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 292 of 311
Found at i:95000295 original size:23 final size:23
Alignment explanation
Indices: 95000244--95000295 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
95000234 TTTGTCCCTT
*
95000244 TATTTTTATTTCTAAAATATTCG
1 TATTTTTATTTCTAAAATATACG
* *
95000267 GA-TTTTATTTTTTAAAATATAC-
1 TATTTTTA-TTTCTAAAATATACG
95000289 TATTTTT
1 TATTTTT
95000296 GTATTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (23 bp):
TATTTTTATTTCTAAAATATACG
Found at i:95000719 original size:35 final size:32
Alignment explanation
Indices: 95000680--95000761 Score: 83
Period size: 35 Copynumber: 2.4 Consensus size: 32
95000670 TATTTTTTAG
*
95000680 ATTTTAATTTTTAAAATATACTATTTTCGTATTTT
1 ATTTTAATTTTT---ATATACTATTTTCATATTTT
*
95000715 ATTTTTATATTATTTTTATACTATTTTCATATTTT
1 A-TTTTA-ATT-TTTATATACTATTTTCATATTTT
*
95000750 ATTGTAATTTTT
1 ATTTTAATTTTT
95000762 TCATATTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
32 3 0.07
33 3 0.07
34 4 0.10
35 20 0.49
36 5 0.12
37 3 0.07
38 3 0.07
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (32 bp):
ATTTTAATTTTTATATACTATTTTCATATTTT
Found at i:95000729 original size:11 final size:11
Alignment explanation
Indices: 95000713--95000747 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
95000703 TTTTCGTATT
95000713 TTATTTTTATA
1 TTATTTTTATA
95000724 TTATTTTTATA
1 TTATTTTTATA
* *
95000735 CTATTTTCATA
1 TTATTTTTATA
95000746 TT
1 TT
95000748 TTATTGTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:95000785 original size:17 final size:17
Alignment explanation
Indices: 95000759--95000791 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
95000749 TATTGTAATT
95000759 TTTTCATATTTTATTTC
1 TTTTCATATTTTATTTC
*
95000776 TTTTCGTATTTTATTT
1 TTTTCATATTTTATTT
95000792 TTTCATTAAG
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:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTCATATTTTATTTC
Found at i:95001164 original size:11 final size:10
Alignment explanation
Indices: 95001132--95001165 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
95001122 ATAAATTTAT
95001132 AAATTAAATC
1 AAATTAAATC
95001142 TAAATTAAATC
1 -AAATTAAATC
95001153 AAATTCAAATC
1 AAATT-AAATC
95001164 AA
1 AA
95001166 CAATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (10 bp):
AAATTAAATC
Found at i:95001558 original size:23 final size:22
Alignment explanation
Indices: 95001512--95001564 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
95001502 TCTGTTTCAG
*
95001512 TTTTTTTCAGCTTTATACTGTT
1 TTTTTTTTAGCTTTATACTGTT
95001534 TTTTTTTTAGCTTTATACTGTT
1 TTTTTTTTAGCTTTATACTGTT
95001556 TTTGTTTTT
1 TTT-TTTTT
95001565 TTTCAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 24 0.83
23 5 0.17
ACGTcount: A:0.11, C:0.09, G:0.09, T:0.70
Consensus pattern (22 bp):
TTTTTTTTAGCTTTATACTGTT
Found at i:95002287 original size:16 final size:18
Alignment explanation
Indices: 95002247--95002288 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
95002237 TTATTTTTTA
95002247 TTAATTTATATATATATT
1 TTAATTTATATATATATT
*
95002265 TGAAATTTA-ATATAT-TT
1 T-TAATTTATATATATATT
95002282 TTAATTT
1 TTAATTT
95002289 CAAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.24
17 3 0.14
18 7 0.33
19 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTAATTTATATATATATT
Found at i:95003805 original size:16 final size:16
Alignment explanation
Indices: 95003784--95003868 Score: 66
Period size: 16 Copynumber: 5.3 Consensus size: 16
95003774 TATAAGTTAG
95003784 TTCAAAATTATGCATT
1 TTCAAAATTATGCATT
* * * *
95003800 TTCAAATGTTTTGTA-G
1 TTCAAA-ATTATGCATT
95003816 TTCAAAATTATGCATT
1 TTCAAAATTATGCATT
* * * *
95003832 TTCAAATGTTTTGTA-G
1 TTCAAA-ATTATGCATT
95003848 TTCAAAATTATGCATT
1 TTCAAAATTATGCATT
95003864 TTCAA
1 TTCAA
95003869 GTGTTTTGTT
Statistics
Matches: 49, Mismatches: 16, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
15 10 0.20
16 29 0.59
17 10 0.20
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (16 bp):
TTCAAAATTATGCATT
Found at i:95003818 original size:32 final size:32
Alignment explanation
Indices: 95003781--95003877 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
95003771 ACCTATAAGT
95003781 TAGTTCAAAATTATGCATTTTCAAATGTTTTG
1 TAGTTCAAAATTATGCATTTTCAAATGTTTTG
95003813 TAGTTCAAAATTATGCATTTTCAAATGTTTTG
1 TAGTTCAAAATTATGCATTTTCAAATGTTTTG
*
95003845 TAGTTCAAAATTATGCATTTTCAAGTGTTTTG
1 TAGTTCAAAATTATGCATTTTCAAATGTTTTG
95003877 T
1 T
95003878 TTTATTTTCT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.47
Consensus pattern (32 bp):
TAGTTCAAAATTATGCATTTTCAAATGTTTTG
Found at i:95004401 original size:16 final size:16
Alignment explanation
Indices: 95004376--95004416 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
95004366 AGAAAAATTA
95004376 TATTTTCTA-CCCTTC
1 TATTTTCTACCCCTTC
95004391 TATTATTCTACCCCTTC
1 TATT-TTCTACCCCTTC
*
95004408 AATTTTCTA
1 TATTTTCTA
95004417 TCTTTCCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 10 0.43
17 9 0.39
ACGTcount: A:0.20, C:0.29, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTTTCTACCCCTTC
Found at i:95006711 original size:16 final size:16
Alignment explanation
Indices: 95006690--95006721 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
95006680 TTGATTGAAG
95006690 ATAGAGAGGTTGCCTC
1 ATAGAGAGGTTGCCTC
95006706 ATAGAGAGGTTGCCTC
1 ATAGAGAGGTTGCCTC
95006722 TTTCTTTTTT
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:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (16 bp):
ATAGAGAGGTTGCCTC
Found at i:95009454 original size:14 final size:14
Alignment explanation
Indices: 95009435--95009464 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
95009425 TTATATCGAG
95009435 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
95009449 ACCAATCCAATTCA
1 ACCAATCCAAATCA
95009463 AC
1 AC
95009465 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:95012999 original size:19 final size:19
Alignment explanation
Indices: 95012954--95012999 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
95012944 AGCTTTTGCA
*
95012954 TCTGTTTCTTTCTTCTTTC
1 TCTGTTTCTTTCTTCCTTC
*
95012973 TCTTTTTCTTTCTTTCCTT-
1 TCTGTTTCTTTC-TTCCTTC
95012992 TCTGTTTC
1 TCTGTTTC
95013000 GTTTTACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.00, C:0.26, G:0.04, T:0.70
Consensus pattern (19 bp):
TCTGTTTCTTTCTTCCTTC
Found at i:95014401 original size:22 final size:24
Alignment explanation
Indices: 95014352--95014401 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
95014342 GCCTTTTAGA
*
95014352 TATTGTTTGTATGGTTTTATTTTG
1 TATTGTTTGTATGGTTTTATCTTG
*
95014376 TATT-TTTGTATGG-TTTGTCTTG
1 TATTGTTTGTATGGTTTTATCTTG
95014398 TATT
1 TATT
95014402 AATTATATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 11 0.46
23 9 0.38
24 4 0.17
ACGTcount: A:0.12, C:0.02, G:0.20, T:0.66
Consensus pattern (24 bp):
TATTGTTTGTATGGTTTTATCTTG
Found at i:95021084 original size:12 final size:12
Alignment explanation
Indices: 95021067--95021093 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
95021057 ATATATGTAG
95021067 TAGTCTCTTCTT
1 TAGTCTCTTCTT
95021079 TAGTCTCTTCTT
1 TAGTCTCTTCTT
95021091 TAG
1 TAG
95021094 ACGACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.11, C:0.22, G:0.11, T:0.56
Consensus pattern (12 bp):
TAGTCTCTTCTT
Found at i:95026291 original size:13 final size:13
Alignment explanation
Indices: 95026273--95026302 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
95026263 AAAAATTTAC
*
95026273 TATTTTTGGAAAG
1 TATTTTTGAAAAG
95026286 TATTTTTGAAAAG
1 TATTTTTGAAAAG
95026299 TATT
1 TATT
95026303 ATGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (13 bp):
TATTTTTGAAAAG
Found at i:95031140 original size:44 final size:45
Alignment explanation
Indices: 95031092--95031177 Score: 138
