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 280 of 322
Found at i:92988639 original size:79 final size:79
Alignment explanation
Indices: 92988486--92988650 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
92988476 GGACTAAGAT
* **
92988486 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
92988551 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
92988565 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
92988628 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
92988644 CCGAAGG
1 CCGAAGG
92988651 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:92991539 original size:26 final size:24
Alignment explanation
Indices: 92991500--92991617 Score: 96
Period size: 26 Copynumber: 4.8 Consensus size: 24
92991490 GGACTCACAA
* *
92991500 CAGCTCATATGAGCTTACTGATATAT
1 CAGCTCGTAAGAGCTTACTG-T-TAT
* *
92991526 CATCTCGTAAGAGCTTACTGTTTT
1 CAGCTCGTAAGAGCTTACTGTTAT
*
92991550 CAGCTCGTCAGAGCTTACTGTT-T
1 CAGCTCGTAAGAGCTTACTGTTAT
* *
92991573 CACCTC-AATAGAGCTTACTGTCTAT
1 CAGCTCGTA-AGAGCTTACTGT-TAT
* *
92991598 CAGCTCAGGAGGAGCTTACT
1 CAGCTC-GTAAGAGCTTACT
92991618 AATCATAGCT
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
23 18 0.24
24 23 0.31
25 7 0.09
26 26 0.35
27 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACTGTTAT
Found at i:92991585 original size:23 final size:23
Alignment explanation
Indices: 92991535--92991593 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
92991525 TCATCTCGTA
* *
92991535 AGAGCTTACTGTTTTCAGCTCGTC
1 AGAGCTTACTG-TTTCACCTCATC
92991559 AGAGCTTACTGTTTCACCTCAAT-
1 AGAGCTTACTGTTTCACCTC-ATC
92991582 AGAGCTTACTGT
1 AGAGCTTACTGT
92991594 CTATCAGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGTTTCACCTCATC
Found at i:92994059 original size:29 final size:29
Alignment explanation
Indices: 92994022--92994079 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
92994012 ACAAACGGTT
92994022 TTCCCTAAAACAAAAGGGGTTTTTCCTAA
1 TTCCCTAAAACAAAAGGGGTTTTTCCTAA
*
92994051 TTCCTTAAAACAAAAGGGGTTTTTCCTAA
1 TTCCCTAAAACAAAAGGGGTTTTTCCTAA
92994080 AATGGACGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (29 bp):
TTCCCTAAAACAAAAGGGGTTTTTCCTAA
Found at i:93005978 original size:24 final size:24
Alignment explanation
Indices: 93005922--93006014 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
93005912 GACTCACAAT
* * *
93005922 AGCTCGTATGAGCTTACTGATATATC
1 AGCTCATAAGAGCTTACTG-T-TTTC
93005948 AGCTCATAAGAGCTTACTGTTTTC
1 AGCTCATAAGAGCTTACTGTTTTC
* **
93005972 AGCTCATCAGAGCTTAC-CATTTC
1 AGCTCATAAGAGCTTACTGTTTTC
*
93005995 AGCTCA-ATAGACCTTACTGT
1 AGCTCATA-AGAGCTTACTGT
93006015 CTATAAGCTC
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
23 18 0.33
24 19 0.35
25 1 0.02
26 17 0.31
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (24 bp):
AGCTCATAAGAGCTTACTGTTTTC
Found at i:93006010 original size:23 final size:23
Alignment explanation
Indices: 93005968--93006011 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
93005958 AGCTTACTGT
*
93005968 TTTCAGCTCATCAGAGCTTACCA
1 TTTCAGCTCATCAGACCTTACCA
93005991 TTTCAGCTCAAT-AGACCTTAC
1 TTTCAGCTC-ATCAGACCTTAC
93006012 TGTCTATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (23 bp):
TTTCAGCTCATCAGACCTTACCA
Found at i:93008150 original size:99 final size:99
Alignment explanation
Indices: 93007937--93008153 Score: 292
Period size: 99 Copynumber: 2.2 Consensus size: 99
93007927 TGCTAGTTGG
* * *
93007937 ATTAGTTCTTATGAGCATTGGTGTGATGGTTGGTTTAGCTCTTATGAACATTAGTGTGATGGTTC
1 ATTAGCTCTGATGAGCATTGGTGTGATGGTTGGATTAGCTCTTATGAACATTAGTGTGATGGTTC
* * * *
93008002 AATTACCTCTTATGAGCATTGGTGTGATGGTTGG
66 AATTACCTCTTATAAGCATTGGTGTAATGGATGA
* * * *
93008036 ATTAGCTCTTATGAGCATTGGTGTGATGGTTGGATTAGCTCTTATGAGCATTGGTGTGATGGTTG
1 ATTAGCTCTGATGAGCATTGGTGTGATGGTTGGATTAGCTCTTATGAACATTAGTGTGATGGTTC
* *
93008101 GATTAGCTCTTATAAGCATTGGTGTAATGGATGA
66 AATTACCTCTTATAAGCATTGGTGTAATGGATGA
*
93008135 ATTGGCT-TGAGTGAGCATT
1 ATTAGCTCTGA-TGAGCATT
93008154 TGATATGTTT
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 2 0.02
99 102 0.98
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.40
Consensus pattern (99 bp):
ATTAGCTCTGATGAGCATTGGTGTGATGGTTGGATTAGCTCTTATGAACATTAGTGTGATGGTTC
AATTACCTCTTATAAGCATTGGTGTAATGGATGA
Found at i:93008153 original size:33 final size:33
Alignment explanation
Indices: 93007921--93008130 Score: 321
Period size: 33 Copynumber: 6.4 Consensus size: 33
93007911 TACTCTCTAT
* * *
93007921 TTGGTGTGCTAGTTGGATTAGTTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* *
93007954 TTGGTGTGATGGTTGGTTTAGCTCTTATGAACA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* ** *
93007987 TTAGTGTGATGGTTCAATTACCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
93008020 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
93008053 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
*
93008086 TTGGTGTGATGGTTGGATTAGCTCTTATAAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
*
93008119 TTGGTGTAATGG
1 TTGGTGTGATGG
93008131 ATGAATTGGC
Statistics
Matches: 160, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 160 1.00
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
Found at i:93011548 original size:100 final size:100
Alignment explanation
Indices: 93011428--93011607 Score: 227
Period size: 100 Copynumber: 1.8 Consensus size: 100
93011418 ATATCACTCT
* * **
93011428 GATGCCATATCCTAGATATGGTCTTACACAGAAGCACATAT-ATCATTGATGCCATATCCCAGAA
1 GATGCCATAGCCCAGATATGGTCTTACACAGAAGCACATATCA-CACCGATGCCATATCCCAGAA
93011492 ATGATCTTATACGGAAGCACATAATCCCATCACACC
65 ATGATCTTATACGGAAGCACATAATCCCATCACACC
* * ** * * *
93011528 GATGCCATAGCCCAGCTATGGTCTTATATGGGAGCACATATCACACCGATGCCATATCCTAGATA
1 GATGCCATAGCCCAGATATGGTCTTACACAGAAGCACATATCACACCGATGCCATATCCCAGAAA
* *
93011593 TGGTCTTATATGGAA
66 TGATCTTATACGGAA
93011608 ATCACATATC
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
100 65 0.98
101 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (100 bp):
GATGCCATAGCCCAGATATGGTCTTACACAGAAGCACATATCACACCGATGCCATATCCCAGAAA
TGATCTTATACGGAAGCACATAATCCCATCACACC
Found at i:93011555 original size:53 final size:47
Alignment explanation
Indices: 93011367--93011620 Score: 206
Period size: 47 Copynumber: 5.2 Consensus size: 47
93011357 TGCACATAGT
* * ** * *
93011367 CACATATCACACACCGAAGCCATAGCCCAGCCATGGTCTTACATGG-AT
1 CACATAT--CACACCGATGCCATATCCCAGATATGGTCTTATATGGAAG
* * * * **
93011415 CACATATCACTCTGATGCCATATCCTAGATATGGTCTTACACAGAAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATATGGAAG
** * * *
93011462 CACATAT-ATCATTGATGCCATATCCCAGAAATGATCTTATACGGAAG
1 CACATATCA-CACCGATGCCATATCCCAGATATGGTCTTATATGGAAG
* * *
93011509 CACATAATCCCATCACACCGATGCCATAGCCCAGCTATGGTCTTATATGGGAG
1 CAC---AT---ATCACACCGATGCCATATCCCAGATATGGTCTTATATGGAAG
* *
93011562 CACATATCACACCGATGCCATATCCTAGATATGGTCTTATATGGAAAT
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATATGG-AAG
93011610 CACATATCACA
1 CACATATCACA
93011621 TGTTGCCATG
Statistics
Matches: 166, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
46 29 0.17
47 78 0.47
48 19 0.11
50 4 0.02
53 35 0.21
54 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATATGGAAG
Found at i:93020727 original size:46 final size:44
Alignment explanation
Indices: 93020628--93020792 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 44
93020618 GTAACTGTGC
* * * *
93020628 CGATGCATGTCCTAAACATGTCTTACACTAGC-ACATCTCGTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCG-AGG
** * * *
93020672 CGACCCATGTCCTAGACATGTCTAACATTGGCTAACATCTCGAGG
1 CGATGCATGTCCCAGACATGTCTTACACTGGCT-ACATCTCGAGG
* * * *
93020717 TCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATTGTGG
1 -CGATGCATGTCCCAGACATGTCTTACACTGGCT-ACATCTCGAGG
93020763 CTGATGCATGTCCCAGACATGTCTTACACT
1 C-GATGCATGTCCCAGACATGTCTTACACT
93020793 AGCCCTCGTC
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
44 26 0.26
45 3 0.03
46 71 0.71
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCGAGG
Found at i:93020815 original size:46 final size:46
Alignment explanation
Indices: 93020718--93020840 Score: 131
Period size: 46 Copynumber: 2.6 Consensus size: 46
93020708 ATCTCGAGGT
* * ** *
93020718 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATTGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATATAATGAC
