Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 256 of 311
Found at i:85211627 original size:26 final size:26
Alignment explanation
Indices: 85211596--85211703 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
85211586 ATGAAATTCC
*
85211596 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
85211622 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
85211648 ATCATGGAATATTTATCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
85211674 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85211700 ATCA
1 ATCA
85211704 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:85215758 original size:34 final size:34
Alignment explanation
Indices: 85215719--85215788 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
85215709 CATGGATTTT
85215719 TAAAATAAAAAATAAATATTTTAAAATAAAATTA
1 TAAAATAAAAAATAAATATTTTAAAATAAAATTA
85215753 TAAAATAAAAAATAAATATTTTAAAATAAAATTA
1 TAAAATAAAAAATAAATATTTTAAAATAAAATTA
85215787 TA
1 TA
85215789 TTACCAGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (34 bp):
TAAAATAAAAAATAAATATTTTAAAATAAAATTA
Found at i:85215764 original size:20 final size:21
Alignment explanation
Indices: 85215741--85215783 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
85215731 TAAATATTTT
85215741 AAAATAAA-ATTATAAAATAA
1 AAAATAAATATTATAAAATAA
*
85215761 AAAATAAATATTTTAAAATAA
1 AAAATAAATATTATAAAATAA
85215782 AA
1 AA
85215784 TTATATTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATAAATATTATAAAATAA
Found at i:85215781 original size:14 final size:13
Alignment explanation
Indices: 85215727--85215762 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
85215717 TTTAAAATAA
*
85215727 AAAATAAATATTTT
1 AAAATAAA-ATTAT
85215741 AAAATAAAATTAT
1 AAAATAAAATTAT
85215754 AAAATAAAA
1 AAAATAAAA
85215763 AATAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATAAAATTAT
Found at i:85218087 original size:3 final size:3
Alignment explanation
Indices: 85218079--85218104 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
85218069 CCCCCTTCTG
85218079 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
85218105 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:85222200 original size:25 final size:25
Alignment explanation
Indices: 85222144--85222217 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
85222134 CACACCACAT
* *
85222144 CTCGTATGAGCTTCCCGTTATACAA
1 CTCGCATGAGCTTCCCGTTATTCAA
* *
85222169 CTCGCATGAGCTTCCCGTTATTTAG
1 CTCGCATGAGCTTCCCGTTATTCAA
*
85222194 CGT-GCATGAGCTTCTCGTTATTCA
1 C-TCGCATGAGCTTCCCGTTATTCA
85222218 GTTCAGAGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (25 bp):
CTCGCATGAGCTTCCCGTTATTCAA
Found at i:85229934 original size:17 final size:17
Alignment explanation
Indices: 85229913--85229946 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
85229903 CTCAAAGTTG
*
85229913 TTTTTTATTTTAAAAATA
1 TTTTTT-TTTCAAAAATA
85229931 TTTTTTTTTCAAAAAT
1 TTTTTTTTTCAAAAAT
85229947 GCTTCAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTTTTCAAAAATA
Found at i:85232778 original size:23 final size:22
Alignment explanation
Indices: 85232737--85232839 Score: 86
Period size: 23 Copynumber: 4.5 Consensus size: 22
85232727 AAGCTCCTCC
85232737 TGAGCTGATAAATAGTAAGCTCTAT
1 TGAGCTG--AAAT-GTAAGCTCTAT
85232762 TGAGCTGAAATGATAAGCTCTAT
1 TGAGCTGAAATG-TAAGCTCTAT
*
85232785 CGAGCTGAACA-GTAAGCTC-AT
1 TGAGCTGAA-ATGTAAGCTCTAT
* *
85232806 ATGAGCTG-AATCGGTAAGCTCCAA
1 -TGAGCTGAAAT--GTAAGCTCTAT
85232830 TGAGCTGAAA
1 TGAGCTGAAA
85232840 ACAGTAAGCT
Statistics
Matches: 67, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
20 1 0.01
21 3 0.04
22 14 0.21
23 38 0.57
24 4 0.06
25 7 0.10
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (22 bp):
TGAGCTGAAATGTAAGCTCTAT
Found at i:85232801 original size:45 final size:47
Alignment explanation
Indices: 85232750--85232886 Score: 151
Period size: 45 Copynumber: 2.9 Consensus size: 47
85232740 GCTGATAAAT
85232750 AGTAAGCTCTAT-TGAGCTGAAAT-GATAAGCTCTATCGAGCTG-AAC
1 AGTAAGCTCTATATGAGCTGAAATCGATAAGCTCTAT-GAGCTGAAAC
* *
85232795 AGTAAGCTC-ATATGAGCTG-AATCGGTAAGCTCCAATGAGCTGAAAAC
1 AGTAAGCTCTATATGAGCTGAAATCGATAAGCT-CTATGAGCTG-AAAC
*
85232842 AGTAAGCTCT-TATGAGTTGATATATCGATAAGCTCATATGAGCTG
1 AGTAAGCTCTATATGAGCTGA-A-ATCGATAAGCTC-TATGAGCTG
85232887 TGGTGAGTCC
Statistics
Matches: 77, Mismatches: 5, Indels: 15
0.79 0.05 0.15
Matches are distributed among these distances:
44 5 0.06
45 29 0.38
46 3 0.04
47 20 0.26
49 2 0.03
50 18 0.23
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (47 bp):
AGTAAGCTCTATATGAGCTGAAATCGATAAGCTCTATGAGCTGAAAC
Found at i:85233063 original size:21 final size:21
Alignment explanation
Indices: 85233039--85233084 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
85233029 TCAATTTCTC
* *
85233039 AAATCATATATATATTCAATT
1 AAATCAAATATATATACAATT
* *
85233060 AAATTAAATATATATACATTT
1 AAATCAAATATATATACAATT
85233081 AAAT
1 AAAT
85233085 ACTCAATTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATCAAATATATATACAATT
Found at i:85235663 original size:21 final size:22
Alignment explanation
Indices: 85235621--85235667 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
85235611 AGAACATTAT
* * *
85235621 TAAAATTTATAAAATTATTAAA
1 TAAATTTTATAAAAATAATAAA
85235643 TAAATTTTA-AAAAATAATAAA
1 TAAATTTTATAAAAATAATAAA
85235664 -AAAT
1 TAAAT
85235668 AATAAAAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 4 0.18
21 10 0.45
22 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATTTTATAAAAATAATAAA
Found at i:85235674 original size:9 final size:10
Alignment explanation
Indices: 85235650--85235675 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
85235640 AAATAAATTT
85235650 TAAAAAATAA
1 TAAAAAATAA
85235660 TAAAAAATAA
1 TAAAAAATAA
85235670 TAAAAA
1 TAAAAA
85235676 CCATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
TAAAAAATAA
Found at i:85236128 original size:13 final size:12
Alignment explanation
Indices: 85236106--85236139 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
85236096 GGCTCGCATG
85236106 TATTAATTTTTTA
1 TATT-ATTTTTTA
85236119 TATTA-TTTTTA
1 TATTATTTTTTA
85236130 TATTATTTTT
1 TATTATTTTT
85236140 AAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 5 0.25
13 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:85236145 original size:13 final size:11
Alignment explanation
Indices: 85236113--85236140 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
85236103 ATGTATTAAT
85236113 TTTTTATATTA
1 TTTTTATATTA
85236124 TTTTTATATTA
1 TTTTTATATTA
85236135 TTTTTA
1 TTTTTA
85236141 AATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:85239514 original size:37 final size:37
Alignment explanation
Indices: 85239453--85239531 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
85239443 TTATTACGAA
* * * *
85239453 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
*
85239490 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
85239527 GTCTT
1 GTCTT
85239532 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:85239780 original size:47 final size:47
Alignment explanation
Indices: 85239655--85239829 Score: 210
Period size: 47 Copynumber: 3.7 Consensus size: 47
85239645 CCTTTCGGGA
* * * * * *
85239655 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
85239702 CCTGTCAGATATATAC-CTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85239748 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
85239795 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
85239830 AGAATCCTAA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
46 39 0.36
47 70 0.64
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85411191 original size:40 final size:40
Alignment explanation
Indices: 85411107--85411289 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
85411097 TTGAATGCTG
* * * *
85411107 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
85411146 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
85411187 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
85411227 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
85411267 TCCGGGTTAAGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
85411290 GAATGAGTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 13 0.11
40 99 0.81
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:85411244 original size:80 final size:81
Alignment explanation
Indices: 85411107--85411286 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
85411097 TTGAATGCTG
* * *
85411107 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
85411171 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
85411187 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
85411248 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
85411267 TCCGGGTTAAGT-CCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
85411287 ATTGAATGAG
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 12 0.14
80 67 0.76
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:85418525 original size:15 final size:15
Alignment explanation
Indices: 85418499--85418531 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
85418489 TACATGAAAA
85418499 AAATATTATAT-AAG
1 AAATATTATATAAAG
85418513 AAATATATATATAAAG
1 AAATAT-TATATAAAG
85418529 AAA
1 AAA
85418532 AAAGAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 5 0.29
16 6 0.35
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (15 bp):
AAATATTATATAAAG
Found at i:85439456 original size:22 final size:22
