Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 295 of 322
Found at i:98028882 original size:34 final size:34
Alignment explanation
Indices: 98028844--98028940 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 34
98028834 TTGAACGGTC
*
98028844 TGGGCCTAAGCCCATATCAGTCG-CAATATCAGTG
1 TGGGCCTTAGCCCATATCAGT-GACAATATCAGTG
98028878 TGGGCCTTAGCCCA-ATACAGTGACAATATCAGTG
1 TGGGCCTTAGCCCATAT-CAGTGACAATATCAGTG
* *
98028912 TGGGCCTTAGCCCATTTCAGT-ACAGTATC
1 TGGGCCTTAGCCCATATCAGTGACAATATC
98028941 CAAAATGCAT
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
33 10 0.18
34 46 0.81
35 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATATCAGTGACAATATCAGTG
Found at i:98030170 original size:6 final size:6
Alignment explanation
Indices: 98030140--98030264 Score: 96
Period size: 6 Copynumber: 20.3 Consensus size: 6
98030130 AAGAATCATT
* * *
98030140 ATCAGA A-CTAGA ATCAAA ATAAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
98030189 ATCAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
98030238 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
98030265 GTGAATGCAA
Statistics
Matches: 94, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.05
6 77 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:98030190 original size:19 final size:19
Alignment explanation
Indices: 98030166--98030236 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
98030156 AAATAAGAAT
98030166 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGA
*
98030185 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTGA
* *
98030202 TTAGAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAGGTGA
98030222 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
98030237 TATCAGGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.02
18 13 0.30
19 28 0.65
20 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Found at i:98030198 original size:31 final size:31
Alignment explanation
Indices: 98030161--98030264 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 31
98030151 AATCAAAATA
*
98030161 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
98030192 AGAATCAGAATTAGAATCA-G-AATTAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAAT--C
*
98030223 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
98030254 AGAATCAGAAT
1 AGAATCAGAAT
98030265 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
29 2 0.03
30 3 0.05
31 48 0.81
32 3 0.05
33 3 0.05
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:98030202 original size:37 final size:37
Alignment explanation
Indices: 98030149--98030255 Score: 144
Period size: 37 Copynumber: 2.9 Consensus size: 37
98030139 TATCAGAACT
* *
98030149 AGAATCAAAATAAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
98030186 AGAATCAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
*
98030223 AGAATCAGAATCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAG
98030256 AATCAGAATG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
37 50 0.82
38 9 0.15
39 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:98030225 original size:25 final size:25
Alignment explanation
Indices: 98030197--98030264 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
98030187 GAATCAGAAT
* * *
98030197 CAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
98030222 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
98030247 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
98030265 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:98030425 original size:27 final size:26
Alignment explanation
Indices: 98030384--98030462 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 26
98030374 TATCGCTGCT
*
98030384 AGAACAGATATTGTGACAGAGTCACC
1 AGAACAGATATTGTGACAGAGCCACC
*
98030410 AGATACAGATATTGTGGCAGAGCCACC
1 AGA-ACAGATATTGTGACAGAGCCACC
* * *
98030437 AGAATCAGATAATGTGGCAAAGCCAC
1 AGAA-CAGATATTGTGACAGAGCCAC
98030463 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 4 0.09
27 43 0.91
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (26 bp):
AGAACAGATATTGTGACAGAGCCACC
Found at i:98030559 original size:20 final size:20
Alignment explanation
Indices: 98030512--98030549 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
98030502 TATAATTGGC
* *
98030512 ACGAACCCCACAATATCGAT
1 ACGAAGCCCACAATAACGAT
98030532 ACGAAGCCCACAATAACG
1 ACGAAGCCCACAATAACG
98030550 GTACACAGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.34, G:0.13, T:0.11
Consensus pattern (20 bp):
ACGAAGCCCACAATAACGAT
Found at i:98030574 original size:22 final size:22
Alignment explanation
Indices: 98030549--98030611 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
98030539 CCACAATAAC
*
98030549 GGTACACAGCCATAATCAGGTT
1 GGTACAAAGCCATAATCAGGTT
98030571 GGTACAAAGCCATATAT-AGGTT
1 GGTACAAAGCCATA-ATCAGGTT
**
98030593 GGCGCAAAGCCATAATCAG
1 GGTACAAAGCCATAATCAG
98030612 AATAATTGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (22 bp):
GGTACAAAGCCATAATCAGGTT
Found at i:98031476 original size:27 final size:27
Alignment explanation
Indices: 98031125--98031475 Score: 524
Period size: 27 Copynumber: 13.0 Consensus size: 27
98031115 GGGGCAAAAT
* * *
98031125 GGTAATTTTACCAC-ACAAGGGTATCTC
1 GGTAATTCTACC-CTACAGGGGTATTTC
98031152 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
98031179 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
98031206 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
98031233 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
98031260 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
98031287 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
98031314 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
98031341 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
98031368 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
98031395 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
98031422 GATAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
98031449 AGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
98031476 AATAATTTTG
Statistics
Matches: 292, Mismatches: 31, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 291 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:98033597 original size:63 final size:63
Alignment explanation
Indices: 98033498--98033625 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 63
98033488 AAAGAAAGAA
98033498 AAACCAAAAACCGATAGCTTAAGCAAATACACCTTAGTCGAACTTCCTGAGTGCCACAAGCCC
1 AAACCAAAAACCGATAGCTTAAGCAAATACACCTTAGTCGAACTTCCTGAGTGCCACAAGCCC
* * *
98033561 AAACCAAAAATCGATAGCTTGAGCAAATACACCTTAGTCGAACTTCCTGAGTGCCAGAAGCCC
1 AAACCAAAAACCGATAGCTTAAGCAAATACACCTTAGTCGAACTTCCTGAGTGCCACAAGCCC
98033624 AA
1 AA
98033626 TTCGACACAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (63 bp):
AAACCAAAAACCGATAGCTTAAGCAAATACACCTTAGTCGAACTTCCTGAGTGCCACAAGCCC
Found at i:98034219 original size:20 final size:20
Alignment explanation
Indices: 98034194--98034233 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
98034184 TACCAACTAG
*
98034194 CAACATACCATTATCTTTCA
1 CAACATACCATAATCTTTCA
*
98034214 CAACATGCCATAATCTTTCA
1 CAACATACCATAATCTTTCA
98034234 TAACTTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.33
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:98048022 original size:30 final size:30
Alignment explanation
Indices: 98047977--98048035 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
98047967 TTCCGAGCCT
* *
98047977 AGGGGAAAATCGTAATTTTGCAAAGGTTTA
1 AGGGCAAAATCGTAATTTTGCAAAAGTTTA
*
98048007 AGGGCAAAATTGTAATTTTGCAAAAGTTT
1 AGGGCAAAATCGTAATTTTGCAAAAGTTT
98048036 GAGTTAGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (30 bp):
AGGGCAAAATCGTAATTTTGCAAAAGTTTA
Found at i:98053404 original size:47 final size:47
Alignment explanation
Indices: 98053333--98053689 Score: 547
Period size: 47 Copynumber: 7.6 Consensus size: 47
98053323 CCCTTCGGAA
** * *
98053333 CTTATCACATTTATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* * * *
98053380 CTTATCTCACATACACATGCTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
98053427 CTTATCACACATACACCTGTTTACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
98053474 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
98053521 CTTATCACACATATACATGTTTACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
98053568 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
98053615 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
98053662 CCTATTCACACATATACACT-TTCACATT
1 CTTA-TCACACATATACA-TGTTCACATT
98053690 TATTCAATTA
Statistics
Matches: 286, Mismatches: 21, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
46 1 0.00
47 264 0.92
48 20 0.07
49 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:98055530 original size:39 final size:39
Alignment explanation
Indices: 98055468--98055545 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
98055458 CTCTCCCTAA
*
98055468 ATCCAAATTCGGCACATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCACATTCAACAACCCAAATGCTAACCT
* *
98055507 ATCCAAGTTCGGCATATTCAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCACATTCAACAACCCAAATGCTAACCT
98055546 CAACGTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.37, C:0.31, G:0.10, T:0.22
Consensus pattern (39 bp):
ATCCAAATTCGGCACATTCAACAACCCAAATGCTAACCT
Found at i:98061712 original size:44 final size:44
Alignment explanation
Indices: 98061647--98061732 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
98061637 TTGATATCTC
* * *
98061647 AAAGTCCATGGTTGTACCATGGCAATGAATGAAGAATTGATGAA
1 AAAGTCCATGGTTATAACATGGCAATGAAGGAAGAATTGATGAA
* * *
98061691 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGATG
1 AAAGTCCATGGTT-ATAACATGGCAATGAAGGAAGAATTGATG
98061733 GTTAAGGATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATGAAGGAAGAATTGATGAA
Found at i:98061987 original size:54 final size:54
Alignment explanation
Indices: 98061923--98062119 Score: 227
Period size: 55 Copynumber: 3.6 Consensus size: 54
98061913 TTGGTAAGAT
* * * **
98061923 AAGGATATCATGCAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
* * *
98061977 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-A
* * * * *
98062033 AAGG-TCCCATGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
* *
98062085 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
98062120 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.03
53 31 0.26
54 40 0.33
55 41 0.34
56 5 0.04
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
Found at i:98062048 original size:55 final size:54
Alignment explanation
Indices: 98061923--98062119 Score: 229
Period size: 54 Copynumber: 3.6 Consensus size: 54
98061913 TTGGTAAGAT
* * * * **
98061923 AAGGATATCATGCAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
