAATGACAATTCATCGAACACTCGTATCGTATTCTCTAACCAAAATTCAACT
84555688 CTCTCGGCATCATCATTAGTAGTAGCACGGGATTTTTTGGCTTCATATTTTCTAATTTTATCCAC
521 CTCTCGGCATCATCATTAGTAGTAGCACGGGATTTTTTGGCTTCATATTTTCTAATTTTATCCAC
*
84555753 CGGAGTCTTATTTAACTGGATTGGATTCGCTTGTGGCACAACAGGAACTTACGGAGGATTGACCG
586 CGGAGTCTTATTTAACTGGATTGGATTCGCTTGTGGCACAACAGGAACTTACAGAGGATTGACCG
84555818 G
651 G
84555819 CATAGACTAAAATGATTTACTTGTAGATCTCTTTCTCACATCTCTAGCTTCTGAGTTAGCTTTTC
1 CATAGACTAAAATGATTTACTTGTAGATCTCTTTCTCACATCTCTAGCTTCTGAGTTAGCTTTTC
*
84555884 TTTTCTCTTTTCCTAGCTCTTCAGCTTTATATGCTCGTTCAACAAGCACTACAAATTCTTTTATT
66 TTTTCTCTTTTCCTAGCTCTTCAGCTTTATACGCTCGTTCAACAAGCACTACAAATTCTTTTATT
84555949 TCTAAAATCCCGACTAACAAATGGATATATTCATTCAAACCATCCTCGAATCTCTTGCACATGAT
131 TCTAAAATCCCGACTAACAAATGGATATATTCATTCAAACCATCCTCGAATCTCTTGCACATGAT
84556014 TGCTTCAGTCAAAACATATTCTCGTTCATACTAACTCAGTCTCACAAATTCTCACTTTTATTCTG
196 TGCTTCAGTCAAAACATATTCTCGTTCATACTAACTCAGTCTCACAAATTCTCACTTTTATTCTG
84556079 TAACGGACATACGACCTTATTTTAAATCAAGAAACTCTTTGCGTTTCTAATCGATGAATCTCTGA
261 TAACGGACATACGACCTTATTTTAAATCAAGAAACTCTTTGCGTTTCTAATCGATGAATCTCTGA
84556144 CTGATGTATTTCTTCTGAAATTCAGCTTGGAAGAAATCCTAAGTAACTCGTTCTCTCAAAACTAC
326 CTGATGTATTTCTTCTGAAATTCAGCTTGGAAGAAATCCTAAGTAACTCGTTCTCTCAAAACTAC
*
84556209 GGATATCAACGTCTTCCACCAATGATATGTCGTATCTCTCAAAAGTGAAATGGTAGATTTTAGGC
391 GGATATCAACGTCTTCCACCAATGATACGTCGTATCTCTCAAAAGTGAAATGGTAGATTTTAGGC
84556274 ATTCGACTGGAGTTAATGACAATTCATCGAACACTCGTATCGTATTCTCTAACCAAAATTCAACT
456 ATTCGACTGGAGTTAATGACAATTCATCGAACACTCGTATCGTATTCTCTAACCAAAATTCAACT
*
84556339 CTCTCGGTATCATCATTAGTAGTAGCACGGGATTTTTTGGCTTCATATTTTCTAATTTTATCCAC
521 CTCTCGGCATCATCATTAGTAGTAGCACGGGATTTTTTGGCTTCATATTTTCTAATTTTATCCAC
84556404 CGGAGTCTTATTTAACTGGATTGGATTCGCTTGTGGCACAACAGGAACTTACAGAGGATTGACCG
586 CGGAGTCTTATTTAACTGGATTGGATTCGCTTGTGGCACAACAGGAACTTACAGAGGATTGACCG
84556469 G
651 G
84556470 C
1 C
84556471 GGTGAAGGTT
Statistics
Matches: 648, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
651 648 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (651 bp):
CATAGACTAAAATGATTTACTTGTAGATCTCTTTCTCACATCTCTAGCTTCTGAGTTAGCTTTTC
TTTTCTCTTTTCCTAGCTCTTCAGCTTTATACGCTCGTTCAACAAGCACTACAAATTCTTTTATT
TCTAAAATCCCGACTAACAAATGGATATATTCATTCAAACCATCCTCGAATCTCTTGCACATGAT
TGCTTCAGTCAAAACATATTCTCGTTCATACTAACTCAGTCTCACAAATTCTCACTTTTATTCTG
TAACGGACATACGACCTTATTTTAAATCAAGAAACTCTTTGCGTTTCTAATCGATGAATCTCTGA
CTGATGTATTTCTTCTGAAATTCAGCTTGGAAGAAATCCTAAGTAACTCGTTCTCTCAAAACTAC
GGATATCAACGTCTTCCACCAATGATACGTCGTATCTCTCAAAAGTGAAATGGTAGATTTTAGGC
ATTCGACTGGAGTTAATGACAATTCATCGAACACTCGTATCGTATTCTCTAACCAAAATTCAACT
CTCTCGGCATCATCATTAGTAGTAGCACGGGATTTTTTGGCTTCATATTTTCTAATTTTATCCAC
CGGAGTCTTATTTAACTGGATTGGATTCGCTTGTGGCACAACAGGAACTTACAGAGGATTGACCG
G
Found at i:84558289 original size:44 final size:41
Alignment explanation
Indices: 84558241--84558340 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 41
84558231 TCCCAAACGT
84558241 GGTCTTACATGTAATCAAATATCAA-TTGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAATA-CAAGTTG--A-TGTCCCAGACAG
* *
84558285 GGTCTTACATGAAATCAAATACAATGTTGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATACAA-GTTGATGTCCCAGACAG
*
84558327 GGTCTTACACGTAA
1 GGTCTTACATGTAA
84558341 ATCATAGGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
42 23 0.46
43 4 0.08
44 20 0.40
45 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (41 bp):
GGTCTTACATGTAATCAAATACAAGTTGATGTCCCAGACAG
Found at i:84558332 original size:42 final size:43
Alignment explanation
Indices: 84558231--84558344 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 43
84558221 AATGCCAACT
* * *
84558231 TCCCAAACGTGGTCTTACATGTAATCAAATATCAATTGCCACTG
1 TCCCAGACATGGTCTTACATGAAATCAAATATCAATTG-CACTG
*
84558275 TCCCAGACAGGGTCTTACATGAAATCAAATA-CAATGTTG-A-TG
1 TCCCAGACATGGTCTTACATGAAATCAAATATCAA--TTGCACTG
*
84558317 TCCCAGACATGGTCTTACACGTAAATCA
1 TCCCAGACATGGTCTTACATG-AAATCA
84558345 TAGGTCGATG
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
42 21 0.34
43 10 0.16
44 27 0.44
45 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGAAATCAAATATCAATTGCACTG
Found at i:84562089 original size:27 final size:27
Alignment explanation
Indices: 84562059--84562287 Score: 293
Period size: 27 Copynumber: 8.5 Consensus size: 27
84562049 GTACTCCCGA
84562059 TTTACAGAATTACTGTTTTACCCTCAG
1 TTTACAGAATTACTGTTTTACCCTCAG
*
84562086 TTTACAGAATTACTATTTTACCCTC-G
1 TTTACAGAATTACTGTTTTACCCTCAG
** *
84562112 ATTTATTGAATTACCGTTTTACCCTCAG
1 -TTTACAGAATTACTGTTTTACCCTCAG
* *
84562140 TTTACAGAATTACTATTTTATCCTC-G
1 TTTACAGAATTACTGTTTTACCCTCAG
*
84562166 ATTTACAGAATTACTGTTTTCCCCTCAG
1 -TTTACAGAATTACTGTTTTACCCTCAG
*
84562194 TTTACAGAATTACTATTTTACCCTC-G
1 TTTACAGAATTACTGTTTTACCCTCAG
* *
84562220 ATTTATAGAATTACCGTTTTACCCTCAG
1 -TTTACAGAATTACTGTTTTACCCTCAG
* * *
84562248 TTTACAGAATTACCGTTTTACCTTCAA
1 TTTACAGAATTACTGTTTTACCCTCAG