Period size: 46 Copynumber: 1.9 Consensus size: 45
95031082 GAATTATTCC
*
95031092 TGTCTCCAATGCCATA-TATAATATGGACTTACATGGCTCAATCT
1 TGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAATCT
*
95031136 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA-TTATAATATGGACTTACATGGCTCA
95031178 TTTCTGTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 15 0.39
46 23 0.61
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (45 bp):
TGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAATCT
Found at i:95033932 original size:20 final size:20
Alignment explanation
Indices: 95033907--95033982 Score: 152
Period size: 20 Copynumber: 3.8 Consensus size: 20
95033897 GCCCCACAGG
95033907 CAGGCCACACGGGCATGCTC
1 CAGGCCACACGGGCATGCTC
95033927 CAGGCCACACGGGCATGCTC
1 CAGGCCACACGGGCATGCTC
95033947 CAGGCCACACGGGCATGCTC
1 CAGGCCACACGGGCATGCTC
95033967 CAGGCCACACGGGCAT
1 CAGGCCACACGGGCAT
95033983 ATGCCCCTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.21, C:0.39, G:0.30, T:0.09
Consensus pattern (20 bp):
CAGGCCACACGGGCATGCTC
Found at i:95035893 original size:22 final size:21
Alignment explanation
Indices: 95035852--95035901 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
95035842 TTTTAAATAA
95035852 ATTTAAATAATTAATATAAAGT
1 ATTTAAATAATTAATATAAA-T
95035874 ATTTAAA-AATTTAGAT-TAAAT
1 ATTTAAATAA-TTA-ATATAAAT
*
95035895 ATATAAA
1 ATTTAAA
95035902 CATTACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 9 0.36
22 14 0.56
23 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTTAAATAATTAATATAAAT
Found at i:95036237 original size:33 final size:34
Alignment explanation
Indices: 95036179--95036246 Score: 129
Period size: 33 Copynumber: 2.0 Consensus size: 34
95036169 TAATAAAAAT
95036179 AAATTTACTCATTAATTTGAACCTACAAAAATTA
1 AAATTTACTCATTAATTTGAACCTACAAAAATTA
95036213 AAATTTACTCATTAA-TTGAACCTACAAAAATTA
1 AAATTTACTCATTAATTTGAACCTACAAAAATTA
95036246 A
1 A
95036247 CTTTTTTTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 19 0.56
34 15 0.44
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.34
Consensus pattern (34 bp):
AAATTTACTCATTAATTTGAACCTACAAAAATTA
Found at i:95036610 original size:6 final size:6
Alignment explanation
Indices: 95036581--95036611 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
95036571 GTCCCAACCC
*
95036581 CAGCCC CAGCCT CAGCCT CAGCCT CAGCCT C
1 CAGCCT CAGCCT CAGCCT CAGCCT CAGCCT C
95036612 GGAGACCCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.55, G:0.16, T:0.13
Consensus pattern (6 bp):
CAGCCT
Found at i:95039526 original size:18 final size:18
Alignment explanation
Indices: 95039503--95039542 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
95039493 TTCAGGTAAC
*
95039503 TCTTGCTTATATTGATTA
1 TCTTGCTTATACTGATTA
*
95039521 TCTTGCTTATACTGATTG
1 TCTTGCTTATACTGATTA
95039539 TCTT
1 TCTT
95039543 TCCTAGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.55
Consensus pattern (18 bp):
TCTTGCTTATACTGATTA
Found at i:95053619 original size:17 final size:18
Alignment explanation
Indices: 95053569--95053619 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
95053559 TGGAAACATG
*
95053569 ATCTTCGAAGATAT-TCA
1 ATCTTAGAAGATATGTCA
*
95053586 ATCTTAGGTATGATATGT-A
1 ATCTTA-G-AAGATATGTCA
95053605 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
95053620 ATTTTGTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 12 0.43
18 2 0.07
19 13 0.46
20 1 0.04
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (18 bp):
ATCTTAGAAGATATGTCA
Found at i:95053629 original size:23 final size:22
Alignment explanation
Indices: 95053585--95053645 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
95053575 GAAGATATTC
*
95053585 AATCTTAG-G-TATGA-TATGT
1 AATCTTAGAGATATGATTTTGT
95053604 AATCTTAGAAGATATGATTTTGT
1 AATCTTAG-AGATATGATTTTGT
* *
95053627 AATTTTAGAGATTTGATTT
1 AATCTTAGAGATATGATTT
95053646 GTAGATACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 8 0.23
21 1 0.03
22 15 0.43
23 11 0.31
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (22 bp):
AATCTTAGAGATATGATTTTGT
Found at i:95054943 original size:26 final size:26
Alignment explanation
Indices: 95054881--95054943 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
95054871 CACTTAAATT
95054881 TTTTCAAAA-CACTTCTCAAAAGTAC
1 TTTTCAAAAGCACTTCTCAAAAGTAC
* * * * *
95054906 TTCTCCACAGCACTTTTTAAAAGTAC
1 TTTTCAAAAGCACTTCTCAAAAGTAC
95054932 TTTTCAAAAGCA
1 TTTTCAAAAGCA
95054944 ATGAACAACT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTTTCAAAAGCACTTCTCAAAAGTAC
Found at i:95060705 original size:67 final size:64
Alignment explanation
Indices: 95060600--95060730 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 64
95060590 TTTCAGTTTG
95060600 CTCTAGGCTGGTTTTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATA
1 CTCTAGGCTGGTTTTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATA
95060664 CTCTAGGCTGGTTTTTTTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATA
1 CTCTAGGCTGG---TTTTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATA
95060729 TA
63 TA
95060731 TATATAAACT
Statistics
Matches: 64, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
64 11 0.17
67 53 0.83
ACGTcount: A:0.21, C:0.11, G:0.15, T:0.53
Consensus pattern (64 bp):
CTCTAGGCTGGTTTTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATA
Found at i:95060751 original size:67 final size:67
Alignment explanation
Indices: 95060613--95060753 Score: 203
Period size: 67 Copynumber: 2.1 Consensus size: 67
95060603 TAGGCTGGTT
* * ** * *
95060613 TTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATACTCTAGGCTGGTTT
1 TTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATAATATAAACTGGATA
*
95060678 TT
66 TA
95060680 TTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATATATATAAACT-GAT
1 TTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATA-ATATAAACTGGAT
95060744 ATA
65 ATA
95060747 TTTTTTT
1 TTTTTTT
95060754 TATTGTAGCT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 61 0.92
68 5 0.08
ACGTcount: A:0.25, C:0.09, G:0.12, T:0.55
Consensus pattern (67 bp):
TTTTTTTCCATTTTATGGGTAAAAGTTTTCTTTAGCTGTTATATATATATAATATAAACTGGATA
TA
Found at i:95060799 original size:17 final size:17
Alignment explanation
Indices: 95060766--95060798 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
95060756 TTGTAGCTTC
95060766 TTTGAAAACTTTAAAAA
1 TTTGAAAACTTTAAAAA
95060783 TTTG-AAACTTTAAAAA
1 TTTGAAAACTTTAAAAA
95060799 AAAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
TTTGAAAACTTTAAAAA
Found at i:95061902 original size:42 final size:41
Alignment explanation
Indices: 95061821--95061903 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 41
95061811 TGCCCGTGGG
* * *
95061821 GCTCCCATGGCGTGGGGCTAGCCCGTAGGCAGATTTGACTT
1 GCTCACATGGCGTGGGACTAACCCGTAGGCAGATTTGACTT
* *
95061862 GCTCACATGGCCGTGGGACTAACCTGTGGGCA-ATTCTGACTT
1 GCTCACATGG-CGTGGGACTAACCCGTAGGCAGATT-TGACTT
95061904 TACCACACGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
41 12 0.34
42 23 0.66
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (41 bp):
GCTCACATGGCGTGGGACTAACCCGTAGGCAGATTTGACTT
Found at i:95063710 original size:5 final size:5
Alignment explanation
Indices: 95063700--95063779 Score: 60
Period size: 5 Copynumber: 15.8 Consensus size: 5
95063690 AATTTCTCCT
*
95063700 TTTTC TTTTC TTTTC TTTTC TTCTT- TCTTTC -TTTC TATTTC GTTTC
1 TTTTC TTTTC TTTTC TTTTC TT-TTC T-TTTC TTTTC T-TTTC TTTTC
* *
95063746 TTCTC TGTTTC TTTTTC TTGT- TTTTC -TTTC TTTT
1 TTTTC T-TTTC -TTTTC TTTTC TTTTC TTTTC TTTT
95063780 ATTTATTCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
4 11 0.18
5 34 0.57
6 14 0.23
7 1 0.02
ACGTcount: A:0.01, C:0.20, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:95063740 original size:26 final size:25
Alignment explanation
