Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 31 of 189
Found at i:9809567 original size:23 final size:23
Alignment explanation
Indices: 9809492--9809566 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
9809482 ATAAGTGCCA
*
9809492 CACTGAAATCTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
9809515 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
* *
9809538 CACTGATATGTAGCCAAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
9809561 CACTGA
1 CACTGA
9809567 TCAATAACAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:9813680 original size:19 final size:20
Alignment explanation
Indices: 9813656--9813702 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
9813646 TGTGAAAATC
*
9813656 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
9813675 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
9813695 -AATGCAAA
1 TAATGCAAA
9813703 AAGAAAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGCAATG
Found at i:9815908 original size:2 final size:2
Alignment explanation
Indices: 9815895--9815989 Score: 63
Period size: 2 Copynumber: 49.0 Consensus size: 2
9815885 ATAAAAATGC
* * * * *
9815895 AT AT AT AG AT AT AT AT AT AT AG AT AT GT AA AT AA AT -T AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
9815935 AT AT AT AT AT A- AT AT AT AT A- AGT AT GT AT AT GT AT AT GT AC
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
*
9815976 AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT
9815990 GAATTAAAAT
Statistics
Matches: 68, Mismatches: 20, Indels: 10
0.69 0.20 0.10
Matches are distributed among these distances:
1 4 0.06
2 63 0.93
3 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.08, T:0.43
Consensus pattern (2 bp):
AT
Found at i:9815948 original size:21 final size:21
Alignment explanation
Indices: 9815924--9815965 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9815914 TAGATATGTA
9815924 AATAAATTATAA-TATATATAT
1 AATAAA-TATAAGTATATATAT
* *
9815945 AATATATATAAGTATGTATAT
1 AATAAATATAAGTATATATAT
9815966 GTATATGTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
AATAAATATAAGTATATATAT
Found at i:9816168 original size:15 final size:16
Alignment explanation
Indices: 9816148--9816180 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
9816138 TTTGACATAG
9816148 ATAATAATATATA-AA
1 ATAATAATATATATAA
9816163 ATAATAATATATATAA
1 ATAATAATATATATAA
9816179 AT
1 AT
9816181 TTAAACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATAATATATATAA
Found at i:9821268 original size:23 final size:22
Alignment explanation
Indices: 9821227--9821286 Score: 84
Period size: 23 Copynumber: 2.7 Consensus size: 22
9821217 ATCTGCCGAC
*
9821227 ATTTTTATAATTTAATTTTTTT
1 ATTTTTAAAATTTAATTTTTTT
*
9821249 ATTTTTAAAATATTATTTTTTTT
1 ATTTTTAAAAT-TTAATTTTTTT
*
9821272 ATTTTTCAAATTTAA
1 ATTTTTAAAATTTAA
9821287 AAATTTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 13 0.39
23 20 0.61
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTTAAAATTTAATTTTTTT
Found at i:9821347 original size:13 final size:12
Alignment explanation
Indices: 9821312--9821349 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
9821302 TGGCATCATC
9821312 ATTAAA-TTTTT
1 ATTAAATTTTTT
9821323 ATTAAATTTTTT
1 ATTAAATTTTTT
9821335 ATTAAATTATTTT
1 ATTAAATT-TTTT
9821348 AT
1 AT
9821350 GCGATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 6 0.24
12 13 0.52
13 6 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTAAATTTTTT
Found at i:9821562 original size:46 final size:44
Alignment explanation
Indices: 9821495--9821601 Score: 133
Period size: 46 Copynumber: 2.4 Consensus size: 44
9821485 TTAACGATAC
* * *
9821495 GTTTGGTTCATTGTAATGGAATAGAACTGTAATAAGTAATTCAACT
1 GTTTGGTTGAATGGAATGGAATAGAACTGTAAT-AGT-ATTCAACT
***
9821541 GTTTGGTTGAATGGAATGGAATAGAACTGTAATAGTATTCTTGT
1 GTTTGGTTGAATGGAATGGAATAGAACTGTAATAGTATTCAACT
*
9821585 ATTTGGTTGAATGGAAT
1 GTTTGGTTGAATGGAAT
9821602 AATGTTGTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 21 0.39
45 3 0.06
46 30 0.56
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (44 bp):
GTTTGGTTGAATGGAATGGAATAGAACTGTAATAGTATTCAACT
Found at i:9821778 original size:17 final size:17
Alignment explanation
Indices: 9821752--9821784 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9821742 AATTATTATT
*
9821752 AAATATAATTTAATAAA
1 AAATAAAATTTAATAAA
9821769 AAATAAAATTTAATAA
1 AAATAAAATTTAATAA
9821785 TATTCGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAAAATTTAATAAA
Found at i:9822091 original size:153 final size:153
Alignment explanation
Indices: 9821925--9822247 Score: 628
Period size: 153 Copynumber: 2.1 Consensus size: 153
9821915 ATTATTCTAC
* *
9821925 AATAATTGAATTGGTAGTAAAATATAATAATTACATCTTTTAGCCCATTGAGATAATAAGAAAAA
1 AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
9821990 TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTTAAATTAAATATTA
66 TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTTAAATTAAATATTA
9822055 ATTAATTATTTGTTAAGAAAAAT
131 ATTAATTATTTGTTAAGAAAAAT
9822078 AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
1 AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
9822143 TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTTAAATTAAATATTA
66 TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTTAAATTAAATATTA
9822208 ATTAATTATTTGTTAAGAAAAAT
131 ATTAATTATTTGTTAAGAAAAAT
9822231 AATAATTGAATTGGTAA
1 AATAATTGAATTGGTAA
9822248 CAATTATTTG
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 168 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (153 bp):
AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTTAAATTAAATATTA
ATTAATTATTTGTTAAGAAAAAT
Found at i:9823465 original size:20 final size:20
Alignment explanation
Indices: 9823440--9823478 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9823430 AAAACATGTC
*
9823440 GACTCATATGTTGGACTGTA
1 GACTCATATGTTAGACTGTA
9823460 GACTCATATGTTAGACTGT
1 GACTCATATGTTAGACTGT
9823479 TGTTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (20 bp):
GACTCATATGTTAGACTGTA
Found at i:9823617 original size:23 final size:24
Alignment explanation
Indices: 9823591--9823643 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
9823581 TGTAATTTTA
*
9823591 TAAAATTAA-AAA-TTATTTAAAAT
1 TAAAATTAATAAATTTA-TAAAAAT
*
9823614 TAAAA-AAATAAATTTATAAAAAT
1 TAAAATTAATAAATTTATAAAAAT
9823637 TAAAATT
1 TAAAATT
9823644 TTATAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
22 2 0.08
23 19 0.79
24 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TAAAATTAATAAATTTATAAAAAT
Found at i:9823646 original size:17 final size:17
Alignment explanation
Indices: 9823584--9823661 Score: 59
Period size: 17 Copynumber: 4.3 Consensus size: 17
9823574 GCTGACATGT
*
9823584 AATTTTATAAAATTAAA
1 AATTTTATAAAAATAAA
*
9823601 AATTATT-TAAAATTAAAAA
1 AATT-TTATAAAA--ATAAA
*
9823620 AATAAATTTATAAAAATTAA
1 AAT---TTTATAAAAATAAA
*
9823640 AATTTTATAAAAGTAAA
1 AATTTTATAAAAATAAA
9823657 AATTT
1 AATTT
9823662 CTGAAAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
17 26 0.54
18 2 0.04
19 6 0.12
20 6 0.12
21 2 0.04
22 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
AATTTTATAAAAATAAA
Found at i:9827568 original size:29 final size:29
Alignment explanation
Indices: 9827505--9827570 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
9827495 TGAATAGTAA
*
9827505 AGTGACTATTTTGTAACTTTTTATAATTG
1 AGTGACAATTTTGTAACTTTTTATAATTG
* *
9827534 AATGACAATTTTGTAACTTTTTATAGTTG
1 AGTGACAATTTTGTAACTTTTTATAATTG
*
9827563 GGTGACAA
1 AGTGACAA
9827571 AAAAAAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (29 bp):
AGTGACAATTTTGTAACTTTTTATAATTG
Found at i:9835701 original size:15 final size:15
Alignment explanation
Indices: 9835681--9835712 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9835671 GTGGGCTGGA
9835681 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
9835696 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
9835711 GG
1 GG
9835713 GGCCACGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.56, T:0.06
Consensus pattern (15 bp):
GGCGTGGCAGACGAG
Found at i:9844464 original size:43 final size:42
Alignment explanation
Indices: 9844392--9844514 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 42
9844382 ACGTCGCTAA
* *
9844392 CTTTTGCGGCACTTACAGAAAAAAAGCCGCTAAAGAACATGTT
1 CTTTAGCGGCGCTTA-AGAAAAAAAGCCGCTAAAGAACATGTT
*
9844435 CTTTAGCGGCGC-TAAGAAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAGAAAA-AAA-GCCGCTAAAGAACATGTT
* *
9844478 CTTTAGCGGCGCTTAGGAAAAAAATGCTGCTAAAGAA
1 CTTTAGCGGCGCTTAAGAAAAAAA-GCCGCTAAAGAA
9844515 AAAAACGTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
41 6 0.09
42 5 0.07
43 52 0.74
44 7 0.10
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAAGAAAAAAAGCCGCTAAAGAACATGTT
Found at i:9845025 original size:21 final size:21
Alignment explanation
Indices: 9845001--9845069 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
9844991 GCTTCTATCG
*
9845001 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
9845022 CTGCTTCTCTTGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
** * *
9845043 CTGCCCCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
9845064 CTGCTT
1 CTGCTT
9845070 TAAGTTGTTG
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.01, C:0.45, G:0.20, T:0.33
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:9850526 original size:9 final size:9
Alignment explanation
Indices: 9850500--9850715 Score: 216
Period size: 9 Copynumber: 23.8 Consensus size: 9
9850490 ATTTGCACTG
9850500 GTAAGTTAT
1 GTAAGTTAT
* * *
9850509 TTTATTTAT
1 GTAAGTTAT
9850518 GTAAGTTAT
1 GTAAGTTAT
9850527 GTAAGTTAT
1 GTAAGTTAT
9850536 GTAAGTTAT
1 GTAAGTTAT
* *
9850545 TTAATTTAT
1 GTAAGTTAT
*
9850554 GTAGGTTAT
1 GTAAGTTAT