84562275 TTTACAGAATTAC
1 TTTACAGAATTAC
84562288 CAAAATACCA
Statistics
Matches: 175, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.02
27 169 0.97
28 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TTTACAGAATTACTGTTTTACCCTCAG
Found at i:84562097 original size:54 final size:54
Alignment explanation
Indices: 84562056--84562288 Score: 367
Period size: 54 Copynumber: 4.3 Consensus size: 54
84562046 AAAGTACTCC
*
84562056 CGATTTACAGAATTACTGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCT
** *
84562110 CGATTTATTGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCT
* *
84562164 CGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCT
* ** *
84562218 CGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCT
*
84562272 CAATTTACAGAATTACC
1 CGATTTACAGAATTACC
84562289 AAAATACCAT
Statistics
Matches: 162, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 162 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCT
Found at i:84562296 original size:27 final size:27
Alignment explanation
Indices: 84562187--84562433 Score: 75
Period size: 27 Copynumber: 9.1 Consensus size: 27
84562177 TACTGTTTTC
* * ***
84562187 CCCTCAGTTTACAGAATTACTATTTTA
1 CCCTCAATTTACAGAATTACCAAAATA
* * ****
84562214 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCAATTTACAGAATTACCAAAATA
* ****
84562241 CCCTCAGTTTACAGAATTACCGTTTTA
1 CCCTCAATTTACAGAATTACCAAAATA
*
84562268 CCTTCAATTTACAGAATTACCAAAATA
1 CCCTCAATTTACAGAATTACCAAAATA
* *** * * *
84562295 CCATTGGTTTATAAAATCACCAAAATA
1 CCCTCAATTTACAGAATTACCAAAATA
* ** * *
84562322 CCC-CTAGTTTGTAAAATTACTAAAATA
1 CCCTC-AATTTACAGAATTACCAAAATA
*** *
84562349 CCCTTGGTTTACAAAATTACCAAAATA
1 CCCTCAATTTACAGAATTACCAAAATA
* ** * *
84562376 CCC-CTAGTTTGTAAAATTACTAAAATA
1 CCCTC-AATTTACAGAATTACCAAAATA
** * * *
84562403 CCCTTTATTTATAAAATTACCGAAATA
1 CCCTCAATTTACAGAATTACCAAAATA
84562430 CCCT
1 CCCT
84562434 TGTAAGGTAG
Statistics
Matches: 173, Mismatches: 43, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
27 173 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (27 bp):
CCCTCAATTTACAGAATTACCAAAATA
Found at i:84562360 original size:81 final size:81
Alignment explanation
Indices: 84562275--84562435 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 81
84562265 TTACCTTCAA
* * * *
84562275 TTTACAGAATTACCAAAATACCATTGGTTTATAAAATCACCAAAATACCC-CTAGTTTGTAAAAT
1 TTTACAAAATTACCAAAATACCACTAGTTTATAAAATCACCAAAATACCCTCTA-TTTATAAAAT
*
84562339 TACTAAAATACCCTTGG
65 TACCAAAATACCCTTGG
* * * * *
84562356 TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTATTTATAAAATT
1 TTTACAAAATTACCAAAATACCACTAGTTTATAAAATCACCAAAATACCCTCTATTTATAAAATT
*
84562421 ACCGAAATACCCTTG
66 ACCAAAATACCCTTG
84562436 TAAGGTAGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 66 0.97
82 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCACTAGTTTATAAAATCACCAAAATACCCTCTATTTATAAAATT
ACCAAAATACCCTTGG
Found at i:84562434 original size:27 final size:27
Alignment explanation
Indices: 84562282--84562434 Score: 148
Period size: 27 Copynumber: 5.7 Consensus size: 27
84562272 CAATTTACAG
* **
84562282 AATTACCAAAATACCATTGGTTTATAA
1 AATTACCAAAATACCCTTTATTTATAA
* * *
84562309 AATCACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTTTA-TTTATAA
* ** *
84562336 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTTATTTATAA
* *
84562363 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTTTA-TTTATAA
*
84562390 AATTACTAAAATACCCTTTATTTATAA
1 AATTACCAAAATACCCTTTATTTATAA
*
84562417 AATTACCGAAATACCCTT
1 AATTACCAAAATACCCTT
84562435 GTAAGGTAGA
Statistics
Matches: 98, Mismatches: 24, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
27 96 0.98
28 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTTATTTATAA
Found at i:84562449 original size:54 final size:54
Alignment explanation
Indices: 84562282--84562432 Score: 239
Period size: 54 Copynumber: 2.8 Consensus size: 54
84562272 CAATTTACAG
* * *
84562282 AATTACCAAAATACCATTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
*
84562336 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
** *
84562390 AATTACTAAAATACCCTTTATTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
84562433 TTGTAAGGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
Found at i:84563102 original size:28 final size:28
Alignment explanation
Indices: 84563070--84563138 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
84563060 GCGTAGATCA
84563070 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
84563098 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
84563126 CGATA-TACCCCTA
1 CGAAATTACCCCTA
84563139 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:84565739 original size:37 final size:35
Alignment explanation
Indices: 84565698--84565783 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 35
84565688 TTGAGCAAAC
* * **
84565698 TTTGCTCTTTATTTTTGAGACTTTGAGCATTCTTTTA