* * *
93020764 TGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAAT-AC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATAT-AATGAC
*
93020810 CGATGCCATGTCCCAAACATGGTCTTACACT
1 CGATG-CATGTCCCAGACAT-GTCTTACACT
93020841 GGCACACAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 40 0.62
47 14 0.22
48 10 0.16
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATATAATGAC
Found at i:93025649 original size:51 final size:49
Alignment explanation
Indices: 93025591--93026064 Score: 716
Period size: 47 Copynumber: 9.8 Consensus size: 49
93025581 TTAGGATTTT
* *
93025591 ATGTGATGAATGTGAATGTGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATA--TGTGATAAGGCCTAATGGCCA
93025642 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCA
93025693 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCA
93025744 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
*
93025793 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
*
93025842 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
*
93025889 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
*
93025936 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
* * * *
93025983 ATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
* *
93026030 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
93026065 TCCCGAAGGG
Statistics
Matches: 407, Mismatches: 12, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
47 189 0.46
48 1 0.00
49 99 0.24
51 110 0.27
53 8 0.02
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
Found at i:93026239 original size:37 final size:37
Alignment explanation
Indices: 93026181--93026261 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
93026171 ATCCGAGCTC
* * *
93026181 GTAAGACCCGATGACTACGTGTGGGGATTTTGTCCGG
1 GTAAGACCCGATAACTACGTGTGGAGATTATGTCCGG
*
93026218 GTAAGACCCGATAACTTCGTGTGGAGATTATGTCCGG
1 GTAAGACCCGATAACTACGTGTGGAGATTATGTCCGG
93026255 GTAAGAC
1 GTAAGAC
93026262 TTCGTAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
GTAAGACCCGATAACTACGTGTGGAGATTATGTCCGG
Found at i:93031398 original size:26 final size:26
Alignment explanation
Indices: 93031338--93031399 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
93031328 AAATTAATTA
93031338 AATGACTGTTATGCCCCTATGAGGTAG
1 AATGACTGTTATGCCCCTATGA-GTAG
* *
93031365 AATAACTGTTATGCCCTTATGA-TATG
1 AATGACTGTTATGCCCCTATGAGTA-G
*
93031391 TATGACTGT
1 AATGACTGT
93031400 ATTCGAACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.07
26 8 0.27
27 20 0.67
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (26 bp):
AATGACTGTTATGCCCCTATGAGTAG
Found at i:93035472 original size:93 final size:96
Alignment explanation
Indices: 93035353--93035587 Score: 244
Period size: 100 Copynumber: 2.4 Consensus size: 96
93035343 ACACCGAAGC
* * * * * *
93035353 CATAGCCCAGACATGGTCTTACACGG-ATCACATATCAC-T-CTGATGCCATATCCCAGATATTG
1 CATATCCCAGATATGGTCTTATACGGAATCACATATCACATACCGATGCCATAGCCCAGATATGG
*
93035415 TCTTACACAAAAGCACATAT-ATCACTGATGT
66 TCTTACACAAAAGCACATATCA-CACAGATGT
* *
93035446 CATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATCACACCGATGCCATAGCCCAGCT
1 CATATCCCAGATATGGTCTTATACGGAATCACAT-ATCACAT---ACCGATGCCATAGCCCAGAT
* ****
93035511 ATGGTCTTATATGGGAGCACATATCACACAGATGT
62 ATGGTCTTACACAAAAGCACATATCACACAGATGT
* *
93035546 CATATCCTAGGTATGGTCTTATACGGAAATCACATATCACAT
1 CATATCCCAGATATGGTCTTATACGG-AATCACATATCACAT
93035588 GTTGCCATAG
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
93 23 0.20
94 6 0.05
95 5 0.04
96 1 0.01
100 73 0.63
101 8 0.07
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (96 bp):
CATATCCCAGATATGGTCTTATACGGAATCACATATCACATACCGATGCCATAGCCCAGATATGG
TCTTACACAAAAGCACATATCACACAGATGT
Found at i:93035561 original size:47 final size:48
Alignment explanation
Indices: 93035353--93035584 Score: 202
Period size: 47 Copynumber: 4.8 Consensus size: 48
93035343 ACACCGAAGC
* * * * * * *
93035353 CATAGCCCAGACATGGTCTTACACGG-ATCACATATCA-CTCTGATGC
1 CATATCCCAGATATGGTCTTATACGGAAGCACATATCATCACAGATGT
* * ** *
93035399 CATATCCCAGATATTGTCTTACACAAAAGCACATAT-ATCACTGATGT
1 CATATCCCAGATATGGTCTTATACGGAAGCACATATCATCACAGATGT
*
93035446 CATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATCACACCGATGC
1 CATATCCCAGATATGGTCTTATACGGAAGCACAT-AT--CATCACA--GATGT
* * * *
93035499 CATAGCCCAGCTATGGTCTTATATGGGAGCACATATCA-CACAGATGT
1 CATATCCCAGATATGGTCTTATACGGAAGCACATATCATCACAGATGT
* * *
93035546 CATATCCTAGGTATGGTCTTATACGGAAATCACATATCA
1 CATATCCCAGATATGGTCTTATACGG-AAGCACATATCA
93035585 CATGTTGCCA
Statistics
Matches: 152, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
46 22 0.14
47 71 0.47
48 12 0.08
49 4 0.03
50 2 0.01
51 5 0.03
52 2 0.01
53 34 0.22
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (48 bp):
CATATCCCAGATATGGTCTTATACGGAAGCACATATCATCACAGATGT
Found at i:93041107 original size:22 final size:21
Alignment explanation
Indices: 93041082--93041132 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 21
93041072 AACGTTTATC
93041082 AAATTAATTT-ATGCAATATAAA
1 AAATTAATTTAATG-AATA-AAA
93041104 AAATTTAATTTAATGAATAAAA
1 AAA-TTAATTTAATGAATAAAA
93041126 AAATTAA
1 AAATTAA
93041133 AATTTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.15
22 9 0.33
23 11 0.41
24 3 0.11
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (21 bp):
AAATTAATTTAATGAATAAAA
Found at i:93041137 original size:23 final size:23
Alignment explanation
Indices: 93041082--93041133 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
93041072 AACGTTTATC
93041082 AAATT-AATTTATGCAATATAAA
1 AAATTAAATTTATGCAATATAAA
*
93041104 AAATTTAATTTAATG-AATA-AAA
1 AAATTAAATTT-ATGCAATATAAA
93041126 AAATTAAA
1 AAATTAAA
93041134 ATTTTATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 15 0.56
23 9 0.33
24 3 0.11
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
AAATTAAATTTATGCAATATAAA
Found at i:93041829 original size:43 final size:43
Alignment explanation
Indices: 93041768--93041850 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
93041758 AGTCTCAATT
*
93041768 CCTTAATTTTTATTTTAAATCAACATTTTCCCCTAATTTTGCC
1 CCTTAATTTTTACTTTAAATCAACATTTTCCCCTAATTTTGCC
*
93041811 CCTTAATTTTTACTTTAAATCAACATTTTCCCTTAATTTT
1 CCTTAATTTTTACTTTAAATCAACATTTTCCCCTAATTTT
93041851 TCCGAACTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.01, T:0.51
Consensus pattern (43 bp):
CCTTAATTTTTACTTTAAATCAACATTTTCCCCTAATTTTGCC
Found at i:93042225 original size:7 final size:7
Alignment explanation
Indices: 93042213--93042237 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
93042203 AATAAAAGTA
93042213 TAAAATC
1 TAAAATC
93042220 TAAAATC
1 TAAAATC
93042227 TAAAATC
1 TAAAATC
93042234 TAAA
1 TAAA
93042238 TTTATTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAAATC
Found at i:93042735 original size:18 final size:18
Alignment explanation
Indices: 93042714--93042750 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
93042704 TCTTCCCCAC
* *
93042714 CCTCTTCGCCTTCTCTCT
1 CCTCTTCCCCTTCCCTCT
93042732 CCTCTTCCCCTTCCCTCT
1 CCTCTTCCCCTTCCCTCT
93042750 C
1 C
93042751 TTCCTCTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.57, G:0.03, T:0.41
Consensus pattern (18 bp):
CCTCTTCCCCTTCCCTCT
Found at i:93045014 original size:14 final size:14
Alignment explanation
Indices: 93044995--93045022 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
93044985 TAAACCAATA
93044995 GTTAAAGTTGCTTT
1 GTTAAAGTTGCTTT
93045009 GTTAAAGTTGCTTT
1 GTTAAAGTTGCTTT
93045023 TAACTTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
GTTAAAGTTGCTTT
Found at i:93047606 original size:19 final size:19
Alignment explanation
Indices: 93047582--93047621 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
93047572 ACTGAAGGTA
93047582 TCCCAGGAAATCGTGGCTT
1 TCCCAGGAAATCGTGGCTT
93047601 TCCCAGGAAATCGTGGCTT
1 TCCCAGGAAATCGTGGCTT
93047620 TC
1 TC
93047622 TCTTAGGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.28
Consensus pattern (19 bp):
TCCCAGGAAATCGTGGCTT
Found at i:93054412 original size:14 final size:14
Alignment explanation
Indices: 93054393--93054422 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93054383 AAGATATTCT
93054393 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
93054407 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
93054421 TT
1 TT