* *
9850563 GTAAGTCCAC
1 GTAAGT-TAT
* *
9850573 GGAATTTAT
1 GTAAGTTAT
9850582 GTAAGTTAT
1 GTAAGTTAT
9850591 GTAAGTTAT
1 GTAAGTTAT
* *
9850600 TTAATTTAT
1 GTAAGTTAT
*
9850609 GTAAGTCAT
1 GTAAGTTAT
9850618 GTAAGTTAT
1 GTAAGTTAT
* *
9850627 TTAATTTAT
1 GTAAGTTAT
*
9850636 GTAGGTTAT
1 GTAAGTTAT
*
9850645 GTAATTTAT
1 GTAAGTTAT
9850654 GTAAGTTAT
1 GTAAGTTAT
* *
9850663 TTAATTTAT
1 GTAAGTTAT
*
9850672 GCAAGTTTAT
1 GTAAG-TTAT
9850682 GTAAGTTAT
1 GTAAGTTAT
9850691 GTAAGTTAT
1 GTAAGTTAT
* *
9850700 TTAATTTAT
1 GTAAGTTAT
9850709 GTAAGTT
1 GTAAGTT
9850716 TCTATATATG
Statistics
Matches: 161, Mismatches: 44, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
9 148 0.92
10 13 0.08
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.49
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:9850823 original size:32 final size:32
Alignment explanation
Indices: 9850753--9850927 Score: 128
Period size: 32 Copynumber: 5.3 Consensus size: 32
9850743 AGTTATTATG
* *
9850753 TTATTATGTTATTATAT-AAGT-TT-TTTAAG
1 TTATTATGTTATTATATAAAGTATTATGTAAT
9850782 TTATTATGTTATTATATAAAGTATTATGTAAT
1 TTATTATGTTATTATATAAAGTATTATGTAAT
* * *
9850814 TTATTATGTTATTATATGTAAGTTATGCAAGCTTATAT
1 TTATTATGTTATTATAT-AAAG-TAT-TATG--TA-AT
**
9850852 ACAAGTTATG-TATTATAACATAAAGTATTATGTAAT
1 -TTA-TTATGTTATTAT---ATAAAGTATTATGTAAT
*
9850888 TTATTATGTTATTATATATAAG--TTATGTAAA
1 TTATTATGTTATTATATA-AAGTATTATGTAAT
9850919 TTATTATGT
1 TTATTATGT
9850928 AAGTTATGCA
Statistics
Matches: 117, Mismatches: 13, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
29 17 0.15
30 4 0.03
31 19 0.16
32 24 0.21
33 6 0.05
34 8 0.07
35 9 0.08
36 2 0.02
37 4 0.03
38 2 0.02
39 9 0.08
40 8 0.07
41 3 0.03
42 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (32 bp):
TTATTATGTTATTATATAAAGTATTATGTAAT
Found at i:9851098 original size:62 final size:61
Alignment explanation
Indices: 9850999--9851148 Score: 167
Period size: 62 Copynumber: 2.4 Consensus size: 61
9850989 TGTATTATGT
* ** * * ***
9850999 AACTTATGTAGAAAACTTATAAATTTAATACACATAAATTTTATTTCTCCCAAATTTAGAA
1 AACTTATTTAGAAAACGAATAAATTTAATACACATAAATTTTAATACAAACAAATTTAGAA
* *
9851060 CACTTATTTAGAAAACGAAGTAAATTTAATACTA-ATAAATTTTAATACAAATAAATTTAGAA
1 AACTTATTTAGAAAACGAA-TAAATTTAATAC-ACATAAATTTTAATACAAACAAATTTAGAA
**
9851122 AACTTATTTAGAAAACTTATAAATTTA
1 AACTTATTTAGAAAACGAATAAATTTA
9851149 GAAAACTTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
61 23 0.31
62 50 0.68
63 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (61 bp):
AACTTATTTAGAAAACGAATAAATTTAATACACATAAATTTTAATACAAACAAATTTAGAA
Found at i:9851105 original size:16 final size:16
Alignment explanation
Indices: 9851080--9851117 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9851070 GAAAACGAAG
*
9851080 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
9851095 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
9851111 TAAATTT
1 TAAATTT
9851118 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:9851132 original size:13 final size:13
Alignment explanation
Indices: 9851114--9851141 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9851104 ATACAAATAA
9851114 ATTTAGAAAACTT
1 ATTTAGAAAACTT
9851127 ATTTAGAAAACTT
1 ATTTAGAAAACTT
9851140 AT
1 AT
9851142 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:9851149 original size:17 final size:17
Alignment explanation
Indices: 9851110--9851159 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
9851100 TTTAATACAA
9851110 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
9851126 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
9851140 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
9851157 ATA
1 ATA
9851160 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:9852194 original size:27 final size:29
Alignment explanation
Indices: 9852140--9852194 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
9852130 TAATTATCAC
*
9852140 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
9852170 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
9852195 TCAAAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:9852249 original size:15 final size:15
Alignment explanation
Indices: 9852229--9852261 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
9852219 TGGTAAAGTA
9852229 ACAGTTACAGGAAGC
1 ACAGTTACAGGAAGC
9852244 ACAGTTACAGGAAGC
1 ACAGTTACAGGAAGC
9852259 ACA
1 ACA
9852262 AGAAGCACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.12
Consensus pattern (15 bp):
ACAGTTACAGGAAGC
Found at i:9854139 original size:21 final size:20
Alignment explanation
Indices: 9854115--9854191 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 20
9854105 AACTATAAAC
9854115 CCCTAAACCCATAATCCCTAA
1 CCCTAAACCCATAA-CCCTAA
* *
9854136 CCCTTAACCCCTAACCCTAAA
1 CCCTAAACCCATAACCCT-AA
* * *
9854157 CCTATAAACCCTTAACCCCAA
1 CC-CTAAACCCATAACCCTAA
9854178 CCCTTAAA-CCATAA
1 CCC-TAAACCCATAA
9854192 TCCATAAGCC
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
20 9 0.20
21 24 0.53
22 12 0.27
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (20 bp):
CCCTAAACCCATAACCCTAA
Found at i:9854146 original size:29 final size:29
Alignment explanation
Indices: 9854134--9854191 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
9854124 CATAATCCCT
9854134 AACCCTTAACCCCTAACCCTAAACCTATA
1 AACCCTTAACCCCTAACCCTAAACCTATA
9854163 AACCCTTAACCCC-AACCCTTAAACC-ATA
1 AACCCTTAACCCCTAACCC-TAAACCTATA
9854191 A
1 A
9854192 TCCATAAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.40, C:0.41, G:0.00, T:0.19
Consensus pattern (29 bp):
AACCCTTAACCCCTAACCCTAAACCTATA
Found at i:9854388 original size:20 final size:21
Alignment explanation
Indices: 9854353--9854391 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9854343 TAACTATAAA
9854353 CCCTTAAACCCCTAACCCCAG
1 CCCTTAAACCCCTAACCCCAG
*
9854374 CCCTT-AACCCTTAACCCC
1 CCCTTAAACCCCTAACCCC
9854392 TAAACCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.54, G:0.03, T:0.18
Consensus pattern (21 bp):
CCCTTAAACCCCTAACCCCAG
Found at i:9855355 original size:114 final size:112
Alignment explanation
Indices: 9855091--9855413 Score: 294
Period size: 114 Copynumber: 2.8 Consensus size: 112
9855081 GTTTTTAGAC
* * *
9855091 AAGCGCCACTAAAGTCTCTAAAACCTAAATTGAAAACGACATCGTTTTCTTAACAGTTTTGTGGC
1 AAGCGCCACTAAAGTCTCCAAAACCTAAA-TGAAAACGACAACGTTTTCTTAACAGTTTTGCGGC
* * * ** * *
9855156 ACTTCTGATAAAGCGCCACTAAAGCTTCGCTACTACCGCTTTTTTTGAA
65 GCTTATGATAAAGCGCCGCTAATTCTT-GCTACTACCGCTGTTTTTCAA
* * ** ** * *
9855205 AATCGCCACTAACA-TCTCGAAAAGATAAATGAAAAACGGTAACGTTTTCTTAGCAGTCTTGCGG
1 AAGCGCCACTAA-AGTCTCCAAAACCTAAATG-AAAACGACAACGTTTTCTTAACAGTTTTGCGG
* *
9855269 CGCTTATGATAAAGCGCCGCTAATTCTTGACTA-TAGCGGC-GTTTTTCATT
64 CGCTTATGATAAAGCGCCGCTAATTCTTG-CTACTA-CCGCTGTTTTTCA-A
* * *
9855319 AAGCGCCACTAAAGTCCCCAAAACCTAAACTGAAAACGACAGCGTTTTCTTAACAGTTTTTACGG
1 AAGCGCCACTAAAGTCTCCAAAACCTAAA-TGAAAACGACAACGTTTTCTTAACAG-TTTTGCGG
* * *
9855384 CGTTTATGACCAAA-CGCCGGTAATTCTTGC
64 CGCTTATGA-TAAAGCGCCGCTAATTCTTGC
9855414 ATATTGCGGT
Statistics
Matches: 167, Mismatches: 33, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
113 12 0.07
114 121 0.72
115 31 0.19
116 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (112 bp):
AAGCGCCACTAAAGTCTCCAAAACCTAAATGAAAACGACAACGTTTTCTTAACAGTTTTGCGGCG
CTTATGATAAAGCGCCGCTAATTCTTGCTACTACCGCTGTTTTTCAA
Found at i:9859280 original size:15 final size:15
Alignment explanation
Indices: 9859260--9859291 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9859250 CATTTCACTA
*
9859260 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
9859275 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
9859290 TT
1 TT
9859292 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:9861071 original size:14 final size:15
Alignment explanation
Indices: 9861052--9861083 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9861042 TTTGTAATAA
9861052 AAATTTT-AAAACTT
1 AAATTTTGAAAACTT
9861066 AAATTTTGAAAACTT
1 AAATTTTGAAAACTT
9861081 AAA
1 AAA
9861084 AATTCGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTTTGAAAACTT
Found at i:9861098 original size:18 final size:19
Alignment explanation
Indices: 9861075--9861115 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9861065 TAAATTTTGA
9861075 AAAC-TTAAAAATTCGGAG
1 AAACTTTAAAAATTCGGAG
* *
9861093 AAACTTTAAAACTTTGGAG
1 AAACTTTAAAAATTCGGAG
9861112 AAAC
1 AAAC
9861116 GAGTTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (19 bp):
AAACTTTAAAAATTCGGAG
Found at i:9864865 original size:443 final size:443
Alignment explanation
Indices: 9864039--9865371 Score: 2549
Period size: 443 Copynumber: 3.0 Consensus size: 443
9864029 AATTAGATTA
*
9864039 TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACCGAAAAAA
1 TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACTGAAAAAA
*
9864104 GTTTTAAAGAATCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
66 GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
9864169 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
131 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
9864234 TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
196 TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
9864299 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCCA
261 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCCA
*
9864364 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCCAGAATAAATACAATGCTAC
326 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
* *
9864429 TACAATTTATGAATGGAATATAAATGGAATGTTTTAATACAATGTTCTTAGTT
391 TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
*
9864482 TATTGAGAATTTGGTAGAAAGTCAACCAATCAAGAAAGAACCAGTAAAAGAGATAACTGAAAAAA
1 TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACTGAAAAAA
*