1 TTTGCTCTTTATTTCT-ACA-TTTGAGCAGACTTTTA
*
84565735 TTTGCTCTTATATTTCTACATTTGAGCAGACTTTTC
1 TTTGCTCTT-TATTTCTACATTTGAGCAGACTTTTA
*
84565771 TTTGCCCTTTATT
1 TTTGCTCTTTATT
84565784 CATTTTCTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
35 4 0.10
36 21 0.50
37 11 0.26
38 6 0.14
ACGTcount: A:0.16, C:0.17, G:0.12, T:0.55
Consensus pattern (35 bp):
TTTGCTCTTTATTTCTACATTTGAGCAGACTTTTA
Found at i:84565949 original size:27 final size:27
Alignment explanation
Indices: 84565919--84565972 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
84565909 AAAAGATGTT
*
84565919 AATGTGGCTTATAATGTAGGTAATTTG
1 AATGTGGCTTATAATGGAGGTAATTTG
84565946 AATGTGGCTTATAATGGAGGTAATTTG
1 AATGTGGCTTATAATGGAGGTAATTTG
84565973 CATTAAGCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.39
Consensus pattern (27 bp):
AATGTGGCTTATAATGGAGGTAATTTG
Found at i:84571729 original size:43 final size:43
Alignment explanation
Indices: 84571682--84571893 Score: 243
Period size: 43 Copynumber: 5.0 Consensus size: 43
84571672 TGCCGAGATG
* *
84571682 TGATTATATGTAAGACCATGTCTGGGACATCGGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
84571725 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
*
84571768 TGATTACATGTAAGACCATGTCTGGGACATTGGCA-T-CATTAA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATT-A
* * * * * * *
84571810 TCGATTTCGTGTAAGACCCTGTCTGGGGCAGTGGCATCG-ATATG
1 T-GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TA
* * * *
84571854 TGGTAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
84571894 GAGTTAAATA
Statistics
Matches: 144, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.02
42 10 0.07
43 127 0.88
44 3 0.02
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
Found at i:84576802 original size:30 final size:30
Alignment explanation
Indices: 84576766--84576825 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
84576756 CGATGATTGT
84576766 TTAAGATTCGTAGGCCGAATATGTGTTCTG
1 TTAAGATTCGTAGGCCGAATATGTGTTCTG
*
84576796 TTAAGATTCGTTGGCCGAATATGTGTTCTG
1 TTAAGATTCGTAGGCCGAATATGTGTTCTG
84576826 AGAAATTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (30 bp):
TTAAGATTCGTAGGCCGAATATGTGTTCTG
Found at i:84579409 original size:43 final size:43
Alignment explanation
Indices: 84579348--84579479 Score: 167
Period size: 43 Copynumber: 3.1 Consensus size: 43
84579338 TGTTATTCCA
** * *
84579348 TGTAAGACCATGTTTGGGACATTTTCATTG-TATTATGATTACG
1 TGTAAGACCATGTTTGGGACATTGGCATCGTTATT-CGATTACG
*
84579391 TGTAAGACCATGTTTGGGACATTGGCATCGTTATTCGATTATG
1 TGTAAGACCATGTTTGGGACATTGGCATCGTTATTCGATTACG
* * * *
84579434 TGTAAGACCATGTCTAGGACATTGGCATCGTTATTTGGTTACG
1 TGTAAGACCATGTTTGGGACATTGGCATCGTTATTCGATTACG
84579477 TGT
1 TGT
84579480 GAGGAAATGC
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 74 0.95
44 4 0.05
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATTGGCATCGTTATTCGATTACG
Found at i:84580485 original size:16 final size:16
Alignment explanation
Indices: 84580453--84580491 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
84580443 ACTAACTGAT
* *
84580453 AAAAAATAAACAGCTA
1 AAAAAATAAAAAACTA
84580469 AAAAAATAAAAAACTA
1 AAAAAATAAAAAACTA
84580485 AACAAAA
1 AA-AAAA
84580492 GAATTTCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAAATAAAAAACTA
Found at i:84588006 original size:22 final size:23
Alignment explanation
Indices: 84587958--84588011 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
84587948 AAAAAATTAT
* * *
84587958 GCCAGTAAAAATTCAGACAAGTT
1 GCCAGTAAAAATGCAGACAAATC
*
84587981 GCCAGTAAAAATGC-GATAAATC
1 GCCAGTAAAAATGCAGACAAATC
84588003 GCCATGTAA
1 GCCA-GTAA
84588012 CATCCTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (23 bp):
GCCAGTAAAAATGCAGACAAATC
Found at i:84588062 original size:20 final size:20
Alignment explanation
Indices: 84588037--84588074 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
84588027 GTTTATTCGC
*
84588037 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
84588057 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
84588075 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:84589735 original size:28 final size:28
Alignment explanation
Indices: 84589703--84589771 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
84589693 GCGTAGATCA
84589703 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
84589731 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
84589759 CGATA-TACCCCTA
1 CGAAATTACCCCTA
84589772 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:84597703 original size:28 final size:28
Alignment explanation
Indices: 84597671--84597739 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
84597661 GCGTAGATCA
84597671 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
84597699 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
84597727 CGATA-TACCCCTA
1 CGAAATTACCCCTA