93054423 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:93054461 original size:14 final size:16
Alignment explanation
Indices: 93054442--93054474 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
93054432 TCGATATTCT
93054442 TTTTCA-TTCAT-GCA
1 TTTTCATTTCATAGCA
93054456 TTTTCATTTCATAGCA
1 TTTTCATTTCATAGCA
93054472 TTT
1 TTT
93054475 CATCGCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 5 0.29
16 6 0.35
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.55
Consensus pattern (16 bp):
TTTTCATTTCATAGCA
Found at i:93062556 original size:44 final size:44
Alignment explanation
Indices: 93062505--93062799 Score: 196
Period size: 44 Copynumber: 6.7 Consensus size: 44
93062495 GGGACAATGT
*
93062505 AGATCAAAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGC-AGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * * * * *
93062549 AGATCAAAGATAGCAGATTTGACATTCTTGTGCTTACAGCGAAGT
1 AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA-C
**
93062594 AGATCAAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
**
93062637 A-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGA-TCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * * * *
93062681 AGATCGAAA-ATAACAGATCTGACA-CTCCTGTGCTTACAGCGAAGC
1 AGATC-AAAGATAGCAGATTTGGCATC-CCTGTGTTTATAGGGAA-C
* * ** *
93062726 AGATCGACGATTTCAGCA--TGGTATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
** *
93062769 A-AGTTGAAGATA-CTAGATTTGGCATCTCTGT
1 AGA-TCAAAGATAGC-AGATTTGGCATCCCTGT
93062800 ATTAGCGGAG
Statistics
Matches: 191, Mismatches: 43, Indels: 34
0.71 0.16 0.13
Matches are distributed among these distances:
42 5 0.03
43 21 0.11
44 132 0.69
45 31 0.16
46 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (44 bp):
AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
Found at i:93062756 original size:132 final size:132
Alignment explanation
Indices: 93062519--93062799 Score: 449
Period size: 132 Copynumber: 2.1 Consensus size: 132
93062509 CAAAGAAACA
* * * *
93062519 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATTTGACATTCTTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAACAGATCTGACACTCCTGTGCTT
*
93062584 ACAGCGAAGTAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
93062649 GC-
131 -CT
93062651 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAA-ATAACAGATCTGACACTCCTGTGCT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATC-AAAGATAACAGATCTGACACTCCTGTGCT
* * *
93062715 TACAGCGAAGCAGATCGACGATTTCAGCATGGTATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
65 TACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
93062780 ACT
130 ACT
*
93062783 AGATTTGGCATCTCTGT
1 AGATTTGGCATCCCTGT
93062800 ATTAGCGGAG
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
131 1 0.01
132 134 0.97
133 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAACAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
CT
Found at i:93063151 original size:205 final size:205
Alignment explanation
Indices: 93062809--93063310 Score: 758
Period size: 205 Copynumber: 2.4 Consensus size: 205
93062799 TATTAGCGGA
*
93062809 GAGCAAATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * * *
93062874 TTGGCATCTCTGTATTTTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGTAGA
66 TTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGA
* * * * **
93062939 CACATAGCAGAT-TCAAACTTCAGAT-GTCTATACTGAAGTAGATCCAAGATGGTTTGGCATCCT
131 CACATAGCAGATCTC-AACTTCAGATGGT-TATACTGAAGCAGATCCAACACGATTTAACATCCT
93063002 TGTGCTTACAAG
194 TGTGCTTACAAG
* *
93063014 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTCGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* *
93063079 TTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCAGTTCAATGG-GGAGCAG
66 TTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGAGG-GCAG
* *
93063143 ATACATAGCAGATCTCACCTTCAGATGGTTATACTGAAGCAGATCCAACACGATTTAACATCCTT
130 ACACATAGCAGATCTCAACTTCAGATGGTTATACTGAAGCAGATCCAACACGATTTAACATCCTT
93063208 GTGCTTACAAG
195 GTGCTTACAAG
* *
93063219 GAGCAAATCGAAGACACAGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * *
93063284 TTGACATCTCTGTATTGGCGGAGAGCA
66 TTGGCATCTCTGTATTGTCAGAGAGCA
93063311 GATCAAAGAT
Statistics
Matches: 270, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
204 2 0.01
205 264 0.98
206 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGA
CACATAGCAGATCTCAACTTCAGATGGTTATACTGAAGCAGATCCAACACGATTTAACATCCTTG
TGCTTACAAG
Found at i:93065117 original size:20 final size:20
Alignment explanation
Indices: 93065094--93065258 Score: 57
Period size: 20 Copynumber: 8.4 Consensus size: 20
93065084 ATATTATAAA
93065094 ATTATTTTATTATATATATT
1 ATTATTTTATTATATATATT
* *
93065114 ATTA-TTTGTTATGT-T-TT
1 ATTATTTTATTATATATATT
* * *
93065131 ATT-TTTCA-CAAAT-TATT
1 ATTATTTTATTATATATATT
*
93065148 ATTATTGTT-TTACATTATCATT
1 ATTATT-TTATTATA-TAT-ATT
* *
93065170 TTTATATTATTAT-TATATT
1 ATTATTTTATTATATATATT
* *
93065189 TTTACTTGTATTATATAT-TT
1 ATTA-TTTTATTATATATATT
* *
93065209 ATTA-ATTATTTATATACATT
1 ATTATTTTA-TTATATATATT
*
93065229 ATT-TTTTA-CATATATACTTT
1 ATTATTTTATTATATATA--TT
93065249 CATTATTTTA
1 -ATTATTTTA
93065259 CATTATGCCA
Statistics
Matches: 105, Mismatches: 22, Indels: 34
0.65 0.14 0.21
Matches are distributed among these distances:
16 3 0.03
17 12 0.11
18 11 0.10
19 25 0.24
20 30 0.29
21 9 0.09
22 15 0.14
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTATTTTATTATATATATT
Found at i:93065257 original size:22 final size:20
Alignment explanation
Indices: 93065219--93065261 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
93065209 ATTAATTATT
93065219 TATATACATTATTTTTTACA
1 TATATACATTATTTTTTACA
*
93065239 TATATACTTTCATTATTTTACA
1 TATATACATT-ATT-TTTTACA
93065261 T
1 T
93065262 TATGCCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATACATTATTTTTTACA
Found at i:93065342 original size:25 final size:24
Alignment explanation
Indices: 93065278--93065361 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 24
93065268 ATTTTTATGC
*
93065278 TATTATATTTCTTATTTCCTATACATT
1 TATTATATTT-TTATTT-ATA-ACATT
**
93065305 TAAAATATATTTTATTATATAACATT
1 TATTATAT-TTTTATT-TATAACATT
**
93065331 TATTATATTTTTATTCTATATTATT
1 TATTATATTTTTATT-TATAACATT
93065356 TATTAT
1 TATTAT
93065362 TTATTATAGG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
25 20 0.43
26 11 0.23
27 13 0.28
28 3 0.06
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTATATTTTTATTTATAACATT
Found at i:93066363 original size:25 final size:26
Alignment explanation
Indices: 93066335--93066392 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
93066325 CCAATTTTTC
93066335 TTTTAAAAAAGGATTA-ATC-AAAAT
1 TTTTAAAAAAGGATTACATCTAAAAT
*
93066359 ATTTT-AAAGAGGATTACATCTTAAAAT
1 -TTTTAAAAAAGGATTACATC-TAAAAT
93066386 TTTTAAA
1 TTTTAAA
93066393 TTTCCAACGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 10 0.36
25 7 0.25
26 4 0.14
27 7 0.25
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (26 bp):
TTTTAAAAAAGGATTACATCTAAAAT
Found at i:93080808 original size:46 final size:47
Alignment explanation
Indices: 93080702--93080823 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
93080692 TGTCTTCGAC
** * *
93080702 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
93080752 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
93080798 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
93080824 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:93085481 original size:45 final size:45
Alignment explanation
Indices: 93085373--93085549 Score: 218
Period size: 45 Copynumber: 4.0 Consensus size: 45
93085363 TCGAATTCAT
* * * *
93085373 TCACTGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
* * * *
93085415 TCACTGGCATTATAGCTTGCTAGGCTCGAAGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
93085460 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
93085505 TCACCGGCATTATAGCTTGCTAGGCTCAAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
93085550 AGGCTCAAAG
Statistics
Matches: 119, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
42 11 0.09
43 16 0.13
44 4 0.03
45 87 0.73
46 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:93085545 original size:90 final size:88
Alignment explanation
Indices: 93085386--93085549 Score: 240
Period size: 90 Copynumber: 1.8 Consensus size: 88