Indices: 95063701--95063759 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
95063691 ATTTCTCCTT
* *
95063701 TTTCTTTTCTTTTCTTTTCTTCTTTC
1 TTTC-TTTCTTTTCGTTTCTTCTCTC
*
95063727 TTTCTTTCTATTTCGTTTCTTCTCTG
1 TTTCTTTCT-TTTCGTTTCTTCTCTC
95063753 TTTCTTT
1 TTTCTTT
95063760 TTCTTGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.02, C:0.22, G:0.03, T:0.73
Consensus pattern (25 bp):
TTTCTTTCTTTTCGTTTCTTCTCTC
Found at i:95063956 original size:3 final size:3
Alignment explanation
Indices: 95063948--95063977 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
95063938 TTGATAAAAT
95063948 ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
95063978 GTAAATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:95063962 original size:14 final size:14
Alignment explanation
Indices: 95063941--95063977 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
95063931 CAATTAATTG
*
95063941 ATAA-AATATAATA
1 ATAATAATAAAATA
95063954 ATAATAATAAAATA
1 ATAATAATAAAATA
95063968 ATAATAATAA
1 ATAATAATAA
95063978 GTAAATATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATAAAATA
Found at i:95063968 original size:17 final size:18
Alignment explanation
Indices: 95063948--95063982 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
95063938 TTGATAAAAT
95063948 ATAATAATAATAA-TAAA
1 ATAATAATAATAAGTAAA
95063965 ATAATAATAATAAGTAAA
1 ATAATAATAATAAGTAAA
95063983 TATCTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
ATAATAATAATAAGTAAA
Found at i:95063984 original size:14 final size:12
Alignment explanation
Indices: 95063948--95063977 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
95063938 TTGATAAAAT
95063948 ATAATAATAATA
1 ATAATAATAATA
95063960 ATAA-AATAATA
1 ATAATAATAATA
95063971 ATAATAA
1 ATAATAA
95063978 GTAAATATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAATAATAATA
Found at i:95066811 original size:15 final size:15
Alignment explanation
Indices: 95066791--95066821 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
95066781 ATGCAGCAAT
95066791 GAATAAGAAGAAGAA
1 GAATAAGAAGAAGAA
95066806 GAATAAGAAGAAGAA
1 GAATAAGAAGAAGAA
95066821 G
1 G
95066822 CTTACTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (15 bp):
GAATAAGAAGAAGAA
Found at i:95066949 original size:14 final size:14
Alignment explanation
Indices: 95066930--95066962 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
95066920 CTGGGATTTG
95066930 GGTGGATCAGTGGA
1 GGTGGATCAGTGGA
*
95066944 GGTGGATCGGTGGA
1 GGTGGATCAGTGGA
95066958 GGTGG
1 GGTGG
95066963 TGGTGAGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.06, G:0.58, T:0.21
Consensus pattern (14 bp):
GGTGGATCAGTGGA
Found at i:95077989 original size:18 final size:17
Alignment explanation
Indices: 95077938--95077985 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
95077928 TTTTTTAAGT
*
95077938 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
95077956 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
95077974 TTTATATTATTA
1 TTTATATTATTA
95077986 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:95077998 original size:23 final size:23
Alignment explanation
Indices: 95077972--95078067 Score: 58
Period size: 23 Copynumber: 4.2 Consensus size: 23
95077962 TTGCTTATTT
*
95077972 AATTTATATTATTAATTTTAAAA
1 AATTTATAATATTAATTTTAAAA
*
95077995 AATTTGTAATA-TACA-TTTAAAA
1 AATTTATAATATTA-ATTTTAAAA
** *
95078017 TGTATTATAATATT--TTTT-TAA
1 AAT-TTATAATATTAATTTTAAAA
* *
95078038 AATTTTTAATTATTATTTTTAAAA
1 AATTTATAA-TATTAATTTTAAAA
95078062 ATATTT
1 A-ATTT
95078068 TTTAAATTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
20 5 0.09
21 7 0.13
22 13 0.24
23 21 0.39
24 4 0.07
25 4 0.07
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (23 bp):
AATTTATAATATTAATTTTAAAA
Found at i:95078059 original size:22 final size:23
Alignment explanation
Indices: 95078010--95078061 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
95078000 GTAATATACA
95078010 TTTAAAATGTATTATAATATTTT
1 TTTAAAATGTATTATAATATTTT
95078033 TTTAAAAT-T-TT-TAATTATTATT
1 TTTAAAATGTATTATAA-TATT-TT
95078055 TTTAAAA
1 TTTAAAA
95078062 ATATTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.11
21 6 0.22
22 10 0.37
23 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAAATGTATTATAATATTTT
Found at i:95078065 original size:36 final size:39
Alignment explanation
Indices: 95078025--95078117 Score: 106
Period size: 37 Copynumber: 2.5 Consensus size: 39
95078015 AATGTATTAT
*
95078025 AATATTTTTTTAAAATTTTTA-AT-TAT-TATTTTTAAA
1 AATATTTTTTTAAAATTTTTATATATATATATTTGTAAA
* *
95078061 AATA-TTTTTT-AAATTTATATATATATATATTTGTGAA
1 AATATTTTTTTAAAATTTTTATATATATATATTTGTAAA
*
95078098 ATTATTTTTTTATAAATTTT
1 AATATTTTTTTA-AAATTTT
95078118 AAAAATGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
34 8 0.17
35 8 0.17
36 7 0.15
37 11 0.24
38 6 0.13
40 6 0.13
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (39 bp):
AATATTTTTTTAAAATTTTTATATATATATATTTGTAAA
Found at i:95078321 original size:23 final size:22
Alignment explanation
Indices: 95078281--95078336 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
95078271 AAATTAAAAT
95078281 ATATATATTTTAAAAAATATATTAA
1 ATAT-TATTTT-AAAAA-ATATTAA
*
95078306 ATATTATTTT-ATAAATATTAA
1 ATATTATTTTAAAAAATATTAA
*
95078327 ATATTTTTTT
1 ATATTATTTT
95078337 TATTTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 16 0.55
22 3 0.10
24 6 0.21
25 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATTATTTTAAAAAATATTAA
Found at i:95078640 original size:21 final size:21
Alignment explanation
Indices: 95078598--95078641 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
95078588 TTTTGAAATT
* *
95078598 TTTTGTTTTTTTCTTATTTTA
1 TTTTGTTTATTTATTATTTTA
95078619 TTTTGTTTATTTATT-TTATTA
1 TTTTGTTTATTTATTATT-TTA
95078640 TT
1 TT
95078642 AATTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (21 bp):
TTTTGTTTATTTATTATTTTA
Found at i:95078712 original size:21 final size:21
Alignment explanation
Indices: 95078650--95078718 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
95078640 TTAATTTTAA
* * * *
95078650 AAATTTTGTAATGTATATTTA
1 AAATTTTATAATATATTTTTT
95078671 AATATTTTATAATATATTTTTT
1 AA-ATTTTATAATATATTTTTT
95078693 ACAATTTTA-AATAT-TATTTTT
1 A-AATTTTATAATATAT-TTTTT
95078714 AAATT
1 AAATT
95078719 CTGTTTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 5 0.12
21 13 0.32
22 22 0.54
23 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (21 bp):
AAATTTTATAATATATTTTTT
Found at i:95078908 original size:18 final size:18
Alignment explanation
Indices: 95078865--95078909 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
95078855 TATATTAAAC
95078865 ATTTTTTTTATTATTTTG
1 ATTTTTTTTATTATTTTG
* * *
95078883 ACTCTTTTTATTGTTTTG
1 ATTTTTTTTATTATTTTG
95078901 -TTTTTTTTA
1 ATTTTTTTTA
95078910 AAAAAAATTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.13, C:0.04, G:0.07, T:0.76
Consensus pattern (18 bp):
ATTTTTTTTATTATTTTG
Found at i:95081894 original size:30 final size:30
Alignment explanation
Indices: 95081858--95081980 Score: 192
Period size: 30 Copynumber: 4.1 Consensus size: 30
95081848 GTCCCAGAGC
*
95081858 AGTTCATATAACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
95081888 AGTTCATATCACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* *
95081918 AGTTCATATCACCCGAACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* * *
95081948 AGTTCATATCATCCGGATATAGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
95081978 AGT
1 AGT
95081981 CTATTTGACC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGTGGTTCG
Found at i:95085408 original size:26 final size:26
Alignment explanation
Indices: 95085353--95085408 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
95085343 TGTTTCAGCC
* *
95085353 TTTTTTTTTTTAAAGTTCTGACTTTC
1 TTTTTTTTTTTAAAGTCCTGACTTTA