Alignment explanation
Indices: 85439415--85439456 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
85439405 AATCTTTGAC
* *
85439415 ATAATTTAATTAGTTTATTTTT
1 ATAATTTAATTAATTAATTTTT
*
85439437 ATAATTTTATTAATTAATTT
1 ATAATTTAATTAATTAATTT
85439457 AAATAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
ATAATTTAATTAATTAATTTTT
Found at i:85444060 original size:43 final size:43
Alignment explanation
Indices: 85443999--85444085 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
85443989 TACTCGAAAG
85443999 AAAGGAGGCAATTTTATTTTGTTAGAGTGGGATGGCACTAGGT
1 AAAGGAGGCAATTTTATTTTGTTAGAGTGGGATGGCACTAGGT
85444042 AAAGGAGGCAATTTTATTTTGTTAGAGTGGGATGGCACTAGGT
1 AAAGGAGGCAATTTTATTTTGTTAGAGTGGGATGGCACTAGGT
85444085 A
1 A
85444086 GAATTAGGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.29, C:0.07, G:0.32, T:0.32
Consensus pattern (43 bp):
AAAGGAGGCAATTTTATTTTGTTAGAGTGGGATGGCACTAGGT
Found at i:85447511 original size:3 final size:3
Alignment explanation
Indices: 85447503--85447543 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
85447493 GTAAGAAGGA
85447503 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
85447544 GCTTTTGCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:85447701 original size:3 final size:3
Alignment explanation
Indices: 85447693--85447756 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
85447683 ATGCCCTTGT
*
85447693 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TCC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
85447741 TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC T
85447757 CGTGTACTGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:85449111 original size:28 final size:28
Alignment explanation
Indices: 85449001--85449121 Score: 90
Period size: 27 Copynumber: 4.4 Consensus size: 28
85448991 ACATCGACAT
* *
85449001 TTAATTATTTTTAAAATT-TTTAAAAAT
1 TTAATTAATTTTAAAATTATTTAAAAAA
** * *
85449028 TTAAAAAATTCTAAAAACTATTTTTAAAAAA
1 TTAATTAATT-TTAAAA-T-TATTTAAAAAA
* *
85449059 -TAAGTCA--TTAAAATTATTTAAAAAA
1 TTAATTAATTTTAAAATTATTTAAAAAA
*
85449084 TTATATTAATTTTAATATT-TTTAAAAAA
1 TTA-ATTAATTTTAAAATTATTTAAAAAA
85449112 TTAATTAATT
1 TTAATTAATT
85449122 GATGATGTGT
Statistics
Matches: 73, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
25 10 0.14
26 3 0.04
27 22 0.30
28 17 0.23
29 8 0.11
30 5 0.07
31 8 0.11
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.46
Consensus pattern (28 bp):
TTAATTAATTTTAAAATTATTTAAAAAA
Found at i:85452023 original size:18 final size:18
Alignment explanation
Indices: 85452000--85452045 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
85451990 ATTTAAATTG
*
85452000 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGATTT
85452018 CGGTCGC-GTCGC-ATTT
1 CGGTCGCGGTCGCGATTT
85452034 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
85452046 GACATAACGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 3 0.12
17 5 0.20
18 7 0.28
ACGTcount: A:0.02, C:0.30, G:0.39, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGATTT
Found at i:85454635 original size:22 final size:23
Alignment explanation
Indices: 85454577--85454653 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 23
85454567 GAAATATACA
* *
85454577 ATATAGAA-ATATACAT-ACAAT
1 ATATAAAATATATACATAATAAT
85454598 AGTATAAAAGGTATATA-ACTAATAAT
1 A-TATAAAA--TATATACA-TAATAAT
*
85454624 AT-TAAAATATATACATAATAGT
1 ATATAAAATATATACATAATAAT
85454646 ATATAAAA
1 ATATAAAA
85454654 ACATAATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
21 1 0.02
22 20 0.44
23 6 0.13
24 6 0.13
25 7 0.16
26 5 0.11
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.31
Consensus pattern (23 bp):
ATATAAAATATATACATAATAAT
Found at i:85454659 original size:18 final size:17
Alignment explanation
Indices: 85454636--85454675 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
85454626 TAAAATATAT
*
85454636 ACATAATAGTATATAAAA
1 ACATAATAGTA-AAAAAA
*
85454654 ACATAATATTAAAAAAA
1 ACATAATAGTAAAAAAA
85454671 ACATA
1 ACATA
85454676 TACACATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (17 bp):
ACATAATAGTAAAAAAA
Found at i:85457170 original size:6 final size:6
Alignment explanation
Indices: 85457159--85457197 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
85457149 TCTCGAAAAT
* *
85457159 TTTTGC TTTTGC TTTTGC TTTTGC TTTTCC TTTTCC TTT
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTT
85457198 CCATTTCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.21, G:0.10, T:0.69
Consensus pattern (6 bp):
TTTTGC
Found at i:85458372 original size:18 final size:19
Alignment explanation
Indices: 85458349--85458384 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
85458339 GGCTGTAGGT
85458349 GCTAAAA-CAAATTAATTA
1 GCTAAAAGCAAATTAATTA
*
85458367 GCTAAAAGCAATTTAATT
1 GCTAAAAGCAAATTAATT
85458385 GGCTGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (19 bp):
GCTAAAAGCAAATTAATTA
Found at i:85464845 original size:21 final size:20
Alignment explanation
Indices: 85464813--85464853 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
85464803 GTCTTTTTTT
*
85464813 AATGAATGTTTTGAATAAAA
1 AATGAATATTTTGAATAAAA
*
85464833 AATGTAATATTTTGCATAAAA
1 AATG-AATATTTTGAATAAAA
85464854 CTGTTATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (20 bp):
AATGAATATTTTGAATAAAA
Found at i:85467082 original size:3 final size:3
Alignment explanation
Indices: 85467067--85467138 Score: 92
Period size: 3 Copynumber: 23.7 Consensus size: 3
85467057 GGCAGCAGCA
*
85467067 AAG AGAG AA- AAG AAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
85467112 AAG AAG AAG GAG AAGG AGG AAG AAG AA
1 AAG AAG AAG AAG AA-G AAG AAG AAG AA
85467139 AAAAATGTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.03
3 53 0.88
4 5 0.08
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:85470081 original size:33 final size:33
Alignment explanation
Indices: 85470009--85470092 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
85469999 GCCACATCTG
* * *
85470009 TACTCTACTCCTTCCAGCTCATATCCACCACCA
1 TACTCTACTCCTCCCGGCCCATATCCACCACCA
* * *
85470042 TACTCTACTCCTCCCGGCCCATATCCAGCGCCG
1 TACTCTACTCCTCCCGGCCCATATCCACCACCA
* *
85470075 TTCTCTACTCCACCCGGC
1 TACTCTACTCCTCCCGGC
85470093 TCGAGTTCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.18, C:0.48, G:0.10, T:0.25
Consensus pattern (33 bp):
TACTCTACTCCTCCCGGCCCATATCCACCACCA
Found at i:85470534 original size:21 final size:22
Alignment explanation
Indices: 85470475--85470678 Score: 88
Period size: 21 Copynumber: 9.1 Consensus size: 22
85470465 CATAAAAAAT
85470475 AATA-AATTATCAAAATTATTAA
1 AATATAATT-TCAAAATTATTAA
*
85470497 AATAATAATATTAAAAATTA-TAA
1 AAT-ATAAT-TTCAAAATTATTAA
85470520 AACT-TAATTTCAAAATTATT-A
1 AA-TATAATTTCAAAATTATTAA
* *
85470541 AA-A-AATTT-AAGCA-TA-AAA
1 AATATAATTTCAA-AATTATTAA
* *
85470559 AATAATAAATTAATAACATTATTAA
1 AAT-ATAATTTCA-AA-ATTATTAA
*
85470584 AATAATAATATTAAAAAATTATT-A
1 AAT-ATAAT-TT-CAAAATTATTAA
* * *
85470608 AACATAATTTCAGAATTATTCA
1 AATATAATTTCAAAATTATTAA
* *
85470630 AATAATAATATTAAAAAATTATGAA
1 AAT-ATAAT-TT-CAAAATTATTAA
*
85470655 ACT-TAATTTCAAAATTTATTAA
1 AATATAATTTCAAAA-TTATTAA
85470677 AA
1 AA
85470679 ATTTTAAGTA
Statistics
Matches: 139, Mismatches: 20, Indels: 46
0.68 0.10 0.22
Matches are distributed among these distances:
18 7 0.05
19 6 0.04
20 1 0.01
21 28 0.20
22 23 0.17
23 22 0.16
24 19 0.14
25 27 0.19
26 4 0.03
27 2 0.01
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (22 bp):
AATATAATTTCAAAATTATTAA
Found at i:85470585 original size:25 final size:25
Alignment explanation
Indices: 85470557--85470651 Score: 101
Period size: 25 Copynumber: 4.0 Consensus size: 25
85470547 TTAAGCATAA
*
85470557 AAAATAATAA-ATTAATAACATTATT
1 AAAATAATAATATTAA-AAAATTATT
85470582 AAAATAATAATATTAAAAAATTATT
1 AAAATAATAATATTAAAAAATTATT
* * *
85470607 -AAA-CATAAT-TT-CAGAATTATT
1 AAAATAATAATATTAAAAAATTATT
*
85470628 CAAATAATAATATTAAAAAATTAT
1 AAAATAATAATATTAAAAAATTAT
85470652 GAAACTTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
21 8 0.14
22 5 0.09
23 10 0.17
24 5 0.09
25 25 0.43
26 5 0.09
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (25 bp):
AAAATAATAATATTAAAAAATTATT
Found at i:85470626 original size:88 final size:88
Alignment explanation
Indices: 85470397--85470627 Score: 340
Period size: 87 Copynumber: 2.6 Consensus size: 88
85470387 TTTTCCAATA
* * * * *
85470397 AAAATTTATTAAATTAATAATACTAAAAAATTATTAGACTTAATTTTAAAAATATTAAAAAATCT
1 AAAA-TTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATTAAAAAATCT
85470462 AAGCATAAAAAATAATAAATTATC
65 AAGCATAAAAAATAATAAATTATC
* *
85470486 AAAATTATTAAAATAATAATATT-AAAAATTATAAAACTTAATTTCAAAATTATTAAAAAATTTA
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATTAAAAAATCTA
85470550 AGCATAAAAAATAATAAATTAAT-
66 AGCATAAAAAATAATAAATT-ATC
* * *
85470573 AACATTATTAAAATAATAATATTAAAAAATTATTAAACATAATTTCAGAATTATT
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATT
85470628 CAAATAATAA
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
87 78 0.60
88 47 0.36
89 4 0.03
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (88 bp):
AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATTAAAAAATCTA
AGCATAAAAAATAATAAATTATC
Found at i:85470633 original size:46 final size:46
Alignment explanation
Indices: 85470397--85470750 Score: 300
Period size: 46 Copynumber: 7.9 Consensus size: 46
85470387 TTTTCCAATA
* * * *