9864547 GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCGAAATGAT
66 GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
*
9864612 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCTCC
131 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
* * *
9864677 TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACTCCATTCCTTCCAATTTAACTCTG
196 TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
*
9864742 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGGACGAAAAAAATTATATTATCCA
261 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCCA
9864807 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
326 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
9864872 TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
391 TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
9864925 TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACTGAAAAAA
1 TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACTGAAAAAA
9864990 GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
66 GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
9865055 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
131 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
9865120 TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
196 TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
*
9865185 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAATTTATATTATCCA
261 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCCA
9865250 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
326 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
9865315 TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
391 TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
9865368 TATT
1 TATT
9865372 ACAACAAATG
Statistics
Matches: 870, Mismatches: 20, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
443 870 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.27
Consensus pattern (443 bp):
TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACTGAAAAAA
GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCCA
AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
Found at i:9865693 original size:16 final size:16
Alignment explanation
Indices: 9865659--9865697 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
9865649 ATTTGTAATA
9865659 AAAATTTT-AAAACTT
1 AAAATTTTGAAAACTT
9865674 -AAATTTTGAAAACTT
1 AAAATTTTGAAAACTT
9865689 AAAATTTTG
1 AAAATTTTG
9865698 GAGAAGCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 7 0.32
16 8 0.36
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (16 bp):
AAAATTTTGAAAACTT
Found at i:9870250 original size:40 final size:40
Alignment explanation
Indices: 9870191--9870300 Score: 130
Period size: 40 Copynumber: 2.8 Consensus size: 40
9870181 TGAATTTTTT
* * *
9870191 GCGGCATTTTTCAAAAAGCGTCGCTAATGCTCAATCAATA
1 GCGGCGTTTCTCAAAAAGCGCCGCTAATGCTCAATCAATA
* * *
9870231 GCGGCGTTTCTCAAGAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTCTCAAAAAGCGCCGCTAATGCTCAATCAATA
* * * *
9870271 GCGACGTTTTTAAAAAAACGCCGCTAATGC
1 GCGGCGTTTCTCAAAAAGCGCCGCTAATGC
9870301 CACTAACGGC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
GCGGCGTTTCTCAAAAAGCGCCGCTAATGCTCAATCAATA
Found at i:9870388 original size:40 final size:40
Alignment explanation
Indices: 9870333--9870408 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
9870323 ATTTTGTGGC
* * *
9870333 GTTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGTAGT
1 GTTTTTAAAAAAGCGCCGCTAAAGCTCGATCTATAGTAGT
*
9870373 GTTTTTAAAAAAGCGCCGCTAAAGCTTGATCTATAG
1 GTTTTTAAAAAAGCGCCGCTAAAGCTCGATCTATAG
9870409 CACCGTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (40 bp):
GTTTTTAAAAAAGCGCCGCTAAAGCTCGATCTATAGTAGT
Found at i:9870416 original size:137 final size:136
Alignment explanation
Indices: 9870187--9870443 Score: 320
Period size: 137 Copynumber: 1.9 Consensus size: 136
9870177 TTATTGAATT
* * * *
9870187 TTTTGCGGCATTTTTCAAAAAGCGTCGCTAATGCTCAATCAATAGCGGCGTTTCTCAAGAAGCGC
1 TTTTGCGGCATTTTTCAAAAAGCGCCGCTAATGCTCAATCAATAGCAGCGTTTCTAAAAAAGCGC
*
9870252 CGCTAATGCTCGATCTATAGCGACGTTTTTAAAAAAACGC-CGCTAATGCCACTAACGGCGTTAT
66 CGCTAAAGCTCGATCTATAGCGACG-TTTTAAAAAAA-GCACGCTAATGCCACTAACGGCGTTAT
9870316 GCTTAATA
129 GCTTAATA
* * * * * * * *
9870324 TTTTGTGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGTAGTGTTTTTAAAAAAGCGC
1 TTTTGCGGCATTTTTCAAAAAGCGCCGCTAATGCTCAATCAATAGCAGCGTTTCTAAAAAAGCGC
* * *
9870389 CGCTAAAGCTTGATCTATAGC-ACCGTTTTACAAAAAGCATCGCTAGTGCCACTAA
66 CGCTAAAGCTCGATCTATAGCGA-CGTTTTAAAAAAAGCA-CGCTAATGCCACTAA
9870444 AGCTCAACAT
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
135 2 0.02
136 11 0.11
137 88 0.87
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (136 bp):
TTTTGCGGCATTTTTCAAAAAGCGCCGCTAATGCTCAATCAATAGCAGCGTTTCTAAAAAAGCGC
CGCTAAAGCTCGATCTATAGCGACGTTTTAAAAAAAGCACGCTAATGCCACTAACGGCGTTATGC
TTAATA
Found at i:9870418 original size:39 final size:40
Alignment explanation
Indices: 9870332--9870426 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
9870322 TATTTTGTGG
* * * * *
9870332 CGTTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGTAG
1 CGTTTTTAAAAAAGCGCCGCTAAAGCTCGATCTATAGCAC
* *
9870372 TGTTTTTAAAAAAGCGCCGCTAAAGCTTGATCTATAGCAC
1 CGTTTTTAAAAAAGCGCCGCTAAAGCTCGATCTATAGCAC
9870412 CG-TTTTACAAAAAGC
1 CGTTTTTA-AAAAAGC
9870427 ATCGCTAGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 5 0.11
40 41 0.89
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (40 bp):
CGTTTTTAAAAAAGCGCCGCTAAAGCTCGATCTATAGCAC
Found at i:9870541 original size:40 final size:40
Alignment explanation
Indices: 9870482--9870591 Score: 130
Period size: 40 Copynumber: 2.8 Consensus size: 40
9870472 TGAATTTTTT
* * *
9870482 GCGGCATTTTTCAAAAAGCGTCGCTAATGCTCAATCAATA
1 GCGGCGTTTCTCAAAAAGCGCCGCTAATGCTCAATCAATA
* * *
9870522 GCGGCGTTTCTCAAGAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTCTCAAAAAGCGCCGCTAATGCTCAATCAATA
* * * *
9870562 GCGACGTTTTTAAAAAAACGCCGCTAATGC
1 GCGGCGTTTCTCAAAAAGCGCCGCTAATGC
9870592 CACTAACGGC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
GCGGCGTTTCTCAAAAAGCGCCGCTAATGCTCAATCAATA
Found at i:9870615 original size:291 final size:291
Alignment explanation
Indices: 9870091--9870699 Score: 1182
Period size: 291 Copynumber: 2.1 Consensus size: 291
9870081 TATTTTTGAT
*
9870091 AAAGCGCTGCTAAAGCTTGATCTATAGCACCGTTTTACAAAAAGCATCGCTAGTGCCACTAAAGC
1 AAAGCGCCGCTAAAGCTTGATCTATAGCACCGTTTTACAAAAAGCATCGCTAGTGCCACTAAAGC
9870156 TCAACATAAAATGACGGCATTTTATTGAATTTTTTGCGGCATTTTTCAAAAAGCGTCGCTAATGC
66 TCAACATAAAATGACGGCATTTTATTGAATTTTTTGCGGCATTTTTCAAAAAGCGTCGCTAATGC
9870221 TCAATCAATAGCGGCGTTTCTCAAGAAGCGCCGCTAATGCTCGATCTATAGCGACGTTTTTAAAA
131 TCAATCAATAGCGGCGTTTCTCAAGAAGCGCCGCTAATGCTCGATCTATAGCGACGTTTTTAAAA
9870286 AAACGCCGCTAATGCCACTAACGGCGTTATGCTTAATATTTTGTGGCGTTTTTCAAAAAGCGCCG
196 AAACGCCGCTAATGCCACTAACGGCGTTATGCTTAATATTTTGTGGCGTTTTTCAAAAAGCGCCG
*
9870351 CTAATGGTCGATCTATAGTAGTGTTTTTAAA
261 CTAATGGTCAATCTATAGTAGTGTTTTTAAA
9870382 AAAGCGCCGCTAAAGCTTGATCTATAGCACCGTTTTACAAAAAGCATCGCTAGTGCCACTAAAGC
1 AAAGCGCCGCTAAAGCTTGATCTATAGCACCGTTTTACAAAAAGCATCGCTAGTGCCACTAAAGC
9870447 TCAACATAAAATGACGGCATTTTATTGAATTTTTTGCGGCATTTTTCAAAAAGCGTCGCTAATGC
66 TCAACATAAAATGACGGCATTTTATTGAATTTTTTGCGGCATTTTTCAAAAAGCGTCGCTAATGC
9870512 TCAATCAATAGCGGCGTTTCTCAAGAAGCGCCGCTAATGCTCGATCTATAGCGACGTTTTTAAAA
131 TCAATCAATAGCGGCGTTTCTCAAGAAGCGCCGCTAATGCTCGATCTATAGCGACGTTTTTAAAA
9870577 AAACGCCGCTAATGCCACTAACGGCGTTATGCTTAATATTTTGTGGCGTTTTTCAAAAAGCGCCG
196 AAACGCCGCTAATGCCACTAACGGCGTTATGCTTAATATTTTGTGGCGTTTTTCAAAAAGCGCCG
9870642 CTAATGGTCAATCTATAGTAGTGTTTTTAAA
261 CTAATGGTCAATCTATAGTAGTGTTTTTAAA
* *
9870673 AAAGCGCCGCTAATGCTCGATCTATAG
1 AAAGCGCCGCTAAAGCTTGATCTATAG
9870700 TGGCATTTTT
Statistics
Matches: 314, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
291 314 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (291 bp):
AAAGCGCCGCTAAAGCTTGATCTATAGCACCGTTTTACAAAAAGCATCGCTAGTGCCACTAAAGC
TCAACATAAAATGACGGCATTTTATTGAATTTTTTGCGGCATTTTTCAAAAAGCGTCGCTAATGC
TCAATCAATAGCGGCGTTTCTCAAGAAGCGCCGCTAATGCTCGATCTATAGCGACGTTTTTAAAA
AAACGCCGCTAATGCCACTAACGGCGTTATGCTTAATATTTTGTGGCGTTTTTCAAAAAGCGCCG
CTAATGGTCAATCTATAGTAGTGTTTTTAAA
Found at i:9870679 original size:40 final size:40
Alignment explanation
Indices: 9870619--9870768 Score: 228
Period size: 40 Copynumber: 3.8 Consensus size: 40
9870609 TTAATATTTT
* * *
9870619 GTGGCGTTTTTCAAAAAGCGCCGCTAATGGTCAATCTATA
1 GTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATA
* *
9870659 GTAGTGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATA
1 GTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATA
*
9870699 GTGGCATTTTTAAAAAAGCGCCGCTAATGCTCGATCTATA
1 GTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATA
* *
9870739 ATGGCGTTTTTCAAAAAGCGCCGCTAATGC
1 GTGGCGTTTTTAAAAAAGCGCCGCTAATGC
9870769 CACTAAAGCT
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (40 bp):
GTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:9870709 original size:137 final size:137
Alignment explanation
Indices: 9870478--9870728 Score: 367
Period size: 137 Copynumber: 1.8 Consensus size: 137
9870468 TTATTGAATT
* * * *
9870478 TTTTGCGGCATTTTTCAAAAAGCGTCGCTAATGCTCAATCAATAGCGGCGTTTCTCAAGAAGCGC
1 TTTTGCGGCATTTTTCAAAAAGCGCCGCTAATGCTCAATCAATAGCAGCGTTTCTAAAAAAGCGC
*
9870543 CGCTAATGCTCGATCTATAGCGACGTTTTTAAAAAAACGCCGCTAATGCCACTAACGGCGTTATG
66 CGCTAATGCTCGATCTATAGCGACATTTTTAAAAAAACGCCGCTAATGCCACTAACGGCGTTATG
9870608 CTTAATA
131 CTTAATA
* * * * * * *
9870615 TTTTGTGGCGTTTTTCAAAAAGCGCCGCTAATGGTCAATCTATAGTAGTGTTTTTAAAAAAGCGC
1 TTTTGCGGCATTTTTCAAAAAGCGCCGCTAATGCTCAATCAATAGCAGCGTTTCTAAAAAAGCGC
* * *
9870680 CGCTAATGCTCGATCTATAGTGGCATTTTTAAAAAAGCGCCGCTAATGC