* *
95085379 TTTTTTCTTTTTTAAGTCCTTA-TTTA
1 TTTTTT-TTTTTAAAGTCCTGACTTTA
95085405 TTTT
1 TTTT
95085409 ATTTATTTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (26 bp):
TTTTTTTTTTTAAAGTCCTGACTTTA
Found at i:95085467 original size:14 final size:13
Alignment explanation
Indices: 95085433--95085474 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
95085423 ACTTGAAACG
95085433 TATTTTTTA-AAA
1 TATTTTTTATAAA
*
95085445 -ATGTTTTATAATA
1 TATTTTTTATAA-A
95085458 TATTTTTTATAAA
1 TATTTTTTATAAA
95085471 TATT
1 TATT
95085475 AAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TATTTTTTATAAA
Found at i:95086155 original size:26 final size:27
Alignment explanation
Indices: 95086109--95086175 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 27
95086099 TGAAATATAT
95086109 AATAAAAATAAATAAAATAGA-T-AAAA
1 AATAAAAA-AAATAAAATAGACTCAAAA
95086135 AATAAAAAAGAA-AAAATTAGACTTCAAAA
1 AATAAAAAA-AATAAAA-TAGAC-TCAAAA
95086164 AACTAAAAAAAA
1 AA-TAAAAAAAA
95086176 GGAAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
25 5 0.14
26 14 0.40
28 1 0.03
29 8 0.23
30 7 0.20
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.16
Consensus pattern (27 bp):
AATAAAAAAAATAAAATAGACTCAAAA
Found at i:95086261 original size:37 final size:36
Alignment explanation
Indices: 95086191--95086261 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
95086181 AATAATTATT
*
95086191 TTTTTAAAATTTTAAAAAATTAATTTGAAAAATACA
1 TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
* *
95086227 TTTTTAAAATTTATAAATAATTAATTTCACAAATA
1 TTTTTAAAATTT-TAAAAAATTAATTTCAAAAATA
95086262 TATATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 12 0.39
37 19 0.61
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (36 bp):
TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
Found at i:95086335 original size:22 final size:22
Alignment explanation
Indices: 95086281--95086360 Score: 60
Period size: 22 Copynumber: 3.6 Consensus size: 22
95086271 ATAAAGTTAA
*
95086281 AAAATATTTTTAGAAATAATAAT-T
1 AAAATA-TTTTA-AAA-AATATTAT
95086305 AAAA-A-TTTAAAAAATATTAT
1 AAAATATTTTAAAAAATATTAT
*
95086325 AAAATATTTTAAATATATATTA-
1 AAAATATTTTAAA-AAATATTAT
* *
95086347 CAAATTTTTTAAAA
1 AAAATATTTTAAAA
95086361 TTAATAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
19 5 0.10
20 8 0.17
21 6 0.12
22 17 0.35
23 8 0.17
24 4 0.08
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (22 bp):
AAAATATTTTAAAAAATATTAT
Found at i:95086403 original size:36 final size:37
Alignment explanation
Indices: 95086363--95086436 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
95086353 TTTTAAAATT
*
95086363 AATAATAT-AAA-TTAAATAAGTAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATATAAGAA
95086399 AATAATATAAAACTTAAAAAAGAAAAAAATATAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATATAAGAA
95086436 A
1 A
95086437 TAGACAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.23
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATATAAGAA
Found at i:95086408 original size:18 final size:18
Alignment explanation
Indices: 95086358--95086409 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
95086348 AAATTTTTTA
*
95086358 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
95086376 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
95086394 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
95086410 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:95086463 original size:18 final size:17
Alignment explanation
Indices: 95086384--95086463 Score: 58
Period size: 18 Copynumber: 4.5 Consensus size: 17
95086374 TTAAATAAGT
95086384 AAAAT-AAATTAAGAAA
1 AAAATAAAATTAAGAAA
95086400 ATAATATAAAACTTAA-AAA
1 A-AA-ATAAAA-TTAAGAAA
95086419 AGAAA-AAAATATAAGAAA
1 A-AAATAAAAT-TAAGAAA
* * *
95086437 TAGACAAAATATAAGAAA
1 AAAATAAAAT-TAAGAAA
95086455 AAAATAAAA
1 AAAATAAAA
95086464 AAGTTAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
16 2 0.04
17 11 0.22
18 25 0.49
19 9 0.18
20 4 0.08
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAATAAAATTAAGAAA
Found at i:95086464 original size:9 final size:8
Alignment explanation
Indices: 95086452--95086491 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
95086442 AAAATATAAG
95086452 AAAAAAAT
1 AAAAAAAT
*
95086460 AAAAAAGT
1 AAAAAAAT
*
95086468 TAAAAAAT
1 AAAAAAAT
95086476 AAAAAAAGT
1 AAAAAAA-T
95086485 AAAAAAA
1 AAAAAAA
95086492 AATATAACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:95086474 original size:16 final size:16
Alignment explanation
Indices: 95086453--95086490 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
95086443 AAATATAAGA
95086453 AAAAAAT-AAAAAAGTT
1 AAAAAATAAAAAAAG-T
95086469 AAAAAATAAAAAAAGT
1 AAAAAATAAAAAAAGT
95086485 AAAAAA
1 AAAAAA
95086491 AAATATAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (16 bp):
AAAAAATAAAAAAAGT
Found at i:95086474 original size:17 final size:17
Alignment explanation
Indices: 95086452--95086491 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
95086442 AAAATATAAG
95086452 AAAAAAAT-AAAAAAGT
1 AAAAAAATAAAAAAAGT
*
95086468 TAAAAAATAAAAAAAGT
1 AAAAAAATAAAAAAAGT
95086485 AAAAAAA
1 AAAAAAA
95086492 AATATAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAAATAAAAAAAGT
Found at i:95087438 original size:22 final size:20
Alignment explanation
Indices: 95087404--95087448 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
95087394 ATTTAGCTAA
95087404 TTTTTTCAATTTTCTGAATT
1 TTTTTTCAATTTTCTGAATT
* *
95087424 TTTTTTACAAGTTTTTTGAGTT
1 TTTTTT-CAA-TTTTCTGAATT
95087446 TTT
1 TTT
95087449 GCAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
22 12 0.57
ACGTcount: A:0.18, C:0.07, G:0.09, T:0.67
Consensus pattern (20 bp):
TTTTTTCAATTTTCTGAATT
Found at i:95094414 original size:37 final size:37
Alignment explanation
Indices: 95094353--95094498 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
95094343 TACGTATGAT
* *
95094353 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
95094388 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
95094425 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
95094462 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
95094499 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:95094515 original size:46 final size:46
Alignment explanation
Indices: 95094462--95094828 Score: 446
Period size: 46 Copynumber: 7.6 Consensus size: 46
95094452 TAAGTGTAGC
* **
95094462 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
95094508 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
95094554 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
95094606 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
95094658 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
95094704 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
95094750 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
95094802 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
95094829 AGTACTCAAA
Statistics
Matches: 291, Mismatches: 17, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:95094581 original size:52 final size:52
Alignment explanation
Indices: 95094505--95094822 Score: 426
Period size: 52 Copynumber: 6.3 Consensus size: 52
95094495 TAGCTAAAGC
* *
95094505 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
95094558 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
95094610 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
95094662 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
95094708 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
95094754 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
95094806 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
95094823 ATCAGAAGTA
Statistics