85470397 AAAATTTATTAAATTAATAATACTAAAAAATTATTAGACTTAATTTT
1 AAAA-TTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
* * *
85470444 AAAAATATTAAAA-AATCTAAGCA-TAAAAAA-TAATAAA-TT-A--TC
1 AAAATTATTAAAATAA--TAA-TATTAAAAAATTATTAAACTTAATTTC
*
85470486 AAAATTATTAAAATAATAATATT-AAAAATTATAAAACTTAATTTC
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
* *
85470531 AAAATTATTAAAA-AATTTAAGCA-TAAAAAA-TAATAAA-TTAA--T-
1 AAAATTATTAAAATAA--TAA-TATTAAAAAATTATTAAACTTAATTTC
* *
85470573 AACATTATTAAAATAATAATATTAAAAAATTATTAAACATAATTTC
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
* * *
85470619 AGAATTATTCAAATAATAATATTAAAAAATTATGAAACTTAATTTC
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
** *
85470665 AAAATTTATTAAAAATTTTAAGTA-TAAAAAA-TAATAAA-TTAA--T-
1 AAAA-TTATT-AAAATAATAA-TATTAAAAAATTATTAAACTTAATTTC
*
85470708 AACATTATTAAAATAATAATATTAAAAAATTATTAAACTTAAT
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAAT
85470751 AAAATTTTTT
Statistics
Matches: 247, Mismatches: 32, Indels: 59
0.73 0.09 0.17
Matches are distributed among these distances:
40 9 0.04
41 34 0.14
42 44 0.18
43 16 0.06
44 4 0.02
45 24 0.10
46 69 0.28
47 30 0.12
48 15 0.06
49 2 0.01
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (46 bp):
AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
Found at i:85470711 original size:135 final size:134
Alignment explanation
Indices: 85470479--85470750 Score: 465
Period size: 135 Copynumber: 2.0 Consensus size: 134
85470469 AAAAATAATA
85470479 AATTATCAAAATTATTAAAATAATAATATTAAAAATTATAAAACTTAATTTCAAAATTATTAAAA
1 AATTATCAAAATTATTAAAATAATAATATTAAAAATTATAAAACTTAATTTCAAAATTATTAAAA
85470544 AATTTAAGCATAAAAAATAATAAATTAATAACATTATTAAAATAATAATATTAAAAAATTATTAA
66 AATTTAAGCATAAAAAATAATAAATTAATAACATTATTAAAATAATAATATTAAAAAATTATTAA
85470609 ACAT
131 ACAT
* * *
85470613 AATT-TCAGAATTATTCAAATAATAATATTAAAAAATTATGAAACTTAATTTCAAAATTTATTAA
1 AATTATCAAAATTATTAAAATAATAATATT-AAAAATTATAAAACTTAATTTCAAAA-TTATTAA
* *
85470677 AAATTTTAAGTATAAAAAATAATAAATTAATAACATTATTAAAATAATAATATTAAAAAATTATT
64 AAAATTTAAGCATAAAAAATAATAAATTAATAACATTATTAAAATAATAATATTAAAAAATTATT
*
85470742 AAACTT
129 AAACAT
85470748 AAT
1 AAT
85470751 AAAATTTTTT
Statistics
Matches: 130, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
133 23 0.18
134 29 0.22
135 78 0.60
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (134 bp):
AATTATCAAAATTATTAAAATAATAATATTAAAAATTATAAAACTTAATTTCAAAATTATTAAAA
AATTTAAGCATAAAAAATAATAAATTAATAACATTATTAAAATAATAATATTAAAAAATTATTAA
ACAT
Found at i:85470720 original size:25 final size:24
Alignment explanation
Indices: 85470692--85470753 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
85470682 TTAAGTATAA
*
85470692 AAAATAATAAATTAATAACATTATT
1 AAAATAATAAATTAA-AAAATTATT
85470717 AAAATAATAATATTAAAAAATTATT
1 AAAATAATAA-ATTAAAAAATTATT
*
85470742 AAACTTAATAAA
1 AAA-ATAATAAA
85470754 ATTTTTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 22 0.67
26 11 0.33
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAATAATAAATTAAAAAATTATT
Found at i:85473473 original size:21 final size:21
Alignment explanation
Indices: 85473441--85473483 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
85473431 TAAAATTGCA
*
85473441 AAAATAATAAATTTAGGGACT
1 AAAATAATAAATATAGGGACT
*
85473462 AAAAT-ATGAAATATATGGACT
1 AAAATAAT-AAATATAGGGACT
85473483 A
1 A
85473484 GTACGAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (21 bp):
AAAATAATAAATATAGGGACT
Found at i:85474302 original size:35 final size:35
Alignment explanation
Indices: 85474263--85474338 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
85474253 ACAAGTAAGC
*
85474263 TTATATCAAACTTGAGTATTCGGTTACATGTGAAT
1 TTATATCAAACATGAGTATTCGGTTACATGTGAAT
** * * * *
85474298 TTATATTGAACATGTGTATTTGGTTGCATGTGAGT
1 TTATATCAAACATGAGTATTCGGTTACATGTGAAT
85474333 TTATAT
1 TTATAT
85474339 TGAGCTTATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.45
Consensus pattern (35 bp):
TTATATCAAACATGAGTATTCGGTTACATGTGAAT
Found at i:85474463 original size:40 final size:40
Alignment explanation
Indices: 85474408--85474820 Score: 474
Period size: 41 Copynumber: 10.2 Consensus size: 40
85474398 GTTTAATTAA
* * * * *
85474408 AAACGCCGCAAAAAACTGAACAAAAGTAGCGTTTTTGGCC
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCC
* *
85474448 AAAACGCCACT-AAAACTTATCAATAGTC-GCGTTTTTAGCCC
1 -AAACGCCACTAAAAACTGATCAATAG-CAGCGTTTTT-GGCC
*
85474489 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCC
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCC
* * * *
85474529 AAGCGCCACTAAAAACTGATCAATTGCGGCGTTTTTAGCCC
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTT-GGCC
* * *
85474570 AAACGCCACTAAAAACTTATGAATAGCAGCGTTTTTGTCC
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCC
*
85474610 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCC
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGG-CC
* * *
85474651 AAACGCCACTAAAAACTGATCAATAGCTGCATTTTTTGCC
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCC
* *
85474691 TAAACGCCACTAAAAACTGATCAATAGCAGCGTTTTT-ACATA
1 -AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGC--C
* * *
85474733 AAATGCCACTAAAAACTGAGCAACAGCAGCGTTTTTGGTCC
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGG-CC
* *
85474774 AAACACCACT-AAAACTGATCAATAGCGGCGTTTTTGGTCC
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGG-CC
85474814 AAACGCC
1 AAACGCC
85474821 GCAAAAAGTT
Statistics
Matches: 321, Mismatches: 40, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
40 141 0.44
41 179 0.56
43 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCC
Found at i:85474544 original size:81 final size:81
Alignment explanation
Indices: 85474408--85474820 Score: 528
Period size: 81 Copynumber: 5.1 Consensus size: 81
85474398 GTTTAATTAA
* * * * * *
85474408 AAACGCCGCAAAAAACTGAACAAAAGTAGCGTTTTTGGCCAAAACGCCACT-AAAACTTATCAAT
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCC-AAACGCCACTAAAAACTGATCAAT
85474472 AGTC-GCGTTTTTAGCCC
65 AG-CGGCGTTTTTAGCCC
* * *
85474489 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCAAGCGCCACTAAAAACTGATCAATT
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATA
85474554 GCGGCGTTTTTAGCCC
66 GCGGCGTTTTTAGCCC
* * *
85474570 AAACGCCACTAAAAACTTATGAATAGCAGCGTTTTTGTCCAAACGCCACTAAAAACTGATCAATA
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATA
*
85474635 GCGGCGTTTTTGGCCC
66 GCGGCGTTTTTAGCCC
* * *
85474651 AAACGCCACTAAAAACTGATCAATAGCTGCATTTTTTGCCTAAACGCCACTAAAAACTGATCAAT
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCC-AAACGCCACTAAAAACTGATCAAT
* **
85474716 AGCAGCGTTTTTA-CATA
65 AGCGGCGTTTTTAGC-CC
* * * *
85474733 AAATGCCACTAAAAACTGAGCAACAGCAGCGTTTTTGGTCCAAACACCACT-AAAACTGATCAAT
1 AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGG-CCAAACGCCACTAAAAACTGATCAAT
* *
85474797 AGCGGCGTTTTTGGTCC
65 AGCGGCGTTTTTAGCCC
85474814 AAACGCC
1 AAACGCC
85474821 GCAAAAAGTT
Statistics
Matches: 287, Mismatches: 39, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
80 10 0.03
81 199 0.69
82 76 0.26
83 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (81 bp):
AAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATA
GCGGCGTTTTTAGCCC
Found at i:85475147 original size:21 final size:21
Alignment explanation
Indices: 85475123--85475199 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
85475113 CTTTAAATCT
*
85475123 TAAACATTAAACCCTAAACCC
1 TAAACATTAAACCATAAACCC
* * *
85475144 TAAA-TTCTAAAACATAAACCA
1 TAAACAT-TAAACCATAAACCC
* * *
85475165 TAAACACTAATCCATAAACTC
1 TAAACATTAAACCATAAACCC
*
85475186 TAAAACCTTAAACC
1 T-AAACATTAAACC
85475200 CTCTAAAAAA
Statistics
Matches: 40, Mismatches: 13, Indels: 5
0.69 0.22 0.09
Matches are distributed among these distances:
20 1 0.03
21 30 0.75
22 9 0.22
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACATTAAACCATAAACCC
Found at i:85475422 original size:36 final size:36
Alignment explanation
Indices: 85475344--85475423 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 36
85475334 GTTTAAGGCC
* *
85475344 TATGGTTTAGGGTTTAATGGTAGAATATATTTTAAGTT
1 TATGGTTTAGGGTTCAATGGT--AATATATGTTAAGTT
85475382 TATGGTTTAGGGTTCAATGGT-ATAGTATGTTAAGTT
1 TATGGTTTAGGGTTCAATGGTAATA-TATGTTAAGTT
85475418 TATGGT
1 TATGGT
85475424 GTGGGCCGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 3 0.08
36 16 0.41
38 20 0.51
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.46
Consensus pattern (36 bp):
TATGGTTTAGGGTTCAATGGTAATATATGTTAAGTT
Found at i:85475488 original size:39 final size:35
Alignment explanation
Indices: 85475432--85475503 Score: 92
Period size: 39 Copynumber: 1.9 Consensus size: 35
85475422 GTGTGGGCCG
85475432 AGTTTGTTATCTTGGGTTTAGGGTATAGTGTTTTAAATT
1 AGTTTGTTATCTTGGGTTT--GGTAT--TGTTTTAAATT
85475471 AGTTTGTTAT-TTGGGGTTTGGTATTGTTTTAAA
1 AGTTTGTTATCTT-GGGTTTGGTATTGTTTTAAA
85475504 GTGTTTAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
35 9 0.28
37 5 0.16
38 2 0.06
39 16 0.50
ACGTcount: A:0.19, C:0.01, G:0.26, T:0.53
Consensus pattern (35 bp):
AGTTTGTTATCTTGGGTTTGGTATTGTTTTAAATT
Found at i:85477274 original size:18 final size:18
Alignment explanation
Indices: 85477247--85477289 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
85477237 TTTTTTCTTC
*
85477247 ATGTTGTTTCATATGGGT
1 ATGTTATTTCATATGGGT
85477265 ATGTTATTTCATATGGGT
1 ATGTTATTTCATATGGGT
85477283 ATGTTAT
1 ATGTTAT
85477290 AGAGAAGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.05, G:0.23, T:0.51