93085376 CTGGCATTTC
* * * * *
93085386 GCCTGCTAGGCTCGAAGCCCGATATCATTTCACTGGCATTATAGCTTGCTAGGCTCGAAGGCCCA
1 GCCTGCTAGGCTCAAAGCCCGATATCATCTCACCGGCATTATAGCTTGCTAGGCTCAAAAGCCCA
93085451 AATAGTATCTCACCAGCATTATA
66 AATAGTATCTCACCAGCATTATA
93085474 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATTATAGCTTGCTAGGCTCAAAAGC
1 GCCTGCTAGGCTCAAA-GCCCG-ATA-TCATCTCACCGGCATTATAGCTTGCTAGGCTCAAAAGC
*
93085538 CCGAATAGTATC
63 CCAAATAGTATC
93085550 AGGCTCAAAG
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
88 15 0.22
89 5 0.07
90 46 0.69
91 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (88 bp):
GCCTGCTAGGCTCAAAGCCCGATATCATCTCACCGGCATTATAGCTTGCTAGGCTCAAAAGCCCA
AATAGTATCTCACCAGCATTATA
Found at i:93085553 original size:24 final size:24
Alignment explanation
Indices: 93085526--93085571 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
93085516 ATAGCTTGCT
93085526 AGGCTCAAAAGCCCGAATAGTATC
1 AGGCTCAAAAGCCCGAATAGTATC
*
93085550 AGGCTCAAAGGCCCGAATAGTA
1 AGGCTCAAAAGCCCGAATAGTA
93085572 CTGTACGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (24 bp):
AGGCTCAAAAGCCCGAATAGTATC
Found at i:93085678 original size:37 final size:37
Alignment explanation
Indices: 93085628--93085703 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
93085618 AAATTAGGTA
*
93085628 CAAGCATCATTCGAATATATCATCCTACATTTTTATT
1 CAAGCATCATTCGAATAGATCATCCTACATTTTTATT
93085665 CAAGCATCATTCGAATAGATCATCCTACATTTTTATT
1 CAAGCATCATTCGAATAGATCATCCTACATTTTTATT
93085702 CA
1 CA
93085704 CTTTTATTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (37 bp):
CAAGCATCATTCGAATAGATCATCCTACATTTTTATT
Found at i:93090897 original size:22 final size:22
Alignment explanation
Indices: 93090858--93090916 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 22
93090848 AGCTAATTTG
*
93090858 GAGCTTACTATTTCAGCTCGTATA
1 GAGCTTACT-GTTCAGCTCG-ATA
93090882 -AGCTTACTGTTCAGCTCGATA
1 GAGCTTACTGTTCAGCTCGATA
93090903 GAGCTTACTGTTCA
1 GAGCTTACTGTTCA
93090917 TCAGCTCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 3 0.09
22 22 0.67
23 8 0.24
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCGATA
Found at i:93105206 original size:122 final size:122
Alignment explanation
Indices: 93104989--93105223 Score: 436
Period size: 122 Copynumber: 1.9 Consensus size: 122
93104979 CAAGGCCAGT
*
93104989 ACAGAGTACGAGGCATTACCAGACTTAACAACACACATAGAAGAAAATCGGGCCATAAAATTTCA
1 ACAGAGTACGAGGCATTACCAAACTTAACAACACACATAGAAGAAAATCGGGCCATAAAATTTCA
93105054 TTTAATTCAAAACTTTTCGAACACATGCATAACAAACAAAGCTAACTAAATGCTAGA
66 TTTAATTCAAAACTTTTCGAACACATGCATAACAAACAAAGCTAACTAAATGCTAGA
*
93105111 ACAGAGTACGAGGCATTACCAAACTTAACAATACACATAGACA-AAAATCGGGCCATAAAATTTC
1 ACAGAGTACGAGGCATTACCAAACTTAACAACACACATAGA-AGAAAATCGGGCCATAAAATTTC
93105175 ATTTAATTCAAAACTTTTCGAACACATGCATAACAAACAAAGCTAACTA
65 ATTTAATTCAAAACTTTTCGAACACATGCATAACAAACAAAGCTAACTA
93105224 TATCATCACA
Statistics
Matches: 110, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
122 109 0.99
123 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.12, T:0.22
Consensus pattern (122 bp):
ACAGAGTACGAGGCATTACCAAACTTAACAACACACATAGAAGAAAATCGGGCCATAAAATTTCA
TTTAATTCAAAACTTTTCGAACACATGCATAACAAACAAAGCTAACTAAATGCTAGA
Found at i:93106538 original size:50 final size:49
Alignment explanation
Indices: 93106420--93106595 Score: 199
Period size: 50 Copynumber: 3.5 Consensus size: 49
93106410 CTGGTACGCA
* * ** *
93106420 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
*
93106469 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
**** * * * *
93106519 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACCATCCGATACACG
93106570 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
93106596 TGCGACCTCA
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 31 0.28
50 43 0.39
51 35 0.32
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:93106603 original size:101 final size:99
Alignment explanation
Indices: 93106420--93106603 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
93106410 CTGGTACGCA
* *
93106420 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
93106485 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * *
93106519 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCCGGTACACATAGTAGCCTGCACT
*
93106584 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
93106604 CACAATAGAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 29 0.39
100 1 0.01
101 44 0.59
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:93109159 original size:55 final size:55
Alignment explanation
Indices: 93109083--93109189 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
93109073 CAAGCCCTAT
* * * *
93109083 GCCCGTGTTAATTTAACAGGTTCGACCACGGGTGTTCCACACGGGTGTGTCGAAC
1 GCCCGTGCTAATTTAACAGGTTCGACCACAGGTCTTCCACACGGGCGTGTCGAAC
* * * *
93109138 GCCCGTGCTATTTTAATAGGTTCGCCCACAGTTCTTCCACACGGGCGTGTCG
1 GCCCGTGCTAATTTAACAGGTTCGACCACAGGTCTTCCACACGGGCGTGTCG
93109190 CAAGACCGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (55 bp):
GCCCGTGCTAATTTAACAGGTTCGACCACAGGTCTTCCACACGGGCGTGTCGAAC
Found at i:93117566 original size:62 final size:61
Alignment explanation
Indices: 93117500--93117623 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 61
93117490 GCAAGGCGTT
93117500 CTTCAAATGGGCATATTGTCAAATCTATGCAATACGCCACCCAAACTTATAAAGAAGTTCAC
1 CTTCAAATGGGCATATTGTCAAATCTATG-AATACGCCACCCAAACTTATAAAGAAGTTCAC
*
93117562 CTTCAAATGGGCATATTGTCAAATCTATGAATATGCCACCCAAACTTATAAAGAAGTTCAC
1 CTTCAAATGGGCATATTGTCAAATCTATGAATACGCCACCCAAACTTATAAAGAAGTTCAC
93117623 C
1 C
93117624 GATCTCACAT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 32 0.52
62 29 0.48
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (61 bp):
CTTCAAATGGGCATATTGTCAAATCTATGAATACGCCACCCAAACTTATAAAGAAGTTCAC
Found at i:93119258 original size:17 final size:17
Alignment explanation
Indices: 93119238--93119287 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 17
93119228 AATAACTAAG
93119238 ATAAATAAAATAGAACA
1 ATAAATAAAATAGAACA
*
93119255 ATAAATTAAATATTAGAATA
1 ATAAA-TAAA-A-TAGAACA
93119275 ATAAA-AAAA-AGAA
1 ATAAATAAAATAGAA
93119288 ACTAAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 4 0.14
17 6 0.21
18 7 0.24
19 1 0.03
20 11 0.38
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (17 bp):
ATAAATAAAATAGAACA
Found at i:93121479 original size:29 final size:29
Alignment explanation
Indices: 93121446--93121519 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
93121436 GTTGTGAGAT
* *
93121446 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
93121475 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
93121504 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
93121520 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:93136976 original size:12 final size:12
Alignment explanation
Indices: 93136943--93136976 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
93136933 TATTTTTTAA
93136943 TTTCATTTAATT
1 TTTCATTTAATT
93136955 TTT-ATTTAATT
1 TTTCATTTAATT
*
93136966 TTTCATATAAT
1 TTTCATTTAAT
93136977 ATTATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTCATTTAATT
Found at i:93137214 original size:92 final size:92
Alignment explanation
Indices: 93137057--93137228 Score: 247
Period size: 92 Copynumber: 1.9 Consensus size: 92
93137047 TGCATGTACT
* * * * * *
93137057 ATAATAAAAAATCTATTGATAATTCAGGTATTATATTGGACATTTTCAAAGTATAAATACCACAT
1 ATAATAAAAAATCTATTAATAATCCAAGTATTACATTGAACATTTTCAAAGTACAAATACCACAT
93137122 TGAACATTTTATGAATGTATATGAACC
66 TGAACATTTTATGAATGTATATGAACC
* *
93137149 ATAATAAAACA-CATATTAATAATCCAAGTATTACATTGAACATTTTCAAAGTACAAATATCACA
1 ATAATAAAAAATC-TATTAATAATCCAAGTATTACATTGAACATTTTCAAAGTACAAATACCACA
*
93137213 TTGGACATTTTATGAA
65 TTGAACATTTTATGAA
93137229 AATATAGATA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
91 1 0.01
92 69 0.99
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (92 bp):
ATAATAAAAAATCTATTAATAATCCAAGTATTACATTGAACATTTTCAAAGTACAAATACCACAT
TGAACATTTTATGAATGTATATGAACC
Found at i:93138071 original size:159 final size:156
Alignment explanation
Indices: 93137881--93138196 Score: 460
Period size: 156 Copynumber: 2.0 Consensus size: 156
93137871 ACATTTTAAG
* *
93137881 AAATTTATTTAATCTCGTTCATTTGATATTTGTTAATATTTT-AAAAAAA-CGATAAATCTAAAA