Matches: 239, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 84 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:95094703 original size:196 final size:196
Alignment explanation
Indices: 95094462--95094814 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
95094452 TAAGTGTAGC
* * * * *
95094462 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
95094527 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
95094592 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
95094657 T
196 T
*
95094658 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
95094723 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
95094788 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
95094815 ATCACTTGAT
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:95094817 original size:98 final size:97
Alignment explanation
Indices: 95094462--95094828 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
95094452 TAAGTGTAGC
* * * *
95094462 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
95094527 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
95094561 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
95094626 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
95094665 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
95094725 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
95094757 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
95094822 GATCAGA
65 GATCAGA
95094829 AGTACTCAAA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 150 0.62
99 7 0.03
100 2 0.01
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:95098701 original size:5 final size:5
Alignment explanation
Indices: 95098691--95098723 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
95098681 ATATATATGC
95098691 AAGCA AAGCA AAGCA AAGCA AAGCA AAGCA AAG
1 AAGCA AAGCA AAGCA AAGCA AAGCA AAGCA AAG
95098724 GAATGAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.18, G:0.21, T:0.00
Consensus pattern (5 bp):
AAGCA
Found at i:95101435 original size:6 final size:6
Alignment explanation
Indices: 95101424--95101449 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
95101414 ACGAGGAAAT
95101424 GGCTTA GGCTTA GGCTTA GGCTTA GG
1 GGCTTA GGCTTA GGCTTA GGCTTA GG
95101450 ATTGGGCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (6 bp):
GGCTTA
Found at i:95104134 original size:16 final size:17
Alignment explanation
Indices: 95104115--95104201 Score: 83
Period size: 16 Copynumber: 5.1 Consensus size: 17
95104105 TGGAAATAAT
95104115 TTAAATAC-ATTATACA
1 TTAAATACGATTATACA
95104131 TTAAATACGATTA-AC-
1 TTAAATACGATTATACA
*
95104146 TTAAGAATATTTCTATTATACA
1 TT-A-AATA---CGATTATACA
95104168 TTAAATAC-ATTATACA
1 TTAAATACGATTATACA
*
95104184 TTAAATACGATTAAACA
1 TTAAATACGATTATACA
95104201 T
1 T
95104202 ATTATACATT
Statistics
Matches: 60, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
15 2 0.03
16 27 0.45
17 17 0.28
20 9 0.15
21 3 0.05
22 2 0.03
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.38
Consensus pattern (17 bp):
TTAAATACGATTATACA
Found at i:95105051 original size:35 final size:34
Alignment explanation
Indices: 95105012--95105086 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 34
95105002 TATATCAAAG
*
95105012 TAATTAAGTCTTAAGACATAAAAATGGTAAGTTTA
1 TAATTAA-TCTTAACACATAAAAATGGTAAGTTTA
* * * *
95105047 TAATTTCATTTTTACACATAAAAATGGTATGTTTA
1 TAA-TTAATCTTAACACATAAAAATGGTAAGTTTA
95105082 TAATT
1 TAATT
95105087 TTATTTTTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
34 2 0.06
35 29 0.85
36 3 0.09
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (34 bp):
TAATTAATCTTAACACATAAAAATGGTAAGTTTA
Found at i:95105087 original size:35 final size:35
Alignment explanation
Indices: 95105027--95105097 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
95105017 AAGTCTTAAG
95105027 ACATAAAAATGGTAAGTTTATAATTTCATTTTTAC
1 ACATAAAAATGGTAAGTTTATAATTTCATTTTTAC
* *
95105062 ACATAAAAATGGTATGTTTATAATTTTATTTTTAC
1 ACATAAAAATGGTAAGTTTATAATTTCATTTTTAC
95105097 A
1 A
95105098 TATTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (35 bp):
ACATAAAAATGGTAAGTTTATAATTTCATTTTTAC
Found at i:95105969 original size:17 final size:17
Alignment explanation
Indices: 95105919--95105981 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
95105909 TTAATTATAT
*
95105919 TATATTTTTATTATTTA
1 TATATATTTATTATTTA
* *
95105936 TA-AAATTTATCACATTTA
1 TATATATTTAT--TATTTA
*
95105954 TATATTTTTATTATTTA
1 TATATATTTATTATTTA
*
95105971 TCTATATTTAT
1 TATATATTTAT
95105982 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
16 6 0.17
17 16 0.46
18 7 0.20
19 6 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATATTTATTATTTA
Found at i:95108997 original size:69 final size:69
Alignment explanation
Indices: 95108886--95109020 Score: 225
Period size: 69 Copynumber: 2.0 Consensus size: 69
95108876 TTAATCTTAT
*
95108886 TTCCTCCTAAACAAGTATACTAGCCAATACATTAGCATCTTACTTATTTTTAATAGTGTTATAGT
1 TTCCTCCTAAACAAGTATACTAGCCAATACATTAGCATCTTACTTATTTTTAATAGTATTATAGT
95108951 TTAC
66 TTAC
* * * *
95108955 TTCCTCCTAAACAAGTTTATTAGCCAATTCATTAGCATCTTACTTATTTTTAATGGTATTATAGT
1 TTCCTCCTAAACAAGTATACTAGCCAATACATTAGCATCTTACTTATTTTTAATAGTATTATAGT
95109020 T
66 T
95109021 AATTTGAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (69 bp):
TTCCTCCTAAACAAGTATACTAGCCAATACATTAGCATCTTACTTATTTTTAATAGTATTATAGT
TTAC
Found at i:95128276 original size:21 final size:21
Alignment explanation
Indices: 95128244--95128284 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
95128234 AGGCTCGAGG
95128244 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
95128265 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
95128285 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:95133565 original size:32 final size:33
Alignment explanation
Indices: 95133523--95133586 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
95133513 CACATTTACG
*
95133523 TGACAAAGTGAGGCGTGCCT-TAATCAGTTTCTC
1 TGACAAAGTGAGGCGTG-CTATAATCAATTTCTC
*
95133556 TGAC-AAGTGAGGTGTGCTATAATCAATTTCT
1 TGACAAAGTGAGGCGTGCTATAATCAATTTCT
95133587 GTTAAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 2 0.07
32 22 0.79
33 4 0.14
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (33 bp):
TGACAAAGTGAGGCGTGCTATAATCAATTTCTC
Found at i:95136746 original size:36 final size:36
Alignment explanation
Indices: 95136679--95136761 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 36
95136669 AGGATAACCC
* * * * *
95136679 TGAGGGGGATATCCTCCATGTGGATGGTGTCCTACA
1 TGAGGGGGATACCCTCCAGGAGGAAGATGTCCTACA
* *
95136715 TGAGGGGGATACCCTCCGGGAGGAAGATGTCCTCCA
1 TGAGGGGGATACCCTCCAGGAGGAAGATGTCCTACA
* *
95136751 TGTGGTGGATA
1 TGAGGGGGATA
95136762 TCCTGGGTGT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.20, C:0.19, G:0.36, T:0.24
Consensus pattern (36 bp):
TGAGGGGGATACCCTCCAGGAGGAAGATGTCCTACA
Found at i:95136765 original size:18 final size:18
Alignment explanation
Indices: 95136679--95136765 Score: 50
Period size: 18 Copynumber: 4.8 Consensus size: 18
95136669 AGGATAACCC
*
95136679 TGAGGGGGATATCCTCCA
1 TGAGGTGGATATCCTCCA
* * *
95136697 TGTGGATGG-TGTCCTACA
1 TGAGG-TGGATATCCTCCA
* * *
95136715 TGAGGGGGATACCCTCCG
1 TGAGGTGGATATCCTCCA
* ** *
95136733 GGAGGAAGATGTCCTCCA
1 TGAGGTGGATATCCTCCA
*
95136751 TGTGGTGGATATCCT
1 TGAGGTGGATATCCT
95136766 GGGTGTCCCC
Statistics
Matches: 46, Mismatches: 21, Indels: 4
0.65 0.30 0.06
Matches are distributed among these distances:
17 2 0.04
18 42 0.91
19 2 0.04
ACGTcount: A:0.20, C:0.21, G:0.34, T:0.25
Consensus pattern (18 bp):
TGAGGTGGATATCCTCCA
Found at i:95147957 original size:22 final size:22
Alignment explanation
Indices: 95147932--95147973 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95147922 AAAAATATAA
*
95147932 AATTCAAATGTAATTTTTATTT
1 AATTCAAATATAATTTTTATTT
* *
95147954 AATTCCAATATATTTTTTAT
1 AATTCAAATATAATTTTTAT