Consensus pattern (18 bp):
ATGTTATTTCATATGGGT
Found at i:85478225 original size:13 final size:14
Alignment explanation
Indices: 85478209--85478237 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
85478199 TTATAAATAT
85478209 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
85478222 TTATAATGGTTTAA
1 TTATAATGGTTTAA
85478236 TT
1 TT
85478238 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:85479497 original size:14 final size:15
Alignment explanation
Indices: 85479466--85479494 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85479456 GACAAAAAAG
85479466 ATTGTATTTTTCTTT
1 ATTGTATTTTTCTTT
85479481 ATTGTATTTTTCTT
1 ATTGTATTTTTCTT
85479495 ATTTGGCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (15 bp):
ATTGTATTTTTCTTT
Found at i:85479651 original size:27 final size:27
Alignment explanation
Indices: 85479612--85479672 Score: 113
Period size: 27 Copynumber: 2.2 Consensus size: 27
85479602 GTTTATCTTG
85479612 CTTTCGTTTGATTTCAAGGGTGGATTTA
1 CTTT-GTTTGATTTCAAGGGTGGATTTA
85479640 CTTTGTTTGATTTCAAGGGTGGATTTA
1 CTTTGTTTGATTTCAAGGGTGGATTTA
85479667 CTTTGT
1 CTTTGT
85479673 GATTGCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.16, C:0.10, G:0.25, T:0.49
Consensus pattern (27 bp):
CTTTGTTTGATTTCAAGGGTGGATTTA
Found at i:85486364 original size:35 final size:35
Alignment explanation
Indices: 85486273--85486439 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
85486263 CATGGAAAAG
* *
85486273 TGTGAAATGTAGTTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
*
85486308 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
85486343 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGT
** * *
85486383 TAAGAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGT
**
85486418 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
85486440 TCAATGAGGA
Statistics
Matches: 115, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
34 1 0.01
35 81 0.70
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 29 0.25
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
Found at i:85486396 original size:75 final size:75
Alignment explanation
Indices: 85486273--85486443 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
85486263 CATGGAAAAG
* ** *
85486273 TGTGAAATGTAGTTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
85486332 CCATACTGAGC
65 CCATACCGAGC
85486343 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
85486408 CATACCGAGT
66 CATACCGAGC
**
85486418 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
85486444 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 5 0.06
75 61 0.70
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:85487906 original size:132 final size:132
Alignment explanation
Indices: 85487669--85487912 Score: 346
Period size: 132 Copynumber: 1.8 Consensus size: 132
85487659 TTGCCTCGCC
** * * * * **
85487669 TTTAGAAAACACGGATGAAATTCCAAAGGGATATTCGATTATTTTGAACAAATGGGTGATTGCAA
1 TTTAGAAAACACAAATGAAATTCCAAAGAGACATTCAATTATTTTGAACAAATGAGAAATTGCAA
* *
85487734 CCCAGCACGATAGGGCACTATTCCCCGAATTGCTAAACATCGAACATTTCCTTCGTTTTAAAAAG
66 CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAAG
85487799 TT
131 TT
* **
85487801 TTTAGAAAACACAAATGAAATTCTAAAGAGACATTCAATTATTTTGGGCAACA-GAGAAATTGCA
1 TTTAGAAAACACAAATGAAATTCCAAAGAGACATTCAATTATTTTGAACAA-ATGAGAAATTGCA
*
85487865 ACCCAGCACGGTAGGGCACGATTCCCCGAATTGCCAAACATCGAACAT
65 ACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACAT
85487913 CGCCTCCATT
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
132 96 0.99
133 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (132 bp):
TTTAGAAAACACAAATGAAATTCCAAAGAGACATTCAATTATTTTGAACAAATGAGAAATTGCAA
CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAAG
TT
Found at i:85490700 original size:25 final size:25
Alignment explanation
Indices: 85490671--85490719 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
85490661 GTTTTGGGTG
85490671 TTGGGTTTAGGGGCTGTAAACGGGA
1 TTGGGTTTAGGGGCTGTAAACGGGA
*
85490696 TTGGGTTTAGGGGTTGTAAACGGG
1 TTGGGTTTAGGGGCTGTAAACGGG
85490720 CCGGGCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.06, G:0.45, T:0.31
Consensus pattern (25 bp):
TTGGGTTTAGGGGCTGTAAACGGGA
Found at i:85492877 original size:9 final size:9
Alignment explanation
Indices: 85492863--85492888 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
85492853 GAGTAAGGAC
85492863 TGAATTGTA
1 TGAATTGTA
85492872 TGAATTGTA
1 TGAATTGTA
85492881 TGAATTGT
1 TGAATTGT
85492889 GAAGTTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (9 bp):
TGAATTGTA
Found at i:85493938 original size:50 final size:50
Alignment explanation
Indices: 85493863--85494039 Score: 282
Period size: 50 Copynumber: 3.5 Consensus size: 50
85493853 CCATGGCAAC
*
85493863 AAGTGATAAGTGATAGCTTCGGCTACAGTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
85493913 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTAATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
85493963 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
85494013 CAAGTGAAAAGTGGTGGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
85494040 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 93 0.80
51 23 0.20
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:85494053 original size:31 final size:31
Alignment explanation
Indices: 85494015--85494163 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
85494005 ACAAATGACA
*
85494015 AGTGAAAAGTGGTGGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
85494046 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
85494077 AGTGAAAAGTGGTAGCTCCGACTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
85494108 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
85494139 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
85494164 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:85494334 original size:49 final size:45
Alignment explanation
Indices: 85494263--85494438 Score: 168
Period size: 42 Copynumber: 4.0 Consensus size: 45
85494253 ACATCAGTGA
* *
85494263 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGTCATCGATATGT
1 GATATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATCG--A--T
*
85494311 GATATGTGATTATGTGTAAGACCATAGTTGGGCTATGGCATCGAT
1 GATATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATCGAT
*
85494356 -ATA--TGAATATGTGTAAGACCATAGCTGGGCTATGGCATC-AT
1 GATATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATCGAT
* ** * * **
85494397 --TATGTAAAGATGTGTAAGGCCATAGTTGAACTATGGCATCGA
1 GATATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATCGA
85494439 GAAAACGAAG
Statistics
Matches: 113, Mismatches: 11, Indels: 13
0.82 0.08 0.09
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 64 0.57
43 1 0.01
44 3 0.03
45 1 0.01
47 1 0.01
48 11 0.10
49 28 0.25
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (45 bp):
GATATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATCGAT
Found at i:85500480 original size:19 final size:17
Alignment explanation
Indices: 85500456--85500492 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
85500446 TAGTTAAATG
85500456 ATAAAATAATACAAAGAAA
1 ATAAAAT-ATA-AAAGAAA
85500475 ATAAAATATAAAAGAAA
1 ATAAAATATAAAAGAAA
85500492 A
1 A
85500493 ACAAAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
ATAAAATATAAAAGAAA
Found at i:85501656 original size:45 final size:45
Alignment explanation
Indices: 85501557--85501656 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
85501547 ATGTGCCGAA
* * *
85501557 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGT
1 TACTGTTACTATTACAGATTCGACACTTTGTGTGTCGAATACTAT
* *
85501602 TATTGTTACTATTACAGATTC-AGCACTTTGTGTGTTGAATACTAT
1 TACTGTTACTATTACAGATTCGA-CACTTTGTGTGTCGAATACTAT
*
85501647 TACTATTACT
1 TACTGTTACT
85501657 TTTATCATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.02
45 46 0.98
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (45 bp):
TACTGTTACTATTACAGATTCGACACTTTGTGTGTCGAATACTAT
Found at i:85503332 original size:21 final size:22
Alignment explanation
Indices: 85503307--85503365 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
85503297 CAAAACACAT
* *
85503307 TAATATTATACATACAGTA-AA
1 TAATAATATAAATACAGTACAA
* *
85503328 TAATAAGATAAATATAGTACAA
1 TAATAATATAAATACAGTACAA
*
85503350 TAATAATATAATTACA
1 TAATAATATAAATACA
85503366 ATAAAAAATC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (22 bp):
TAATAATATAAATACAGTACAA
Found at i:85503577 original size:21 final size:20
Alignment explanation
Indices: 85503553--85503596 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
85503543 TCAACATTTC
85503553 AATAAATCAAAAAAAAATTCA
1 AATAAATCAAAAAAAAATT-A
*
85503574 AATAAATCAAAAACAAATTA
1 AATAAATCAAAAAAAAATTA
85503594 AAT
1 AAT
85503597 TACATTACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.20
Consensus pattern (20 bp):
AATAAATCAAAAAAAAATTA
Found at i:85503724 original size:104 final size:104
Alignment explanation
Indices: 85503593--85503858 Score: 376
Period size: 104 Copynumber: 2.6 Consensus size: 104
85503583 AAAACAAATT
* * * * * *
85503593 AAATTACATT-ACAAAAAAATCACAATAAACAGTAAACTAAACCCAAACAATTTGTAGCCTAATA
1 AAATTACATTCATAAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACATAATA
85503657 ATAAATTACTAACAAAATAACTTTAAAAATAATTTT-AAAA
66 ATAAATTACTAACAAAATAACTTT--AAATAATTTTAAAAA
* * * *
85503697 AATTTAGATTCAT-AAAAAATCAAAATAAACACTAAACTAAACACAAACAATTTATAACATAATC