1 AAATTTATTTAATCTCATTCATATGATATTTGTTAATATTTTAAAAAAAATCGATAAATCTAAAA
*
93137944 TAATACATCAAAACAAATTAATATTAATATTAATATATCAATTCC-AAAAAAAATGGTACACTCA
66 TAATACATCAAAAC-----AA-ATTAATACTAATATATCAATTCCAAAAAAAAATGGTACACTCA
93138008 TCCATGT-GAAATTGATTATATTATTTTTACAT
125 TCCATGTAG-AATTGATTATATTATTTTTACAT
* * *
93138040 AAATTTATTTAATCTCATTCATATGATATTTGTTAATTTTTTAAAAAAAATTGATAAATCTAGAA
1 AAATTTATTTAATCTCATTCATATGATATTTGTTAATATTTTAAAAAAAATCGATAAATCTAAAA
*
93138105 TAATATATCAAAACAAATTAATACTAATATATCAATTCCAAAAAAAAATGGTACACTCATCCATG
66 TAATACATCAAAACAAATTAATACTAATATATCAATTCCAAAAAAAAATGGTACACTCATCCATG
* *
93138170 TAGTATTGATTATCTTATTTTTACAT
131 TAGAATTGATTATATTATTTTTACAT
93138196 A
1 A
93138197 TACCAATAAA
Statistics
Matches: 144, Mismatches: 9, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
155 22 0.15
156 50 0.35
157 1 0.01
159 39 0.27
160 7 0.05
161 25 0.17
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (156 bp):
AAATTTATTTAATCTCATTCATATGATATTTGTTAATATTTTAAAAAAAATCGATAAATCTAAAA
TAATACATCAAAACAAATTAATACTAATATATCAATTCCAAAAAAAAATGGTACACTCATCCATG
TAGAATTGATTATATTATTTTTACAT
Found at i:93142146 original size:44 final size:44
Alignment explanation
Indices: 93142003--93142161 Score: 140
Period size: 44 Copynumber: 3.6 Consensus size: 44
93141993 TCATCATGGC
* * *** *
93142003 AAATCTTATCTCCCTGAAGTTGTAGCAAAGTAGATTAAAGCCACT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAACCA-T
* *
93142048 -AATCTTATCTCCCTAAAGTTGTAATGGAGTAGATTAAAACCAT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAACCAT
* * * * **
93142091 AAACCTTATCTCCCTTAAGTTGCAGTGGAGTAGGTTGAAGTCAT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAACCAT
* * * *
93142135 GAATCTCATCTCCCTGAAGTTACAGTG
1 AAATCTTATCTCCCTAAAGTTGCAGTG
93142162 TAGCATATTG
Statistics
Matches: 94, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.01
44 93 0.99
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (44 bp):
AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAACCAT
Found at i:93142173 original size:44 final size:44
Alignment explanation
Indices: 93142098--93142215 Score: 123
Period size: 45 Copynumber: 2.7 Consensus size: 44
93142088 CATAAACCTT
* * *
93142098 ATCTCCCTTAAGTTGCAGTGGAGTAGGTTGAAG-TCATG-AATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A-GAAATCTC
* * *
93142142 ATCTCCCTGAAGTTACAGTGTAGCATATTGAAGATAGCAAATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG-AAATCTC
* *
93142187 ATTTCCCTGAAGTTGCAGTGGAACAGATT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATT
93142216 AAAGCTGCAA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.02
44 28 0.47
45 31 0.52
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAATCTC
Found at i:93142345 original size:44 final size:44
Alignment explanation
Indices: 93142282--93142493 Score: 192
Period size: 44 Copynumber: 4.8 Consensus size: 44
93142272 TACCATGACG
* * *
93142282 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCACA
* *
93142326 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCACA
* * * * * ** **
93142370 AACCTTATCTCCTTAAAATTGCAGTAGAGCAGGCTGAAATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCACA
* * * * * **
93142414 AATCTCATCTCCCTAAAGTTCCAGTGGAGCAAATTGAAGA-TATG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ACCACA
* * *
93142458 AATCTTATTTCCGTGAAGTTGCAGTGGAACAGATTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
93142494 TAGATGCCAG
Statistics
Matches: 135, Mismatches: 32, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
44 134 0.99
45 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCACA
Found at i:93144257 original size:26 final size:26
Alignment explanation
Indices: 93144228--93144355 Score: 88
Period size: 26 Copynumber: 5.0 Consensus size: 26
93144218 ACTATTGTCC
93144228 ATTTTAAATTTATATATATATTATTT
1 ATTTTAAATTTATATATATATTATTT
* *
93144254 ATTTTAAA-CTATTATACATATTATTT
1 ATTTTAAATTTA-TATATATATTATTT
* * *
93144280 ATTTT-GATTT-TTTTTATA-T-TTT
1 ATTTTAAATTTATATATATATTATTT
* * *
93144302 ATTTCAAACTATTTTATATATATTAGTT
1 ATTTTAAA-T-TTATATATATATTATTT
* * *
93144330 ATTTTAAAATTCT-TATATGTTATTT
1 ATTTTAAATTTATATATATATTATTT
93144355 A
1 A
93144356 GTTATACTGC
Statistics
Matches: 77, Mismatches: 17, Indels: 17
0.69 0.15 0.15
Matches are distributed among these distances:
22 7 0.09
23 2 0.03
24 6 0.08
25 16 0.21
26 36 0.47
27 1 0.01
28 9 0.12
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTTAAATTTATATATATATTATTT
Found at i:93144429 original size:25 final size:24
Alignment explanation
Indices: 93144378--93144431 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
93144368 TCTATGTTAA
*
93144378 TTATTTTAAATTCTTTTTTATTAT
1 TTATTGTAAATTCTTTTTTATTAT
93144402 TTATTGTAAACTT-TTTTATTATTAT
1 TTATTGTAAA-TTCTTTT-TTATTAT
93144427 TTATT
1 TTATT
93144432 TTAAGATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.69
Consensus pattern (24 bp):
TTATTGTAAATTCTTTTTTATTAT
Found at i:93144431 original size:49 final size:49
Alignment explanation
Indices: 93144246--93144435 Score: 140
Period size: 49 Copynumber: 3.8 Consensus size: 49
93144236 TTTATATATA
* * *
93144246 TATTATTTATTTTAAACTA-TTATACATATTATTTATTTT-GATT-TTTTT
1 TATTATTTA-TTTAAACTATTTTTA-TTATTATTTATTTTAAATTCTTTTT
* * *
93144294 TA-TATTTTATTTCAAACTATTTTATATATATTAGTTATTTTAAAATTCTTATA
1 TATTA-TTTATTT-AAACTATTTT-TAT-TATTATTTATTTT-AAATTCTTTTT
* * * * * * *
93144347 TGTTATTTAGTTATACTGCTTTCTA-TGTTAATTATTTTAAATTCTTTTT
1 TATTATTTATTTAAACT-ATTTTTATTATTATTTATTTTAAATTCTTTTT
93144396 TATTATTTATTGTAAACT-TTTTTATTATTATTTATTTTAA
1 TATTATTTATT-TAAACTATTTTTATTATTATTTATTTTAA
93144436 GATTTCATAT
Statistics
Matches: 109, Mismatches: 21, Indels: 23
0.71 0.14 0.15
Matches are distributed among these distances:
47 5 0.05
48 17 0.16
49 33 0.30
50 30 0.28
52 9 0.08
53 13 0.12
54 2 0.02
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (49 bp):
TATTATTTATTTAAACTATTTTTATTATTATTTATTTTAAATTCTTTTT
Found at i:93144540 original size:21 final size:22
Alignment explanation
Indices: 93144516--93144557 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
93144506 CACTTATTAT
93144516 TTATTTTAAACT-TTTTATATG
1 TTATTTTAAACTGTTTTATATG
*
93144537 TTATTTTAAATTGTTTTATAT
1 TTATTTTAAACTGTTTTATAT
93144558 TATTTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TTATTTTAAACTGTTTTATATG
Found at i:93144562 original size:20 final size:19
Alignment explanation
Indices: 93144512--93144562 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 19
93144502 TTTTCACTTA
93144512 TTATTTATTTTAAACTTTT
1 TTATTTATTTTAAACTTTT
93144531 TATATGTTATTTTAAA-TTGTT
1 T-TAT-TTATTTTAAACTT-TT
93144552 TTATATTATTT
1 TTAT-TTATTT
93144563 ATTTCATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TTATTTATTTTAAACTTTT
Found at i:93147316 original size:10 final size:9
Alignment explanation
Indices: 93147298--93147333 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
93147288 GATTTTTGAG
93147298 ATGATATAT
1 ATGATATAT
93147307 ATG-TATAT
1 ATGATATAT
93147315 ATG-TATAT
1 ATGATATAT
93147323 ATG-TATAT
1 ATGATATAT
93147331 ATG
1 ATG
93147334 TGTATGATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 24 0.89
9 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (9 bp):
ATGATATAT
Found at i:93147338 original size:10 final size:8
Alignment explanation
Indices: 93147302--93147334 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
93147292 TTTGAGATGA
93147302 TATATATG
1 TATATATG
93147310 TATATATG
1 TATATATG
93147318 TATATATG
1 TATATATG
93147326 TATATATG
1 TATATATG
93147334 T
1 T
93147335 GTATGATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TATATATG
Found at i:93149894 original size:21 final size:20
Alignment explanation
Indices: 93149849--93149895 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
93149839 AATAAAAAAA
* *
93149849 TTTG-TTTTTTTTGTTGCTT
1 TTTGCTTTTTTTTATTACTT
93149868 TCTTGCTTTTTTTTATTACTAT
1 T-TTGCTTTTTTTTATTACT-T
93149890 TTTGCT
1 TTTGCT
93149896 ATTATTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 3 0.13
21 17 0.74
22 2 0.09
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.72
Consensus pattern (20 bp):
TTTGCTTTTTTTTATTACTT
Found at i:93155544 original size:24 final size:24
Alignment explanation
Indices: 93155517--93155564 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
93155507 GTTTTAGTTG