66 CGCTAATGCTCGATCTATAGCGACATTTTTAAAAAAACGCCGCTAATGC
9870729 TCGATCTATA
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
137 99 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (137 bp):
TTTTGCGGCATTTTTCAAAAAGCGCCGCTAATGCTCAATCAATAGCAGCGTTTCTAAAAAAGCGC
CGCTAATGCTCGATCTATAGCGACATTTTTAAAAAAACGCCGCTAATGCCACTAACGGCGTTATG
CTTAATA
Found at i:9871767 original size:75 final size:76
Alignment explanation
Indices: 9871685--9871832 Score: 235
Period size: 75 Copynumber: 2.0 Consensus size: 76
9871675 TGGACTTTAT
* * *
9871685 TTTTAGTCAATATTGTATTTTTTATTTTCGAAACAATACACAAATTTGAGTG-TTTTTTCGTTTA
1 TTTTAGTCAATATTGTATTTTTTATTTTCGAAAAAACACACAAATTTGAATGCTTTTTTCGTTTA
9871749 TACGAGCATAA
66 TACGAGCATAA
* * *
9871760 TTTTAGTCAGTATTGTATTTTTTATTTTCGAAAAAACACACAAATTTTAATGCTTTTTTGGTTTA
1 TTTTAGTCAATATTGTATTTTTTATTTTCGAAAAAACACACAAATTTGAATGCTTTTTTCGTTTA
9871825 TACGAGCA
66 TACGAGCA
9871833 AATGGCATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
75 47 0.71
76 19 0.29
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (76 bp):
TTTTAGTCAATATTGTATTTTTTATTTTCGAAAAAACACACAAATTTGAATGCTTTTTTCGTTTA
TACGAGCATAA
Found at i:9874106 original size:29 final size:30
Alignment explanation
Indices: 9874053--9874109 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
9874043 AAGTTGGATC
9874053 AAATCAAAATTTCATGTATAAAATTGCATA
1 AAATCAAAATTTCATGTATAAAATTGCATA
*
9874083 AAATCAAAA-TTCATGTATATAATTGCA
1 AAATCAAAATTTCATGTATAAAATTGCA
9874110 CATCAAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTGCATA
Found at i:9874964 original size:7 final size:7
Alignment explanation
Indices: 9874954--9874990 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
9874944 AATAATATTA
9874954 TAAAAAT
1 TAAAAAT
9874961 TAAAAAT
1 TAAAAAT
9874968 TAAAAAT
1 TAAAAAT
9874975 T-AAAAT
1 TAAAAAT
9874981 ATAAAAAT
1 -TAAAAAT
9874989 TA
1 TA
9874991 TATTTAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 5 0.18
7 18 0.64
8 5 0.18
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAAAAT
Found at i:9874973 original size:14 final size:15
Alignment explanation
Indices: 9874952--9874990 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
9874942 TTAATAATAT
9874952 TATAAAAATTAAAAA
1 TATAAAAATTAAAAA
9874967 T-TAAAAATT-AAAA
1 TATAAAAATTAAAAA
9874980 TATAAAAATTA
1 TATAAAAATTA
9874991 TATTTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.23
14 16 0.73
15 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TATAAAAATTAAAAA
Found at i:9876129 original size:30 final size:30
Alignment explanation
Indices: 9876093--9876207 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
9876083 ACTTTTCTAA
*
9876093 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
9876123 ACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
9876153 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
9876183 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
9876208 CTTGTACCTA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:9876797 original size:25 final size:25
Alignment explanation
Indices: 9876769--9876925 Score: 77
Period size: 25 Copynumber: 6.1 Consensus size: 25
9876759 ATATTACGTA
* *
9876769 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
9876794 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
* * ** *
9876819 TATATTTTTTTTTCTAC-ATGTTATCT
1 TATA-TATATTTAATACTATATTAT-T
*
9876845 TATGTATATATCTT-A-ACTATATTATG
1 TA--TATATAT-TTAATACTATATTATT
* * * *
9876871 TATGTATTTTTAACACTATATTATG
1 TATATATATTTAATACTATATTATT
* * *
9876896 TACATATTTTTAATATTATCATGTATT
1 TATATATATTTAATACTAT-AT-TATT
9876923 TAT
1 TAT
9876926 TTTTTATATA
Statistics
Matches: 99, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
23 2 0.02
24 6 0.06
25 57 0.58
26 16 0.16
27 14 0.14
28 4 0.04
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:9876926 original size:23 final size:24
Alignment explanation
Indices: 9876846--9876936 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
9876836 ATGTTATCTT
*
9876846 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
9876868 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
9876893 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
9876916 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
9876937 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:9877081 original size:16 final size:15
Alignment explanation
Indices: 9877060--9877102 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
9877050 ATTATTATCC
9877060 TAATATTTTGATATTT
1 TAATATTTT-ATATTT
9877076 TAATATTTTATATTT
1 TAATATTTTATATTT
9877091 TATATATTTTAT
1 TA-ATATTTTAT
9877103 TATTCACATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TAATATTTTATATTT
Found at i:9877090 original size:7 final size:8
Alignment explanation
Indices: 9877060--9877106 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
9877050 ATTATTATCC
9877060 TAATATTT
1 TAATATTT
*
9877068 TGATATTT
1 TAATATTT
9877076 TAATATTT
1 TAATATTT
9877084 T-ATATTT
1 TAATATTT
9877091 TATATATTT
1 TA-ATATTT
*
9877100 TATTATT
1 TAATATT
9877107 CACATCATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 7 0.21
8 19 0.56
9 8 0.24
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
TAATATTT
Found at i:9878706 original size:12 final size:12
Alignment explanation
Indices: 9878689--9878724 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
9878679 AATATTTTGA
9878689 CATTCATGCATT
1 CATTCATGCATT
*
9878701 CATTCATGCTTT
1 CATTCATGCATT
*
9878713 CATTCATACATT
1 CATTCATGCATT
9878725 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:9887121 original size:66 final size:71
Alignment explanation
Indices: 9887046--9887291 Score: 269
Period size: 74 Copynumber: 3.5 Consensus size: 71
9887036 CTTTTCAAAC
* *
9887046 CAACTCATATTGAGAGAGGTGAAGTTGAGCCTCG-CA-C-G-GGT-ATTTTTAATTTCTGTTTTT
1 CAACTCATATTGCGAGAGGTG-AGTTGAGCCTCGCCAGCTGAGGTAATTTTCAATTTCTGTTTTT
9887106 -AAAAAT
65 AAAAAAT
9887112 CAACTCATATTGCGAGA-GTGAGTTGAGCCTCGCCACGTGCTGAGGTAATTTTCAATTTCTGTTT
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGCCA---GCTGAGGTAATTTTCAATTTCTGTTT
9887176 TTCAAAAAAT
63 TT-AAAAAAT
** *
9887186 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGG-CGTTTTCAATTTCTGC
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTC--G-C-CA-GCTGAGGTAATTTTCAATTTCTGT
*
9887250 TTTT-CAAAAT
61 TTTTAAAAAAT
*
9887260 CAACT-ATATTGCGAGAGGTGAGTTGAGTCTCG
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
9887292 GCCACACACT
Statistics
Matches: 157, Mismatches: 8, Indels: 25
0.83 0.04 0.13
Matches are distributed among these distances:
64 12 0.08
65 5 0.03
66 16 0.10
69 1 0.01
70 1 0.01
71 4 0.03
72 18 0.11
73 25 0.16
74 33 0.21
75 14 0.09
76 17 0.11
77 8 0.05
78 1 0.01
79 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (71 bp):
CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGCCAGCTGAGGTAATTTTCAATTTCTGTTTTTA
AAAAAT
Found at i:9887176 original size:72 final size:73
Alignment explanation
Indices: 9887084--9887324 Score: 317
Period size: 72 Copynumber: 3.3 Consensus size: 73
9887074 GCCTCGCACG
*
9887084 GGTATTTTTAATTTCTGTTTTTAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTC-GCCA
1 GGTATTTTCAATTTCTGTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCA
**
9887147 CGTGCTGA
66 CACGCTGA
9887155 GGTAATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 GGT-ATTTTCAATTTCTGTTTTT--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
*
9887220 GTCACACGCTGA
62 GCCACACGCTGA
** * * *
9887232 GGCGTTTTCAATTTCTGCTTTTCAAAATCAACT-ATATTGCGAGAGGTGAGTTGAGTCTCGGCCA
1 GGTATTTTCAATTTCTGTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCA
*
9887296 CACACTGA
66 CACGCTGA
* *
9887304 GGTCTTTTCAAATTCTGTTTT
1 GGTATTTTCAATTTCTGTTTT
9887325 AATTTCTGCT
Statistics
Matches: 149, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
71 3 0.02
72 46 0.31
73 25 0.17
74 33 0.22
75 14 0.09
76 17 0.11
77 11 0.07
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (73 bp):
GGTATTTTCAATTTCTGTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCA
CACGCTGA
Found at i:9887351 original size:14 final size:13
Alignment explanation
Indices: 9887308--9887350 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
9887298 CACTGAGGTC
*
9887308 TTTTCAAATTCTG
1 TTTTCAATTTCTG
9887321 TTTT-AATTTCTG
1 TTTTCAATTTCTG
9887333 CTTTTCAATTTCTG
1 -TTTTCAATTTCTG
9887347 TTTT
1 TTTT
9887351 TTTTCAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 7 0.26
13 12 0.44
14 8 0.30
ACGTcount: A:0.16, C:0.14, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:9887367 original size:17 final size:17
Alignment explanation
Indices: 9887334--9887368 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9887324 TAATTTCTGC
* *
9887334 TTTTCAATTTCTGTTTT
1 TTTTCAATTTATATTTT
9887351 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
9887368 T
1 T
9887369 CAAAATCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:9888149 original size:29 final size:29
Alignment explanation
Indices: 9888105--9888246 Score: 191
Period size: 29 Copynumber: 4.8 Consensus size: 29
9888095 ACTTTTCTCA
* *
9888105 ACTAGCCACTCCTTTTCCACCACTAACTCC
1 ACTAG-CACACCTTTTCCACCACCAACTCC
9888135 ACTAGCACACCTTTTCCACCACCAACTCC
1 ACTAGCACACCTTTTCCACCACCAACTCC
9888164 ACTAGC-CACTCTTTTTCCACCACCAACTCC
1 ACTAGCACAC-C-TTTTCCACCACCAACTCC
9888194 ACTAGC-CACTCTTTTCCA-CACCAACTCC
1 ACTAGCACAC-CTTTTCCACCACCAACTCC
*
9888222 ACTAGCCACACCTTCTCCACCACCA
1 ACTAG-CACACCTTTTCCACCACCA
9888247 CTTGTACCTA
Statistics
Matches: 104, Mismatches: 3, Indels: 10
0.89 0.03 0.09
Matches are distributed among these distances:
28 18 0.17
29 44 0.42
30 42 0.40
ACGTcount: A:0.25, C:0.48, G:0.04, T:0.23
Consensus pattern (29 bp):
ACTAGCACACCTTTTCCACCACCAACTCC
Found at i:9888172 original size:59 final size:58