1 AAATTACATTCATAAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACATAATA
85503761 ATAAATTACTAACAAAATAACTTTAAATAATTTTAAAAA
66 ATAAATTACTAACAAAATAACTTTAAATAATTTTAAAAA
* *
85503800 AAATTACATTCATAAAAAAATTACAATAAAACACTAAATTAAACACAAACAATTTATAA
1 AAATTACATTCATAAAAAAATCACAAT-AAACACTAAACTAAACACAAACAATTTATAA
85503859 TAATTACTAA
Statistics
Matches: 143, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
102 10 0.07
103 15 0.10
104 87 0.61
105 31 0.22
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.27
Consensus pattern (104 bp):
AAATTACATTCATAAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACATAATA
ATAAATTACTAACAAAATAACTTTAAATAATTTTAAAAA
Found at i:85503938 original size:26 final size:28
Alignment explanation
Indices: 85503901--85503969 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 28
85503891 GAAAATAACA
*
85503901 TAAAAAAA--ACTAATCCCTTC-TA-TT
1 TAAAAAAATTACTAATCCCTTCAAATTT
85503925 TAAAAAAATTACTAATCCCTTCAAATTT
1 TAAAAAAATTACTAATCCCTTCAAATTT
85503953 TAAAAAATAATTACTAA
1 T-AAAAA-AATTACTAA
85503970 CAAACATACC
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
24 8 0.21
26 12 0.32
27 1 0.03
28 3 0.08
29 5 0.13
30 9 0.24
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (28 bp):
TAAAAAAATTACTAATCCCTTCAAATTT
Found at i:85505856 original size:22 final size:22
Alignment explanation
Indices: 85505828--85505897 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
85505818 AACTTACCGA
85505828 TTCAGCTCGAAAGAGCTTACTG
1 TTCAGCTCGAAAGAGCTTACTG
*
85505850 TTCAGCTC-AATAGAGCTTACCGTT
1 TTCAGCTCGAA-AGAGCTTA-C-TG
* * *
85505874 TTTAGCCCGATAGAGCTTACTG
1 TTCAGCTCGAAAGAGCTTACTG
85505896 TT
1 TT
85505898 TATCAGCTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
21 2 0.05
22 19 0.49
23 2 0.05
24 15 0.38
25 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (22 bp):
TTCAGCTCGAAAGAGCTTACTG
Found at i:85505889 original size:46 final size:45
Alignment explanation
Indices: 85505792--85505920 Score: 123
Period size: 46 Copynumber: 2.7 Consensus size: 45
85505782 CATAGCTCGT
* * * * *
85505792 AAGAGCTTACTATTTCAGCTCATTGGAACTTACCGATTCAGCTCGA
1 AAGAGCTTACT-GTTCAGCTCAATAGAGCTTACCGATTCAGCCCGA
* *
85505838 AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTTTTAGCCCGA
1 AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCG-ATTCAGCCCGA
* *
85505884 TAGAGCTTACTGTTTATCAGCTCAGTAAGAGCTTACC
1 AAGAGCTTACTG--T-TCAGCTCAAT-AGAGCTTACC
85505921 AACCATGACT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
45 19 0.28
46 30 0.43
48 1 0.01
49 9 0.13
50 10 0.14
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGATTCAGCCCGA
Found at i:85515855 original size:31 final size:31
Alignment explanation
Indices: 85515812--85515916 Score: 183
Period size: 31 Copynumber: 3.4 Consensus size: 31
85515802 ACGGTTACTA
85515812 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
*
85515843 GGCCAAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
*
85515874 GGCCGAAGCCTTTTCATAAATCATTTCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
*
85515905 GCCCGAAGCCTT
1 GGCCGAAGCCTT
85515917 CACTGTAAAC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTG
Found at i:85515988 original size:42 final size:42
Alignment explanation
Indices: 85515941--85516032 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
85515931 TGGCCCATAG
* ** *
85515941 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
85515983 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
85516025 GCCCATTT
1 GCCCATTT
85516033 GGGGAGAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:85516249 original size:26 final size:26
Alignment explanation
Indices: 85516165--85516300 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
85516155 CTAGAGGCCT
85516165 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
85516189 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
85516214 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
85516240 AGCCCTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
85516266 AGCCATTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
85516292 AGCCCTTTT
1 AGCCCTTTT
85516301 GCACTTCCTC
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 33 0.34
26 54 0.56
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:85516289 original size:52 final size:51
Alignment explanation
Indices: 85516171--85516300 Score: 212
Period size: 52 Copynumber: 2.6 Consensus size: 51
85516161 GCCTAGCCTC
* *
85516171 TTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCC
1 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCAAAGCCA
85516219 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGCCA
1 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCA-AAGCCA
85516271 TTTTCAATAAACTGGGGCATAAGCCCTTTT
1 TTTTCAATAAACTGGGGCATAAGCCCTTTT
85516301 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
48 4 0.05
49 3 0.04
50 10 0.13
51 24 0.32
52 35 0.46
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (51 bp):
TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCAAAGCCA
Found at i:85516375 original size:20 final size:20
Alignment explanation
Indices: 85516350--85516436 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
85516340 TTATGAATAC
85516350 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
85516370 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
85516390 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
85516410 ATCATGTGCATATCATATC-T
1 ATCATGTGCATTTCATA-CAT
85516430 ATCATGT
1 ATCATGT
85516437 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 62 0.98
21 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:85516442 original size:18 final size:19
Alignment explanation
Indices: 85516350--85516446 Score: 67
Period size: 20 Copynumber: 4.9 Consensus size: 19
85516340 TTATGAATAC
*
85516350 ATCATGTGCATTTCATA-CAT
1 ATCATGT-CATATCATATC-T
*
85516370 ATCATGTGCATTTCATA-CAT
1 ATCATGT-CATATCATATC-T
* *
85516390 ATCATGTGCATTTTATA-CAT
1 ATCATGT-CATATCATATC-T
85516410 ATCATGTGCATATCATATCT
1 ATCATGT-CATATCATATCT
85516430 ATCATGT-ATATCATATC
1 ATCATGTCATATCATATC
85516447 CCACGTATCA
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
18 10 0.14
20 62 0.85
21 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (19 bp):
ATCATGTCATATCATATCT
Found at i:85517292 original size:27 final size:27
Alignment explanation
Indices: 85517262--85517369 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
85517252 GTAAATCTAC
85517262 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
85517289 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
85517315 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
85517345 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
85517370 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 41 0.60
28 7 0.10
29 18 0.26
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:85517375 original size:27 final size:26
Alignment explanation
Indices: 85517325--85517534 Score: 208
Period size: 27 Copynumber: 7.8 Consensus size: 26
85517315 AGAAAGTCAA
**
85517325 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAA-CAG
**
85517352 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTTACAAACAG
*
85517378 AGGGTATTTTGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAA-CAG
* *
85517406 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
85517433 GGGTA-TTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
*
85517459 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
* **
85517486 GGGTATTTTGGTAATTCTATCCTACAG
1 GGGTATTTTGGTAATTTTA-CAAACAG
** *
85517513 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
85517535 TCGAGGGTAA
Statistics
Matches: 154, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
26 29 0.19
27 121 0.79
28 4 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAG
Found at i:85517515 original size:80 final size:79
Alignment explanation
Indices: 85517325--85517543 Score: 226
Period size: 80 Copynumber: 2.7 Consensus size: 79
85517315 AGAAAGTCAA
* * ** * *
85517325 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGG
1 GGGTATTTCGGTAATTCTACAAA-CAGGGGTA-TTTGGTAATTTTACAAATAGAGGGTATTTTGA
85517390 TAATTTCACAAACCAG
64 TAATTTCACAAACCAG
* *
85517406 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTGGTAATTTTACAAACTAG-GGGTATTTTGA
1 GGGTATTTCGGTAATTCTACAAAC-AGGGGTATTTGGTAATTTTACAAA-TAGAGGGTATTTTGA
* *
85517470 TAATTTTACAAACTAG
64 TAATTTCACAAACCAG
* ** * * *
85517486 GGGTATTTTGGTAATTCTATCCTACAGGGGTATTTCAGTAATTTCAC-AATCGAGGGTA
1 GGGTATTTCGGTAATTCTA-CAAACAGGGGTATTT-GGTAATTTTACAAATAGAGGGTA
85517544 AAATGATAAT
Statistics
Matches: 117, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
79 2 0.02
80 75 0.64
81 40 0.34
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (79 bp):
GGGTATTTCGGTAATTCTACAAACAGGGGTATTTGGTAATTTTACAAATAGAGGGTATTTTGATA
ATTTCACAAACCAG
Found at i:85517563 original size:107 final size:108
Alignment explanation
Indices: 85517336--85517563 Score: 252
Period size: 107 Copynumber: 2.1 Consensus size: 108
85517326 GGTATTTCTG
* *
85517336 TAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACA
1 TAATTTTGTAAACTCAGGGGTATTTTGATAATTTTACAAATAGAGGGTATTTTGGTAATTTCACA
* * * * ** *
85517400 AACCAGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTGG
66 AACCAGGGGTATTTCAGTAATTTCACAAACGAGGGGTAAATGA
**
85517443 TAATTTTACAAACT-AGGGGTATTTTGATAATTTTACAAACTAG-GGGTATTTTGGTAA-TTCTA