84597740 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:84604025 original size:20 final size:20
Alignment explanation
Indices: 84604000--84604037 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
84603990 GTTTATTCGC
*
84604000 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
84604020 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
84604038 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:84605697 original size:28 final size:28
Alignment explanation
Indices: 84605665--84605733 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
84605655 GCGTAGATCA
84605665 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
84605693 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
84605721 CGATA-TACCCCTA
1 CGAAATTACCCCTA
84605734 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:84612013 original size:20 final size:20
Alignment explanation
Indices: 84611988--84612025 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
84611978 GTTTATTCGC
*
84611988 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
84612008 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
84612026 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:84613684 original size:28 final size:28
Alignment explanation
Indices: 84613652--84613720 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
84613642 GCGTAGATCA
84613652 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
84613680 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
84613708 CGATA-TACCCCTA
1 CGAAATTACCCCTA
84613721 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:84629807 original size:4 final size:4
Alignment explanation
Indices: 84629798--84629824 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
84629788 ATTATGCAAA
84629798 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
84629825 AGATTCCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:84633516 original size:25 final size:25
Alignment explanation
Indices: 84633487--84633536 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
84633477 GAAATAAATG
84633487 ATTTAAATAAAACAAAAGAGTTCTA
1 ATTTAAATAAAACAAAAGAGTTCTA
84633512 ATTTAAATAAAACAAAAGAGTTCTA
1 ATTTAAATAAAACAAAAGAGTTCTA
84633537 GTGCATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (25 bp):
ATTTAAATAAAACAAAAGAGTTCTA
Found at i:84636902 original size:49 final size:49
Alignment explanation
Indices: 84636787--84636961 Score: 165
Period size: 49 Copynumber: 3.6 Consensus size: 49
84636777 AGATGCCAAC
* * * ** * *
84636787 GCCATGTCCGAGACATGGTCTTACACAGGCTAGC--ATATCAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCAAGGCCGAT
* * * **
84636835 GCCATGTCCTAGATAGGTCTTACACTGACTTTCATATATTGAGGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAAGGCCGAT
* * * * * *
84636884 GCCGTGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCAATGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAAGGCCGAT
84636933 GCCATGTCCCAGACAGGTCTTACACTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGAC
84636962 ACACAACAAG
Statistics
Matches: 101, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
47 14 0.14
48 13 0.13
49 74 0.73
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAAGGCCGAT
Found at i:84637548 original size:20 final size:17
Alignment explanation
Indices: 84637511--84637558 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
84637501 CTATAGCAAC
84637511 TCACAATTTAAATTATT
1 TCACAATTTAAATTATT
84637528 TCACACATTTATAACTTATT
1 TCACA-ATTTA-AA-TTATT
*
84637548 TTACAACTTTA
1 TCACAA-TTTA
84637559 CAAAATAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 3 0.12
20 13 0.50
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.46
Consensus pattern (17 bp):
TCACAATTTAAATTATT
Found at i:84646500 original size:42 final size:43
Alignment explanation
Indices: 84646378--84646526 Score: 243
Period size: 43 Copynumber: 3.6 Consensus size: 43
84646368 GGCATTACGT
*
84646378 CTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
*
84646421 CTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
*
84646464 CTGCTAGGCACGAA-GCCCGAATACACATCACCGGCACTAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
84646506 CTG-TA--CACGAAGGCCCGAATA
1 CTGCTAGGCACGAAGGCCCGAATA
84646527 TAATACCAGC
Statistics
Matches: 101, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
39 6 0.06
40 9 0.09
41 2 0.02
42 29 0.29
43 55 0.54
ACGTcount: A:0.32, C:0.34, G:0.23, T:0.11
Consensus pattern (43 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
Found at i:84646546 original size:38 final size:39
Alignment explanation
Indices: 84646386--84646546 Score: 146
Period size: 43 Copynumber: 3.9 Consensus size: 39
84646376 GTCTGCTAGG
* * *
84646386 CACGAAGGCCCAAATACACATCACCGGCACGAAGCCTGCTA
1 CACGAA-GCCCGAATACACATCACCAGCACTAAGCCTG-TA
** *
84646427 GGCACGAAGGCCCGAATACACATCACTGGCACGAAGCCTGCTA
1 --CACGAA-GCCCGAATACACATCACCAGCACTAAGCCTG-TA
*