Alignment explanation
Indices: 9888105--9888246 Score: 223
Period size: 59 Copynumber: 2.4 Consensus size: 58
9888095 ACTTTTCTCA
*
9888105 ACTAGCCACTCCTTTTCCACCACTAACTCCACTAGCACAC-CTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGC-CACTCTTTTCCA-CACCAACTCC
*
9888164 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACTCTTTTCCACACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACTCTTTTCCACACCAACTCC
* *
9888222 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCA
9888247 CTTGTACCTA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
58 35 0.45
59 42 0.55
ACGTcount: A:0.25, C:0.48, G:0.04, T:0.23
Consensus pattern (58 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACTCTTTTCCACACCAACTCC
Found at i:9888182 original size:30 final size:29
Alignment explanation
Indices: 9888105--9888246 Score: 207
Period size: 30 Copynumber: 4.8 Consensus size: 29
9888095 ACTTTTCTCA
*
9888105 ACTAGCCACTCCTTTTCCACCACTAACTCC
1 ACTAGCCACT-CTTTTCCACCACCAACTCC
9888135 ACTAGCACAC-CTTTTCCACCACCAACTCC
1 ACTAGC-CACTCTTTTCCACCACCAACTCC
9888164 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTC-TTTTCCACCACCAACTCC
9888194 ACTAGCCACTCTTTTCCA-CACCAACTCC
1 ACTAGCCACTCTTTTCCACCACCAACTCC
* *
9888222 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCAC-TCTTTTCCACCACCA
9888247 CTTGTACCTA
Statistics
Matches: 104, Mismatches: 3, Indels: 10
0.89 0.03 0.09
Matches are distributed among these distances:
28 22 0.21
29 39 0.38
30 40 0.38
31 3 0.03
ACGTcount: A:0.25, C:0.48, G:0.04, T:0.23
Consensus pattern (29 bp):
ACTAGCCACTCTTTTCCACCACCAACTCC
Found at i:9888848 original size:25 final size:25
Alignment explanation
Indices: 9888800--9888957 Score: 88
Period size: 25 Copynumber: 6.1 Consensus size: 25
9888790 TTTATATACG
* *
9888800 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
9888825 TATATATCTTTAATATTATATTATTT
1 TATATATATTTAATACTATATTA-TT
** *
9888851 ATATATATATTTTCTAC-ATGTTATCT
1 -TATATATATTTAATACTATATTAT-T
*
9888877 TATGTATATATCTT-A-ACTATATTATG
1 TA--TATATAT-TTAATACTATATTATT
* * * *
9888903 TATGTATTTTTAACACTATATTATG
1 TATATATATTTAATACTATATTATT
* * *
9888928 TACATATTTTTAATATTATCATGTATT
1 TATATATATTTAATACTAT-AT-TATT
9888955 TAT
1 TAT
9888958 TTTTTATATA
Statistics
Matches: 102, Mismatches: 20, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
23 2 0.02
24 6 0.06
25 48 0.47
26 14 0.14
27 30 0.29
28 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:9888958 original size:23 final size:24
Alignment explanation
Indices: 9888878--9888968 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
9888868 ATGTTATCTT
*
9888878 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
9888900 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
9888925 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
9888948 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
9888969 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:9889116 original size:7 final size:8
Alignment explanation
Indices: 9889086--9889132 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
9889076 AATTATTATC
9889086 TAATATTT
1 TAATATTT
*
9889094 TGATATTT
1 TAATATTT
9889102 TAATATTT
1 TAATATTT
9889110 T-ATATTT
1 TAATATTT
9889117 TATATATTT
1 TA-ATATTT
*
9889126 TATTATT
1 TAATATT
9889133 CACATCATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 7 0.21
8 19 0.56
9 8 0.24
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
TAATATTT
Found at i:9889912 original size:19 final size:21
Alignment explanation
Indices: 9889875--9889916 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
9889865 AACTAATATC
*
9889875 ATTATAAATATAGATAATTAA
1 ATTATAAATATAGAAAATTAA
9889896 ATTA-AAATATA-AAAATTAA
1 ATTATAAATATAGAAAATTAA
9889915 AT
1 AT
9889917 CTCAAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
ATTATAAATATAGAAAATTAA
Found at i:9890747 original size:88 final size:85
Alignment explanation
Indices: 9890605--9890817 Score: 286
Period size: 88 Copynumber: 2.5 Consensus size: 85
9890595 TTAAAGATAT
*
9890605 AAAAA-GCCCTCAAACTTTTTCAAAAAAGTAATTAAGTCCCTCTTTTTTTGCACTTAATTGAGCA
1 AAAAAGGCCCTCAAACTTTTTCAAAAAAGCAATTAAG-CCCTCTTTTTTTGCACTTAATTGAGCA
9890669 CTTAAACTTTCAAAATACATC
65 CTTAAACTTTCAAAATACATC
* * *
9890690 AAAAAGGCCCTCAAACTTGTTCAAAAAAAAGCAATTAAGCCCT-TATATTTTTTCACTTAATTGG
1 AAAAAGGCCCTCAAACTTTTTC--AAAAAAGCAATTAAGCCCTCT-T-TTTTTGCACTTAATTGA
* *
9890754 GTACTTAAACTTTCAAAATGCATC
62 GCACTTAAACTTTCAAAATACATC
* * *
9890778 AAAAAGACCCTCAAAATTTTTCAAAAAATCAATTAAGCCC
1 AAAAAGGCCCTCAAACTTTTTCAAAAAAGCAATTAAGCCC
9890818 ATGCTTTTAT
Statistics
Matches: 113, Mismatches: 10, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
85 5 0.04
86 33 0.29
87 5 0.04
88 70 0.62
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (85 bp):
AAAAAGGCCCTCAAACTTTTTCAAAAAAGCAATTAAGCCCTCTTTTTTTGCACTTAATTGAGCAC
TTAAACTTTCAAAATACATC
Found at i:9890939 original size:12 final size:12
Alignment explanation
Indices: 9890922--9890946 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9890912 AAAATTGTAA
9890922 AATTTTATAAAC
1 AATTTTATAAAC
9890934 AATTTTATAAAC
1 AATTTTATAAAC
9890946 A
1 A
9890947 TTATAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTTTATAAAC
Found at i:9891161 original size:37 final size:37
Alignment explanation
Indices: 9891102--9891222 Score: 96
Period size: 37 Copynumber: 3.4 Consensus size: 37
9891092 TTTATATTTC
9891102 TTTAC-ATTTTGTATA-ATTTTCTAACGACTTTATAAAAT
1 TTTACAATTTT-TATATA-TTTCTAA-GACTTTATAAAAT
* * * *
9891140 TTTATAATTTTT-TATATTTCTATATATTTTATAAATT
1 TTTACAATTTTTATATATTTCTA-AGACTTTATAAAAT
* *
9891177 TTTACAATTTTTATATTTTTCTAA-A-TTT-TAATAT
1 TTTACAATTTTTATATATTTCTAAGACTTTATAAAAT
9891211 TTT--AATTTTTAT
1 TTTACAATTTTTAT
9891223 TAAAATTTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
32 9 0.13
34 7 0.10
35 3 0.04
36 1 0.01
37 30 0.42
38 16 0.23
39 5 0.07
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (37 bp):
TTTACAATTTTTATATATTTCTAAGACTTTATAAAAT
Found at i:9891173 original size:27 final size:27
Alignment explanation
Indices: 9891138--9891234 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
9891128 ACTTTATAAA
*
9891138 ATTTTATAATTTTTTATATTTCTATAT
1 ATTTTATAAATTTTTATATTTCTATAT
* *
9891165 ATTTTATAAATTTTTACAATTTTTATAT
1 ATTTTATAAATTTTTA-TATTTCTATAT
* *
9891193 -TTTTCTAAATTTTAATATTT-TA-AT
1 ATTTTATAAATTTTTATATTTCTATAT
*
9891217 -TTTTATTAAAATTTTATA
1 ATTTTA-TAAATTTTTATA
9891235 ATATTTATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.10
25 12 0.20
26 4 0.07
27 28 0.47
28 9 0.15
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (27 bp):
ATTTTATAAATTTTTATATTTCTATAT
Found at i:9891205 original size:17 final size:17
Alignment explanation
Indices: 9891149--9891213 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 17
9891139 TTTTATAATT
* * *
9891149 TTTTATATTTCTATATA
1 TTTTATATTTTTCTAAA
*
9891166 TTTTATAAATTTTTAC-AAT
1 TTTTAT--ATTTTT-CTAAA
9891185 TTTTATATTTTTCTAAA
1 TTTTATATTTTTCTAAA
9891202 TTTTAATATTTT
1 TTTT-ATATTTT
9891214 AATTTTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
16 1 0.03
17 18 0.47
18 7 0.18
19 12 0.32
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTATATTTTTCTAAA
Found at i:9891240 original size:10 final size:10
Alignment explanation
Indices: 9891130--9891240 Score: 61
Period size: 10 Copynumber: 12.2 Consensus size: 10
9891120 TTCTAACGAC
*
9891130 TTTATAAAAT
1 TTTATAATAT
9891140 TTTATAAT-T
1 TTTATAATAT
9891149 TTT-T-ATAT
1 TTTATAATAT
9891157 TTCTAT-ATAT
1 TT-TATAATAT
9891167 TTTATAA-ATT
1 TTTATAATA-T
*
9891177 TTTACAAT-T
1 TTTATAATAT
9891186 TTTAT-AT-T
1 TTTATAATAT
*
9891194 TTTCTAA-A-
1 TTTATAATAT
9891202 TTT-TAATA-
1 TTTATAATAT
9891210 TTT-TAAT-T
1 TTTATAATAT
*
9891218 TTTATTAAAAT
1 TTTA-TAATAT
9891229 TTTATAATAT
1 TTTATAATAT
9891239 TT
1 TT
9891241 ATTTGTTTTA
Statistics
Matches: 82, Mismatches: 6, Indels: 26
0.72 0.05 0.23
Matches are distributed among these distances:
7 5 0.06
8 25 0.30
9 15 0.18
10 32 0.39
11 5 0.06
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTATAATAT
Found at i:9891429 original size:88 final size:90
Alignment explanation
Indices: 9891292--9891474 Score: 275
Period size: 88 Copynumber: 2.1 Consensus size: 90
9891282 AATTTTTAAT
9891292 AAAAATAGGGGCTTAATTGTTTTTTTCTAAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAG
1 AAAAATAGGGGCTTAATTGTTTTTTTCTAAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAG
*
9891357 TTCAAGTACCCAATTGAGTGCAAACA
66 TTCAACTACCCAATTGAGTGCAAA-A
* * *
9891383 AAAAGTAGGGGCTTAA-T-TTTTTTT-TGAAAAGGTTTGAGGG-CATTTTTGATACATTTTGAAA
1 AAAAATAGGGGCTTAATTGTTTTTTTCTAAAAAAGTTTGAGGGTC-TTTTTGATACATTTTGAAA
*
9891444 GTTCAACTGCCCAATTGAGTGCAAAA
65 GTTCAACTACCCAATTGAGTGCAAAA
9891470 AAAAA
1 AAAAA
9891475 AAAAAAAGAA
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
87 6 0.07
88 56 0.66
89 7 0.08
90 1 0.01
91 15 0.18
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (90 bp):
AAAAATAGGGGCTTAATTGTTTTTTTCTAAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAG
TTCAACTACCCAATTGAGTGCAAAA
Found at i:9900134 original size:39 final size:39
Alignment explanation
Indices: 9900016--9900125 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 39
9900006 CGTTTGGATA
* *
9900016 AAAAAGCGCCGCTAAAAAGCGAGCACTAGCGGCGCTTTATG
1 AAAAA-CGCCGCTAAAAA-TGAGCACTAGCGGCGCTTTCTG
* * * *
9900057 AAAAACGCCGCTAAAGATCGAGCATTTGCAGCGCTTTCTG
1 AAAAACGCCGCTAAAAAT-GAGCACTAGCGGCGCTTTCTG
9900097 AAAAACGCCGCTAAAAATGAGCA-TAGCGG
1 AAAAACGCCGCTAAAAATGAGCACTAGCGG
9900126 TGTTTTTCTA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
38 4 0.07
39 5 0.08
40 45 0.76
41 5 0.08
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATGAGCACTAGCGGCGCTTTCTG
Found at i:9900140 original size:39 final size:39