1 TAATTTTGTAAACTCAGGGGTATTTTGATAATTTTACAAA-TAGAGGGTATTTTGGTAATTTC-A
** *
85517505 TCCTA-CAGGGGTATTTCAGTAATTTCACAATCGA-GGGTAAAATGA
64 -CAAACCAGGGGTATTTCAGTAATTTCACAAACGAGGGGT-AAATGA
85517550 TAATTTTGTAAACT
1 TAATTTTGTAAACT
85517564 GCGGGTAAAA
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
106 7 0.07
107 88 0.88
108 5 0.05
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (108 bp):
TAATTTTGTAAACTCAGGGGTATTTTGATAATTTTACAAATAGAGGGTATTTTGGTAATTTCACA
AACCAGGGGTATTTCAGTAATTTCACAAACGAGGGGTAAATGA
Found at i:85517571 original size:27 final size:27
Alignment explanation
Indices: 85517533--85517730 Score: 202
Period size: 27 Copynumber: 7.3 Consensus size: 27
85517523 GTAATTTCAC
85517533 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGATAATTTTGTA
*
85517560 AA-CTGCGGGTAAAAT-AGTAATTTTGTA
1 AATC-GAGGGTAAAATGA-TAATTTTGTA
* *
85517587 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAATGATAATTTTGTA
* * * *
85517614 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGATAATTTTGTA
* *
85517641 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGATAATTTTGTA
* * * * *
85517668 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGATAATTTTGTA
* * **
85517695 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGATAATTTTGTA
85517722 AATCGAGGG
1 AATCGAGGG
85517731 CATTTTAGTA
Statistics
Matches: 149, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.01
27 145 0.97
28 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGATAATTTTGTA
Found at i:85517651 original size:81 final size:81
Alignment explanation
Indices: 85517533--85517730 Score: 281
Period size: 81 Copynumber: 2.4 Consensus size: 81
85517523 GTAATTTCAC
* * * * *
85517533 AATCGAGGGTAAAATGATAATTTTGTAAA-CTGCGGGTAAAATAGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACAGTAATTTTGTAAATCGAGGGT
*
85517597 AAAACGATAATTCTGTA
65 AAAACGATAATTCTATA
* * *
85517614 AATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTA
*
85517679 AAACGGTAATTCTATA
66 AAACGATAATTCTATA
*
85517695 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
85517731 CATTTTAGTA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 103 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTA
AAACGATAATTCTATA
Found at i:85517714 original size:54 final size:54
Alignment explanation
Indices: 85517533--85517730 Score: 245
Period size: 54 Copynumber: 3.7 Consensus size: 54
85517523 GTAATTTCAC
* * * * * *
85517533 AATCGAGGGTAAAATGATAATTTTGTAAA-CTGCGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTATA
*
85517587 AATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * * *
85517641 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * **
85517695 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGG
85517731 CATTTTAGTA
Statistics
Matches: 127, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 127 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:85525681 original size:16 final size:16
Alignment explanation
Indices: 85525660--85525690 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85525650 ATATATGATT
*
85525660 TATATATCATCACATA
1 TATATACCATCACATA
85525676 TATATACCATCACAT
1 TATATACCATCACAT
85525691 TCATACAATT
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:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (16 bp):
TATATACCATCACATA
Found at i:85534153 original size:7 final size:7
Alignment explanation
Indices: 85534124--85534177 Score: 83
Period size: 7 Copynumber: 7.6 Consensus size: 7
85534114 AGGCTAAAGC
85534124 TAAATTAA
1 TAAA-TAA
85534132 TAAAATAA
1 T-AAATAA
85534140 T-AATAA
1 TAAATAA
85534146 TAAATAA
1 TAAATAA
85534153 TAAATAA
1 TAAATAA
85534160 TAAATAA
1 TAAATAA
85534167 TAAATAA
1 TAAATAA
85534174 TAAA
1 TAAA
85534178 ATAAAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.14
7 30 0.68
8 5 0.11
9 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAATAA
Found at i:85536681 original size:27 final size:27
Alignment explanation
Indices: 85536643--85536734 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
85536633 ATTACCAAAG
* * * *
85536643 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTAAAAAATTACCGTTT
* *
85536670 TACTCTCGATTTAAAAAATTACCATTT
1 TACCCTCGATTTAAAAAATTACCGTTT
*
85536697 TACCCTC-AGTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTAAAAAATTACCGTTT
85536724 TACCCTCGATT
1 TACCCTCGATT
85536735 GTGAAATTAC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.96
28 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTAAAAAATTACCGTTT
Found at i:85536688 original size:54 final size:54
Alignment explanation
Indices: 85536630--85536734 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
85536620 CTCGACTTGT
* * * *
85536630 AAAATTACCAAAGTACCCTCAATTTATAGAATTATCGTTTTACTCTCGATTTAA
1 AAAATTACCAAAGTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTAA
*** *
85536684 AAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTACCCTCGATT
1 AAAATTACCAAAGTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATT
85536735 GTGAAATTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (54 bp):
AAAATTACCAAAGTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTAA
Found at i:85536930 original size:81 final size:81
Alignment explanation
Indices: 85536766--85536941 Score: 235
Period size: 81 Copynumber: 2.2 Consensus size: 81
85536756 TGTAGGATAG
* * *
85536766 AATTACAAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 AATTACAAAAATACCACTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* **
85536831 TACCCCTAGTTTGTAA
66 TACCCCTAATTTACAA
* * * * *
85536847 AATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 AATTACAAAAATACCACTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
85536912 TACCCCTAATTTACAA
66 TACCCCTAATTTACAA
* *
85536928 AATTATAGAAATAC
1 AATTACAAAAATAC
85536942 TGTTGACTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.30
Consensus pattern (81 bp):
AATTACAAAAATACCACTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
TACCCCTAATTTACAA
Found at i:85536931 original size:54 final size:54
Alignment explanation
Indices: 85536774--85536941 Score: 212
Period size: 54 Copynumber: 3.1 Consensus size: 54
85536764 AGAATTACAA
* * * *
85536774 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCA
1 AAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCG
* * * *
85536828 AAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATCG
1 AAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCG
* ** *
85536882 AAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTATAG
1 AAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCG
85536936 AAATAC
1 AAATAC
85536942 TGTTGACTTT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 4 0.04
54 94 0.96
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCG
Found at i:85536932 original size:27 final size:27
Alignment explanation
Indices: 85536766--85536919 Score: 220
Period size: 27 Copynumber: 5.7 Consensus size: 27
85536756 TGTAGGATAG
*
85536766 AATTACAAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
85536793 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
85536820 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
85536847 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
85536874 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
85536901 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
85536920 ATTTACAAAA
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.03
27 104 0.94
28 4 0.04
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:85536939 original size:27 final size:28
Alignment explanation
Indices: 85536873--85536941 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
85536863 CTGGTTTGTG
* **
85536873 AAATTATCGAAATA-CCCTCAATTTGTA
1 AAATTATAGAAATACCCCTCAATTTACA
*
85536900 AAATTACCA-AAATACCCCT-AATTTACA
1 AAATTA-TAGAAATACCCCTCAATTTACA
85536927 AAATTATAGAAATAC
1 AAATTATAGAAATAC
85536942 TGTTGACTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 1 0.03
27 29 0.85
28 4 0.12
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.29
Consensus pattern (28 bp):
AAATTATAGAAATACCCCTCAATTTACA
Found at i:85536995 original size:27 final size:27
Alignment explanation
Indices: 85536921--85537006 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
85536911 ATACCCCTAA
** *
85536921 TTTACAAAATTATAGAAATACTGTTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
85536949 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
*
85536977 TTTACAAAATTACTA-AAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
85537004 TTT
1 TTT
85537007 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 22 0.44
28 8 0.16
29 20 0.40
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:85537089 original size:26 final size:27
Alignment explanation
Indices: 85537047--85537119 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
85537037 AAATGACTAA
*
85537047 AATACCCCTAATA-GGTAAAAG-ACCGT
1 AATACCCCT-GTAGGGTAAAAGAACCGT
85537073 AA-AGCCCCTGTAGGGT-AAAGTAACCGT
1 AATA-CCCCTGTAGGGTAAAAG-AACCGT
*
85537100 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
85537120 TGACGAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
25 7 0.18
26 10 0.26
27 18 0.46
28 4 0.10
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAGAACCGT
Found at i:85537530 original size:20 final size:20
Alignment explanation
Indices: 85537505--85537608 Score: 129
Period size: 20 Copynumber: 5.2 Consensus size: 20
85537495 GATATGATAT
*