* *
98061977 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-A
* * * *
98062033 AAGG-TCCCATGTAAGACCATG-CTAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGATGAGTTCTATAAGGA
*
98062085 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
98062120 ATGGTAAGTT
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
52 4 0.03
53 31 0.25
54 42 0.34
55 41 0.33
56 5 0.04
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
Found at i:98064782 original size:26 final size:26
Alignment explanation
Indices: 98064760--98064816 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
98064750 GTCATGATTG
98064760 GTAAGCTCCTCCTGAGCTAATGAACA
1 GTAAGCTCCTCCTGAGCTAATGAACA
98064786 GTAAGCTCCTCCTGAGCTAATGAACA
1 GTAAGCTCCTCCTGAGCTAATGAACA
98064812 GTAAG
1 GTAAG
98064817 TTCCACTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (26 bp):
GTAAGCTCCTCCTGAGCTAATGAACA
Found at i:98064854 original size:23 final size:24
Alignment explanation
Indices: 98064828--98064900 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 24
98064818 TCCACTAAGT
*
98064828 TGAAACGATAAGCTTTAT-CGAGC
1 TGAAACGATAAGCTTCATACGAGC
98064851 TGAATA-G-TAAGC-TCATACGAGC
1 TGAA-ACGATAAGCTTCATACGAGC
* *
98064873 TGAAACGATAAGCTCCA-ATGAGC
1 TGAAACGATAAGCTTCATACGAGC
98064896 TGAAA
1 TGAAA
98064901 ATAGTAAGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
21 4 0.10
22 15 0.36
23 20 0.48
24 3 0.07
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (24 bp):
TGAAACGATAAGCTTCATACGAGC
Found at i:98064896 original size:45 final size:46
Alignment explanation
Indices: 98064828--98064918 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 46
98064818 TCCACTAAGT
**
98064828 TGAAACGATAAGCTTTATCGAGCTG-AATAGTAAGCTCATACGAGC
1 TGAAACGATAAGCTCAATCGAGCTGAAATAGTAAGCTCATACGAGC
*
98064873 TGAAACGATAAGCTCCAAT-GAGCTGAAAATAGTAAGCTCTTACGAG
1 TGAAACGATAAGCT-CAATCGAGCTG-AAATAGTAAGCTCATACGAG
98064919 TTGATATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
45 20 0.50
46 2 0.05
47 18 0.45
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (46 bp):
TGAAACGATAAGCTCAATCGAGCTGAAATAGTAAGCTCATACGAGC
Found at i:98068808 original size:54 final size:54
Alignment explanation
Indices: 98068726--98068832 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
98068716 TAATAATCCT
98068726 ATAAAACATGGGAAAGAAATGGGGTAAGCTATATAGCTTAGTAAACCTGCATGC
1 ATAAAACATGGGAAAGAAATGGGGTAAGCTATATAGCTTAGTAAACCTGCATGC
* **
98068780 ATAAAACATGGGAAAGATATGGGGTAAGCTATATAGCTTAGTAAGTCTGCATG
1 ATAAAACATGGGAAAGAAATGGGGTAAGCTATATAGCTTAGTAAACCTGCATG
98068833 AAAATAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.24
Consensus pattern (54 bp):
ATAAAACATGGGAAAGAAATGGGGTAAGCTATATAGCTTAGTAAACCTGCATGC
Found at i:98069631 original size:42 final size:41
Alignment explanation
Indices: 98069520--98069683 Score: 184
Period size: 42 Copynumber: 3.9 Consensus size: 41
98069510 TACCGTACCA
* * * *
98069520 ATGCCATATCTCAGATATGGTCTTACATGTAATCTCGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATATCG
* * * *
98069562 ATGCTAATAGCACAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGC-CATATCCCAGATATGGTCTTACACGAA-TCTCATATCG
*
98069605 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATATCG
* *
98069647 ATGCCATATCCCAGATATAGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCA
98069684 GTAACCCTAA
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 70 0.67
43 34 0.33
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:98070612 original size:30 final size:30
Alignment explanation
Indices: 98070576--98070701 Score: 85
Period size: 30 Copynumber: 4.2 Consensus size: 30
98070566 AAGAAACATT
*
98070576 ATCAGAAT-TGGAACCAAAATGAGAATCAAA
1 ATCAGAATCAGGAA-CAAAATGAGAATCAAA
* * *
98070606 ATCAGAATCAGTAACAAAATTAGAATCAGA
1 ATCAGAATCAGGAACAAAATGAGAATCAAA
* * * * *
98070636 ATCA-ATATGAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATCAGGAACAAAATGAGAATCAAA
* * * * *
98070666 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATCAGG-AACAAAATGAGAATCAAA
98070697 ATCAG
1 ATCAG
98070702 TAACAGAATC
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.01
30 55 0.67
31 26 0.32
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (30 bp):
ATCAGAATCAGGAACAAAATGAGAATCAAA
Found at i:98070614 original size:6 final size:6
Alignment explanation
Indices: 98070597--98070758 Score: 147
Period size: 6 Copynumber: 26.8 Consensus size: 6
98070587 AACCAAAATG
* * * *
98070597 AGAATC AAAATC AGAATC AGTAA-C AAAATT AGAATC AGAATC A-ATATG
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
98070645 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
98070694 AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGAAAC AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC
98070742 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
98070759 GTGAATGCAA
Statistics
Matches: 127, Mismatches: 16, Indels: 26
0.75 0.09 0.15
Matches are distributed among these distances:
5 9 0.07
6 108 0.85
7 8 0.06
8 2 0.02
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:98070698 original size:85 final size:85
Alignment explanation
Indices: 98070597--98070758 Score: 279
Period size: 85 Copynumber: 1.9 Consensus size: 85
98070587 AACCAAAATG
* *
98070597 AGAATCAAAATCAGAATCAGTAACAAAATTAGAATCAGAATCAATATGAGTAACAGAATCAGAAT
1 AGAATCAAAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATGAGAAACAGAATCAGAAT
98070662 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* * *
98070682 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGAAACAGAATCAGAAT
1 AGAATCAAAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATGAGAAACAGAATCAGAAT
98070747 CAGAATCAGAAT
66 CAGAATCAGAAT
98070759 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (85 bp):
AGAATCAAAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATGAGAAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:98071339 original size:27 final size:26
Alignment explanation
Indices: 98071260--98071342 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
98071250 TCGATCGGTC
* * *
98071260 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
98071286 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
98071313 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
98071340 AAC
1 AAC
98071343 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:98071571 original size:27 final size:27
Alignment explanation
Indices: 98071541--98071736 Score: 205
Period size: 27 Copynumber: 7.3 Consensus size: 27
98071531 GGGGTAAAAT
* * *
98071541 GGTAATTTTACCCTACAAGGATATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
98071568 GGTAATTCTACCCTAC-AGAGATATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
98071595 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
98071622 GATAACTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
98071649 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
98071676 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
98071703 GAAAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
98071730 AGTAATT
1 GGTAATT
98071737 TCACAATCAA
Statistics
Matches: 141, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
26 2 0.01
27 137 0.97
28 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:98071607 original size:54 final size:54
Alignment explanation
Indices: 98071541--98071736 Score: 230
Period size: 54 Copynumber: 3.6 Consensus size: 54
98071531 GGGGTAAAAT
* * * * *
98071541 GGTAATTTTACCCTACAAGGATATCTCGGTAATTCTACCCTACAGAGATATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
98071595 GGTATTTCTACCCTACAAGGGTATTTCGATAACTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
98071649 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
** * * *
98071703 GAAAATTCTACCCTACAGGGGTATTCCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATT
98071737 TCACAATCAA
Statistics
Matches: 119, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 119 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:98072175 original size:27 final size:27
Alignment explanation
Indices: 98071751--98072174 Score: 484
Period size: 27 Copynumber: 15.7 Consensus size: 27
98071741 AATCAAGGGG
* *
98071751 AAACGGTAATTCTATAAATTGAGGGTA
1 AAACAGTAATTCTATAAATCGAGGGTA
* *
98071778 AAAC-GATAATTTTGTAAA-CTGAGGGTA
1 AAACAG-TAATTCTATAAATC-GAGGGTA
* * *
98071805 AACCAGTAATTCTGTAAATCAAGGGTA
1 AAACAGTAATTCTATAAATCGAGGGTA
* * *
98071832 AAACGGTAATTTTACAAATCGAGGGTA
1 AAACAGTAATTCTATAAATCGAGGGTA
*
98071859 AAACGGTAATTCTATAAATCGAGGGTA
1 AAACAGTAATTCTATAAATCGAGGGTA
* *
98071886 AAATAGTAATTCTGTAAA-CTGAGGGTA
1 AAACAGTAATTCTATAAATC-GAGGGTA
**
98071913 AAATGGTAATTCTATAAATCGAGGGTA
1 AAACAGTAATTCTATAAATCGAGGGTA
* *
98071940 AAAC-GATAATTTTACAAATCGAGGGTA
1 AAACAG-TAATTCTATAAATCGAGGGTA
*
98071967 AAACAGTAATTCTATAAATCAAGGGT-
1 AAACAGTAATTCTATAAATCGAGGGTA
*
98071993 AAATAGTAATTCTATAAATCGAGGGTA
1 AAACAGTAATTCTATAAATCGAGGGTA
98072020 AAACAGTAATTCTATAAA-CTGAGGGTA
1 AAACAGTAATTCTATAAATC-GAGGGTA
* *
98072047 AAACGGTAATTCTGTAAATCGAGGGTA
1 AAACAGTAATTCTATAAATCGAGGGTA
* *
98072074 AAACGGTAATTCTGTAAA-CTGAGGGTA
1 AAACAGTAATTCTATAAATC-GAGGGTA
*
98072101 AAACAGTAATTCTGTAAATCGAGGGTA
1 AAACAGTAATTCTATAAATCGAGGGTA
* * * *
98072128 AAACGGTAATTTTAAAAATCAAGGGTA
1 AAACAGTAATTCTATAAATCGAGGGTA
*
98072155 AAACAGTAATTCTGTAAATC
1 AAACAGTAATTCTATAAATC
98072175 AGGAGTACTT
Statistics
Matches: 344, Mismatches: 40, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
26 29 0.08
27 309 0.90
28 6 0.02
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AAACAGTAATTCTATAAATCGAGGGTA
Found at i:98074657 original size:13 final size:13
Alignment explanation
Indices: 98074639--98074699 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
98074629 TATAACTTGG
98074639 TATATGAATCGAT
1 TATATGAATCGAT
*
98074652 TATATGGAAATAGAT
1 TATAT-G-AATCGAT
*
98074667 T-TATAGAAT-AAT
1 TATAT-GAATCGAT
98074679 TATATGAATCGAT
1 TATATGAATCGAT
98074692 TATATGAA
1 TATATGAA
98074700 AACAGTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
12 7 0.17
13 21 0.52
14 5 0.12
15 7 0.17
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (13 bp):
TATATGAATCGAT
Found at i:98075756 original size:21 final size:22
Alignment explanation
Indices: 98075731--98075771 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
98075721 GTGTATTTTG
*
98075731 ATGTTTAATGGTAGA-AAATGT
1 ATGTTTAATGATAGATAAATGT
*
98075752 ATGTTTGATGATAGATAAAT
1 ATGTTTAATGATAGATAAAT
98075772 AACATTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (22 bp):
ATGTTTAATGATAGATAAATGT
Found at i:98081394 original size:48 final size:48
Alignment explanation
Indices: 98081326--98081564 Score: 379
Period size: 48 Copynumber: 5.0 Consensus size: 48