Alignment explanation
Indices: 9900014--9900140 Score: 121
Period size: 40 Copynumber: 3.2 Consensus size: 39
9900004 AGCGTTTGGA
* *
9900014 TAAAAAAGCGCCGCTAAAAAGCGAGCACTAGCGGCGCTTTA
1 TAAAAAA-CGCCGCTAAAAA-TGAGCACTAGCGGCGCTTTC
* * * * *
9900055 TGAAAAACGCCGCTAAAGATCGAGCATTTGCAGCGCTTTC
1 TAAAAAACGCCGCTAAAAAT-GAGCACTAGCGGCGCTTTC
* * *
9900095 TGAAAAACGCCGCTAAAAATGAGCA-TAGCGGTGTTTTTC
1 TAAAAAACGCCGCTAAAAATGAGCACTAGCGGCG-CTTTC
9900134 TAAAAAA
1 TAAAAAA
9900141 TACCGCAAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
38 5 0.07
39 15 0.21
40 45 0.63
41 6 0.08
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (39 bp):
TAAAAAACGCCGCTAAAAATGAGCACTAGCGGCGCTTTC
Found at i:9900233 original size:41 final size:41
Alignment explanation
Indices: 9900188--9900325 Score: 197
Period size: 41 Copynumber: 3.4 Consensus size: 41
9900178 GACCTTTCGG
* *
9900188 TTGAAAAAGCGCCGCTAATGCTCAGTGCTTTAGTGGCGGTT
1 TTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGTGGCGGTT
*
9900229 TTGAAAAAGCGTCGCTAATGCTCGGGGCTTTAGTGGC-GTT
1 TTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGTGGCGGTT
* ** *
9900269 TTCCAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCAGCGTTT
1 TT-GAAAAAGCGCCGCTAATGCTCGGGGCTTTAGTGGCGGTT
9900311 TTGAAAAAGCGCCGC
1 TTGAAAAAGCGCCGC
9900326 AAAAAATATT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 5 0.06
41 77 0.90
42 4 0.05
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (41 bp):
TTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGTGGCGGTT
Found at i:9900708 original size:7 final size:7
Alignment explanation
Indices: 9900690--9900740 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
9900680 GAGTTACTAT
*
9900690 TTTAAGG
1 TTTATGG
9900697 TTTATGG
1 TTTATGG
*
9900704 ATTATAGG
1 TTTAT-GG
*
9900712 TTTAAGG
1 TTTATGG
*
9900719 GTTATGG
1 TTTATGG
9900726 TTTATGG
1 TTTATGG
9900733 TTTATGG
1 TTTATGG
9900740 T
1 T
9900741 ATAAAGGCTG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 31 0.86
8 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:9900715 original size:22 final size:22
Alignment explanation
Indices: 9900667--9900736 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
9900657 ATGGTTTAGA
9900667 GTTTAAGGTTTA-GGAGTTACTA-
1 GTTTAAGGTTTATGGA-TTA-TAG
*
9900689 TTTTAAGGTTTATGGATTATAG
1 GTTTAAGGTTTATGGATTATAG
* *
9900711 GTTTAAGGGTTATGGTTTAT-G
1 GTTTAAGGTTTATGGATTATAG
9900732 GTTTA
1 GTTTA
9900737 TGGTATAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 8 0.19
22 31 0.74
23 3 0.07
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.47
Consensus pattern (22 bp):
GTTTAAGGTTTATGGATTATAG
Found at i:9900830 original size:7 final size:7
Alignment explanation
Indices: 9900751--9900830 Score: 56
Period size: 7 Copynumber: 11.1 Consensus size: 7
9900741 ATAAAGGCTG
9900751 GGGTTTA
1 GGGTTTA
*
9900758 AGGTTTA
1 GGGTTTA
9900765 GAGG-TTA
1 G-GGTTTA
* *
9900772 TGTGTTAA
1 -GGGTTTA
9900780 GGGTTTAA
1 GGGTTT-A
*
9900788 GGTTTTA
1 GGGTTTA
*
9900795 GAGTTTTA
1 G-GGTTTA
9900803 GGGTTTA
1 GGGTTTA
9900810 -GGTTTA
1 GGGTTTA
*
9900816 TGGTTTA
1 GGGTTTA
9900823 GGGTTTA
1 GGGTTTA
9900830 G
1 G
9900831 ATTAACTAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
6 6 0.10
7 34 0.59
8 18 0.31
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (7 bp):
GGGTTTA
Found at i:9902291 original size:43 final size:43
Alignment explanation
Indices: 9902242--9902380 Score: 147
Period size: 43 Copynumber: 3.2 Consensus size: 43
9902232 ATAAATGTCG
* *
9902242 CTAAAGAACGGTACTTTTAGCGGCGTTTGTGATAAAAGCGCCA
1 CTAAAGATCAGTACTTTTAGCGGCGTTTGTGATAAAAGCGCCA
* * ** * *
9902285 CTAAAGATCATGTTC-TATAATGGCGTTTGTGATAAAAGCGTCG
1 CTAAAGATCA-GTACTTTTAGCGGCGTTTGTGATAAAAGCGCCA
* *
9902328 CTAAAGGTCATTA-TCTTTAGCGGCGTTTGTGATAAAAGCGCCA
1 CTAAAGATCAGTACT-TTTAGCGGCGTTTGTGATAAAAGCGCCA
*
9902371 TTAAAGATCA
1 CTAAAGATCA
9902381 TGCCCAAAAG
Statistics
Matches: 75, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
42 1 0.01
43 71 0.95
44 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (43 bp):
CTAAAGATCAGTACTTTTAGCGGCGTTTGTGATAAAAGCGCCA
Found at i:9903874 original size:22 final size:21
Alignment explanation
Indices: 9903848--9903897 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
9903838 AATCCGAATT
9903848 TTAAAATTTTAAAAATAAACAA
1 TTAAAATTTTAAAAATAAA-AA
*
9903870 TTAAATTTTTAAAAATAAAAA
1 TTAAAATTTTAAAAATAAAAA
9903891 TATAAAA
1 T-TAAAA
9903898 ATTAAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAAAATTTTAAAAATAAAAA
Found at i:9905624 original size:15 final size:15
Alignment explanation
Indices: 9905599--9905633 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9905589 AACTCTATTT
*
9905599 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
9905613 TAATTAATATTAAGA
1 TAATTAATATTAAGA
9905628 TAATTA
1 TAATTA
9905634 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:9910396 original size:13 final size:13
Alignment explanation
Indices: 9910361--9910397 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9910351 AAACGGGTTG
* *
9910361 CAATGTGTGACTT
1 CAATGTGAGGCTT
9910374 CAATGTGAGGCTT
1 CAATGTGAGGCTT
9910387 CAATGTGAGGC
1 CAATGTGAGGC
9910398 AATAGAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (13 bp):
CAATGTGAGGCTT
Found at i:9920975 original size:28 final size:28
Alignment explanation
Indices: 9920935--9920991 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
9920925 TTAGGTTGGT
*
9920935 AATCAGTCAAACAATGTTATGCTTTACA
1 AATCAGTCAAACAATGTTATGCTTGACA
9920963 AATCAGTCAAACAATGTTATGCTTGACA
1 AATCAGTCAAACAATGTTATGCTTGACA
9920991 A
1 A
9920992 CTTCATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (28 bp):
AATCAGTCAAACAATGTTATGCTTGACA
Found at i:9930506 original size:18 final size:19
Alignment explanation
Indices: 9930476--9930512 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9930466 ATGTCACACA
9930476 TGCTTTACAAAAATAATTG
1 TGCTTTACAAAAATAATTG
*
9930495 TGCTTT-CAAAAATGATTG
1 TGCTTTACAAAAATAATTG
9930513 ACACATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
TGCTTTACAAAAATAATTG
Found at i:9939662 original size:77 final size:79
Alignment explanation
Indices: 9939519--9939667 Score: 221
Period size: 79 Copynumber: 1.9 Consensus size: 79
9939509 TACTTGCTCA
*
9939519 ATAAACCAAAAAAACATTCAAATGTGTGTATTGTTTTGAAAACAAAAAAAAATACAATATTGACT
1 ATAAACCAAAAAAACATTCAAATGTGTGTACTGTTTTGAAAACAAAAAAAAATACAATATTGACT
9939584 AAAATTATGCTTGT
66 AAAATTATGCTTGT
* * * * * *
9939598 ATAAACGAAAAAAGCATTCAAATTTTTGTACTGTTTTG-GAA-ATAAAAAAATACAATATTGACT
1 ATAAACCAAAAAAACATTCAAATGTGTGTACTGTTTTGAAAACAAAAAAAAATACAATATTGACT
9939661 AAAATTA
66 AAAATTA
9939668 AAGTCCAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
77 28 0.44
78 2 0.03
79 33 0.52
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (79 bp):
ATAAACCAAAAAAACATTCAAATGTGTGTACTGTTTTGAAAACAAAAAAAAATACAATATTGACT
AAAATTATGCTTGT
Found at i:9945833 original size:50 final size:50
Alignment explanation
Indices: 9945717--9945959 Score: 335
Period size: 50 Copynumber: 4.8 Consensus size: 50
9945707 GATCATAACA
* * *
9945717 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATG-TTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGG--GCCTCTCATCTCGG
* * ** *
9945768 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGGCCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATCTCGG
* *
9945818 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATCTCGG
* * *
9945868 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATCTCGG
*
9945918 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGGCCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGCCTCT
9945960 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
49 1 0.01
50 138 0.81
51 32 0.19
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATCTCGG
Found at i:9958355 original size:11 final size:11
Alignment explanation
Indices: 9958339--9958380 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
9958329 TAGCTATTTA
9958339 TAATAAAATAT
1 TAATAAAATAT
9958350 TAATAAAATAT
1 TAATAAAATAT
*
9958361 CTCACTAAAATAT
1 -T-AATAAAATAT
9958374 TAATAAA
1 TAATAAA
9958381 GTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:9959720 original size:17 final size:18
Alignment explanation
Indices: 9959688--9959722 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9959678 ATATGATGTT
9959688 CACCCGTATGGGCCCACA
1 CACCCGTATGGGCCCACA
*
9959706 CACCCGTGT-GGCCCACA
1 CACCCGTATGGGCCCACA
9959723 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.46, G:0.23, T:0.11
Consensus pattern (18 bp):
CACCCGTATGGGCCCACA
Found at i:9962684 original size:25 final size:25
Alignment explanation
Indices: 9962656--9962728 Score: 96
Period size: 25 Copynumber: 2.9 Consensus size: 25
9962646 GACACACCAC
9962656 AGCTCATATGAGCTTACCAATT-TGT
1 AGCTCATATGAGCTTACCAATTCT-T
*
9962681 AGCTCATGA-GAGCTTACCGATTCTT
1 AGCTCAT-ATGAGCTTACCAATTCTT
*
9962706 AGCTCGTATGAGCTTACCAATTC
1 AGCTCATATGAGCTTACCAATTC
9962729 ACAACTCATG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.02
25 39 0.93
26 2 0.05
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (25 bp):
AGCTCATATGAGCTTACCAATTCTT
Found at i:9962737 original size:50 final size:50
Alignment explanation
Indices: 9962656--9962768 Score: 145
Period size: 50 Copynumber: 2.3 Consensus size: 50
9962646 GACACACCAC
*** * * * *
9962656 AGCTCATATGAGCTTACCAATTTGTAGCTCATGAGAGCTTACCGATTCTT
1 AGCTCATATGAGCTTACCAATTCACAACTCATGAGAACATACCGATTCAT
*
9962706 AGCTCGTATGAGCTTACCAATTCACAACTCATGAGAACATACCGATTCAT
1 AGCTCATATGAGCTTACCAATTCACAACTCATGAGAACATACCGATTCAT
*
9962756 AGCTCTTATGAGC
1 AGCTCATATGAGC
9962769 ATACATGTAC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (50 bp):
AGCTCATATGAGCTTACCAATTCACAACTCATGAGAACATACCGATTCAT