84646470 GGCACGAAGCCCGAATACACATCACCGGCACTAAGCCTGTA
1 --CACGAAGCCCGAATACACATCACCAGCACTAAGCCTGTA
* *
84646511 CACGAAGGCCCGAATATA-AT-ACCAGCACTAGGCCTG
1 CACGAA-GCCCGAATACACATCACCAGCACTAAGCCTG
84646547 CGGATTTATC
Statistics
Matches: 110, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
38 14 0.13
39 8 0.07
40 10 0.09
41 2 0.02
42 29 0.26
43 47 0.43
ACGTcount: A:0.32, C:0.34, G:0.22, T:0.12
Consensus pattern (39 bp):
CACGAAGCCCGAATACACATCACCAGCACTAAGCCTGTA
Found at i:84646571 original size:37 final size:38
Alignment explanation
Indices: 84646519--84646601 Score: 123
Period size: 37 Copynumber: 2.2 Consensus size: 38
84646509 TACACGAAGG
* * *
84646519 CCCGAATATAATACCAGCACTAGGCCTGC-GGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
*
84646556 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
84646594 CCCGAATA
1 CCCGAATA
84646602 CACATCAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 26 0.65
38 14 0.35
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:84651590 original size:41 final size:43
Alignment explanation
Indices: 84651420--84651570 Score: 270
Period size: 43 Copynumber: 3.6 Consensus size: 43
84651410 CCGCATTACG
84651420 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
*
84651463 CTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
*
84651506 CTGCTAGGCACGAA-GCCC-AATACACATCACCGGCACTAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
84651547 CTGCTAGGCACGAAGGCCCGAATA
1 CTGCTAGGCACGAAGGCCCGAATA
84651571 TAATACCAGC
Statistics
Matches: 103, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
41 35 0.34
42 8 0.08
43 60 0.58
ACGTcount: A:0.30, C:0.34, G:0.25, T:0.11
Consensus pattern (43 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
Found at i:84651626 original size:36 final size:37
Alignment explanation
Indices: 84651563--84651644 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 37
84651553 GGCACGAAGG
* * *
84651563 CCCGAATATAATACCAGCACTAGGCCTG-GGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGAGGATTTAA
*
84651599 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTG-AGGATTTAA
84651637 CCCGAATA
1 CCCGAATA
84651645 CACATCAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 25 0.64
38 14 0.36
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.21
Consensus pattern (37 bp):
CCCGAATATAATACCAGCACGAAGCCTGAGGATTTAA
Found at i:84659919 original size:7 final size:7
Alignment explanation
Indices: 84659904--84659949 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
84659894 AAATAAAAGT
84659904 AAAGTCC
1 AAAGTCC
*
84659911 AATGTCC
1 AAAGTCC
84659918 AAAGTCC
1 AAAGTCC
84659925 AAAGTCC
1 AAAGTCC
84659932 AAAAGTCC
1 -AAAGTCC
*
84659940 ATAGTCC
1 AAAGTCC
84659947 AAA
1 AAA
84659950 TAGTTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.43, C:0.26, G:0.13, T:0.17
Consensus pattern (7 bp):
AAAGTCC
Found at i:84659938 original size:15 final size:15
Alignment explanation
Indices: 84659904--84659949 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
84659894 AAATAAAAGT
*
84659904 AAAGTCCAATGTCC-
1 AAAGTCCAAAGTCCA
84659918 AAAGTCCAAAGTCCA
1 AAAGTCCAAAGTCCA
*
84659933 AAAGTCCATAGTCCA
1 AAAGTCCAAAGTCCA
84659948 AA
1 AA
84659950 TAGTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 13 0.45
15 16 0.55
ACGTcount: A:0.43, C:0.26, G:0.13, T:0.17
Consensus pattern (15 bp):
AAAGTCCAAAGTCCA
Found at i:84660375 original size:47 final size:47
Alignment explanation
Indices: 84660324--84660483 Score: 212
Period size: 47 Copynumber: 3.4 Consensus size: 47
84660314 TTATAGTAAT
*
84660324 GCAGATAAACTGTCTATAATCAAAATTGTGGACAAGCCACCAAAATC
1 GCAGATAAACTGTCAATAATCAAAATTGTGGACAAGCCACCAAAATC
* *
84660371 GCAGATATACTGTCAATAATCAAAATTGTGGAGAAGCCACCAAAATC
1 GCAGATAAACTGTCAATAATCAAAATTGTGGACAAGCCACCAAAATC
* * ** * * *
84660418 TCAGATATACTACCAATAATTAAAATTGTGGACAAACCAACAAAATC
1 GCAGATAAACTGTCAATAATCAAAATTGTGGACAAGCCACCAAAATC
* *
84660465 ACAGATAAACTGCCAATAA
1 GCAGATAAACTGTCAATAA
84660484 CTTCCATCTT
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (47 bp):
GCAGATAAACTGTCAATAATCAAAATTGTGGACAAGCCACCAAAATC
Found at i:84664566 original size:35 final size:35
Alignment explanation
Indices: 84664526--84664594 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
84664516 TTATATGTAC
*
84664526 AATTTAGATGTAGGAAATAACCACATGCTTGTTAT
1 AATTTAGATGTAGGAAATAACCAAATGCTTGTTAT
* *
84664561 AATTTAGATGTAGGAAATAATCAAATGTTTGTTA
1 AATTTAGATGTAGGAAATAACCAAATGCTTGTTA
84664595 ATGCTTGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.36
Consensus pattern (35 bp):
AATTTAGATGTAGGAAATAACCAAATGCTTGTTAT
Found at i:84666618 original size:15 final size:15
Alignment explanation
Indices: 84666598--84666633 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
84666588 AAGGGAAAGG
*
84666598 AATGATCCTGGTCTC
1 AATGATCATGGTCTC
*
84666613 AATGATCATGGTTTC
1 AATGATCATGGTCTC
84666628 AATGAT