98081316 CAAGATAAAT
* * * * *
98081326 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
98081374 ATATGTGTATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
98081422 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
98081470 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
98081518 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
98081565 ATCTCATACA
Statistics
Matches: 174, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 174 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
Found at i:98081488 original size:96 final size:96
Alignment explanation
Indices: 98081326--98081560 Score: 425
Period size: 96 Copynumber: 2.4 Consensus size: 96
98081316 CAAGATAAAT
* * * *
98081326 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTGTATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAA
98081391 AGCCGAATGGCGAATGTGAAATATATATGAG
66 AGCCGAATGGCGAATGTGAAATATATATGAG
98081422 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAA
*
98081487 AGCCGAATGGCGAATGTGAAATATGTATGAG
66 AGCCGAATGGCGAATGTGAAATATATATGAG
98081518 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATAT
98081561 ATGAATCTCA
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 134 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (96 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAA
AGCCGAATGGCGAATGTGAAATATATATGAG
Found at i:98081771 original size:37 final size:37
Alignment explanation
Indices: 98081721--98081823 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
98081711 GGAAATGTAT
*
98081721 TCCGGGTTAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
98081758 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
98081795 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
98081824 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:98094151 original size:24 final size:26
Alignment explanation
Indices: 98094053--98094151 Score: 62
Period size: 29 Copynumber: 3.7 Consensus size: 26
98094043 TAAAACCTAA
* *
98094053 AAATGAAATAGTA-TTAAAGGA-AAAT
1 AAAT-AAAAAGTATTTAAAAGATAAAT
98094078 AAAATAAAAAGTACTTTAAGAAGATAAAT
1 -AAATAAAAAGTA-TTTAA-AAGATAAAT
* **
98094107 AAAGATAAAAGTGAAAATAAAA-AT-AAT
1 AAATA-AAAAGT--ATTTAAAAGATAAAT
98094134 AAATAAAAAGTATTTAAA
1 AAATAAAAAGTATTTAAA
98094152 CATTGTCATC
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
24 5 0.09
25 7 0.12
26 10 0.17
27 11 0.19
28 9 0.16
29 12 0.21
30 3 0.05
31 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.11, T:0.23
Consensus pattern (26 bp):
AAATAAAAAGTATTTAAAAGATAAAT
Found at i:98110602 original size:96 final size:96
Alignment explanation
Indices: 98110436--98110617 Score: 233
Period size: 96 Copynumber: 1.9 Consensus size: 96
98110426 GTGAATTGCC
* * *
98110436 GATGCCATGTTCCAAACATCGTCTTACACTGCCTCACAAGTCGAGGCCGATGCCATGTCCCAAAC
1 GATGCCATGTCCCAAACATCGTCTTACACTGCATCACAAGTCAAGGCCGATGCCATGTCCCAAAC
*
98110501 CTGGTCTTACACTGGCTCTCATGTTGTGGCT
66 ATGGTCTTACACTGGCTCTCATGTTGTGGCT
* * * * ***
98110532 GATGCCATGTCCCAGACATGGTCTTACACTAGCAT-ACATA-TCAATGCTGATGCCATGTCCTTG
1 GATGCCATGTCCCAAACATCGTCTTACACT-GCATCACA-AGTCAAGGCCGATGCCATGTCCCAA
98110595 ACATGGTCTTACACTGGCTCTCA
64 ACATGGTCTTACACTGGCTCTCA
98110618 CAACATCACC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
96 69 0.95
97 4 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATCGTCTTACACTGCATCACAAGTCAAGGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTCTCATGTTGTGGCT
Found at i:98110706 original size:48 final size:48
Alignment explanation
Indices: 98110433--98110708 Score: 211
Period size: 48 Copynumber: 5.8 Consensus size: 48
98110423 AGAGTGAATT
* * * * *
98110433 GCCGATGCCATGTTCCAAACATCGTCTTACACT-GC-CTCACAAGTCGA-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-TA-T-TATG
* * * * *
98110481 GCCGATGCCATGTCCCAAACCTGGTCTTACACTGGCTCTCATGTTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTATG
* * *
98110529 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCAT-ACATATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTCATAT-TATG
* ** * * ** *
98110577 GCTGATGCCATGTCCTTGACATGGTCTTACACTGGCTCTCACAACATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTATG
* * * * * *
98110625 ACCAATGCCATGTTCCAAACGTGGTCTTACACTAGCTCTCATATTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTATG
* *
98110673 GCCGACGCCATGTCCTAGACATGGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
98110709 ACACGTATCA
Statistics
Matches: 178, Mismatches: 43, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
47 3 0.02
48 167 0.94
49 4 0.02
50 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTATG
Found at i:98119454 original size:46 final size:45
Alignment explanation
Indices: 98119387--98119558 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
98119377 AACCCGCCCC
* *
98119387 TAAGTGAACTCGGGCTCAACTCAACGAGCTCGGGCGCTAGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-CTAGCATCCA
* * *
98119433 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCCTAGCATCCA
* * * * *
98119479 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-CTAGCATCCA
*
98119526 TAAGTTAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
98119559 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.03
46 62 0.60
47 34 0.33
48 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCCTAGCATCCA
Found at i:98119500 original size:93 final size:93
Alignment explanation
Indices: 98119392--98119562 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
98119382 GCCCCTAAGT
* * *
98119392 GAACTCGGGCTCAACTCAACGAGCTCGGGCGCTAGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTAGCATCCATAAGTGAACTCGGACTCAACTCAA
98119457 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
* * * *
98119485 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTTAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTAGCATCCATAAGTGAACTCGGACTCAACTCAA
*
98119550 CGAGTTCGGATGC
66 CAAGTTCGGATGC
98119563 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACACTAGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:98120021 original size:30 final size:30
Alignment explanation
Indices: 98119987--98120046 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
98119977 ATTTAATACG
98119987 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
98120017 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
98120047 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:98127048 original size:46 final size:46
Alignment explanation
Indices: 98126981--98127150 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 46
98126971 AACCCGCCCC
* * * *
98126981 TAAGTGAACTCGGAATCAACTCAATGAGCTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCA
** * * * * *
98127027 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACG-TTCGCATCCA
* * *
98127073 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCA
98127120 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
98127151 GAATGCTCAA
Statistics
Matches: 96, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 2 0.02
46 60 0.62
47 32 0.33
48 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCA
Found at i:98127616 original size:30 final size:30
Alignment explanation
Indices: 98127582--98127641 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
98127572 ATTTAATACG
98127582 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
98127612 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
98127642 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:98129275 original size:39 final size:39
Alignment explanation
Indices: 98129225--98129311 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
98129215 GACTTAATGT
98129225 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* *
98129264 CTAGCAGGCCTCGTGCTGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
98129303 CTAGCAGGC
1 CTAGCAGGC
98129312 TAATTTCTGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:98130568 original size:48 final size:48
Alignment explanation
Indices: 98130399--98130569 Score: 189
Period size: 48 Copynumber: 3.6 Consensus size: 48
98130389 CATGTTTTAA
** *
98130399 ACATGGTCTTACACTGGCTCACAGGTCGAGGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCACATATCGTGGCCGATGCCATGTCCCAG
* * * * ** * * *
98130447 ACATGGTCTTACACTGGCTCTCACAACATCACCGATGCCATATTCCAA
1 ACATGGTCTTACACTGGCTCACATATCGTGGCCGATGCCATGTCCCAG
* * *
98130495 ACATGGTCTTACACTGGCTCTCATATCGTGGCTGACGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCACATATCGTGGCCGATGCCATGTCCCAG
* *
98130543 ACATGGTCTTACACTAGCGCACATATC
1 ACATGGTCTTACACTGGCTCACATATC
98130570 AACCAAATGT
Statistics
Matches: 99, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 99 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCACATATCGTGGCCGATGCCATGTCCCAG
Found at i:98137145 original size:26 final size:26
Alignment explanation
Indices: 98137116--98137168 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
98137106 TCAAACATGC
98137116 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
98137142 ATTTTGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
98137168 A
1 A
98137169 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.42
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:98138437 original size:12 final size:12
Alignment explanation
Indices: 98138420--98138514 Score: 50
Period size: 12 Copynumber: 7.9 Consensus size: 12
98138410 GCCAAATCCT
*
98138420 GCTCCTTGATCA
1 GCTCCTTAATCA
* *
98138432 GCTCCTAAATCT
1 GCTCCTTAATCA
* *
98138444 TCTCCTTTATCA
1 GCTCCTTAATCA
* *
98138456 GCTCCTAAATCC
1 GCTCCTTAATCA
*
98138468 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
* *
98138480 GCTCCTAAATCC
1 GCTCCTTAATCA
*
98138492 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
*
98138504 GCTCCTAAATC
1 GCTCCTTAATC
98138515 TTCTCCTGAC
Statistics
Matches: 57, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
11 6 0.11
12 45 0.79
13 6 0.11
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.35
Consensus pattern (12 bp):
GCTCCTTAATCA
Found at i:98138449 original size:24 final size:23
Alignment explanation
Indices: 98138413--98138521 Score: 155
Period size: 24 Copynumber: 4.5 Consensus size: 23
98138403 TTGGCCAGCC
98138413 AAATCCTGCTCCTTGATCAGCTCCT
1 AAATCCT-CTCCTT-ATCAGCTCCT
*
98138438 AAATCTTCTCCTTTATCAGCTCCT
1 AAATCCTCTCC-TTATCAGCTCCT
98138462 AAATCCTCTCCCTTATCAGCTCCT
1 AAATCCTCT-CCTTATCAGCTCCT
98138486 AAATCCTCTCCCTTATCAGCTCCT
1 AAATCCTCT-CCTTATCAGCTCCT
*
98138510 AAATCTTCTCCT
1 AAATCCTCTCCT
98138522 GACAGCCTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
23 3 0.04
24 66 0.84
25 10 0.13
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.36
Consensus pattern (23 bp):