93155517 TATTAGTAAATGATAATATTTTGA
1 TATTAGTAAATGATAATATTTTGA
*
93155541 TATTAGTAAATGTTAATATTTTGA
1 TATTAGTAAATGATAATATTTTGA
93155565 GCTTGCAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (24 bp):
TATTAGTAAATGATAATATTTTGA
Found at i:93156753 original size:29 final size:31
Alignment explanation
Indices: 93156710--93156771 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
93156700 GTAAATAGTC
93156710 AATTTATACTTTAAT-CTCTTAAATTTAATAA
1 AATTTATACTTTAATACT-TTAAATTTAATAA
* *
93156741 AATTTA-A-TTTAATACTTTAACTTTTATAA
1 AATTTATACTTTAATACTTTAAATTTAATAA
93156770 AA
1 AA
93156772 ATATAAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 19 0.68
30 3 0.11
31 6 0.21
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (31 bp):
AATTTATACTTTAATACTTTAAATTTAATAA
Found at i:93156801 original size:16 final size:18
Alignment explanation
Indices: 93156765--93156798 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93156755 CTTTAACTTT
93156765 TATAAAAATATAAACTAA
1 TATAAAAATATAAACTAA
*
93156783 TATAATAATA-AAACTA
1 TATAAAAATATAAACTA
93156799 TATTTTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
TATAAAAATATAAACTAA
Found at i:93162281 original size:13 final size:13
Alignment explanation
Indices: 93162263--93162290 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
93162253 GAAAGATTTC
93162263 GAGAAGAAAAGTT
1 GAGAAGAAAAGTT
93162276 GAGAAGAAAAGTT
1 GAGAAGAAAAGTT
93162289 GA
1 GA
93162291 AGATCCAAAA
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:0.54, C:0.00, G:0.32, T:0.14
Consensus pattern (13 bp):
GAGAAGAAAAGTT
Found at i:93162335 original size:43 final size:43
Alignment explanation
Indices: 93162274--93162357 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
93162264 AGAAGAAAAG
93162274 TTGAGAAGAAAAGTTGAAGATCCAAAACAATAAACTTTGGATT
1 TTGAGAAGAAAAGTTGAAGATCCAAAACAATAAACTTTGGATT
**
93162317 TTGAGAAGAAAAGTTGAAGATGTAAAACAATAAACTTTGGA
1 TTGAGAAGAAAAGTTGAAGATCCAAAACAATAAACTTTGGA
93162358 GTTCAATACG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (43 bp):
TTGAGAAGAAAAGTTGAAGATCCAAAACAATAAACTTTGGATT
Found at i:93162809 original size:23 final size:22
Alignment explanation
Indices: 93162767--93162810 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
93162757 ATGAGCTCAA
*
93162767 TATTATATTTATTAAGTTTTAT
1 TATTATATTTATTAAATTTTAT
93162789 TATT-TATTTATTCCAAATTTTA
1 TATTATATTTATT--AAATTTTA
93162811 GATTTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTATATTTATTAAATTTTAT
Found at i:93164678 original size:16 final size:16
Alignment explanation
Indices: 93164659--93164689 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93164649 CTTCTTCACT
93164659 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
93164675 TACTTACTTACTTAA
1 TACTCACTTACTTAA
93164690 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:93164695 original size:20 final size:20
Alignment explanation
Indices: 93164656--93164695 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
93164646 AAACTTCTTC
* *
93164656 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
93164676 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
93164696 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:93166382 original size:27 final size:27
Alignment explanation
Indices: 93166299--93166402 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 27
93166289 AGGAAGCGTC
* *
93166299 CTGGTGGCTATGCCACAATTATCT-GAT
1 CTGGTGGCTCTGCCACAA-TATCTATAT
* * * *
93166326 CTGGTGGCTCTACTAC-ATATATATGTT
1 CTGGTGGCTCTGCCACAATATCTAT-AT
93166353 CTGGTGGCTCTGCCACAATATCTATAT
1 CTGGTGGCTCTGCCACAATATCTATAT
* * *
93166380 CTGGTGACTCCGTCACAATATCT
1 CTGGTGGCTCTGCCACAATATCT
93166403 GGCACCTCGT
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
25 4 0.07
26 1 0.02
27 49 0.80
28 7 0.11
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTATAT
Found at i:93167576 original size:53 final size:53
Alignment explanation
Indices: 93167496--93167703 Score: 197
Period size: 55 Copynumber: 3.8 Consensus size: 53
93167486 ATCCTTTTGA
* * * *
93167496 AACTTACCATTGCCATGTCTCGACATGGGT-TTACATGTTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACAT-GGTCTTACATGGTATCCTTGCCTTATG
* * * *
93167549 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAAT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT--G
* * * * *
93167604 AACTTATCAATGCCATGTCTTGACATGGTCTTACACGATATCCTTGCATTA-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* *
93167656 AAACCTTACCAATTGCTATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
93167704 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
52 5 0.04
53 40 0.32
54 7 0.06
55 70 0.56
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:93172299 original size:228 final size:228
Alignment explanation
Indices: 93171902--93172378 Score: 837
Period size: 228 Copynumber: 2.1 Consensus size: 228
93171892 CCAAAACATA
* *
93171902 AACAGTGAGTTACACAGCCAGGACACACTCCCGTGTCCTTACCCGTGTGCCTCACATGGTCTGGG
1 AACAGTGAGTTACACAGCCAGGACACACTCCCGTGTCCTTACCCGTATGCCTCACATGGCCTGGG
* *
93171967 CACATGCCCATGTCCCTAGACATATGGTCCTAAGTCACAAATAGAGAGTTACATGGCCTAGACAT
66 CACACGCCCATGTCCCTAGACATATGGTCCTAAGTCACAAACAGAGAGTTACATGGCCTAGACAT
* * * *
93172032 ATGCTTGTGTCCTTACCCGTGCAAACTTTGCACTAACAATGCCACACACGATCTGGGCACATGTC
131 ATGCTCGGGTCCTTACCCGTGAAAACTTTGCACTAACAATGCCACACACGATCTGGGCACATGCC
* *
93172097 CGTTTGCCTTGTCCGTGTGGCCTCAAAATGATG
196 CATTTGCCTTGTCCGTGTGGCCCCAAAATGATG
* *
93172130 AACAGTGAGTTACACAGCCTGGACACACTCTCGTGTCCTTACCCGTATGCCTCACATGGCCTGGG
1 AACAGTGAGTTACACAGCCAGGACACACTCCCGTGTCCTTACCCGTATGCCTCACATGGCCTGGG
93172195 CACACGCCCATGTCCCTAGACATATGGTCCTAAGTCACAAACAGAGAGTTACATGGCCTAGACAT
66 CACACGCCCATGTCCCTAGACATATGGTCCTAAGTCACAAACAGAGAGTTACATGGCCTAGACAT
*
93172260 TTGCTCGGGTCCTTACCCGTGAAAACTTTGCACTAACAATGCCACACACGATCTGGGCACATGCC
131 ATGCTCGGGTCCTTACCCGTGAAAACTTTGCACTAACAATGCCACACACGATCTGGGCACATGCC
93172325 CATTTGCCTTGTCCGTGTGGCCCCAAAATGATG
196 CATTTGCCTTGTCCGTGTGGCCCCAAAATGATG
93172358 AACAGTGAGTTACACAGCCAG
1 AACAGTGAGTTACACAGCCAG
93172379 CCACAAGGCC
Statistics
Matches: 235, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
228 235 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (228 bp):
AACAGTGAGTTACACAGCCAGGACACACTCCCGTGTCCTTACCCGTATGCCTCACATGGCCTGGG
CACACGCCCATGTCCCTAGACATATGGTCCTAAGTCACAAACAGAGAGTTACATGGCCTAGACAT
ATGCTCGGGTCCTTACCCGTGAAAACTTTGCACTAACAATGCCACACACGATCTGGGCACATGCC
CATTTGCCTTGTCCGTGTGGCCCCAAAATGATG
Found at i:93177398 original size:16 final size:15
Alignment explanation
Indices: 93177373--93177404 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
93177363 GATAGGTCTC
93177373 TGATGAGCTTCCAAT
1 TGATGAGCTTCCAAT
93177388 TGATCGAGCTTCCAAT
1 TGAT-GAGCTTCCAAT
93177404 T
1 T
93177405 ATCTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (15 bp):
TGATGAGCTTCCAAT
Found at i:93179066 original size:18 final size:18
Alignment explanation
Indices: 93179024--93179066 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
93179014 GCCCATTCCG
* *
93179024 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
93179042 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
93179060 AAGTATG
1 AAGTATG
93179067 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:93179594 original size:28 final size:28
Alignment explanation
Indices: 93179538--93179717 Score: 267
Period size: 28 Copynumber: 6.5 Consensus size: 28
93179528 TAAATTGTGC
*
93179538 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
93179565 AGCACTAAGTGTACGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
93179593 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
93179621 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* * *
93179648 AGCACTAAGTGTGCGAGTTCGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
93179676 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
93179703 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
93179718 GACTTATTAT
Statistics
Matches: 143, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.45
28 78 0.55
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:93179642 original size:55 final size:55
Alignment explanation
Indices: 93179538--93179717 Score: 272
Period size: 55 Copynumber: 3.3 Consensus size: 55
93179528 TAAATTGTGC
* *