1 AATGAT
84666634 AATCCAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (15 bp):
AATGATCATGGTCTC
Found at i:84673913 original size:42 final size:43
Alignment explanation
Indices: 84673850--84673959 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 43
84673840 CGATATGTGT
* * *
84673850 TTTCGTGTAAGACCACGTCTGGGAC-GATGGCATC-GTATTTGA
1 TTTCGTGTAAAACCACATCTGGGACAG-TGGCATCAATATTTGA
84673892 TTTCGTGTAAAACC-CTATCTGGGACAGTGGCATCAATATTTGA
1 TTTCGTGTAAAACCAC-ATCTGGGACAGTGGCATCAATATTTGA
* * * *
84673935 TTACATGTAAGACCACGTCTGGGAC
1 TTTCGTGTAAAACCACATCTGGGAC
84673960 GTTAGCATTG
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 28 0.49
43 27 0.47
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
TTTCGTGTAAAACCACATCTGGGACAGTGGCATCAATATTTGA
Found at i:84673956 original size:43 final size:42
Alignment explanation
Indices: 84673855--84673960 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 42
84673845 TGTGTTTTCG
* * *
84673855 TGTAAGACCACGTCTGGGACGATGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGACGATGGCATCATATTTGATTACA
* *
84673897 TGTAAAACC-CTATCTGGGAC-AGTGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACGA-TGGCATC-ATATTTGATTACA
84673940 TGTAAGACCACGTCTGGGACG
1 TGTAAGACCACGTCTGGGACG
84673961 TTAGCATTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
41 2 0.04
42 23 0.44
43 26 0.50
44 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGATGGCATCATATTTGATTACA
Found at i:84676198 original size:24 final size:24
Alignment explanation
Indices: 84676140--84676224 Score: 93
Period size: 24 Copynumber: 3.5 Consensus size: 24
84676130 AAGGTTATGC
84676140 GGCACTATGTGTGC-A-AAAACTAAGT
1 GGCACTATGTGTGCGAGAAAAC--A-T
**
84676165 GGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCGAGAAAACAT
* *
84676189 TGCACTATGTGTGCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAACAT
84676213 GGCACTATGTGT
1 GGCACTATGTGT
84676225 ACGAATAAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
24 32 0.63
25 15 0.29
26 1 0.02
27 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACAT
Found at i:84683776 original size:49 final size:48
Alignment explanation
Indices: 84683700--84683811 Score: 138
Period size: 49 Copynumber: 2.3 Consensus size: 48
84683690 AGAAATTTCA
* * **
84683700 GCACTATGTGTGCAAGGTTATGCGGCACTATGTGTGC-A-AAAACTAAGTG
1 GCACTATGTGTGCGAGATTACACGGCACTATGTGTGCGAGAAAAC---GTG
*
84683749 GCACTATGTGTGCGAGATTACATGGCACTATGTGTGCGAGAAAACGTG
1 GCACTATGTGTGCGAGATTACACGGCACTATGTGTGCGAGAAAACGTG
84683797 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
84683812 ATAAGTAAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
48 18 0.32
49 32 0.57
50 1 0.02
51 5 0.09
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
GCACTATGTGTGCGAGATTACACGGCACTATGTGTGCGAGAAAACGTG
Found at i:84683779 original size:24 final size:24
Alignment explanation
Indices: 84683723--84683811 Score: 110
Period size: 24 Copynumber: 3.7 Consensus size: 24
84683713 AAGGTTATGC
84683723 GGCACTATGTGTGC-A-AAAACTAAGT
1 GGCACTATGTGTGCGAGAAAAC--A-T
**
84683748 GGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCGAGAAAACAT
*
84683772 GGCACTATGTGTGCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAACAT
84683796 GGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
84683812 ATAAGTAAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
24 38 0.67
25 15 0.26
26 1 0.02
27 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACAT
Found at i:84683826 original size:49 final size:48
Alignment explanation
Indices: 84683723--84683835 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 48
84683713 AAGGTTATGC
* *
84683723 GGCACTATGTGTGC-AAAAACTAAGTGGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCGAAAAAC--AGTGGCACTATGTGTGCGAGATAACAA
*
84683772 GGCACTATGTGTGCGAGAAAAC-GTGGCACTATGTGTGCGA-ATAAGTAA
1 GGCACTATGTGTGCGA-AAAACAGTGGCACTATGTGTGCGAGATAA-CAA
84683820 GAGCACTATGTGTGCG
1 G-GCACTATGTGTGCG
84683836 GACTTTCAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
47 3 0.05
48 20 0.35
49 28 0.49
50 1 0.02
51 5 0.09
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (48 bp):
GGCACTATGTGTGCGAAAAACAGTGGCACTATGTGTGCGAGATAACAA
Found at i:84686776 original size:33 final size:33
Alignment explanation
Indices: 84686749--84686838 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
84686739 ATGCTCACTC
*
84686749 GAGCCAATCCATCCATCACACCAATGCTCATAA
1 GAGCCAATCCAACCATCACACCAATGCTCATAA
*
84686782 GAGCTAATCCAACCATCACACCAATGCTCATAA
1 GAGCCAATCCAACCATCACACCAATGCTCATAA
* * *
84686815 GAGCTAATCCAACCAGCACGCCAA
1 GAGCCAATCCAACCATCACACCAA
84686839 AAATAGAGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.38, C:0.36, G:0.11, T:0.16
Consensus pattern (33 bp):
GAGCCAATCCAACCATCACACCAATGCTCATAA
Found at i:84691585 original size:26 final size:26
Alignment explanation
Indices: 84691514--84691585 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