AAATCCTCTCCTTATCAGCTCCT
Found at i:98142321 original size:49 final size:49
Alignment explanation
Indices: 98142278--98142509 Score: 286
Period size: 49 Copynumber: 4.7 Consensus size: 49
98142268 CTGGTATGCA
*
98142278 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
* ** ** **
98142327 TAGTAGCCTGCACTAAGTACTACACACATGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGGTACACG
* * * * *
98142377 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTGGTACACG
*
98142428 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAT-TGGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCT-GGTACACG
*
98142477 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
98142510 TCACAATAGA
Statistics
Matches: 153, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
49 71 0.46
50 45 0.29
51 37 0.24
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
Found at i:98142451 original size:101 final size:98
Alignment explanation
Indices: 98142278--98142509 Score: 295
Period size: 100 Copynumber: 2.3 Consensus size: 98
98142268 CTGGTATGCA
* * * *
98142278 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATAGTAGCCTGCACTAA
*
98142343 GTACTACACACATGACCTAACCATCT-AATACACG
66 GTACTACACACACGACC-AACCAT-TGAATACACG
* *
98142377 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACACATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGGGTACACATAGTAGCCTGCACT
* ** ** **
98142442 TAGTACTACACATGCGACCAATTATTGGGTACACG
64 AAGTACTACACACACGACCAACCATTGAATACACG
98142477 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
98142510 TCACAATAGA
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
99 30 0.26
100 43 0.38
101 41 0.36
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATAGTAGCCTGCACTAA
GTACTACACACACGACCAACCATTGAATACACG
Found at i:98150461 original size:30 final size:30
Alignment explanation
Indices: 98150407--98150464 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
98150397 CACAGCCATG
* **
98150407 TCACACGGGCATGTAGCTTTCCCGTGTGAC
1 TCACACGGGCATGTAGATCACCCGTGTGAC
*
98150437 TCACACGGGCATGTGGATCACCCGTGTG
1 TCACACGGGCATGTAGATCACCCGTGTG
98150465 GAAGTGCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.24
Consensus pattern (30 bp):
TCACACGGGCATGTAGATCACCCGTGTGAC
Found at i:98152333 original size:6 final size:6
Alignment explanation
Indices: 98152316--98152347 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
98152306 CTTCAAAAAT
*
98152316 AAATAA AGATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA
98152348 TAGATGGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:98154167 original size:24 final size:27
Alignment explanation
Indices: 98154139--98154191 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 27
98154129 AGAAATAGGG
*
98154139 AGAAAAG-AGGAGGGAAGAAA-AAA-A
1 AGAAAAGAAGGAGGAAAGAAAGAAAGA
98154163 AG-AAAGAAGGAGGAAAGAAAGAAAGA
1 AGAAAAGAAGGAGGAAAGAAAGAAAGA
98154189 AGA
1 AGA
98154192 GACAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
23 4 0.17
24 14 0.58
25 3 0.12
26 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (27 bp):
AGAAAAGAAGGAGGAAAGAAAGAAAGA
Found at i:98154202 original size:19 final size:19
Alignment explanation
Indices: 98154157--98154205 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
98154147 GGAGGGAAGA
*
98154157 AAAAAAAGAAAGAAGGAGG
1 AAAAAAAGAAAGAAGGAGC
*
98154176 AAAGAAAGAAAGAA-GAGAC
1 AAAAAAAGAAAGAAGGAG-C
98154195 AAAAAAAGAAA
1 AAAAAAAGAAA
98154206 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 3 0.12
19 23 0.88
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAGAAGGAGC
Found at i:98161384 original size:8 final size:8
Alignment explanation
Indices: 98161373--98161417 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
98161363 ACAAAAGTAC
98161373 AAAAAAAT
1 AAAAAAAT
98161381 AAAAAAAT
1 AAAAAAAT
98161389 AAATAAAA-
1 AAA-AAAAT
*
98161397 AAGAAGAAT
1 AA-AAAAAT
98161406 AAAAAAAT
1 AAAAAAAT
98161414 AAAA
1 AAAA
98161418 CAAAGGTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 25 0.78
9 7 0.22
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:98161406 original size:13 final size:12
Alignment explanation
Indices: 98161373--98161416 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
98161363 ACAAAAGTAC
98161373 AAAA-AAATAAA
1 AAAATAAATAAA
98161384 AAAATAAATAAA
1 AAAATAAATAAA
98161396 AAAGA-AGAATAAA
1 AAA-ATA-AATAAA
98161409 AAAATAAA
1 AAAATAAA
98161417 ACAAAGGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.14
12 14 0.48
13 11 0.38
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:98161956 original size:22 final size:21
Alignment explanation
Indices: 98161931--98161994 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 21
98161921 AATCAAATCC
*
98161931 AAAATAAAAAAAATGAATCAAA
1 AAAATAAAAAAAATCAAT-AAA
* *
98161953 AAAATCAAAAAGATCAATAAA
1 AAAATAAAAAAAATCAATAAA
* *
98161974 AAAAGAAAAGAAAT-AA-AAA
1 AAAATAAAAAAAATCAATAAA
98161993 AA
1 AA
98161995 GGAGAGGCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 13 0.37
22 15 0.43
ACGTcount: A:0.78, C:0.05, G:0.06, T:0.11
Consensus pattern (21 bp):
AAAATAAAAAAAATCAATAAA
Found at i:98163672 original size:27 final size:27
Alignment explanation
Indices: 98163637--98163748 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 27
98163627 AGCATGGCTG
* *
98163637 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
98163663 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
* * *
98163691 CCA-AAACAAAAATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
98163718 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
98163745 CCAG
1 CCAG
98163749 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.08
27 50 0.69
28 16 0.22
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.15
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:98171559 original size:27 final size:27
Alignment explanation
Indices: 98171481--98171592 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
98171471 AGCATGGCTG
* * *
98171481 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGAAAATTGTGGCAGAGCCA
* * *
98171507 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGAAAATTGTGGCAGAGCCA
98171535 CCAGAACA-AAAATATGTGGCAGAGCCA
1 CCAGAACAGAAAAT-TGTGGCAGAGCCA
* * *
98171562 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAAATTGTGGCAGAGCCA
98171589 CCAG
1 CCAG
98171593 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 9 0.12
27 44 0.61
28 19 0.26
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGAAAATTGTGGCAGAGCCA
Found at i:98178079 original size:178 final size:178
Alignment explanation
Indices: 98177744--98178847 Score: 1436
Period size: 178 Copynumber: 6.2 Consensus size: 178
98177734 AGTGAATTCA
* * * * *
98177744 TAGATCTTATTTCCCTGAGATAGTATTGGAGCAGATCAAAGACGGCGAATCTTGTCTCCCCGAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* ** * * *
98177809 TAGCAGGGGAGCAAATTTTTGGCCACCAGCCTTAAC-TCTCTGAGGTAGCAAGAGAGCA-AGTTG
66 TAGCAGGGGAGCAGA-TTTCAGCCACCAGCCTTATCTTC-CTGAGGTAGCAAGGGAGCAGA-CT-
* * * * *
98177872 AA-GATTGTAGTGTTATCTTCTTGAGGTAGCAAGGAAATAGACTAAAGATTG
127 AATGATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* * * *
98177923 TAGGTCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* * *
98177988 TAGTAGGGGAGCAGATTTCAACCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATA
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
* *
98178053 ATTATAGTCTTATCTTCTTGAGGTAGCAAGGAAACAGACTAAAGATTG
131 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* * * * * *
98178101 TAGGTCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGTCGGCAAATCTTATCTTCCCAAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
*
98178166 TAGTAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
* * *
98178231 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGACTG
131 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* * **
98178279 TAGATCTTATCTCCCTAAG-TAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTTCGAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* *
98178343 TAGCAGGGGAGCAGATTTCAGTCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATG
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
* * * *
98178408 ATTATAGTCTTATCTTCCTAAGGTAGCAAGGGAGCAGACTGAAGGTTG
131 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* * * * *
98178456 TAGATCTTATCTCCCTAAG-TAGTAGTGGAGTAGATTGAAGACGACAAATCTTATCTTCCCGAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* *
98178520 TAGCAGGGGAGCAAATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAAAGCAGGCTAA
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGG--AGCAGACTAA
* *
98178585 TGATTATAGTCTTA-CTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTG
129 TGATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* * * *
98178634 TAGATCTTATCTCCCTAAG-CAGTAATGGGGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
1 TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* * * * *
98178698 TAGCAGGGAAGCA-AATCCTAGCCACCAGCCTTATCTTCCCGAGGTAGCAAGGGAGCAGGCTAAT
66 TAGCAGGGGAGCAGATTTC-AGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAAT
* * * *
98178762 GATTGTAGTCTTATCTTTCC-GAGTTAGCAAGGAAGCAGACTGAAGATGG
130 GATTATAGTCTTATC-TTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
* *
98178811 TAGATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATC
1 TAGATCTTATCTCCCTGAGA-TAGTAGTGGAGCAGATC
98178848 AAAGCCACAA
Statistics
Matches: 836, Mismatches: 79, Indels: 21
0.89 0.08 0.02
Matches are distributed among these distances:
176 23 0.03
177 301 0.36
178 416 0.50
179 96 0.11
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (178 bp):
TAGATCTTATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTG
Found at i:98178605 original size:355 final size:356
Alignment explanation
Indices: 98177744--98178847 Score: 1490
Period size: 355 Copynumber: 3.1 Consensus size: 356
98177734 AGTGAATTCA
* * * * * * * *
98177744 TAGATCTTATTTCCCTGAGATAGTATTGGAGCAGATCAAAGACGGCGAATCTTGTCTCCCCGAGG
1 TAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGG
** * * * *
98177809 TAGCAGGGGAGCAAATTTTTGGCCACCAGCCTTAAC-TCTCTGAGGTAGCAAGAG-AGCAAGTTG
66 TAGCAGGGGAGCAAA-TTTCAGCCACCAGCCTTATCTTC-CTGAGGTAGCAAGGGAAGCAGGCT-
* * * * * *
98177872 AA-GATTGTAGTGTTATCTTCTTGAGGTAGCAAGGAAAT-AGACTAAAGATTGTAGGTCTTATCT
128 AATGATTATAGTCTTATCTTCCTGAGGTAGCAAGG-GATCAGACTGAAGATTGTAGATCTTATCT
* * * * *
98177935 CCTTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGGAGC
192 CCCTAAG-TAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGC
* * *
98178000 AGATTTCAACCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATAATTATAGTCTTA
256 AGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGTCTTA
* * *
98178065 TCTTCTTGAGGTAGCAAGGAAACAGACTAAAGATTG