85537505 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
**
85537525 ACATGATATGTACAAAATGC
1 ACATGATATGTATGAAATGC
*
85537545 AGATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
*
85537565 ATATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
* *
85537585 ATATGATATATATGAAATGC
1 ACATGATATGTATGAAATGC
85537605 ACAT
1 ACAT
85537609 ACTGTATTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
20 72 0.97
21 2 0.03
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:85537589 original size:11 final size:11
Alignment explanation
Indices: 85537555--85537605 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 11
85537545 AGATGATATG
85537555 TATGAAATGCA
1 TATGAAATGCA
*
85537566 TATGATATG--
1 TATGAAATGCA
85537575 TATGAAATGCA
1 TATGAAATGCA
*
85537586 TATGATAT--A
1 TATGAAATGCA
85537595 TATGAAATGCA
1 TATGAAATGCA
85537606 CATACTGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
9 16 0.50
11 16 0.50
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (11 bp):
TATGAAATGCA
Found at i:85537758 original size:25 final size:26
Alignment explanation
Indices: 85537661--85537771 Score: 165
Period size: 26 Copynumber: 4.3 Consensus size: 26
85537651 GAGGAAGTGC
85537661 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
85537687 AAAAGGGCTTATGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
85537713 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
85537739 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
85537762 AAAAGAGGCT
1 AAAAG-GGCT
85537772 AGGCTTCCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
23 5 0.06
24 9 0.12
25 8 0.10
26 56 0.72
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:85537984 original size:42 final size:42
Alignment explanation
Indices: 85537904--85537995 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
85537894 TAGTCTCCCC
* ** *
85537904 AAATGGGCTTGCATAGATCCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
85537946 AAATGGGCTTGCATACATCCGTTGACATTACA-AGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATA-TGATATTG
85537988 AAATGGGC
1 AAATGGGC
85537996 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 43 0.98
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:85538054 original size:31 final size:31
Alignment explanation
Indices: 85538019--85538097 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
85538009 CGTTTACAGG
85538019 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
85538050 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
85538081 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
85538098 ATATGTCAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:85542344 original size:16 final size:16
Alignment explanation
Indices: 85542307--85542345 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
85542297 GTGAGGTGGA
*
85542307 TATTTATTGGATTTTTG
1 TATTT-TTGGATTTCTG
*
85542324 GATTTTTGGATTTCTG
1 TATTTTTGGATTTCTG
85542340 TATTTT
1 TATTTT
85542346 GGTATGTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.15, C:0.03, G:0.18, T:0.64
Consensus pattern (16 bp):
TATTTTTGGATTTCTG
Found at i:85549143 original size:20 final size:20
Alignment explanation
Indices: 85549106--85549147 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
85549096 AGGCTAAAGC
85549106 TAAATTAATAAAATAAATAA
1 TAAATTAATAAAATAAATAA
85549126 TAAA-TAATAAAATAAAATAA
1 TAAATTAATAAAAT-AAATAA
85549146 TA
1 TA
85549148 TCTTCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAATTAATAAAATAAATAA
Found at i:85550421 original size:7 final size:7
Alignment explanation
Indices: 85550403--85550435 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
85550393 AAATAGAAGA
85550403 TATTATTT
1 TATTA-TT
85550411 TATTATT
1 TATTATT
85550418 TATTATT
1 TATTATT
85550425 TATTATT
1 TATTATT
85550432 TATT
1 TATT
85550436 TTATTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TATTATT
Found at i:85555261 original size:33 final size:33
Alignment explanation
Indices: 85555219--85555283 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
85555209 TAACAATATT
85555219 ACTTTCTTTAAATTTTAGTTTTTAAAATCTAAA
1 ACTTTCTTTAAATTTTAGTTTTTAAAATCTAAA
85555252 ACTTTCTTTAAATTTTAGTTTTTAAAATCTAA
1 ACTTTCTTTAAATTTTAGTTTTTAAAATCTAA
85555284 CATACTAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.52
Consensus pattern (33 bp):
ACTTTCTTTAAATTTTAGTTTTTAAAATCTAAA
Found at i:85559606 original size:25 final size:25
Alignment explanation
Indices: 85559559--85559607 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
85559549 TCCGAGCTAA
*
85559559 TCAGGAAACTCATAAGAGTTTTTAC
1 TCAGGAAACTCATAAGAGCTTTTAC
*
85559584 TCAGGAAGCTCATAA-AGCCTTTTA
1 TCAGGAAACTCATAAGAG-CTTTTA
85559608 GATATCTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (25 bp):
TCAGGAAACTCATAAGAGCTTTTAC
Found at i:85560836 original size:16 final size:16
Alignment explanation
Indices: 85560815--85560846 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
85560805 CCTGTTAACA
85560815 AAAAAAAATAAAAATG
1 AAAAAAAATAAAAATG
85560831 AAAAAAAATAAAAATG
1 AAAAAAAATAAAAATG
85560847 GGAAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAAAATAAAAATG
Found at i:85564922 original size:42 final size:42
Alignment explanation
Indices: 85564876--85564972 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
85564866 CATAGTTCAA
* *
85564876 CTATGGTCTTACACATCTTCACATAAT-GATGCCATATCCCAG
1 CTATGGTCTTACACATATTCACAT-ATCGATGCCATAACCCAG
*
85564918 CTATGGTCTTACACATATTCATATATCGATGCCATAACCCAG
1 CTATGGTCTTACACATATTCACATATCGATGCCATAACCCAG
85564960 CTATGGTCTTACA
1 CTATGGTCTTACA
85564973 TGAATCACAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 2 0.04
42 49 0.96
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGATGCCATAACCCAG
Found at i:85565012 original size:46 final size:45
Alignment explanation
Indices: 85564903--85565063 Score: 141
Period size: 47 Copynumber: 3.6 Consensus size: 45
85564893 TTCACATAAT
* * ** *
85564903 GATGCCATATCCCAGCTATGGTCTTACACATA-TTCATAT---ATC
1 GATGCCATATCCCAGATATGGTCTTACAGA-AGCACATATCACACC
* * * * *
85564945 GATGCCATAACCCAGCTATGGTCTTACATGAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTACA-GAAGCACATATCACACC
* * *
85564991 GATGCCATATCCTAGATATGGTCTTATACAGTAGCATATATCACACC
1 GATGCCATATCCCAGATATGGTC-T-TACAGAAGCACATATCACACC
85565038 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATATCCCAGATATGGTCTTA
85565064 TACGGAAATC
Statistics
Matches: 97, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.29
43 6 0.06
45 2 0.02
46 22 0.23
47 35 0.36
48 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (45 bp):
GATGCCATATCCCAGATATGGTCTTACAGAAGCACATATCACACC
Found at i:85565130 original size:31 final size:31
Alignment explanation
Indices: 85565095--85565274 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
85565085 CTTGTCACTT
*
85565095 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
85565126 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
85565157 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
85565188 GTAGTCGGAA-CTACCACTTTTCACTGATCAG
1 GTAG-CCGAAGCTACCACTTTTCACTGATCAG
* *
85565219 GTAGCAGAAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
85565250 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
85565275 TGTCATTTGT
Statistics
Matches: 139, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
30 4 0.03
31 132 0.95
32 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:85565361 original size:50 final size:51
Alignment explanation
Indices: 85565250--85565378 Score: 183
Period size: 50 Copynumber: 2.5 Consensus size: 51
85565240 CACTAATCAG
* * *
85565250 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
85565301 GTAGCTGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
85565351 GTAG-TCGAAGCTATCACTTATCACTTGT
1 GTAGCT-GAAGCTATCACTTATCACTTGT
85565379 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
49 1 0.01
50 43 0.61
51 27 0.38
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCTGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:85569276 original size:13 final size:13
Alignment explanation
Indices: 85569258--85569283 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85569248 AAGTAATCGT
85569258 ACACGGGCGTGTC
1 ACACGGGCGTGTC
85569271 ACACGGGCGTGTC
1 ACACGGGCGTGTC
85569284 CCTGCCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:85573390 original size:55 final size:55
Alignment explanation
Indices: 85573306--85573442 Score: 157
Period size: 55 Copynumber: 2.5 Consensus size: 55
85573296 TGCGACATGG
* * * * * *
85573306 CCGTGGGCAAGCCTGCCAAATCAACACAGGTGTGAAACACACCTGTGCCTTGAAA
1 CCGTGGCCAAACCTGTCAAATTAACACAGGTGTGAAACACACCCGTGCCTAGAAA
** * *
85573361 CCGTGGCCAAACCTGTCAAATTAACACAGGTGTGCGACACGCCCGTGCCTAGCAA
1 CCGTGGCCAAACCTGTCAAATTAACACAGGTGTGAAACACACCCGTGCCTAGAAA
* * *
85573416 CCGTGGTCTAACCTGTTAAATTAACAC
1 CCGTGGCCAAACCTGTCAAATTAACAC
85573443 GGGTATGTGA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (55 bp):
CCGTGGCCAAACCTGTCAAATTAACACAGGTGTGAAACACACCCGTGCCTAGAAA
Found at i:85573986 original size:12 final size:13
Alignment explanation
Indices: 85573961--85573999 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
85573951 TTCTATTGTC
85573961 TTACTCATGC-CA
1 TTACTCATGCTCA
85573973 TTACT-ATGCTCA
1 TTACTCATGCTCA
85573985 TT-CTCATGCT-A
1 TTACTCATGCTCA
85573996 TTAC
1 TTAC
85574000 CATACTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.23, C:0.28, G:0.08, T:0.41
Consensus pattern (13 bp):