93179538 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTACGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
93179593 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * * *
93179648 AGCACTAAGTGTGCGAGTTCGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
93179703 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
93179718 GACTTATTAT
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 90 0.78
56 26 0.22
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:93179679 original size:83 final size:82
Alignment explanation
Indices: 93179538--93179717 Score: 279
Period size: 83 Copynumber: 2.2 Consensus size: 82
93179528 TAAATTGTGC
* *
93179538 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTACGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTACGAGTTCGACTATATAGCACTAAGT
*
93179603 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
* * *
93179621 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTCGATTATATAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTACGAGTTCGACTATATAGCACTAAGT
*
93179686 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
93179703 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
93179718 GACTTATTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
82 22 0.25
83 67 0.75
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTACGAGTTCGACTATATAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:93195093 original size:19 final size:20
Alignment explanation
Indices: 93195052--93195093 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
93195042 TGTTTTGAGC
93195052 CTCG-ATGGGCCTAAATGGG
1 CTCGTATGGGCCTAAATGGG
*
93195071 -TCGTATGGGCC-CAATGGG
1 CTCGTATGGGCCTAAATGGG
93195089 CTCGT
1 CTCGT
93195094 GGGCCCATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.17, C:0.24, G:0.36, T:0.24
Consensus pattern (20 bp):
CTCGTATGGGCCTAAATGGG
Found at i:93195334 original size:27 final size:27
Alignment explanation
Indices: 93195304--93195455 Score: 125
Period size: 27 Copynumber: 5.8 Consensus size: 27
93195294 CACCCTTGAC
**
93195304 TTGTAAAATTATTGAAATACCCCCGGG
1 TTGTAAAATTATTGAAATACCCCCGAT
* **
93195331 TTGT-AAA--ATT--ACTACCCCTAAT
1 TTGTAAAATTATTGAAATACCCCCGAT
* *
93195353 TTGTGAAATTATTGAAATACCCTCGAT
1 TTGTAAAATTATTGAAATACCCCCGAT
* ** * * *
93195380 TTGTGAAATTATCAAAATATCCCCAAC
1 TTGTAAAATTATTGAAATACCCCCGAT
* *
93195407 TTGTAAAATTACTAAAATACCCCCGAT
1 TTGTAAAATTATTGAAATACCCCCGAT
*
93195434 TTGTAAAATTACTGAAATACCC
1 TTGTAAAATTATTGAAATACCC
93195456 TTGTAGTATA
Statistics
Matches: 98, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
22 11 0.11
23 3 0.03
24 3 0.03
25 3 0.03
26 3 0.03
27 75 0.77
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTATTGAAATACCCCCGAT
Found at i:93195494 original size:27 final size:27
Alignment explanation
Indices: 93195435--93195496 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
93195425 ACCCCCGATT
* *
93195435 TGTAAAATTACTGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTATAG
* *
93195462 TATAAAGTTACCGAAATACCCTTATAAG
1 TGTAAAATTACCGAAATACCCTTAT-AG
93195490 -GTAAAAT
1 TGTAAAAT
93195497 GACTTTTGCC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTATAG
Found at i:93196373 original size:27 final size:27
Alignment explanation
Indices: 93196314--93196373 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
93196304 ATTTGGGCTA
* *
93196314 GGCCCAATTGATTCTGTTATGGGCTGT
1 GGCCCAAATGATTCTGTAATGGGCTGT
* *
93196341 GACCCAAATGATAT-TGTAATGGGCTTT
1 GGCCCAAATGAT-TCTGTAATGGGCTGT
93196368 GGCCCA
1 GGCCCA
93196374 TGTGTTCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (27 bp):
GGCCCAAATGATTCTGTAATGGGCTGT
Found at i:93197101 original size:29 final size:31
Alignment explanation
Indices: 93197049--93197116 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 31
93197039 ATATTTTATA
*
93197049 ATTA-TTTAATTAGATAATTATTATT-TATTT
1 ATTATTTTAATAAGATAATTATTATTAT-TTT
93197079 ATTATTTTAATAAGAT-ATT-TTATTATTTT
1 ATTATTTTAATAAGATAATTATTATTATTTT
93197108 ATTATTTTA
1 ATTATTTTA
93197117 TTTAGTCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
29 17 0.49
30 8 0.23
31 10 0.29
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (31 bp):
ATTATTTTAATAAGATAATTATTATTATTTT
Found at i:93197105 original size:8 final size:8
Alignment explanation
Indices: 93197094--93197118 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
93197084 TTTAATAAGA
93197094 TATTTTAT
1 TATTTTAT
93197102 TATTTTAT
1 TATTTTAT
93197110 TATTTTAT
1 TATTTTAT
93197118 T
1 T
93197119 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:93197118 original size:21 final size:20
Alignment explanation
Indices: 93197066--93197119 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
93197056 AATTAGATAA
93197066 TTATTATTTA-TTTATTATT
1 TTATTATTTATTTTATTATT
* **
93197085 TTAATAAGATATTTTATTATT
1 TT-ATTATTTATTTTATTATT
93197106 TTATTATTTTATTT
1 TTATTA-TTTATTT
93197120 AGTCTATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
19 2 0.08
20 8 0.31
21 16 0.62
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATTATTTATTTTATTATT
Found at i:93199227 original size:27 final size:27
Alignment explanation
Indices: 93199197--93199363 Score: 162
Period size: 27 Copynumber: 6.2 Consensus size: 27
93199187 GGTTGTTAAG
* *
93199197 ACCCACGACTTGTAAAATTACT-AAATT
1 ACCCTCGATTTGTAAAATTACTGAAA-T
**
93199224 ACCCTCAGA-TTGTAAAATTACCAAAAT
1 ACCCTC-GATTTGTAAAATTACTGAAAT
** * *
93199251 ACCCTTAATTTGTGAAATTATTGAAAT
1 ACCCTCGATTTGTAAAATTACTGAAAT
*
93199278 ACCCTCGATTTGTGAAATTACTGAAAT
1 ACCCTCGATTTGTAAAATTACTGAAAT
* *
93199305 ACCCTTGACTTGTAAAATTACTGAAAT
1 ACCCTCGATTTGTAAAATTACTGAAAT
*
93199332 ACACC-AGATTTGTAAAATTA-TCGAAAT
1 AC-CCTCGATTTGTAAAATTACT-GAAAT
93199359 ACCCT
1 ACCCT
93199364 TGTAGTGTAA
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.03
27 107 0.91
28 7 0.06
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
ACCCTCGATTTGTAAAATTACTGAAAT
Found at i:93199296 original size:54 final size:54
Alignment explanation
Indices: 93199204--93199364 Score: 193
Period size: 54 Copynumber: 3.0 Consensus size: 54
93199194 AAGACCCACG
*
93199204 ACTTGTAAAATTACT-AAATTACCCTCAGA-TTGTAAAATTACCAAAATACCCTTA
1 ACTTGTAAAATTACTGAAA-TACCCTC-GATTTGTAAAATTACCGAAATACCCTTA
* * * * * *
93199258 ATTTGTGAAATTATTGAAATACCCTCGATTTGTGAAATTACTGAAATACCCTTG
1 ACTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTA
* *
93199312 ACTTGTAAAATTACTGAAATACACC-AGATTTGTAAAATTATCGAAATACCCTT
1 ACTTGTAAAATTACTGAAATAC-CCTCGATTTGTAAAATTACCGAAATACCCTT
93199365 GTAGTGTAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.02
54 83 0.92
55 5 0.06
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (54 bp):
ACTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTA
Found at i:93199350 original size:81 final size:80
Alignment explanation
Indices: 93199197--93199363 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 80
93199187 GGTTGTTAAG
*
93199197 ACCCACGACTTGTAAAATTACTAAATTACCCTCAGATTGTAAAATTACCAAAATACCCTTAATTT
1 ACCCTCGACTTGTAAAATTACTAAATTACCCTCAGATTGTAAAATTACCAAAATACCC-TAATTT
* *
93199262 GTGAAATTATTGAAAT
65 GTAAAATTATCGAAAT
* * * **
93199278 ACCCTCGATTTGTGAAATTACTGAAA-TACCCT-TGACTTGTAAAATTACTGAAATACACC-AGA
1 ACCCTCGACTTGTAAAATTACT-AAATTACCCTCAGA-TTGTAAAATTACCAAAATAC-CCTA-A
93199340 TTTGTAAAATTATCGAAAT
62 TTTGTAAAATTATCGAAAT
93199359 ACCCT
1 ACCCT
93199364 TGTAGTGTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
80 3 0.04
81 66 0.89
82 5 0.07
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (80 bp):
ACCCTCGACTTGTAAAATTACTAAATTACCCTCAGATTGTAAAATTACCAAAATACCCTAATTTG
TAAAATTATCGAAAT
Found at i:93199372 original size:27 final size:27
Alignment explanation
Indices: 93199342--93199403 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
93199332 ACACCAGATT
* * *
93199342 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCCTGTAG
* *
93199369 TGTAAAGTTACCAAAATACCCCTGTCG
1 TGTAAAATTACCAAAATACCCCTGTAG
*
93199396 GGTAAAAT
1 TGTAAAAT
93199404 GACTATTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCCTGTAG
Found at i:93199386 original size:54 final size:54
Alignment explanation
Indices: 93199207--93199387 Score: 136
Period size: 54 Copynumber: 3.4 Consensus size: 54
93199197 ACCCACGACT
* * * ** * **
93199207 TGTAAAATTACTAAATTACCCTCAGA-TTGTAAAATTACCAAAATACCCTTAATT