321 TCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * * *
98178101 TAGGTCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGTCGGCAAATCTTATCTTCCCAAGG
1 TAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGG
* * *
98178166 TAGTAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGG-AGCAGACTAAT
66 TAGCAGGGGAGCAAATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAAGCAGGCTAAT
*
98178230 GATTATAGTCTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGACTGTAGATCTTATCTCCCT
131 GATTATAGTCTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGATTGTAGATCTTATCTCCCT
* **
98178295 AAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTTCGAGGTAGCAGGGGAGCAGATT
196 AAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATT
*
98178360 TCAGTCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGTCTTATCTTC
261 TCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGTCTTATCTTC
* * *
98178425 CTAAGGTAGCAAGGGAGCAGACTGAAGGTTG
326 CTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * *
98178456 TAGATCTTATCTCCCTAAG-TAGTAGTGGAGTAGATTGAAGACGACAAATCTTATCTTCCCGAGG
1 TAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGG
98178520 TAGCAGGGGAGCAAATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAAAGCAGGCTAA
66 TAGCAGGGGAGCAAATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGG-AAGCAGGCTAA
*
98178585 TGATTATAGTCTTA-CTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCC
130 TGATTATAGTCTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGATTGTAGATCTTATCTCCC
* * * * *
98178649 TAAGCAGTAATGGGGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGAAGCA-AA
195 TAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGAT
* * *
98178713 TCCTAGCCACCAGCCTTATCTTCCCGAGGTAGCAAGGGAGCAGGCTAATGATTGTAGTCTTATCT
260 TTC-AGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGTCTTATC-
* *
98178778 TTCC-GAGTTAGCAAGGAAGCAGACTGAAGATGG
323 TTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
*
98178811 TAGATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATC
1 TAGATCTTATCTCCCT-AAGATAGCAGTGGAGCAGATC
98178848 AAAGCCACAA
Statistics
Matches: 659, Mismatches: 80, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
354 93 0.14
355 362 0.55
356 135 0.20
357 69 0.10
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (356 bp):
TAGATCTTATCTCCCTAAGATAGCAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGG
TAGCAGGGGAGCAAATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAAGCAGGCTAAT
GATTATAGTCTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGATTGTAGATCTTATCTCCCT
AAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATT
TCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGTCTTATCTTC
CTGAGGTAGCAAGGAAGCAGACTGAAGATTG
Found at i:98178775 original size:44 final size:43
Alignment explanation
Indices: 98178017--98178822 Score: 317
Period size: 44 Copynumber: 18.2 Consensus size: 43
98178007 AACCACCAGC
* * *
98178017 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATAATTATAGT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACTAA-GATTGTAGT
** * *
98178061 CTTATCTTCTTGAGGTAGCAAGGAAACAGACTAAAGATTGTAGGT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACT-AAGATTGTA-GT
* * * * * *
98178106 CTTATC-TCCTTGAGATAGC-AGTGGAGCAGATCGAAG-TCGGCAAAT
1 CTTATCTTCC-CGAGGTAGCAAG-GGAGCAGA-CTAAGAT-TG-TAGT
* * * * * ***** *
98178151 CTTATCTTCCCAAGGTAGTAGGGGAGCAGATTTCAGCCACCAGC
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGA-CTAAGATTGTAGT
* *
98178195 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATGATTATAGT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACTAA-GATTGTAGT
* * *
98178239 CTTATCTTCCTGAGGTAGCAAGGGATCAGACTGAAGACTGTAGAT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACT-AAGATTGTAG-T
* * * * * * *
98178284 CTTATC-TCCCTAAGTAG-TAGTGGAGCAGATCGAAGATGGCGAAT
1 CTTATCTTCCCGAGGTAGCAAG-GGAGCAGA-CTAAGATTG-TAGT
** * * * *** *
98178328 CTTATCTTTTCGAGGTAGCAGGGGAGCAGATTTCAG-TCACCAGC
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGA-CTAAGAT-TGTAGT
* * *
98178372 CTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACTAA-GATTGTAGT
** *
98178416 CTTATCTTCCTAAGGTAGCAAGGGAGCAGACTGAAGGTTGTAGAT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACT-AAGATTGTAG-T
* * * * * * * *
98178461 CTTATC-TCCCTAAGTAG-TAGTGGAGTAGATTGAAGA-CGACAAAT
1 CTTATCTTCCCGAGGTAGCAAG-GGAGCAGACT-AAGATTG--TAGT
* * * * ***** *
98178505 CTTATCTTCCCGAGGTAGCAGGGGAGCAAATTTCAGCCACCAGC
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGA-CTAAGATTGTAGT
* * *
98178549 CTTATCTTCCTGAGGTAGCAAGGGAAAGCAGGCTAATGATTATAGT
1 CTTATCTTCCCGAGGTAGCAAGGG--AGCAGACTAA-GATTGTAGT
*
98178595 CTTA-CTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGAT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACT-AAGATTGTAG-T
* * * * * ** * *
98178639 CTTATC-TCCCTAAGCAGTAATGGG-GCAGATCGAAGACGGCGAAT
1 CTTATCTTCCCGAGGTAGCAA-GGGAGCAGA-CTAAGATTG-TAGT
* ***** *
98178683 CTTATCTTCCCGAGGTAGC-AGGGAAGCAAATCCT-AGCCACCAGC
1 CTTATCTTCCCGAGGTAGCAAGGG-AGCAGA--CTAAGATTGTAGT
*
98178727 CTTATCTTCCCGAGGTAGCAAGGGAGCAGGCTAATGATTGTAGT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACTAA-GATTGTAGT
* * * *
98178771 CTTATCTTTCCGAGTTAGCAAGGAAGCAGACTGAAGATGGTAGAT
1 CTTATCTTCCCGAGGTAGCAAGGGAGCAGACT-AAGATTGTAG-T
98178816 CTTATCT
1 CTTATCT
98178823 CCCTGAAGTT
Statistics
Matches: 560, Mismatches: 154, Indels: 95
0.69 0.19 0.12
Matches are distributed among these distances:
42 2 0.00
43 27 0.05
44 345 0.62
45 164 0.29
46 22 0.04
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (43 bp):
CTTATCTTCCCGAGGTAGCAAGGGAGCAGACTAAGATTGTAGT
Found at i:98190602 original size:44 final size:43
Alignment explanation
Indices: 98190539--98190622 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 43
98190529 ACATGTATCG
98190539 CATCCATAATGAACTCGGACCAAATCAACGAGCTCAAATGCTCA
1 CATCCATAATGAACTCGGACC-AATCAACGAGCTCAAATGCTCA
* *
98190583 CATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGC
1 CATCCATAATGAACTCGGACCAATCAACGAGCTCAAATGC
98190623 CATATATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 17 0.45
44 21 0.55
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.18
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCAATCAACGAGCTCAAATGCTCA
Found at i:98190884 original size:14 final size:16
Alignment explanation
Indices: 98190852--98190888 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
98190842 ATTTACATAA
*
98190852 CATATATCACCTATTT
1 CATATATCACCTATGT
98190868 CATATATCA-CT-TGT
1 CATATATCACCTATGT
98190882 CATATAT
1 CATATAT
98190889 TATCATTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 2 0.10
16 9 0.45
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (16 bp):
CATATATCACCTATGT
Found at i:98191371 original size:20 final size:18
Alignment explanation
Indices: 98191334--98191384 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
98191324 CTATAACAAC
98191334 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
98191351 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
98191371 TTACAACTTTACAA
1 TCACAA-TTTACAA
98191385 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:98199447 original size:6 final size:6
Alignment explanation
Indices: 98199438--98199476 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
98199428 ATAAAATAAG
98199438 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG
98199477 GAACAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:98203879 original size:15 final size:16
Alignment explanation
Indices: 98203849--98203882 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
98203839 TCAATCATGC
*
98203849 AAAAATAATAATGAAG
1 AAAAATAATAAAGAAG
98203865 AAAAATAA-AAAGAAG
1 AAAAATAATAAAGAAG
98203880 AAA
1 AAA
98203883 GAAAATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAAATAATAAAGAAG
Found at i:98204352 original size:4 final size:4
Alignment explanation
Indices: 98204309--98204360 Score: 52
Period size: 4 Copynumber: 12.0 Consensus size: 4
98204299 ATAACGTAAT
98204309 TAAA TAAA TGAAA TAATCA TAAA TAGAA T-AA TAGAA TAAA TAAA TAAA
1 TAAA TAAA T-AAA TAA--A TAAA TA-AA TAAA TA-AA TAAA TAAA TAAA
98204357 TAAA
1 TAAA
98204361 AATAAAATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
3 3 0.07
4 24 0.57
5 11 0.26
6 4 0.10
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:98207868 original size:64 final size:64
Alignment explanation
Indices: 98207795--98207922 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
98207785 CTTTGGAAAA
*
98207795 CTCAAAAAATTTGTCATCAAAACAGGGGTCATACGCCTGTGTGGCTTGGGACACGCCTGTGTGG
1 CTCAAAAAATTTGTCATCAAAACAGGGGTCATACGCCTGTGTGGCTTGGGACACGCCCGTGTGG
*
98207859 CTCAAAAAATTTGTCATCAAAATAGGGGTCATACGCCTGTGTGGCTTGGGACACGCCCGTGTGG
1 CTCAAAAAATTTGTCATCAAAACAGGGGTCATACGCCTGTGTGGCTTGGGACACGCCCGTGTGG
98207923 GTAGGCCATG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (64 bp):
CTCAAAAAATTTGTCATCAAAACAGGGGTCATACGCCTGTGTGGCTTGGGACACGCCCGTGTGG
Found at i:98208184 original size:26 final size:27
Alignment explanation
Indices: 98208127--98208184 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
98208117 ACCCTCATTT
* *
98208127 GCACAATCACATACACTCTNCTTCATTT
1 GCACAATCACATACACTCT-CTTCAATG
98208155 GCACAATCACATACACTCT-TTCAATG
1 GCACAATCACATACACTCTCTTCAATG
98208181 GCAC
1 GCAC
98208185 TTAACATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 9 0.32
28 19 0.68
ACGTcount: A:0.31, C:0.33, G:0.07, T:0.28
Consensus pattern (27 bp):
GCACAATCACATACACTCTCTTCAATG
Found at i:98209814 original size:5 final size:5
Alignment explanation
Indices: 98209804--98209892 Score: 72
Period size: 5 Copynumber: 16.2 Consensus size: 5
98209794 TGAATCCTCC
98209804 TATTT TATTT TA-TT TATTCT TATTCT TATTTT TATTT TATTTT TATTTT
1 TATTT TATTT TATTT TATT-T TATT-T TA-TTT TATTT TA-TTT TA-TTT
* *
98209853 TCTTT TGACTTT TATTT TCATTT CAATTT TATTT TATTT T
1 TATTT T-A-TTT TATTT T-ATTT -TATTT TATTT TATTT T
98209893 GAAAGACATA
Statistics
Matches: 72, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
4 4 0.06
5 31 0.43
6 31 0.43
7 6 0.08
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:98209838 original size:12 final size:11
Alignment explanation
Indices: 98209804--98209892 Score: 85
Period size: 11 Copynumber: 8.0 Consensus size: 11
98209794 TGAATCCTCC
98209804 TATTTTA-TTT
1 TATTTTATTTT
*
98209814 TA-TTTATTCT
1 TATTTTATTTT
98209824 TATTCTTATTTT
1 TATT-TTATTTT
98209836 TATTTTATTTT
1 TATTTTATTTT
98209847 TATTTT-TCTTT
1 TATTTTAT-TTT
98209858 TGACTTTTATTTT
1 T-A-TTTTATTTT
* * *
98209871 CATTTCAATTT
1 TATTTTATTTT
98209882 TATTTTATTTT
1 TATTTTATTTT
98209893 GAAAGACATA
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
9 4 0.06
10 7 0.11