84691504 TAGCCCAAGT
*
84691514 CAGTC-TTTTACCC-ACAAGGGCAAAA
1 CAGTCATTTTACCCTA-AAAGGCAAAA
* * **
84691539 CATTCATTTTACTCTTTAAGGCAAAA
1 CAGTCATTTTACCCTAAAAGGCAAAA
*
84691565 CGGTCATTTTACCCTAAAAGG
1 CAGTCATTTTACCCTAAAAGG
84691586 GTATTTTGGT
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
25 4 0.11
26 31 0.89
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (26 bp):
CAGTCATTTTACCCTAAAAGGCAAAA
Found at i:84691604 original size:27 final size:27
Alignment explanation
Indices: 84691574--84691731 Score: 203
Period size: 27 Copynumber: 5.9 Consensus size: 27
84691564 ACGGTCATTT
* * * *
84691574 TACCCTAAAAGGGTATTTTGGTAGTCC
1 TACCCTACAGGGGTATTTCGGTAATCC
*
84691601 TACCCTACAGGGGTATTTCAGTAATCC
1 TACCCTACAGGGGTATTTCGGTAATCC
*
84691628 TACCC-ATAGGGGTATTTCGGTAATCC
1 TACCCTACAGGGGTATTTCGGTAATCC
*
84691654 TACCCTACAGGGGTATTTCAGTAATCC
1 TACCCTACAGGGGTATTTCGGTAATCC
* * *
84691681 TACCCCATAGGGGTATTTCGATAATCC
1 TACCCTACAGGGGTATTTCGGTAATCC
*
84691708 TA-CCTACAGGGGTATTTTGGTAAT
1 TACCCTACAGGGGTATTTCGGTAAT
84691732 TTTACAAATT
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
26 42 0.37
27 71 0.63
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGGTAATCC
Found at i:84691655 original size:53 final size:54
Alignment explanation
Indices: 84691584--84691724 Score: 241
Period size: 53 Copynumber: 2.6 Consensus size: 54
84691574 TACCCTAAAA
* *
84691584 GGGTATTTTGGTAGTCCTACCCTACAGGGGTATTTCAGTAATCCTA-CCCATAG
1 GGGTATTTCGGTAATCCTACCCTACAGGGGTATTTCAGTAATCCTACCCCATAG
84691637 GGGTATTTCGGTAATCCTACCCTACAGGGGTATTTCAGTAATCCTACCCCATAG
1 GGGTATTTCGGTAATCCTACCCTACAGGGGTATTTCAGTAATCCTACCCCATAG
*
84691691 GGGTATTTCGATAATCCTA-CCTACAGGGGTATTT
1 GGGTATTTCGGTAATCCTACCCTACAGGGGTATTT
84691725 TGGTAATTTT
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 59 0.70
54 25 0.30
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (54 bp):
GGGTATTTCGGTAATCCTACCCTACAGGGGTATTTCAGTAATCCTACCCCATAG
Found at i:84691707 original size:80 final size:80
Alignment explanation
Indices: 84691574--84691731 Score: 210
Period size: 80 Copynumber: 2.0 Consensus size: 80
84691564 ACGGTCATTT
** * * *
84691574 TACCCTAAAAGGGTATTTTGGTAGTCCTACCCTACAGGGGTATTTCAGTAATCCTACCCATAGGG
1 TACCCTAAAAGGGTATTTCAGTAATCCTACCCCACAGGGGTATTTCAGTAATCCTACCCACAGGG
84691639 GTATTTCGGTAATCC
66 GTATTTCGGTAATCC
* * * *
84691654 TACCCTACAGGGGTATTTCAGTAATCCTACCCCATAGGGGTATTTC-GATAATCCTACCTACAGG
1 TACCCTAAAAGGGTATTTCAGTAATCCTACCCCACAGGGGTATTTCAG-TAATCCTACCCACAGG
*
84691718 GGTATTTTGGTAAT
65 GGTATTTCGGTAAT
84691732 TTTACAAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 66 0.99
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (80 bp):
TACCCTAAAAGGGTATTTCAGTAATCCTACCCCACAGGGGTATTTCAGTAATCCTACCCACAGGG
GTATTTCGGTAATCC
Found at i:84694556 original size:25 final size:25
Alignment explanation
Indices: 84694527--84694574 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84694517 TTATAATATG
** *
84694527 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
84694552 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
84694575 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:84694637 original size:11 final size:10
Alignment explanation
Indices: 84694605--84694658 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
84694595 CATGAGATTT
84694605 TGATAT-ACA
1 TGATATGACA
*
84694614 TGATTTGACA
1 TGATATGACA
84694624 TGATATGCACA
1 TGATATG-ACA
*
84694635 TGATATG-TA
1 TGATATGACA
84694644 TGATATGCACA
1 TGATATG-ACA
84694655 TGAT
1 TGAT
84694659 GTATTCAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:84694787 original size:24 final size:24
Alignment explanation
Indices: 84694704--84694787 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
84694694 GGAGGAAGTG
* **
84694704 CAAAAGGGCTATGCCCCAGTTTGC
1 CAAAAGGGCTTTGCCCCAGTTTAT
84694728 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
84694753 CACAAAGGGCTTTGCCCCAG-TTAT
1 CA-AAAGGGCTTTGCCCCAGTTTAT
*
84694777 TAAAAGAGGCT
1 CAAAAG-GGCT
84694788 AGGCCTCTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.08
24 11 0.21
25 38 0.72
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:84695073 original size:31 final size:31
Alignment explanation
Indices: 84694994--84695074 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
84694984 ACCGTTTGCA
* * * *
84694994 GTAAAGGCTTTGGCTCAATGATATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGACATGAATAAT
* *
84695025 GAAAAGGCTTCGGCCCAGTGACATGGATAAT
1 GTAAAGGCTTCGGCCCAGTGACATGAATAAT
84695056 GTAAAGGCTTCGGCCCAGT
1 GTAAAGGCTTCGGCCCAGT
84695075 ATATGCTGAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (31 bp):
GTAAAGGCTTCGGCCCAGTGACATGAATAAT
Found at i:84698785 original size:40 final size:40
Alignment explanation
Indices: 84698672--84698928 Score: 364
Period size: 40 Copynumber: 6.5 Consensus size: 40
84698662 AAGCCAAGTA