TTACTCATGCTCA
Found at i:85579195 original size:16 final size:16
Alignment explanation
Indices: 85579171--85579201 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85579161 ATTCTTCACT
85579171 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
85579187 TACTTACTTACTTAA
1 TACTCACTTACTTAA
85579202 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:85579207 original size:20 final size:20
Alignment explanation
Indices: 85579168--85579207 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
85579158 AAAATTCTTC
* *
85579168 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
85579188 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
85579208 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:85579580 original size:55 final size:53
Alignment explanation
Indices: 85579393--85579647 Score: 231
Period size: 55 Copynumber: 4.8 Consensus size: 53
85579383 ACGCGGATAC
* * * * *
85579393 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
85579442 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* *
85579495 CTCACCAATGCCATGTCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* *
85579550 CTTATCAATGCCATGTCTTAACATGGTCTTACAT--GATTACCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGA-T-CCTTGCCTTATG-AA
* * * *
85579603 CCTTACCAATTGACATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
85579648 AAACCCTAAT
Statistics
Matches: 173, Mismatches: 18, Indels: 24
0.80 0.08 0.11
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 52 0.30
54 10 0.06
55 66 0.38
56 3 0.02
57 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:85579584 original size:108 final size:110
Alignment explanation
Indices: 85579440--85579640 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 110
85579430 ATCCTTTTGA
* * *
85579440 AACTTACCATTGCCATGTCTTGACATGGTCTTACATG-GTATCCTTGCCTTATG-AA-CTCACCA
1 AACTTACCAATGCCATGTCTTAACATGGTCTTACATGATTA-CCTTGCCTTA-GAAACCTCACCA
* *
85579502 A-TGCCATGTCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
64 ATTGACATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* *
85579548 AACTTATCAATGCCATGTCTTAACATGGTCTTACATGATTACCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTAACATGGTCTTACATGATTACCTTGCCTTAGAAACCTCACCAAT
85579613 TGACATGCCTTGGCATGGTCTTACATGG
66 TGACATGCCTTGGCATGGTCTTACATGG
85579641 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 1 0.01
108 46 0.56
109 9 0.11
110 26 0.32
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTAACATGGTCTTACATGATTACCTTGCCTTAGAAACCTCACCAAT
TGACATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:85585479 original size:40 final size:40
Alignment explanation
Indices: 85585409--85585626 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
85585399 AAGCCAGGTA
* * * *
85585409 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
85585448 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
85585488 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
85585528 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
85585568 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
85585608 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
85585627 TTATCATCCG
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 149 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:85594010 original size:19 final size:19
Alignment explanation
Indices: 85593986--85594026 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
85593976 AATATCATGC
85593986 TATCACATTTTAATAATGT
1 TATCACATTTTAATAATGT
85594005 TATCACATTTTAATAATGT
1 TATCACATTTTAATAATGT
85594024 TAT
1 TAT
85594027 TGTATAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (19 bp):
TATCACATTTTAATAATGT
Found at i:85595961 original size:48 final size:48
Alignment explanation
Indices: 85595891--85596224 Score: 318
Period size: 48 Copynumber: 7.0 Consensus size: 48
85595881 AGGGTGAATT
* * * * *
85595891 GCCGATACCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCAAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATG
* * * * *
85595939 GCCAATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATCATG
** *
85595987 GTTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATCATG
* * *
85596035 GTCGATGCAATGTTCCAAACATGGTCTTACACTAGTGC-AT-ATATCAAT-
1 GCCGATGCCATGTTCCAAACATGGTCTTACACT-G-GCTCTCATATC-ATG
* * * * * * *
85596083 GCCGATGTCATGTTCCAGACATGGTTTTACACTAGCTCTCACAACATC
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATG
* *
85596131 GCCGATGCCATGTTCCAAACTTGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATG
* * * * *
85596179 GCCGATGCCATGTCCCAGACATGGTCCTACACTGGCACACATATCA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCA
85596225 CCCAAATGTC
Statistics
Matches: 233, Mismatches: 45, Indels: 16
0.79 0.15 0.05
Matches are distributed among these distances:
46 2 0.01
47 5 0.02
48 220 0.94
49 4 0.02
50 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATG
Found at i:85596160 original size:144 final size:144
Alignment explanation
Indices: 85595891--85596224 Score: 411
Period size: 144 Copynumber: 2.3 Consensus size: 144
85595881 AGGGTGAATT
* * *
85595891 GCCGATACCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCAAGGCCAATGCCATGTCCCA
1 GCCGATGCAATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCAATGCCATGTCCCA
* * * ** * **
85595956 GACATGGTCTTACATTGGCTCTCATAATGTGGTTGATGCCATGTTCCAAACATGGTCTTACACTG
66 GACATGGTCTTACACTAGCTCTCACAACATCGCCGATGCCATGTTCCAAACATGGTCTTACACTG
85596021 GCTCTCATAAT-GTG
131 GCTCTCAT-ATCGTG
* * * * * *
85596035 GTCGATGCAATGTTCCAAACATGGTCTTACACTAG-TGCATATATCAATGCCGATGTCATGTTCC
1 GCCGATGCAATGTTCCAAACATGGTCTTACACTAGCT-CACATATCAAGGCCAATGCCATGTCCC
* *
85596099 AGACATGGTTTTACACTAGCTCTCACAACATCGCCGATGCCATGTTCCAAACTTGGTCTTACACT
65 AGACATGGTCTTACACTAGCTCTCACAACATCGCCGATGCCATGTTCCAAACATGGTCTTACACT
85596164 GGCTCTCATATCGTG
130 GGCTCTCATATCGTG
* * * * * *
85596179 GCCGATGCCATGTCCCAGACATGGTCCTACACTGGCACACATATCA
1 GCCGATGCAATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
85596225 CCCAAATGTC
Statistics
Matches: 160, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
143 3 0.02
144 157 0.98
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (144 bp):
GCCGATGCAATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCAATGCCATGTCCCA
GACATGGTCTTACACTAGCTCTCACAACATCGCCGATGCCATGTTCCAAACATGGTCTTACACTG
GCTCTCATATCGTG
Found at i:85599209 original size:26 final size:26
Alignment explanation
Indices: 85599180--85599239 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
85599170 TTACTAAAAC
* *
85599180 ACCCCTAGTATG-AAAATTACCGTTTT
1 ACCCCTAG-ATGCAAAATGACCGTTAT
*
85599206 ACCCCTAGGTGCAAAATGACCGTTAT
1 ACCCCTAGATGCAAAATGACCGTTAT
*
85599232 ACCTCTAG
1 ACCCCTAG
85599240 GGTTAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (26 bp):
ACCCCTAGATGCAAAATGACCGTTAT
Found at i:85599646 original size:60 final size:59
Alignment explanation
Indices: 85599579--85599715 Score: 179
Period size: 60 Copynumber: 2.3 Consensus size: 59
85599569 AACTATGTTA
*
85599579 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCAAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
85599639 ATATGGGCAAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCAAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
85599699 ATATGGGCTAAGGCCCA
1 ATATGGGC-AAGGCCCA
85599716 GTTAACACTG
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
59 1 0.01
60 52 0.75
61 16 0.23
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (59 bp):
ATATGGGCAAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:85610511 original size:26 final size:26
Alignment explanation
Indices: 85610482--85610533 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
85610472 GGCAAAACGA
85610482 TCACTTTGCTTGGAGGTGAGTTTTAG
1 TCACTTTGCTTGGAGGTGAGTTTTAG
85610508 TCACTTTGCTTGGAGGTGAGTTTTAG
1 TCACTTTGCTTGGAGGTGAGTTTTAG
85610534 GCCTAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.12, G:0.31, T:0.42
Consensus pattern (26 bp):
TCACTTTGCTTGGAGGTGAGTTTTAG
Found at i:85621860 original size:61 final size:61
Alignment explanation
Indices: 85621795--85621931 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 61
85621785 CAGTGTTAAC
* * *
85621795 TGGGCCTTAGCCCATATCAATATTAATCTGGGTCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* * *
85621856 TGGGCC-TAACCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
85621916 TGGGCCTT-GCCCATAT
1 TGGGCCTTAGCCCATAT
85621932 TAACATAGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
60 49 0.75
61 14 0.22
62 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (61 bp):
TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:85627035 original size:19 final size:19
Alignment explanation
Indices: 85627011--85627052 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
85627001 ATCTCTTTCT
85627011 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
*
85627030 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
85627049 TTTG
1 TTTG
85627053 TATTAGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.45
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:85629749 original size:12 final size:12
Alignment explanation
Indices: 85629725--85629758 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
85629715 ATTTCATTTC
85629725 AAAAAA-AAAAG
1 AAAAAAGAAAAG
*
85629736 AAAAAAGAAGAG
1 AAAAAAGAAAAG
85629748 AAAAAAGAAAA
1 AAAAAAGAAAA
85629759 AGGAGAGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Done.