11 33 0.52
12 12 0.19
13 7 0.11
14 1 0.02
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:98209849 original size:17 final size:17
Alignment explanation
Indices: 98209804--98209892 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 17
98209794 TGAATCCTCC
98209804 TATTTTA-TTTTA--TT
1 TATTTTATTTTTATTTT
*
98209818 TATTCTTATTCTTATTTT
1 TATT-TTATTTTTATTTT
98209836 TATTTTATTTTTATTTT
1 TATTTTATTTTTATTTT
* *
98209853 TCTTTTGACTTTTATTTT
1 TATTTT-ATTTTTATTTT
* * *
98209871 CATTTCAATTTTA-TTT
1 TATTTTATTTTTATTTT
98209887 TATTTT
1 TATTTT
98209893 GAAAGACATA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
14 4 0.07
15 3 0.05
16 11 0.18
17 23 0.38
18 19 0.32
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (17 bp):
TATTTTATTTTTATTTT
Found at i:98209851 original size:6 final size:6
Alignment explanation
Indices: 98209816--98209892 Score: 61
Period size: 6 Copynumber: 13.3 Consensus size: 6
98209806 TTTTATTTTA
* * * * *
98209816 TTTATT CTTATT CTTATT TTTA-T TTTATT TTTATT TTTCTT TTGACT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * *
98209863 TTTATT TTCA-T TTCAAT TTTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
98209893 GAAAGACATA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
5 15 0.26
6 43 0.74
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:98212823 original size:13 final size:13
Alignment explanation
Indices: 98212805--98212829 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98212795 TTAAATCAGT
98212805 TAATTAGTTTAAA
1 TAATTAGTTTAAA
98212818 TAATTAGTTTAA
1 TAATTAGTTTAA
98212830 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:98220163 original size:22 final size:22
Alignment explanation
Indices: 98220138--98220260 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
98220128 ACATGCATAT
98220138 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
98220160 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
98220182 TATACGTGATAAGGCCGAATGGCCA
1 -AT--GTGATAAGGCCGAATGGCCA
* * *
98220207 ATGTGATGAATG-TGAACTTG-CA
1 ATGTGAT-AAGGCCGAA-TGGCCA
98220229 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
98220254 ATGTGAT
1 ATGTGAT
98220261 GAATGTGAAC
Statistics
Matches: 75, Mismatches: 10, Indels: 32
0.64 0.09 0.27
Matches are distributed among these distances:
22 26 0.35
23 15 0.20
24 15 0.20
25 19 0.25
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:98220168 original size:47 final size:47
Alignment explanation
Indices: 98220117--98220397 Score: 429
Period size: 47 Copynumber: 6.0 Consensus size: 47
98220107 GATTTTATGA
98220117 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
98220164 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
98220211 GATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
98220258 GATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
98220305 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * * ** * *
98220352 GATGAACGTGGAA-GTGTATATATGTGGCAAAGCCGAATGGCTAATG
1 GATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATG
98220398 CGAAACGTGT
Statistics
Matches: 215, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 212 0.99
48 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:98220430 original size:46 final size:46
Alignment explanation
Indices: 98220371--98221335 Score: 1876
Period size: 46 Copynumber: 21.0 Consensus size: 46
98220361 GGAAGTGTAT
* *
98220371 ATATGTGGCAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220417 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220463 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220509 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220555 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220601 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220647 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220693 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220739 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220785 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220831 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220877 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220923 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98220969 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98221015 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98221061 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98221107 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98221153 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98221199 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
98221245 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * **
98221291 ATATGAGGTAAAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
98221336 TGTATATATA
Statistics
Matches: 913, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 913 1.00
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.22
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:98223519 original size:13 final size:13
Alignment explanation
Indices: 98223501--98223528 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
98223491 AGTGATTGTG
98223501 TTTGAATCTAAAA
1 TTTGAATCTAAAA
98223514 TTTGAATCTAAAA
1 TTTGAATCTAAAA
98223527 TT
1 TT
98223529 ACTAAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (13 bp):
TTTGAATCTAAAA
Found at i:98232439 original size:46 final size:46
Alignment explanation
Indices: 98232367--98232538 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
98232357 AACCCGCCCC
* *
98232367 TAAGTGAACTCGGACTCAACTTAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
98232413 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
98232461 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
98232506 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
98232539 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 59 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:98232487 original size:93 final size:93
Alignment explanation
Indices: 98232372--98232542 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
98232362 GCCCCTAAGT
* * *
98232372 GAACTCGGACTCAACTTAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
98232437 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
98232465 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
98232530 CGAGTTCGGATGC
66 CGAGTTCGGATGC
98232543 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:98232996 original size:30 final size:30
Alignment explanation
Indices: 98232962--98233018 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
98232952 ATTTAATACG
98232962 AACTTTGGAAAAATTACACTTTTGCCCTTA
1 AACTTTGGAAAAATTACACTTTTGCCCTTA
* * *
98232992 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
98233019 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCTTA
Found at i:98240245 original size:93 final size:93
Alignment explanation
Indices: 98240086--98240256 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
98240076 GCCCCTAAGT
* * * *
98240086 GAACTCGGACTCAACTTAACAAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
98240151 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
98240179 GAACTCGGACTCAACTCAATTAA-TTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAA-CAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
98240243 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
98240257 TTAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 67 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:98240252 original size:46 final size:45
Alignment explanation
Indices: 98240083--98240253 Score: 134
Period size: 46 Copynumber: 3.7 Consensus size: 45
98240073 CCCGCCCCTA
* * * * * *
98240083 AGTGAACTCGGACTCAACTTAACAAGCTCGGGCGTTCGTATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
* *
98240128 AAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
* ** *
98240176 CA-CGAACTCGGACTCAACTCAATTAATTCGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
98240221 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
98240254 TGCTTAACCA
Statistics
Matches: 96, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 53 0.55
47 25 0.26
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:98242794 original size:47 final size:45
Alignment explanation
Indices: 98242728--98242864 Score: 136
Period size: 47 Copynumber: 3.0 Consensus size: 45
98242718 ATCTCATAGT
* *
98242728 CGATGCATGTCCCAGACATGTCTTACACTAGCAGT-TGCCTCAA-TG-C
1 CGATGCATGTCCCAAACATGTCTTACACTAGC--TCT-CAT-AAGTGTC
*
98242774 CGATGCCATGTCCCAAACATGGCCTTACACTAGCTCTCATAATGTGTC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCATAA-GTGTC
* * *
98242822 CGATGCATGTCCCAAACATATCTTACACTAGCTCACACAAGTG
1 CGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAAGTG
98242865 ACTCCAAACG
Statistics
Matches: 78, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
45 5 0.06
46 25 0.32
47 30 0.38
48 18 0.23
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (45 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAAGTGTC
Found at i:98248186 original size:19 final size:17
Alignment explanation
Indices: 98248141--98248177 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
98248131 AATTTGTTAT
*
98248141 TACGGAAATATATTCGA
1 TACGAAAATATATTCGA
*
98248158 TACGAAAATATATTTGA
1 TACGAAAATATATTCGA
98248175 TAC
1 TAC
98248178 TTGAGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (17 bp):
TACGAAAATATATTCGA
Found at i:98250219 original size:39 final size:39
Alignment explanation
Indices: 98250176--98250291 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 39
98250166 CTGGACATAT
* * *
98250176 TTCCAGCACGTAGCCTGCGGACCTTAAGTTCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
98250215 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
98250254 TTCCAGCACATAGCCCGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
98250292 CATCACTGAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:98257521 original size:93 final size:94
Alignment explanation
Indices: 98257310--98257578 Score: 319
Period size: 94 Copynumber: 2.8 Consensus size: 94
98257300 TGATATGTGT
*
98257310 GCTAGTGTAAGACATGTCTGAGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCT
* **
98257375 GGGACATGCATCGGCTTCGAGATATTTAA
66 GGGACATGCATCGGCCTCGAGATATACAA
* * * *
98257404 GCCAGTGTAAGACATGTCTTGGACATGCATCAGCCGCAGTATGAGAGCTAGTGTAAGACAT-TCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCT
*
98257468 GGGCCATGCATCGGCCTC-ACGATATACAA
66 GGGACATGCATCGGCCTCGA-GATATACAA
* ** * **
98257497 GCTAGTGTAAGACCTGTCTGGGACATGGCATGGGCCTCACTA-TATGAAAGGTAGTGTAAGATCA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAG-C-CAC-AGTATGAGAGCCAGTGTAAGA-CA
98257561 TGTCTGGGACATGGCATC