95147974 ATTTCATATT
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:0.07, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTCAAATATAATTTTTATTT
Found at i:95157686 original size:16 final size:16
Alignment explanation
Indices: 95157665--95157695 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
95157655 TCTAGTTGTC
95157665 CATATATATGTATATA
1 CATATATATGTATATA
95157681 CATATATATGTATAT
1 CATATATATGTATAT
95157696 GTTATCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (16 bp):
CATATATATGTATATA
Found at i:95160716 original size:167 final size:167
Alignment explanation
Indices: 95160440--95160774 Score: 634
Period size: 167 Copynumber: 2.0 Consensus size: 167
95160430 GCTATGAGTA
95160440 AATTTACTCAAAATTCATGGAATGTATGTTTAAGTACACTAGTTTGAAATGGATAATTAAAAAGT
1 AATTTACTCAAAATTCATGGAATGTATGTTTAAGTACACTAGTTTGAAATGGATAATTAAAAAGT
*
95160505 TTGTGTAACATAATCATGTATGTTAATTTGTTTGAAGTGAATTATGTAATTGTGAGGATATGATG
66 TCGTGTAACATAATCATGTATGTTAATTTGTTTGAAGTGAATTATGTAATTGTGAGGATATGATG
95160570 TTGATGATAAACGCTAAGTTATATGTGTGTATTTATG
131 TTGATGATAAACGCTAAGTTATATGTGTGTATTTATG
*
95160607 AATTTACTCAAAATTCATGGAATGTATGTTTAAGTACACTAGTTTGAAATGGATAATTGAAAAGT
1 AATTTACTCAAAATTCATGGAATGTATGTTTAAGTACACTAGTTTGAAATGGATAATTAAAAAGT
*
95160672 TCGTGTAACATAATCATGTATGTTAATTTGTTTGAAGTGAATTATGTAATTGTGATGATATGATG
66 TCGTGTAACATAATCATGTATGTTAATTTGTTTGAAGTGAATTATGTAATTGTGAGGATATGATG
*
95160737 TTGATGATAAATGCTAAGTTATATGTGTGTATTTATG
131 TTGATGATAAACGCTAAGTTATATGTGTGTATTTATG
95160774 A
1 A
95160775 GAACTCAGTT
Statistics
Matches: 164, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 164 1.00
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (167 bp):
AATTTACTCAAAATTCATGGAATGTATGTTTAAGTACACTAGTTTGAAATGGATAATTAAAAAGT
TCGTGTAACATAATCATGTATGTTAATTTGTTTGAAGTGAATTATGTAATTGTGAGGATATGATG
TTGATGATAAACGCTAAGTTATATGTGTGTATTTATG
Found at i:95162039 original size:32 final size:31
Alignment explanation
Indices: 95161964--95162061 Score: 117
Period size: 32 Copynumber: 3.1 Consensus size: 31
95161954 AAAGTTAATG
*
95161964 CACGTGAATAATGCTTAA-ATGAATAAGTATC
1 CACGTGAATTATGCTTAACATGAA-AAGTATC
** *
95161995 CACAAGAATTATGCTTAACCATGAAAAGTATT
1 CACGTGAATTATGCTTAA-CATGAAAAGTATC
*
95162027 CACGTGATTTATGCTTAACAGTGAAAAGTATC
1 CACGTGAATTATGCTTAACA-TGAAAAGTATC
95162059 CAC
1 CAC
95162062 ATGTTAGCTA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
31 17 0.30
32 34 0.61
33 5 0.09
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (31 bp):
CACGTGAATTATGCTTAACATGAAAAGTATC
Found at i:95163884 original size:17 final size:18
Alignment explanation
Indices: 95163862--95163900 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
95163852 CAATATTCAA
*
95163862 TTCACAATTC-ACACATT
1 TTCACAACTCAACACATT
*
95163879 TTCACAACTCAATACATT
1 TTCACAACTCAACACATT
95163897 TTCA
1 TTCA
95163901 TTCAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (18 bp):
TTCACAACTCAACACATT
Found at i:95165834 original size:15 final size:15
Alignment explanation
Indices: 95165814--95165847 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
95165804 TTTCAAAAAA
95165814 TTTAAAATTAATATT
1 TTTAAAATTAATATT
95165829 TTTAAAATTAATATT
1 TTTAAAATTAATATT
95165844 TTTA
1 TTTA
95165848 GAATATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAAATTAATATT
Found at i:95166117 original size:19 final size:19
Alignment explanation
Indices: 95166095--95166155 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 19
95166085 CTCTAACTTA
95166095 AATATTTTATTCTATATAT
1 AATATTTTATTCTATATAT
**
95166114 AATAATTTTA-AGTA-ATACT
1 AAT-ATTTTATTCTATATA-T
95166133 ATATATTTTATTCTATATGAT
1 A-ATATTTTATTCTATAT-AT
95166154 AA
1 AA
95166156 AATAATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 11 0.34
21 4 0.12
22 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
AATATTTTATTCTATATAT
Found at i:95172591 original size:19 final size:18
Alignment explanation
Indices: 95172559--95172610 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
95172549 AATTTTAATA
95172559 TTATAAAT-TCAATTAATTAT
1 TTATAAATAT-AATT-ATT-T
95172579 TT-TAAATATAATTATTT
1 TTATAAATATAATTATTT
95172596 TTAATAAATATAATT
1 TT-ATAAATATAATT
95172611 TCTATATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.10
18 3 0.10
19 20 0.69
20 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATAAATATAATTATTT
Found at i:95172592 original size:15 final size:15
Alignment explanation
Indices: 95172572--95172601 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95172562 TAAATTCAAT
95172572 TAATTATTTTAAATA
1 TAATTATTTTAAATA
*
95172587 TAATTATTTTTAATA
1 TAATTATTTTAAATA
95172602 AATATAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATTATTTTAAATA
Found at i:95189598 original size:13 final size:13
Alignment explanation
Indices: 95189580--95189605 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95189570 AAAATATCCT
95189580 TTTTTTATTTTTA
1 TTTTTTATTTTTA
95189593 TTTTTTATTTTTA
1 TTTTTTATTTTTA
95189606 AAAGTAAAAA
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:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:95200546 original size:33 final size:33
Alignment explanation
Indices: 95200504--95200566 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
95200494 TGAAACAGAG
* *
95200504 TAAGCACTTTGTGCTTTGTAAGCTCATGTATAA
1 TAAGCACTTTATGCTTAGTAAGCTCATGTATAA
95200537 TAAGCACTTTATGCTTAGTAAGCTCATGTA
1 TAAGCACTTTATGCTTAGTAAGCTCATGTA
95200567 ACAAGAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (33 bp):
TAAGCACTTTATGCTTAGTAAGCTCATGTATAA
Found at i:95204352 original size:52 final size:52
Alignment explanation
Indices: 95204281--95204382 Score: 123
Period size: 52 Copynumber: 2.0 Consensus size: 52
95204271 ATTACATATC
* *
95204281 ATACCAATCCCATATCCCAGATATGGTTTTATACGGAAGCACATAACACACT
1 ATACCAATCCCATAGCCCAGATATGGTCTTATACGGAAGCACATAACACACT
* * * * ** *
95204333 ATACCGATGCCATAGCCCAGCTGTGGTCTTATACGGGCGCACATATCACA
1 ATACCAATCCCATAGCCCAGATATGGTCTTATACGGAAGCACATAACACA
95204383 TCTTTTCCGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (52 bp):
ATACCAATCCCATAGCCCAGATATGGTCTTATACGGAAGCACATAACACACT
Found at i:95205822 original size:53 final size:52
Alignment explanation
Indices: 95205719--95205823 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 52
95205709 GATCATAGAC
* *
95205719 ATGTAATCTACTCTAATAATATGTTAACGAATTTTAAAACTATTGGATAATT
1 ATGTAATCTAATCTAATAATATGTTAACGAATTTTAAAACTAGTGGATAATT
* * * *
95205771 ATGTAATCTAATTTAATATTATGTTTGACTAATTTTAAAACTAGTGGATAATT
1 ATGTAATCTAATCTAATAATATG-TTAACGAATTTTAAAACTAGTGGATAATT
95205824 CAAAATCTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
52 20 0.43
53 26 0.57
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (52 bp):
ATGTAATCTAATCTAATAATATGTTAACGAATTTTAAAACTAGTGGATAATT
Found at i:95229983 original size:11 final size:11
Alignment explanation
Indices: 95229940--95229983 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
95229930 ATATAAATAT
95229940 TATTTTATTAA
1 TATTTTATTAA
*
95229951 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
95229964 TATTTTATTAT
1 TATTTTATTAA
95229975 TATTTTATT
1 TATTTTATT
95229984 TAGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:95230500 original size:209 final size:209
Alignment explanation
Indices: 95230140--95230553 Score: 801
Period size: 209 Copynumber: 2.0 Consensus size: 209
95230130 CATAACTACC
95230140 AAGAGAGAAAAATAATAATGAGACAATGGTGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAA
1 AAGAGAGAAAAATAATAATGAGACAATGGTGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAA
95230205 GTTGAAGGAGAGAGAAAATCAAGTTAACGATTGAAATCAATAGGACAAGATCAAGATTTCGTAGA
66 GTTGAAGGAGAGAGAAAATCAAGTTAACGATTGAAATCAATAGGACAAGATCAAGATTTCGTAGA
* *
95230270 TACTCGTGAAAAAGGAAAAATTGCAGAATAGTCCCTGAACTACTGCAATTATTACAACTCAATTC