* * *
84698672 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
84698710 CCTTCGGGACATAG-CCGGATATAGTAACTTGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
84698749 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84698789 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84698829 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
84698869 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
84698910 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
84698929 TTATCATCCA
Statistics
Matches: 201, Mismatches: 11, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.00
38 27 0.13
39 17 0.08
40 128 0.64
41 24 0.12
42 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:84706218 original size:28 final size:28
Alignment explanation
Indices: 84706172--84706240 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
84706162 TTTAAAACCC
*
84706172 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
84706199 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
84706227 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
84706241 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:84708066 original size:19 final size:18
Alignment explanation
Indices: 84708029--84708072 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
84708019 ATACATACAG
84708029 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
84708046 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
84708065 TACTAATT
1 TAATAATT
84708073 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:84710477 original size:28 final size:28
Alignment explanation
Indices: 84710431--84710499 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
84710421 TTTAAAACCC
*
84710431 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
84710458 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
84710486 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
84710500 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:84712325 original size:19 final size:18
Alignment explanation
Indices: 84712288--84712331 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
84712278 ATACATACAG
84712288 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
84712305 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
84712324 TACTAATT
1 TAATAATT
84712332 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:84714345 original size:11 final size:10
Alignment explanation
Indices: 84714313--84714366 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
84714303 CATAAGATTT
84714313 TGATAT-ACA
1 TGATATGACA
*
84714322 TGATTTGACA
1 TGATATGACA
84714332 TGATATGCACA
1 TGATATG-ACA
*
84714343 TGATATG-TA
1 TGATATGACA
84714352 TGATATGCACA
1 TGATATG-ACA
84714363 TGAT
1 TGAT
84714367 GTATTCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:84714466 original size:25 final size:25
Alignment explanation
Indices: 84714413--84714482 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
84714403 GAGGAAGTGC
** *
84714413 AAAAGGGCTTTGCCCCAACTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTA
84714438 AAAAGGGCTTTGCCCCAGTTTA-TCA
1 AAAAGGGCTTTGCCCCAGTTTACT-A
* *
84714463 AAAAGGGCTTTACCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
84714483 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTA
Found at i:84721250 original size:24 final size:24
Alignment explanation
Indices: 84721218--84721267 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
84721208 AGGCTCGGGA
*
84721218 GTATGTTTCCACCGAAGAAATTAT
1 GTATGTTTCCACCAAAGAAATTAT
84721242 GTATGTTTCCACCAAAGAAATTAT
1 GTATGTTTCCACCAAAGAAATTAT
84721266 GT
1 GT
84721268 GCAAGTGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (24 bp):
GTATGTTTCCACCAAAGAAATTAT
Found at i:84736254 original size:124 final size:122
Alignment explanation
Indices: 84736034--84736255 Score: 293
Period size: 124 Copynumber: 1.8 Consensus size: 122
84736024 GAATTATGTG
* * * *
84736034 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATACCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
84736099 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
84736156 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
84736220 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
84736256 TCCGGGTTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
122 16 0.19
124 65 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:84736299 original size:40 final size:40
Alignment explanation
Indices: 84736214--84736364 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
84736204 AATTGAATGA
* * * *
84736214 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
84736254 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
84736295 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
84736334 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
84736365 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Done.