Found at i:9962771 original size:25 final size:24
Alignment explanation
Indices: 9962690--9962772 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 24
9962680 TAGCTCATGA
* *
9962690 GAGCTTACCGATTCTTAGCTCGTAT
1 GAGCATACCGATTCATAGCTC-TAT
* * * *
9962715 GAGCTTACCAATTCACAACTC-AT
1 GAGCATACCGATTCATAGCTCTAT
9962738 GAGAACATACCGATTCATAGCTCTTAT
1 GAG--CATACCGATTCATAGCTC-TAT
9962765 GAGCATAC
1 GAGCATAC
9962773 ATGTACATGA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
23 5 0.11
25 36 0.78
27 5 0.11
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (24 bp):
GAGCATACCGATTCATAGCTCTAT
Found at i:9962959 original size:30 final size:30
Alignment explanation
Indices: 9962920--9962980 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
9962910 TACATGAAAT
9962920 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
9962951 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
9962980 A
1 A
9962981 TTTGCTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
29 5 0.18
30 9 0.32
31 13 0.46
32 1 0.04
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.30
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:9963404 original size:30 final size:30
Alignment explanation
Indices: 9963368--9963430 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
9963358 TTTTGGTGTA
9963368 TATATATATGTGGCCTTATCATATTTAATG
1 TATATATATGTGGCCTTATCATATTTAATG
**
9963398 TATATATATGTGGTTTTATCATATTTAATG
1 TATATATATGTGGCCTTATCATATTTAATG
9963428 TAT
1 TAT
9963431 GTTTGATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (30 bp):
TATATATATGTGGCCTTATCATATTTAATG
Found at i:9965521 original size:31 final size:31
Alignment explanation
Indices: 9965483--9965545 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
9965473 AAGCCCAAAT
9965483 ATCACTAAGTTGTTTCCCTAATTCTTTACTA
1 ATCACTAAGTTGTTTCCCTAATTCTTTACTA
9965514 ATCACTAAGTTGTTTCCCTAATTCTTTACTA
1 ATCACTAAGTTGTTTCCCTAATTCTTTACTA
9965545 A
1 A
9965546 CTCCTTTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.22, G:0.06, T:0.44
Consensus pattern (31 bp):
ATCACTAAGTTGTTTCCCTAATTCTTTACTA
Found at i:9968307 original size:13 final size:13
Alignment explanation
Indices: 9968289--9968313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9968279 AAATAAAAAA
9968289 ATATATTTATTAT
1 ATATATTTATTAT
9968302 ATATATTTATTA
1 ATATATTTATTA
9968314 GGTAAATACT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATATTTATTAT
Found at i:9969916 original size:5 final size:5
Alignment explanation
Indices: 9969906--9969931 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9969896 TTTACTCTAA
9969906 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
9969932 CCTACGCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:9971432 original size:18 final size:19
Alignment explanation
Indices: 9971395--9971432 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9971385 TTAACAGTGC
* *
9971395 TAAAATCATTACTCTTTAA
1 TAAAAACATAACTCTTTAA
9971414 TAAAAACATAACT-TTTAA
1 TAAAAACATAACTCTTTAA
9971432 T
1 T
9971433 CCTTTCTTGT
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:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAACATAACTCTTTAA
Found at i:9973482 original size:9 final size:9
Alignment explanation
Indices: 9973468--9973494 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9973458 CTAAATTTTG
9973468 AAATATAAA
1 AAATATAAA
9973477 AAATATAAA
1 AAATATAAA
9973486 AAATATAAA
1 AAATATAAA
9973495 TACTAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATATAAA
Found at i:9977068 original size:24 final size:24
Alignment explanation
Indices: 9977041--9977095 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
9977031 ATTTCTAACC
9977041 TTTATAAATATATATATACATATT
1 TTTATAAATATATATATACATATT
* * *
9977065 TTTACATATATATATGTACATATT
1 TTTATAAATATATATATACATATT
9977089 TTATATA
1 TT-TATA
9977096 TTTTATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTATAAATATATATATACATATT
Found at i:9981456 original size:43 final size:43
Alignment explanation
Indices: 9981409--9981572 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 43
9981399 CTATCACAAA
*
9981409 CGCCGCTGA-AGACTAAGAG-CTTTAGCGGCGTTTTTAATATAAC
1 CGCCGCT-ATAGA-TAAGAGTCTTTAGCGGCGTTTTTAATATAAG
** * **
9981452 CGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTTGTTGA-AAG
1 CGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAAT-ATAAG
* * *
9981495 CGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTTATATAAG
1 CGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAATATAAG
* * *
9981538 CGCCGCTATAGATCATG-GCCTTTAGTGGCGTTTTT
1 CGCCGCTATAGAT-AAGAGTCTTTAGCGGCGTTTTT
9981573 CCCAAAAACG
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 5 0.05
43 94 0.93
44 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (43 bp):
CGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAATATAAG
Found at i:9981585 original size:43 final size:43
Alignment explanation
Indices: 9981428--9981592 Score: 134
Period size: 43 Copynumber: 3.8 Consensus size: 43
9981418 AGACTAAGAG
* * * * * *
9981428 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGTTTTTCACAAAAACGCCGCTATAGATCAGG-GC
**** * *
9981471 CTTTAGCGGCGTTTTTGTTGAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTCACAAAAACGCCGCTATAGATCAGGGC
* * * * *
9981514 CTTTAGCGGCGTTTTTTATATAAGCGCCGCTATAGATCATGGC
1 CTTTAGCGGCGTTTTTCACAAAAACGCCGCTATAGATCAGGGC
* * *
9981557 CTTTAGTGGCGTTTTTCCCAAAAACGCCGCAATAGA
1 CTTTAGCGGCGTTTTTCACAAAAACGCCGCTATAGA
9981593 CCCTGATCTA
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 100 0.98
44 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTCACAAAAACGCCGCTATAGATCAGGGC
Found at i:9981585 original size:86 final size:86
Alignment explanation
Indices: 9981428--9981592 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 86
9981418 AGACTAAGAG
* ****
9981428 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTTGTTGAA
1 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGTTTTTCCCAAA
* *
9981493 AGCGCCGCTATAGATCAGGGT
66 AACGCCGCAATAGATCAGGGT
* * *
9981514 CTTTAGCGGCGTTTTTTATATAAGCGCCGCTATAGATCAT-G-GCCTTTAGTGGCGTTTTTCCCA
1 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGAT--TGGTGCCTTTAGCGGCGTTTTTCCCA
9981577 AAAACGCCGCAATAGA
64 AAAACGCCGCAATAGA
9981593 CCCTGATCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 65 0.97
87 1 0.01
88 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (86 bp):
CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGTTTTTCCCAAA
AACGCCGCAATAGATCAGGGT
Found at i:9981607 original size:86 final size:86
Alignment explanation
Indices: 9981431--9981615 Score: 194
Period size: 86 Copynumber: 2.2 Consensus size: 86
9981421 CTAAGAGCTT
* **** *
9981431 TAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTTGTTGAAAGC
1 TAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGTTTTTCCCAAAAAC
* * * *
9981496 GCCGCTATAGATCAGGGTCTT
66 GCCGCAATAGACCAGGATCTA
* * *
9981517 TAGCGGCGTTTTTTATATAAGCGCCGCTATAGATCAT-G-GCCTTTAGTGGCGTTTTTCCCAAAA
1 TAGCGGCGTTTTTAATATAACCGCCGCTATAGAT--TGGTGCCTTTAGCGGCGTTTTTCCCAAAA
**
9981580 ACGCCGCAATAGACCCTGATCTA
64 ACGCCGCAATAGACCAGGATCTA
*
9981603 TAGCGGCATTTTT
1 TAGCGGCGTTTTT
9981616 CCCACAAGCG
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
86 79 0.98
87 1 0.01
88 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (86 bp):
TAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGTTTTTCCCAAAAAC
GCCGCAATAGACCAGGATCTA
Found at i:9981615 original size:43 final size:43
Alignment explanation
Indices: 9981564--9981765 Score: 196
Period size: 43 Copynumber: 4.6 Consensus size: 43
9981554 GGCCTTTAGT
*
9981564 GGCGTTTTTCCCAAAAACGCCGC-AATAGACCCTGATCTATAGC
1 GGCGCTTTTCCCAAAAACGCCGCTAA-AGACCCTGATCTATAGC
** * *
9981607 GGCATTTTTCCCACAAGCGCCGC-AATAGACCCTGATCTATAGC
1 GGCGCTTTTCCCAAAAACGCCGCTAA-AGACCCTGATCTATAGC
* *
9981650 GGCGCTTAT-CCAGAAAACGCCGCTAAATACCCTTTG-TCTATATAGC
1 GGCGCTTTTCCCA-AAAACGCCGCTAAAGACCC--TGATC--TATAGC
** * * *
9981696 GGCGCTTCGCGCGAAAACGCCGCTAAAGACCCTAATCTATAGC
1 GGCGCTTTTCCCAAAAACGCCGCTAAAGACCCTGATCTATAGC
*
9981739 GGCGCTTTTACCAAAAACGCCGCTAAA
1 GGCGCTTTTCCCAAAAACGCCGCTAAA
9981766 TTTGACAGAT
Statistics
Matches: 131, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
42 3 0.02
43 87 0.66
44 5 0.04
45 4 0.03
46 31 0.24
47 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (43 bp):
GGCGCTTTTCCCAAAAACGCCGCTAAAGACCCTGATCTATAGC
Found at i:9981700 original size:46 final size:43
Alignment explanation
Indices: 9981635--9981766 Score: 142
Period size: 46 Copynumber: 3.0 Consensus size: 43
9981625 GCCGCAATAG
*
9981635 ACCCTGATCTATAGCGGCGCTTATCCAGAAAACGCCGCTAAAT
1 ACCCTAATCTATAGCGGCGCTTATCCAGAAAACGCCGCTAAAT
** ** *
9981678 ACCCTTTGTCTATATAGCGGCGCTTCGCGC-GAAAACGCCGCTAAAG
1 ACCC-TAATC--TATAGCGGCGCTTATC-CAGAAAACGCCGCTAAAT
*
9981724 ACCCTAATCTATAGCGGCGCTTTTACCA-AAAACGCCGCTAAAT
1 ACCCTAATCTATAGCGGCGCTTAT-CCAGAAAACGCCGCTAAAT
9981767 TTGACAGATT
Statistics
Matches: 73, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
43 32 0.44
44 4 0.05
45 3 0.04
46 33 0.45
47 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (43 bp):
ACCCTAATCTATAGCGGCGCTTATCCAGAAAACGCCGCTAAAT
Found at i:9982095 original size:21 final size:21
Alignment explanation
Indices: 9982069--9982140 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
9982059 TTTGACGCTG
*
9982069 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGC
*
9982090 CTCTGCTTCCCTTGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* * * *
9982111 CTGTTCTTCTCTCGCTGCCA-C
1 CTCTGCTTCCCTCGCTG-TAGC
9982132 CTCTGCTTC
1 CTCTGCTTC
9982141 TCTTGCTGCT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.04, C:0.42, G:0.15, T:0.39
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:9982209 original size:66 final size:66