131 TACTCGTGAAAAAAGAAAAATTGCAGAATAGTCCATGAACTACTGCAATTATTACAACTCAATTC
95230335 AGGTAAGTTTAACT
196 AGGTAAGTTTAACT
*
95230349 AAGAGAGAAAAATAATAATGAGACAATGGTGAGCTCGAATATCAAGTTAGATTCAAGAAATAGAA
1 AAGAGAGAAAAATAATAATGAGACAATGGTGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAA
95230414 GTTGAAGGAGAGAGAAAATCAAGTTAACGATTGAAATCAATAGGACAAGATCAAGATTTCGTAGA
66 GTTGAAGGAGAGAGAAAATCAAGTTAACGATTGAAATCAATAGGACAAGATCAAGATTTCGTAGA
95230479 TACTCGTGAAAAAAGAAAAATTGCAGAATAGTCCATGAACTACTGCAATTATTACAACTCAATTC
131 TACTCGTGAAAAAAGAAAAATTGCAGAATAGTCCATGAACTACTGCAATTATTACAACTCAATTC
95230544 AGGTAAGTTT
196 AGGTAAGTTT
95230554 GTATGGTTAA
Statistics
Matches: 202, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 202 1.00
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (209 bp):
AAGAGAGAAAAATAATAATGAGACAATGGTGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAA
GTTGAAGGAGAGAGAAAATCAAGTTAACGATTGAAATCAATAGGACAAGATCAAGATTTCGTAGA
TACTCGTGAAAAAAGAAAAATTGCAGAATAGTCCATGAACTACTGCAATTATTACAACTCAATTC
AGGTAAGTTTAACT
Found at i:95232783 original size:40 final size:39
Alignment explanation
Indices: 95232704--95232784 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 39
95232694 ATAAAATCAA
* * * *
95232704 ATTTATATTAATATAATATAATTAAAATTTACTAGACTTT
1 ATTTATATTAATAAAATAAAATAAAAATTTAC-AAACTTT
95232744 ATTTATATTAATAAAATAAAAGTAAATAATTTA-AAACTTT
1 ATTTATATTAATAAAATAAAA-TAAA-AATTTACAAACTTT
95232784 A
1 A
95232785 GAAAATAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
40 26 0.74
41 3 0.09
42 6 0.17
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (39 bp):
ATTTATATTAATAAAATAAAATAAAAATTTACAAACTTT
Found at i:95233631 original size:16 final size:17
Alignment explanation
Indices: 95233603--95233644 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
95233593 AATTTCATAT
*
95233603 TTTTATTTTTTTTATAA
1 TTTTATATTTTTTATAA
*
95233620 TTTT-TATTTTTTGTAA
1 TTTTATATTTTTTATAA
95233636 TTTTATATT
1 TTTTATATT
95233645 ATTATTGACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTATATTTTTTATAA
Found at i:95240321 original size:14 final size:15
Alignment explanation
Indices: 95240302--95240330 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
95240292 CTACTAATTA
95240302 TCTTATTTT-TTTTC
1 TCTTATTTTATTTTC
95240316 TCTTATTTTATTTTC
1 TCTTATTTTATTTTC
95240331 AAATGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTATTTTATTTTC
Found at i:95242977 original size:19 final size:20
Alignment explanation
Indices: 95242941--95242978 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
95242931 TATTTAGTTT
* *
95242941 TAAAAAGTTGAATGATTAAA
1 TAAAAAATTGAATAATTAAA
95242961 TAAAAAATT-AATAATTAA
1 TAAAAAATTGAATAATTAA
95242979 GTGATCCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (20 bp):
TAAAAAATTGAATAATTAAA
Found at i:95246366 original size:25 final size:25
Alignment explanation
Indices: 95246338--95246390 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
95246328 CATATGATTT
95246338 AATATAAAATACTA-TTTAAATATTA
1 AATAT-AAATACTATTTTAAATATTA
* * *
95246363 AATATTAATATTATTTTTAATATTA
1 AATATAAATACTATTTTAAATATTA
95246388 AAT
1 AAT
95246391 TGATGTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AATATAAATACTATTTTAAATATTA
Found at i:95252068 original size:55 final size:55
Alignment explanation
Indices: 95251984--95252094 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
95251974 TAGGAGCTGC
95251984 TTCTAGCCTTATTCTTTCTGCAATTAGTTAAAATTTCCTGTTTATCAAATTTCAT
1 TTCTAGCCTTATTCTTTCTGCAATTAGTTAAAATTTCCTGTTTATCAAATTTCAT
95252039 TTCTAGCCTTATTCTTTCTGCAATTAGTTAAAATTTCCTGTTTATCAAATTTCAT
1 TTCTAGCCTTATTCTTTCTGCAATTAGTTAAAATTTCCTGTTTATCAAATTTCAT
95252094 T
1 T
95252095 CTTCAAAACA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (55 bp):
TTCTAGCCTTATTCTTTCTGCAATTAGTTAAAATTTCCTGTTTATCAAATTTCAT
Found at i:95253779 original size:14 final size:14
Alignment explanation
Indices: 95253760--95253795 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
95253750 TGGTTCAAGA
95253760 GCTGAAAGGCAGCG
1 GCTGAAAGGCAGCG
*
95253774 GCTGAAA-GCAGTG
1 GCTGAAAGGCAGCG
95253787 GCTGAAAGG
1 GCTGAAAGG
95253796 GAGAAGGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.31, C:0.17, G:0.42, T:0.11
Consensus pattern (14 bp):
GCTGAAAGGCAGCG
Found at i:95257523 original size:15 final size:17
Alignment explanation
Indices: 95257484--95257520 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
95257474 TTTTAAAAAA
95257484 ATTAATTAA-AATATATT
1 ATTAA-TAATAATATATT
95257501 ATTAATAATAATAT-TT
1 ATTAATAATAATATATT
95257517 ATTA
1 ATTA
95257521 TAAAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAATAATAATATATT
Found at i:95257987 original size:33 final size:37
Alignment explanation
Indices: 95257914--95257991 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 37
95257904 TTTCTTCCTT
* *
95257914 TTTTGTTAATTTAATTAATCTATACATAAATATTATC
1 TTTTGTTAATTTAATTAATATATACATAAATATTAAC
95257951 TTTTGTTTAA-TTAATTAA-ATATA-AT-AATA-TAAC
1 TTTTG-TTAATTTAATTAATATATACATAAATATTAAC
95257984 TTTT-TTAA
1 TTTTGTTAA
95257992 AATTATAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
31 4 0.11
33 7 0.18
34 4 0.11
35 2 0.05
36 4 0.11
37 13 0.34
38 4 0.11
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (37 bp):
TTTTGTTAATTTAATTAATATATACATAAATATTAAC
Found at i:95260705 original size:2 final size:2
Alignment explanation
Indices: 95260698--95260726 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
95260688 AAAGCCAAGA
95260698 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95260727 GTTTTTATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95266677 original size:16 final size:15
Alignment explanation
Indices: 95266638--95266684 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
95266628 AGATCTGACA
*
95266638 CCTTCTCTTCTTTTT
1 CCTTCTTTTCTTTTT
95266653 CCTTCTTTTCTTTTT
1 CCTTCTTTTCTTTTT
95266668 -CTCTCTTTTTCTTTTT
1 CCT-TC-TTTTCTTTTT
95266684 C
1 C
95266685 GTGTTTAGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 2 0.07
15 16 0.57
16 10 0.36
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
CCTTCTTTTCTTTTT
Found at i:95281088 original size:4 final size:4
Alignment explanation
Indices: 95281079--95281109 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
95281069 ATGAAAAAAA
95281079 GCAG GCAG GCAG GCAG GCAG GCAG GCAG GCA
1 GCAG GCAG GCAG GCAG GCAG GCAG GCAG GCA
95281110 AGGTTTGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.48, T:0.00
Consensus pattern (4 bp):
GCAG
Found at i:95285537 original size:27 final size:24
Alignment explanation
Indices: 95285486--95285544 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 24
95285476 GTAAAACGGG
95285486 TTTAAAATAAGGTATATAAAATAA
1 TTTAAAATAAGGTATATAAAATAA
*
95285510 TTTTAAAATAA-GTAATATATAAGTTAA
1 -TTTAAAATAAGGT-ATATA-AA-ATAA
95285537 TTTAAAAT
1 TTTAAAAT
95285545 GATATATAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.07
25 15 0.50
26 10 0.33
27 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
TTTAAAATAAGGTATATAAAATAA
Found at i:95285571 original size:22 final size:22
Alignment explanation
Indices: 95285546--95285588 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
95285536 ATTTAAAATG
*
95285546 ATATATAACAAG-TTTAAAAAAA
1 ATATATAA-AAGAATTAAAAAAA
*
95285568 ATATGTAAAAGAATTAAAAAA
1 ATATATAAAAGAATTAAAAAA
95285589 GAGACAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (22 bp):
ATATATAAAAGAATTAAAAAAA
Found at i:95286971 original size:39 final size:37
Alignment explanation
Indices: 95286904--95286996 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
95286894 ACCAGAATGG
* *
95286904 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
95286943 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
95286980 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