61 TGTCTGGGACAT-GCATC
98257579 AGCATCTTAA
Statistics
Matches: 149, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
92 1 0.01
93 49 0.33
94 61 0.41
95 1 0.01
96 19 0.13
97 4 0.03
98 9 0.06
99 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCGGCCTCGAGATATACAA
Found at i:98257553 original size:49 final size:49
Alignment explanation
Indices: 98257310--98257578 Score: 272
Period size: 46 Copynumber: 5.7 Consensus size: 49
98257300 TGATATGTGT
* * * *
98257310 GCTAGTGTAAGACATGTCTGAGACAT-GCATCAGCCACA-G-TATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCACGATATGAAA
* * **
98257356 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCTTCGA-GATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTC-ACGATATGAAA
* * * * *
98257404 GCCAGTGTAAGACATGTCTTGGACAT-GCATCAGCCGCA-G-TATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCACGATATGAAA
*
98257450 GCTAGTGTAAGACAT-TCTGGGCCAT-GCATCGGCCTCACGATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCACGATATGA-AA
* * *
98257497 GCTAGTGTAAGACCTGTCTGGGACATGGCATGGGCCTCACTATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCACGATATGAAA
*
98257546 GGTAGTGTAAGATCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATC
98257579 AGCATCTTAA
Statistics
Matches: 186, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
45 18 0.10
46 52 0.28
47 22 0.12
48 46 0.25
49 29 0.16
50 19 0.10
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCACGATATGAAA
Found at i:98265005 original size:48 final size:46
Alignment explanation
Indices: 98264893--98265017 Score: 153
Period size: 48 Copynumber: 2.7 Consensus size: 46
98264883 TATGTGTGCT
** *
98264893 AGTGTAAGACATGTCTAGGACATGCATCAGCCACAGTATGAGAGGC
1 AGTGTAAGACATGTCTAGGACATGCATTGGCCACAGTATGAGAGCC
* * *
98264939 AGTGTAAGACATTTCTAGGACATGCATTGGCCTCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTAGGACATGCATTGGCCAC-AG-TA-TGAGAGCC
*
98264987 AGTGTAAAACATGTCTAGGACATGCATTGGC
1 AGTGTAAGACATGTCTAGGACATGCATTGGC
98265018 ATTGAGACGA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 30 0.44
47 2 0.03
48 34 0.50
49 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATTGGCCACAGTATGAGAGCC
Found at i:98265180 original size:49 final size:49
Alignment explanation
Indices: 98265124--98265251 Score: 150
Period size: 49 Copynumber: 2.6 Consensus size: 49
98265114 TGTTGTGTGT
* * *
98265124 CAGTGTAAGACCTATCTAGGACATGGCTTCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * * *
98265173 CAGTGTAAGACCTATTTGGGGCATGGCATCGGCCTCGCTATATGAAAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGC
*
98265222 CAGTGTAAGACCATGTCTGGGACATGGCAT
1 CAGTGTAAGACC-TATCTGGGACATGGCAT
98265252 TGGCATCTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.02
49 51 0.77
50 14 0.21
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:98266855 original size:40 final size:40
Alignment explanation
Indices: 98266818--98267042 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
98266808 GCTACTCGTT
* *
98266818 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
98266858 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
98266898 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
98266938 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
98266977 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
98267018 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
98267043 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:98267002 original size:119 final size:120
Alignment explanation
Indices: 98266820--98267042 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
98266810 TACTCGTTCA
*
98266820 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
98266885 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
98266940 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
98267002 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
98267043 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:98271218 original size:34 final size:34
Alignment explanation
Indices: 98271170--98271237 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
98271160 TGTATTGAAA
*
98271170 TGGCTATAAATGCCAGATCTGAATGTAATAGAGG
1 TGGCAATAAATGCCAGATCTGAATGTAATAGAGG
*
98271204 TGGCAATAAATGCCAGATCTGAATGTAATGGAGG
1 TGGCAATAAATGCCAGATCTGAATGTAATAGAGG
98271238 GGAATGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (34 bp):
TGGCAATAAATGCCAGATCTGAATGTAATAGAGG
Found at i:98273995 original size:7 final size:7
Alignment explanation
Indices: 98273977--98274009 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
98273967 TTGAACCATT
98273977 ATTTTAAA
1 ATTTT-AA
98273985 ATTTTAA
1 ATTTTAA
98273992 ATTTTAA
1 ATTTTAA
98273999 ATTTTAA
1 ATTTTAA
98274006 ATTT
1 ATTT
98274010 AACAATTTGA
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTTAA
Found at i:98287403 original size:39 final size:39
Alignment explanation
Indices: 98287360--98287486 Score: 111
Period size: 39 Copynumber: 3.3 Consensus size: 39
98287350 TCAAAGTAGA
*
98287360 ATATAAATAAAATTAAAGCCATAATTTGTAATAAAACAT
1 ATATAAATAAAATTAAAGCCATAAATTGTAATAAAACAT
*** *
98287399 ATATAAAT-AAA-TAATAG--ATAAAAAATAATCAAAGTAGA-
1 ATATAAATAAAATTAA-AGCCATAAATTGTAAT-AAA--ACAT
* * *
98287437 ATATAAATAAAATTAAAACCAAAAATTGTAATAAAGCAT
1 ATATAAATAAAATTAAAGCCATAAATTGTAATAAAACAT
98287476 ATATAAATAAA
1 ATATAAATAAA
98287487 TAATAATAGA
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
36 8 0.12
37 6 0.09
38 14 0.21
39 25 0.37
40 6 0.09
41 8 0.12
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.27
Consensus pattern (39 bp):
ATATAAATAAAATTAAAGCCATAAATTGTAATAAAACAT
Found at i:98287435 original size:77 final size:77
Alignment explanation
Indices: 98287348--98287491 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 77
98287338 TAAAATAAAG
* * *
98287348 AATCAAAGTAGAATATAAATAAAATTAAAGCCATAATTTGTAATAAAACATATATAAATAAATAA
1 AATCAAAGTAGAATATAAATAAAATTAAAACCAAAAATTGTAATAAAACATATATAAATAAATAA
98287413 TAGATAAAAAAT
66 TAGATAAAAAAT
*
98287425 AATCAAAGTAGAATATAAATAAAATTAAAACCAAAAATTGTAATAAAGCATATATAAATAAATAA
1 AATCAAAGTAGAATATAAATAAAATTAAAACCAAAAATTGTAATAAAACATATATAAATAAATAA
98287490 TA
66 TA
98287492 ATAGATAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (77 bp):
AATCAAAGTAGAATATAAATAAAATTAAAACCAAAAATTGTAATAAAACATATATAAATAAATAA
TAGATAAAAAAT
Found at i:98293045 original size:17 final size:17
Alignment explanation
Indices: 98293007--98293047 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
98292997 CTCCCCTCGT
* *
98293007 AAATGAAAATGCTTGAA
1 AAATGAAAATGATAGAA
*
98293024 GAATGAAAATGATAGAA
1 AAATGAAAATGATAGAA
98293041 AAATGAA
1 AAATGAA
98293048 GTCACAGGCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.20, T:0.20
Consensus pattern (17 bp):
AAATGAAAATGATAGAA
Found at i:98297334 original size:214 final size:214
Alignment explanation
Indices: 98296960--98297389 Score: 851
Period size: 214 Copynumber: 2.0 Consensus size: 214
98296950 AATGTCATAT
98296960 ATATATATACAATTCACAACACAACATTTAATTCAAGCATATAGACATACGCAATTTAGTTACAC
1 ATATATATACAATTCACAACACAACATTTAATTCAAGCATATAGACATACGCAATTTAGTTACAC
98297025 AAACTTACATTGACAAATGTTCGTGTACGTAAAATCTACTAATCTGACATTTTCCTCTTTTCCTC
66 AAACTTACATTGACAAATGTTCGTGTACGTAAAATCTACTAATCTGACATTTTCCTCTTTTCCTC
98297090 GTTCTAGTTCCGAATTTGGTCTATCCAGATCTATATGAGTAAATTTAACATCAATTTATCATATT
131 GTTCTAGTTCCGAATTTGGTCTATCCAGATCTATATGAGTAAATTTAACATCAATTTATCATATT
98297155 TCATATTCAAGGGGACTCA
196 TCATATTCAAGGGGACTCA
*
98297174 ATATTTATACAATTCACAACACAACATTTAATTCAAGCATATAGACATACGCAATTTAGTTACAC
1 ATATATATACAATTCACAACACAACATTTAATTCAAGCATATAGACATACGCAATTTAGTTACAC
98297239 AAACTTACATTGACAAATGTTCGTGTACGTAAAATCTACTAATCTGACATTTTCCTCTTTTCCTC
66 AAACTTACATTGACAAATGTTCGTGTACGTAAAATCTACTAATCTGACATTTTCCTCTTTTCCTC
98297304 GTTCTAGTTCCGAATTTGGTCTATCCAGATCTATATGAGTAAATTTAACATCAATTTATCATATT
131 GTTCTAGTTCCGAATTTGGTCTATCCAGATCTATATGAGTAAATTTAACATCAATTTATCATATT
98297369 TCATATTCAAGGGGACTCA
196 TCATATTCAAGGGGACTCA
98297388 AT
1 AT
98297390 TTTCATCCTA
Statistics
Matches: 215, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 215 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (214 bp):
ATATATATACAATTCACAACACAACATTTAATTCAAGCATATAGACATACGCAATTTAGTTACAC
AAACTTACATTGACAAATGTTCGTGTACGTAAAATCTACTAATCTGACATTTTCCTCTTTTCCTC
GTTCTAGTTCCGAATTTGGTCTATCCAGATCTATATGAGTAAATTTAACATCAATTTATCATATT
TCATATTCAAGGGGACTCA
Found at i:98309228 original size:36 final size:37
Alignment explanation
Indices: 98309162--98309240 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 37
98309152 TTATAGATTT
* *
98309162 ATTATATTCATATTATTTTTTATGCATTTTATTTCAA
1 ATTATATTCATATTACTTTTTATGCATTTTACTTCAA
* ***
98309199 TTTATATT-ATATTACTTTTTATTTTTTTTACTTCAA
1 ATTATATTCATATTACTTTTTATGCATTTTACTTCAA
98309235 ATTATA
1 ATTATA
98309241 AAAATATTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
36 28 0.80
37 7 0.20
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (37 bp):
ATTATATTCATATTACTTTTTATGCATTTTACTTCAA
Found at i:98313130 original size:22 final size:23
Alignment explanation
Indices: 98313102--98313149 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
98313092 AGCAAGTAAT
98313102 TAATTTTTAAAAT-TAAAAAATA
1 TAATTTTTAAAATATAAAAAATA
** *
98313124 TAATTTTTTTAATATAAAAATTA
1 TAATTTTTAAAATATAAAAAATA
98313147 TAA
1 TAA
98313150 AACATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TAATTTTTAAAATATAAAAAATA
Found at i:98313141 original size:23 final size:24
Alignment explanation
Indices: 98313105--98313149 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
98313095 AAGTAATTAA
98313105 TTTTTAAAATTAAAAAATATAATT
1 TTTTTAAAATTAAAAAATATAATT
* *
98313129 TTTTTAATA-TAAAAATTATAA
1 TTTTTAAAATTAAAAAATATAA
98313150 AACATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTTTAAAATTAAAAAATATAATT
Found at i:98318189 original size:25 final size:23
Alignment explanation
Indices: 98318157--98318206 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
98318147 TCAAAATAAC
*
98318157 TTTTTTTAT-TTTAGTTATATAATT
1 TTTTTTTATGTTT-GTT-TAAAATT
98318181 TTTTGTTTATGTTTGTTTAAAATT
1 TTTT-TTTATGTTTGTTTAAAATT
98318205 TT
1 TT
98318207 GATGTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 12 0.52
25 8 0.35
26 3 0.13
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (23 bp):
TTTTTTTATGTTTGTTTAAAATT
Found at i:98319974 original size:48 final size:46
Alignment explanation
Indices: 98319867--98320138 Score: 194
Period size: 47 Copynumber: 5.8 Consensus size: 46
98319857 GATTTCTTGT
**
98319867 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGTTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGA
* * * *
98319913 GTGCCAGTATAAGACTATGTCTGGGACATGGGATCGGCGTA-GAGATGA
1 GTGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGC-CACGAGATGA