Alignment explanation
Indices: 9982130--9982277 Score: 201
Period size: 66 Copynumber: 2.2 Consensus size: 66
9982120 TCTCGCTGCC
* *
9982130 ACCTCTGCTTCTCTTGCTGCTGCATCTGCTCTAAGCTACT-GCTGGAGTTCTTCATA-CTTTCGT
1 ACCTCAGCTTCTCTCGCTGCTGCATCTGCTCTAAG-TACTAGCTGGAGTTCTTCATATCTTT-GT
9982193 TGA
64 TGA
* ** *
9982196 ACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTG
1 ACCTCAGCTTCTCTCGCTGCTGCATCTGCTCTAAGTACTAGCTGGAGTTCTTCATATCTTTGTTG
9982261 A
66 A
*
9982262 ACATCAGCTTCTCTCG
1 ACCTCAGCTTCTCTCG
9982278 ATGTTGCCTC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.03
66 67 0.92
67 4 0.05
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
ACCTCAGCTTCTCTCGCTGCTGCATCTGCTCTAAGTACTAGCTGGAGTTCTTCATATCTTTGTTG
A
Found at i:9982293 original size:66 final size:66
Alignment explanation
Indices: 9982170--9982300 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
9982160 CTAAGCTACT
* * *
9982170 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
9982235 A
66 A
* * *
9982236 GCTGGAGTTCTTCATATCTTT-TTTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG
9982300 T
65 T
9982301 GTAATTTGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 54 0.93
67 4 0.07
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:9987722 original size:16 final size:16
Alignment explanation
Indices: 9987701--9987734 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9987691 ATAGTTAAGC
9987701 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
9987717 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
9987733 TA
1 TA
9987735 CCCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:9987766 original size:25 final size:25
Alignment explanation
Indices: 9987715--9987770 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
9987705 TAAGTTATGT
* *
9987715 ATTATGTAAGTTATTTATTACCCAA
1 ATTATGTAAGTTATGTATTACCAAA
* **
9987740 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTACCAAA
9987765 ATTATG
1 ATTATG
9987771 CTATGTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTACCAAA
Found at i:9987784 original size:9 final size:9
Alignment explanation
Indices: 9987772--9987969 Score: 60
Period size: 9 Copynumber: 22.7 Consensus size: 9
9987762 AAAATTATGC
9987772 TATGTAAGT
1 TATGTAAGT
9987781 TATGTAAGT
1 TATGTAAGT
* **
9987790 CACATAAGT
1 TATGTAAGT
9987799 TATGTAAG-
1 TATGTAAGT
* * *
9987807 -AAGTTATT
1 TATGTAAGT
9987815 TATGTAAGT
1 TATGTAAGT
*
9987824 TAT-TTA-T
1 TATGTAAGT
* *
9987831 TATGAAAAT
1 TATGTAAGT
*
9987840 TAAGTAAGT
1 TATGTAAGT
*
9987849 TATGTAATT
1 TATGTAAGT
*
9987858 TACG-AA-T
1 TATGTAAGT
* **
9987865 AAT-TAAAAA
1 TATGT-AAGT
9987874 TATGTAAGT
1 TATGTAAGT
9987883 TATGTAAG-
1 TATGTAAGT
9987891 T-TGTAAGT
1 TATGTAAGT
*
9987899 TATGTATA-A
1 TATGTA-AGT
9987908 TAT-TAA-T
1 TATGTAAGT
**
9987915 TAACTAAGT
1 TATGTAAGT
* *
9987924 TATGTCATT
1 TATGTAAGT
*
9987933 TATGTATCATAT
1 TATGTA--A-GT
9987945 TAATGTAAGT
1 T-ATGTAAGT
*
9987955 TATGTAATT
1 TATGTAAGT
9987964 TATGTA
1 TATGTA
9987970 TATTAACTAA
Statistics
Matches: 134, Mismatches: 38, Indels: 34
0.65 0.18 0.17
Matches are distributed among these distances:
7 19 0.14
8 14 0.10
9 88 0.66
10 4 0.03
11 2 0.01
12 2 0.01
13 5 0.04
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (9 bp):
TATGTAAGT
Found at i:9987852 original size:34 final size:34
Alignment explanation
Indices: 9987814--9987892 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
9987804 AAGAAGTTAT
*** * *
9987814 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
* * *
9987848 TTATGTAATTTACGAATAATTAAAAATATGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
9987882 TTATGTAAGTT
1 TTATGTAAGTT
9987893 GTAAGTTATG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
Found at i:9987953 original size:56 final size:56
Alignment explanation
Indices: 9987892--9988152 Score: 217
Period size: 56 Copynumber: 4.7 Consensus size: 56
9987882 TTATGTAAGT
* * *
9987892 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTCATTTATGTATCATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCAGTTATGTATAATATTAA
* * *
9987948 TGTAAGTTATGTAATTTATGTATATTAACTAATTAATTTATGTAAGTTATGTATAATATTAA
1 TGTAAGTTATGT-A--TA---ATATTAATTAATTAAGTTATGTCAGTTATGTATAATATTAA
* * *
9988010 TTAATTAAGTTATGTCAT-TTATGT-A-TAA-T-A-TTAATGTAAGTTATGTATAATATTAA
1 -T--GTAAGTTATGT-ATAATAT-TAATTAATTAAGTT-ATGTCAGTTATGTATAATATTAA
*
9988066 T-TAA-TTAAG--T--T-TTAATTAATTAAGTTATGTCA-TCTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCAGT-TATGTATAATATTAA
9988115 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
9988153 CCTTACAATA
Statistics
Matches: 169, Mismatches: 12, Indels: 48
0.74 0.05 0.21
Matches are distributed among these distances:
45 1 0.01
46 2 0.01
47 4 0.02
48 3 0.02
49 22 0.13
50 5 0.03
51 8 0.05
52 3 0.02
53 1 0.01
55 4 0.02
56 56 0.33
57 2 0.01
58 3 0.02
59 6 0.04
60 1 0.01
62 35 0.21
63 2 0.01
65 11 0.07
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (56 bp):
TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCAGTTATGTATAATATTAA
Found at i:9987957 original size:31 final size:31
Alignment explanation
Indices: 9987884--9988056 Score: 172
Period size: 31 Copynumber: 5.5 Consensus size: 31
9987874 TATGTAAGTT
*
9987884 ATGTAAG-T-TGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* * *
9987913 ATTAACTAAGTTATGTCATTTATGTATCATATTA
1 A-T--GTAAGTTATGTAATTTATGTATAATATTA
* *
9987947 ATGTAAGTTATGTAATTTATGTATATTAACTA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATTA
* *
9987979 AT-TAATTTATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
9988009 ATTAATTAAGTTATGTCATTTATGTATAATATTA
1 A-T--GTAAGTTATGTAATTTATGTATAATATTA
9988043 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
9988057 TAATATTAAT
Statistics
Matches: 116, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
29 1 0.01
30 5 0.04
31 53 0.46
32 9 0.08
33 3 0.03
34 45 0.39
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (31 bp):
ATGTAAGTTATGTAATTTATGTATAATATTA
Found at i:9988053 original size:22 final size:21
Alignment explanation
Indices: 9988028--9988095 Score: 86
Period size: 22 Copynumber: 3.3 Consensus size: 21
9988018 GTTATGTCAT
9988028 TTATGTATAATATTAATGTAAG
1 TTATGTATAATATTAAT-TAAG
9988050 TTATGTATAATATTAATTAA-
1 TTATGTATAATATTAATTAAG
* * *
9988070 TTAAGTTTTA-ATTAATTAAG
1 TTATGTATAATATTAATTAAG
9988090 TTATGT
1 TTATGT
9988096 CATCTATGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.22
20 12 0.29
21 3 0.07
22 17 0.41
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (21 bp):
TTATGTATAATATTAATTAAG
Found at i:9988082 original size:15 final size:15
Alignment explanation
Indices: 9988062--9988091 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9988052 ATGTATAATA
9988062 TTAATTAATTAAGTT
1 TTAATTAATTAAGTT
9988077 TTAATTAATTAAGTT
1 TTAATTAATTAAGTT
9988092 ATGTCATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TTAATTAATTAAGTT
Found at i:9988094 original size:71 final size:71
Alignment explanation
Indices: 9988006--9988147 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
9987996 ATGTATAATA
*
9988006 TTAATTAATTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAAT
1 TTAATTAATTAAGTTATGTCATCTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAAT
9988071 TAAGTT
66 TAAGTT
9988077 TTAATTAATTAAGTTATGTCATCTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAAT
1 TTAATTAATTAAGTTATGTCATCTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAAT
9988142 TAAGTT
66 TAAGTT
9988148 ATGTCCCTTA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (71 bp):
TTAATTAATTAAGTTATGTCATCTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAAT
TAAGTT
Found at i:9988275 original size:24 final size:24
Alignment explanation
Indices: 9988243--9988295 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
9988233 ATTATTTTAT
9988243 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
*
9988267 AATATAATATTAATTTTAGTTACA
1 AATATAATATTAATTTTAGATACA
9988291 AATAT
1 AATAT
9988296 TATACAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:9989789 original size:17 final size:17
Alignment explanation
Indices: 9989767--9989800 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9989757 AAGTTCACAA
9989767 GAAGTAAAGGCTGCAAG
1 GAAGTAAAGGCTGCAAG
*
9989784 GAAGTAGAGGCTGCAAG
1 GAAGTAAAGGCTGCAAG
9989801 TTCCTGGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.38, T:0.12
Consensus pattern (17 bp):
GAAGTAAAGGCTGCAAG
Found at i:9990078 original size:33 final size:33
Alignment explanation
Indices: 9990041--9990108 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
9990031 ATATACATAT
*
9990041 ATTCATACCTAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
9990074 ATTCATACCCAACACTCATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
9990107 AT
1 AT
9990109 AACATAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:9990349 original size:14 final size:16
Alignment explanation
Indices: 9990330--9990368 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
9990320 AATTGGGAAA
9990330 TTGGGGAA-AAT-ACT
1 TTGGGGAAGAATAACT
9990344 TTGGGGAAGAATAACT
1 TTGGGGAAGAATAACT
*
9990360 TGGGGGAAG
1 TTGGGGAAG
9990369 TTGGGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 3 0.14
16 11 0.50
ACGTcount: A:0.33, C:0.05, G:0.38, T:0.23
Consensus pattern (16 bp):
TTGGGGAAGAATAACT
Found at i:9991604 original size:16 final size:16
Alignment explanation
Indices: 9991579--9991609 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9991569 AACCCCATAA
*
9991579 CCCCTTACCCCTAAAT
1 CCCCTAACCCCTAAAT
9991595 CCCCTAACCCCTAAA
1 CCCCTAACCCCTAAA
9991610 GCATAACCCT
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:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (16 bp):
CCCCTAACCCCTAAAT
Done.