95286997 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:95287680 original size:17 final size:16
Alignment explanation
Indices: 95287648--95287681 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
95287638 TTTGCTATTC
*
95287648 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
95287664 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
95287681 T
1 T
95287682 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:95287729 original size:14 final size:14
Alignment explanation
Indices: 95287670--95287720 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
95287660 CTTTTGTTTC
*
95287670 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
95287683 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
95287698 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
95287712 TTTTATTTC
1 TTTTATTTC
95287721 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:95287889 original size:14 final size:17
Alignment explanation
Indices: 95287870--95287906 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
95287860 ATTTATTTCT
95287870 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
95287884 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
95287901 TAATAT
1 TAATAT
95287907 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:95294785 original size:53 final size:53
Alignment explanation
Indices: 95294629--95294794 Score: 228
Period size: 53 Copynumber: 3.1 Consensus size: 53
95294619 GACGAAAAAT
* **
95294629 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
95294681 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * * *
95294734 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT-A
95294788 TATGTGA
1 -ATGTGA
95294795 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
51 4 0.04
52 10 0.10
53 82 0.80
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:95297835 original size:25 final size:25
Alignment explanation
Indices: 95297801--95297854 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
95297791 TCGACTGAAT
*
95297801 TTTGAATAGGTTTTCTTTCTTGTC-A
1 TTTGAATAGGTTCTCTTT-TTGTCGA
*
95297826 TTTGATTAGGTTCTCTTTTTGTCGA
1 TTTGAATAGGTTCTCTTTTTGTCGA
95297851 TTTG
1 TTTG
95297855 TTTCTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.13, C:0.11, G:0.19, T:0.57
Consensus pattern (25 bp):
TTTGAATAGGTTCTCTTTTTGTCGA
Found at i:95311210 original size:18 final size:18
Alignment explanation
Indices: 95311175--95311265 Score: 110
Period size: 18 Copynumber: 5.1 Consensus size: 18
95311165 CAACTATTGC
*
95311175 ATACGTGAACAGTACCGT
1 ATACGTGAATAGTACCGT
* *
95311193 ATATGTGAATAGTGCCGT
1 ATACGTGAATAGTACCGT
*
95311211 ATACGTGAATAGTACCAT
1 ATACGTGAATAGTACCGT
****
95311229 ATACGTGAATAGTGTTAT
1 ATACGTGAATAGTACCGT
95311247 ATACGTGAATAGTACCGT
1 ATACGTGAATAGTACCGT
95311265 A
1 A
95311266 AACGGTCGTA
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (18 bp):
ATACGTGAATAGTACCGT
Found at i:95311225 original size:36 final size:36
Alignment explanation
Indices: 95311175--95311265 Score: 128
Period size: 36 Copynumber: 2.5 Consensus size: 36
95311165 CAACTATTGC
* * *
95311175 ATACGTGAACAGTACCGTATATGTGAATAGTGCCGT
1 ATACGTGAATAGTACCGTATACGTGAATAGTGCCAT
* **
95311211 ATACGTGAATAGTACCATATACGTGAATAGTGTTAT
1 ATACGTGAATAGTACCGTATACGTGAATAGTGCCAT
95311247 ATACGTGAATAGTACCGTA
1 ATACGTGAATAGTACCGTA
95311266 AACGGTCGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (36 bp):
ATACGTGAATAGTACCGTATACGTGAATAGTGCCAT
Found at i:95323678 original size:21 final size:21
Alignment explanation
Indices: 95323654--95323715 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
95323644 CTTGTGGAAT
*
95323654 GAGGCAGAGGAAACTGAGGAG
1 GAGGTAGAGGAAACTGAGGAG
95323675 GAGGTAGAGGAAACTGAGGAG
1 GAGGTAGAGGAAACTGAGGAG
* *
95323696 GTGGTAGAGGAAATTGAGGA
1 GAGGTAGAGGAAACTGAGGA
95323716 TACACTTCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.37, C:0.05, G:0.47, T:0.11
Consensus pattern (21 bp):
GAGGTAGAGGAAACTGAGGAG
Found at i:95330756 original size:30 final size:30
Alignment explanation
Indices: 95330720--95330799 Score: 160
Period size: 30 Copynumber: 2.7 Consensus size: 30
95330710 TTTGTTGGTC
95330720 CCATCTTGCTCATTTCCAGTACGGTTAGAG
1 CCATCTTGCTCATTTCCAGTACGGTTAGAG
95330750 CCATCTTGCTCATTTCCAGTACGGTTAGAG
1 CCATCTTGCTCATTTCCAGTACGGTTAGAG
95330780 CCATCTTGCTCATTTCCAGT
1 CCATCTTGCTCATTTCCAGT
95330800 CGGGCTATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (30 bp):
CCATCTTGCTCATTTCCAGTACGGTTAGAG
Found at i:95335891 original size:15 final size:15
Alignment explanation
Indices: 95335866--95335898 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
95335856 AATTGTTTCA
95335866 ATTTTATTTTAT-TT
1 ATTTTATTTTATATT
95335880 ATTTTAATTTTATATT
1 ATTTT-ATTTTATATT
95335896 ATT
1 ATT
95335899 CTATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTATTTTATATT
Found at i:95337466 original size:40 final size:40
Alignment explanation
Indices: 95337418--95337523 Score: 167
Period size: 40 Copynumber: 2.6 Consensus size: 40
95337408 GCTCTCCCAT
* *
95337418 CCCTCTCCCTCTTCCCCACCATCCCTCCCCCCTATTCCGA
1 CCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTACTCCGA
** *
95337458 TTCTCTCCCTCTCCCCCACCGTCCCTCCCCCCTACTCCGA
1 CCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTACTCCGA
95337498 CCCTCTCCCTCTCCCCCACCATCCCT
1 CCCTCTCCCTCTCCCCCACCATCCCT
95337524 TTCCCTCTGC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.08, C:0.64, G:0.03, T:0.25
Consensus pattern (40 bp):
CCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTACTCCGA
Found at i:95341578 original size:35 final size:35
Alignment explanation
Indices: 95341525--95341591 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
95341515 AATATTTAAT
95341525 TAATTTATTAAAAATTTAA-GAACATAATTTTTTTA
1 TAATTTATTAAAAATTTAATG-ACATAATTTTTTTA
* *
95341560 TAATTT-TTAATAATTTTAATGACTTAATTTTT
1 TAATTTATTAA-AAATTTAATGACATAATTTTT
95341592 AGAAATAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 4 0.14
35 23 0.82
36 1 0.04
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (35 bp):
TAATTTATTAAAAATTTAATGACATAATTTTTTTA
Found at i:95341631 original size:8 final size:9
Alignment explanation
Indices: 95341600--95341639 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
95341590 TTAGAAATAG
95341600 TTTTTATAAA
1 TTTTTA-AAA
**
95341610 TTTTTTGAA
1 TTTTTAAAA
95341619 TTTTTAAAA
1 TTTTTAAAA
95341628 TTTTTAAAA
1 TTTTTAAAA
95341637 TTT
1 TTT
95341640 AATTAAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 21 0.81
10 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:95346892 original size:18 final size:19
Alignment explanation
Indices: 95346869--95346908 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
95346859 CCTGATGATG
95346869 TTTCTTTCTTCTTCTTT-T
1 TTTCTTTCTTCTTCTTTAT
* *
95346887 TTTCTTTTTTTTTCTTTAT
1 TTTCTTTCTTCTTCTTTAT
95346906 TTT
1 TTT
95346909 AGGGATGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTCTTTCTTCTTCTTTAT
Found at i:95353949 original size:19 final size:19
Alignment explanation
Indices: 95353925--95353963 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
95353915 TTTCATTATG
95353925 AAGAATGTGCAATTTTTCA
1 AAGAATGTGCAATTTTTCA
95353944 AAGAATGTGCAATTTTTCA
1 AAGAATGTGCAATTTTTCA
95353963 A
1 A
95353964 GGTTATTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
AAGAATGTGCAATTTTTCA
Found at i:95360919 original size:20 final size:20
Alignment explanation
Indices: 95360894--95360932 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
95360884 GAACACAGTC
95360894 ACAGAAACAGAGAA-AAAGAA
1 ACAG-AACAGAGAAGAAAGAA
*
95360914 ACAGAATAGAGAAGAAAGA
1 ACAGAACAGAGAAGAAAGA
95360933 CAAGGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.67, C:0.08, G:0.23, T:0.03
Consensus pattern (20 bp):
ACAGAACAGAGAAGAAAGAA
Done.