* * * *
98319961 GTGCCAGTGTAAGACATGTTTGGGACATACATCGGCCTCGATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGA-GATGA
** * * * * * * * *
98320008 -TAGCTTGTGTAAGACGTGTCTGAGACACGTATCGGCTAAGAG-T-T
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGA
* *
98320052 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTATATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACG-AGAT--GA
* * *
98320100 GAGCTAGTATAAGACCATGTCTGGGACATGGCATCAGCC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCC
98320139 TCAATTCTTA
Statistics
Matches: 175, Mismatches: 36, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
43 2 0.01
44 28 0.16
45 3 0.02
46 24 0.14
47 58 0.33
48 37 0.21
49 15 0.09
50 7 0.04
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGA
Found at i:98320028 original size:94 final size:91
Alignment explanation
Indices: 98319867--98320127 Score: 242
Period size: 94 Copynumber: 2.8 Consensus size: 91
98319857 GATTTCTTGT
*
98319867 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGTTATGAGTGCCAGTATAAGACTATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGTGATGAGTGCCAGTATAAGACTATG
* *
98319932 TCTGGGACATGGGATCGGCGT-AGAGATGA
66 TCTGAGACA-CGGATCGGC-TAAGAG-T-A
* * * * ** * *
98319961 GTGCCAGTGTAAGACATGTTTGGGACATACATCGGCCTCGATGATGA-TAGCTTGTGTAAGAC-G
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACG-TGATGAGT-GCCAGTATAAGACTA
* *
98320024 TGTCTGAGACACGTATCGGCTAAGAGTT
64 TGTCTGAGACACGGATCGGCTAAGAGTA
* * * * *
98320052 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTATATACGAGAGCTAGTATAAGACC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGT-GAT--GAGTGCCAGTATAAGACT
*
98320116 ATGTCTGGGACA
63 ATGTCTGAGACA
98320128 TGGCATCAGC
Statistics
Matches: 135, Mismatches: 24, Indels: 17
0.77 0.14 0.10
Matches are distributed among these distances:
89 1 0.01
90 5 0.04
91 31 0.23
92 15 0.11
93 21 0.16
94 47 0.35
95 15 0.11
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGTGATGAGTGCCAGTATAAGACTATG
TCTGAGACACGGATCGGCTAAGAGTA
Found at i:98321584 original size:55 final size:55
Alignment explanation
Indices: 98321482--98321587 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
98321472 ACACGTAGGC
* *
98321482 CACACGGGCGTGTGCCATGGCCGTGTCTTAAAGTCAGTATCGTACACGGGCATGT
1 CACACAGGCGTGTGCCATGGCCGTGTCTTAAAGTCAGTATCGCACACGGGCATGT
* * * *
98321537 CACACAGGCGTGTGCCATGGCCGTGTGTTGAAGTCAGTGTTGCACACGGGC
1 CACACAGGCGTGTGCCATGGCCGTGTCTTAAAGTCAGTATCGCACACGGGC
98321588 TAAGGACATG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.23
Consensus pattern (55 bp):
CACACAGGCGTGTGCCATGGCCGTGTCTTAAAGTCAGTATCGCACACGGGCATGT
Found at i:98324060 original size:18 final size:18
Alignment explanation
Indices: 98324037--98324077 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
98324027 GGCCACATAT
98324037 AGAGGTGATTATCATGGC
1 AGAGGTGATTATCATGGC
* *
98324055 AGAGGTGGTTATCATGGT
1 AGAGGTGATTATCATGGC
98324073 AGAGG
1 AGAGG
98324078 AGGTCGAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.39, T:0.27
Consensus pattern (18 bp):
AGAGGTGATTATCATGGC
Found at i:98325145 original size:131 final size:131
Alignment explanation
Indices: 98324860--98325211 Score: 336
Period size: 131 Copynumber: 2.7 Consensus size: 131
98324850 TAGAACATAC
* * * * *
98324860 GAGTGAAATTCCGAAGGGATCTTTGATTTGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGAT
1 GAGTGAAATTCCGAAGGGATATTTGA-TTGTTTTGGACAAACGAGAAATCGCAACCCAGCACGAT
* * *
98324925 AGGGCACGATTCTCAAATCGCCAAACAACGAACATTGCCTTCATTTTGAAAGGTTTTTGATAAAC
65 AGGGCACGATTCCCGAATTGCCAAACAACGAACATTGCCTTCATTTTGAAAGGTTTTTGATAAAC
98324990 AT
130 AT
* * * * * *
98324992 GAGTGAAA-GCCTAAAGGAATATTCGATCGTTTTGGACAAACGAGAAATCACAACCCAGCACGAT
1 GAGTGAAATTCC-GAAGGGATATTTGATTGTTTTGGACAAACGAGAAATCGCAACCCAGCACGAT
* * * ** ** * *
98325056 AGGGCATGATTCCCGAATTGTCAAACACCGAGTATTGCCTTTGTTTT-AGAGGATTTTTAGA-AG
65 AGGGCACGATTCCCGAATTGCCAAACAACGAACATTGCCTTCATTTTGAAAGG-TTTTT-GATAA
*
98325119 ACCT
128 ACAT
* * * *** *
98325123 GAGTGAAATTTCGAAGGGATATTTGATTATTTT-GAGC-AACGAGAAATTGCAACCCAATGCGTT
1 GAGTGAAATTCCGAAGGGATATTTGATTGTTTTGGA-CAAACGAGAAATCGCAACCCAGCACGAT
98325186 AGGGCACGATTCCGCGAATTGCCAAA
65 AGGGCACGATTCC-CGAATTGCCAAA
98325212 TATCAAATTT
Statistics
Matches: 175, Mismatches: 39, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
130 38 0.22
131 116 0.66
132 21 0.12
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (131 bp):
GAGTGAAATTCCGAAGGGATATTTGATTGTTTTGGACAAACGAGAAATCGCAACCCAGCACGATA
GGGCACGATTCCCGAATTGCCAAACAACGAACATTGCCTTCATTTTGAAAGGTTTTTGATAAACA
T
Found at i:98326152 original size:12 final size:12
Alignment explanation
Indices: 98326135--98326160 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
98326125 AGCGTATTAG
98326135 TATATATGTATA
1 TATATATGTATA
98326147 TATATATGTATA
1 TATATATGTATA
98326159 TA
1 TA
98326161 AATTCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATATATGTATA
Found at i:98328369 original size:56 final size:56
Alignment explanation
Indices: 98328283--98328402 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
98328273 ACAAGGGATG
98328283 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
98328339 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
98328395 ATGGGCAA
1 ATGGGCAA
98328403 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:98329670 original size:39 final size:40
Alignment explanation
Indices: 98329571--98329714 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
98329561 CGAATGATGT
* * *
98329571 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAA
* * *
98329611 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-A
*
98329651 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
*
98329690 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
98329715 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
Found at i:98329728 original size:40 final size:39
Alignment explanation
Indices: 98329623--98329721 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
98329613 AGACTAAGAT
** * *
98329623 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGC
1 CCGAAGGCATTTGAACGAGTTACTATA-ACCGGGCTAAGC
** *
98329662 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAG-C
98329702 CCGAAGGCATTTGAACGAGT
1 CCGAAGGCATTTGAACGAGT
98329722 AGCTATATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 33 0.62
40 20 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAGC
Found at i:98329733 original size:79 final size:80
Alignment explanation
Indices: 98329570--98329720 Score: 182
Period size: 79 Copynumber: 1.9 Consensus size: 80
98329560 TCGAATGATG
*
98329570 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
**
98329635 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * * *
98329650 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCAGACTAAGAT-CCGAAGGCAT
98329712 TTGAACGAG
64 TTGAACGAG
98329721 TAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.02
79 41 0.68
80 18 0.30
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:98340625 original size:41 final size:40
Alignment explanation
Indices: 98340568--98340668 Score: 98
Period size: 41 Copynumber: 2.5 Consensus size: 40
98340558 CAGTAAGAGC
*
98340568 CTTTGCAATTTCAACATGGTGA-A-AAGAGGATATATTCCAAA
1 CTTTGC-ATATCAACATGGTGATATAAGA-G-TATATTCCAAA
* * **
98340609 CTTTGCAGTATCAACATGATGATATAAGAGTCTATTTTAAA
1 CTTTGCA-TATCAACATGGTGATATAAGAGTATATTCCAAA
98340650 CTTTGCATCATCAACATGG
1 CTTTGCAT-ATCAACATGG
98340669 CGAGAAGACC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
40 2 0.04
41 42 0.84
42 2 0.04
43 4 0.08
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (40 bp):
CTTTGCATATCAACATGGTGATATAAGAGTATATTCCAAA
Found at i:98342424 original size:16 final size:16
Alignment explanation
Indices: 98342403--98342434 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
98342393 GTTATAATGC
98342403 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
*
98342419 CCCAAAAATCCTAAAA
1 CCCAAAAATCCCAAAA
98342435 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.34, G:0.00, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:98344887 original size:39 final size:40
Alignment explanation
Indices: 98344842--98345009 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
98344832 CGGGGTTTAG
* * *
98344842 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
98344881 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
98344921 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
98344961 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
98345002 CCGGATAT
1 CCGGATAT
98345010 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:98344992 original size:41 final size:40
Alignment explanation
Indices: 98344865--98345009 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
98344855 CTCGCACAAG
* * * * *
98344865 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
98344905 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
98344945 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
98344986 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
98345010 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:98347211 original size:29 final size:29
Alignment explanation
Indices: 98347136--98347251 Score: 121
Period size: 29 Copynumber: 4.1 Consensus size: 29
98347126 TGAATATAAG
** * *
98347136 GTGATTTGGGCCTAACAGGCCATATAAAG
1 GTGATTTGGGCCTAATGGGCCATATGAAT
98347165 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGATTTGGGCCTAATGGGCCATATGAAT
* *
98347194 GTGATTTGGGCCTTATGGTCCATATGAAT
1 GTGATTTGGGCCTAATGGGCCATATGAAT
** *
98347223 AAGA--TGGGCC-AAGTGGGCCATATGCAT
1 GTGATTTGGGCCTAA-TGGGCCATATGAAT
98347250 GT
1 GT
98347252 ATGTAGGGGT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 18 0.25
29 54 0.74
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
GTGATTTGGGCCTAATGGGCCATATGAAT
Found at i:98351350 original size:29 final size:29
Alignment explanation
Indices: 98351315--98351388 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
98351305 GTTGTGAGAT
* *
98351315 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
98351344 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
98351373 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
98351389 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:98353719 original size:25 final size:25
Alignment explanation
Indices: 98353683--98353732 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
98353673 CCCTTTCTCC
*
98353683 AAAAGCCGAAAACCCTTTTCTTTTT
1 AAAAGCCAAAAACCCTTTTCTTTTT
*
98353708 AAAAGCCAAAAACCCTTTTGTTTTT
1 AAAAGCCAAAAACCCTTTTCTTTTT
98353733 CTTTCTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (25 bp):
AAAAGCCAAAAACCCTTTTCTTTTT
Done.