1 TGTAAAATTACCAAAATACAC-CAGATTTGTAAAATTACTGAAATACCCTTGACG
* *** * * *
93199261 TGTGAAATTATTGAAATAC-CCTCGATTTGTGAAATTACTGAAATACCCTTGACT
1 TGTAAAATTACCAAAATACACC-AGATTTGTAAAATTACTGAAATACCCTTGACG
**
93199315 TGTAAAATTACTGAAATACACCAGATTTGTAAAATTA-TCGAAATACCCTTGTA-G
1 TGTAAAATTACCAAAATACACCAGATTTGTAAAATTACT-GAAATACCCTTG-ACG
*
93199369 TGTAAAGTTACCAAAATAC
1 TGTAAAATTACCAAAATAC
93199388 CCCTGTCGGG
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
52 1 0.01
53 4 0.04
54 96 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.33
Consensus pattern (54 bp):
TGTAAAATTACCAAAATACACCAGATTTGTAAAATTACTGAAATACCCTTGACG
Found at i:93199386 original size:81 final size:79
Alignment explanation
Indices: 93199211--93199389 Score: 184
Period size: 81 Copynumber: 2.2 Consensus size: 79
93199201 ACGACTTGTA
* * *
93199211 AAATTACTAAATTACCCTCAGATTGTAAAATTACCAAAATACCCTTAATTTGTGAAATTATTGAA
1 AAATTACTAAAATACCCTCAGATTGTAAAATTACCAAAATACCC-TAATTTGTAAAATTATCGAA
*
93199276 ATACCCTCGATTTGT
65 ATACCCTCGATGTGT
* * **
93199291 GAAATTACTGAAATACCCT-TGACTTGTAAAATTACTGAAATACACC-AGATTTGTAAAATTATC
1 -AAATTACTAAAATACCCTCAGA-TTGTAAAATTACCAAAATAC-CCTA-ATTTGTAAAATTATC
*
93199354 GAAATACCCTTG-TAGTGT
62 GAAATACCCTCGAT-GTGT
*
93199372 AAAGTTACCAAAATACCC
1 AAA-TTACTAAAATACCC
93199390 CTGTCGGGTA
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
80 7 0.09
81 73 0.89
82 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (79 bp):
AAATTACTAAAATACCCTCAGATTGTAAAATTACCAAAATACCCTAATTTGTAAAATTATCGAAA
TACCCTCGATGTGT
Found at i:93199806 original size:22 final size:22
Alignment explanation
Indices: 93199758--93199817 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
93199748 TTAATCTGAT
93199758 TATGGCTCTGTGCCAACCTAAA
1 TATGGCTCTGTGCCAACCTAAA
* * * * *
93199780 AATGGCTCTGTGCCATCTTGAC
1 TATGGCTCTGTGCCAACCTAAA
*
93199802 TATGGCTTTGTGCCAA
1 TATGGCTCTGTGCCAA
93199818 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTAAA
Found at i:93202935 original size:43 final size:42
Alignment explanation
Indices: 93202834--93203028 Score: 133
Period size: 43 Copynumber: 4.6 Consensus size: 42
93202824 AGATTCTGTA
** * * ** * *
93202834 TAAGACCATACCTAGGATATGGCATCGGCATGCGAATTCGTG
1 TAAGACCATATGTGGGACATGGCATCGAAATGAGACTTCGTG
* * * *
93202876 TAAGACCATGTTTGGGACATGGCTTCGAAAATGAGACTTCGTA
1 TAAGACCATATGTGGGACATGGCATCG-AAATGAGACTTCGTG
* * * *
93202919 TAAGGCCATATGTGGGATATGGCATCGATATGAGACATCGTG
1 TAAGACCATATGTGGGACATGGCATCGAAATGAGACTTCGTG
* * * * *
93202961 TAAGACCATA-GGGGGACTATTGGCATCGATATGTGA-TCCCATG
1 TAAGACCATATGTGGGAC-A-TGGCATCGAAATGAGACT-TCGTG
* *
93203004 TAAGACCATATCTGGGATATGGCAT
1 TAAGACCATATGTGGGACATGGCAT
93203029 TGGCATCTTA
Statistics
Matches: 119, Mismatches: 29, Indels: 10
0.75 0.18 0.06
Matches are distributed among these distances:
41 5 0.04
42 49 0.41
43 61 0.51
44 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (42 bp):
TAAGACCATATGTGGGACATGGCATCGAAATGAGACTTCGTG
Found at i:93210124 original size:21 final size:22
Alignment explanation
Indices: 93210091--93210131 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
93210081 TTCATTTATG
*
93210091 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
93210112 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
93210132 CAATACATTC
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:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:93210573 original size:28 final size:28
Alignment explanation
Indices: 93210542--93210601 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
93210532 CGCCTAAGTT
93210542 TCATTCTCAATATCTCGCACACTAAATG
1 TCATTCTCAATATCTCGCACACTAAATG
* * * *
93210570 TCATTCTCAATATTTCGTACACTGAGTG
1 TCATTCTCAATATCTCGCACACTAAATG
93210598 TCAT
1 TCAT
93210602 ATTTGATTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (28 bp):
TCATTCTCAATATCTCGCACACTAAATG
Found at i:93214316 original size:42 final size:43
Alignment explanation
Indices: 93214267--93214377 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 43
93214257 GAGATTCTGT
* ** * * *
93214267 ATAAGACCATATCTAGGATATGGCATCG-GTATGCGATTTCGT
1 ATAAGACCATATCTGGGATATGGCATCGAAAATGAGACTTCGC
* * * * *
93214309 GTAAGACCATGTTTGGGACATGGCTTCGAAAATGAGACTTCGC
1 ATAAGACCATATCTGGGATATGGCATCGAAAATGAGACTTCGC
93214352 ATAAGACCATATCTGGGATATGGCAT
1 ATAAGACCATATCTGGGATATGGCAT
93214378 TGACATCTTA
Statistics
Matches: 52, Mismatches: 16, Indels: 1
0.75 0.23 0.01
Matches are distributed among these distances:
42 22 0.42
43 30 0.58
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (43 bp):
ATAAGACCATATCTGGGATATGGCATCGAAAATGAGACTTCGC
Found at i:93217713 original size:109 final size:111
Alignment explanation
Indices: 93217522--93217743 Score: 376
Period size: 109 Copynumber: 2.0 Consensus size: 111
93217512 CTATTTGAAT
93217522 TAAGCCTTAAAGCAGAATTTTTAAAGCCTGGCCCAGCCAGATATTTATATATTTGTTAAATATGT
1 TAAGCCTTAAAGCAGAATTTTTAAAGCCTGGCCCAGCCAGATATTTATATATTTGTTAAATATGT
** *
93217587 ACTTATAGTAATAAAACTTTAA-C-ATATGTCTAATCGAACCCAAA
66 ACTTATAGTAATAAAACTTTAATCTATAAATCTAATCCAACCCAAA
** *
93217631 TAAGCCTTAAAGCAGTTTTTTTAAAGCCTGGCCCAGTCAGATATTTATATATTTGTTAAATATGT
1 TAAGCCTTAAAGCAGAATTTTTAAAGCCTGGCCCAGCCAGATATTTATATATTTGTTAAATATGT
93217696 ACTTATAGTAATAAAACTTTAATCTATAAATCTAATCCAACCCAAA
66 ACTTATAGTAATAAAACTTTAATCTATAAATCTAATCCAACCCAAA
93217742 TA
1 TA
93217744 TTATTTAATC
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
109 84 0.80
110 1 0.01
111 20 0.19
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (111 bp):
TAAGCCTTAAAGCAGAATTTTTAAAGCCTGGCCCAGCCAGATATTTATATATTTGTTAAATATGT
ACTTATAGTAATAAAACTTTAATCTATAAATCTAATCCAACCCAAA
Found at i:93218188 original size:23 final size:25
Alignment explanation
Indices: 93218152--93218198 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
93218142 CATTATTTAT
*
93218152 ATAATAATTCATATTTAAT-ATGAA
1 ATAATAATACATATTTAATGATGAA
93218176 ATAA-AATACATATTTAATGATGA
1 ATAATAATACATATTTAATGATGA
93218199 TTAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (25 bp):
ATAATAATACATATTTAATGATGAA
Found at i:93221241 original size:25 final size:25
Alignment explanation
Indices: 93221212--93221264 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
93221202 TTATTTGGAG
*
93221212 ATGATATGTTTATTTGAATATTGAA
1 ATGATATGTTTATATGAATATTGAA
93221237 ATGATATGTTTATATGAATATTGAA
1 ATGATATGTTTATATGAATATTGAA
93221262 ATG
1 ATG
93221265 TTAAGTGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (25 bp):
ATGATATGTTTATATGAATATTGAA
Found at i:93224338 original size:46 final size:45
Alignment explanation
Indices: 93224185--93224447 Score: 199
Period size: 46 Copynumber: 5.6 Consensus size: 45
93224175 ATTTGTGTGT
* * * * *
93224185 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG-CCTCGA-GACGA
* ** *
93224231 GAGCCAGTGTAAGACCATGTCTGGGACATGGTATCTGTATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTCGAGACGA
*
93224279 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCTCGAGACG-A
* * * *
93224326 -AGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTACAAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCT-CGAGACGA
** * * ** * *
93224371 TTGTCAGTGTAAGACCATGTCTGAGACATGGCATCGAATTGAGA-TA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCTCGAGACGA
93224417 TGAGCCAGTGTAAGACCATGTCTGGGACATG
1 -GAGCCAGTGTAAGA-CATGTCTGGGACATG
93224448 GTATCGGTAT
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
45 4 0.02
46 73 0.42
47 69 0.40
48 26 0.15
49 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCTCGAGACGA
Found at i:93224442 original size:140 final size:140
Alignment explanation
Indices: 93224190--93224447 Score: 358
Period size: 140 Copynumber: 1.8 Consensus size: 140
93224180 TGTGTGAGCT
** *
93224190 AGTGTAAGACATGTCTAGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTAGGACATGCATCGACCACAAGATGAGAGCCAGTGTAAGACCATGTCTGA
* * *
93224255 GACATGGTATCTGTATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA
66 GACATGGCATCTGAATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA
93224320 GACGTAAGCC
131 GACGTAAGCC
* * * * ** *
93224330 AGTGTAAGACATGTCTGGGACATGCATTGGCTACAAGATGATTGTCAGTGTAAGACCATGTCTGA
1 AGTGTAAGACATGTCTAGGACATGCATCGACCACAAGATGAGAGCCAGTGTAAGACCATGTCTGA
*
93224395 GACATGGCATC-GAATTGAGA-TATGAGCCAGTGTAAGACCATGTCTGGGACATG
66 GACATGGCATCTGAATTGAGACGA-GAGCCAGTGTAAGA-CATGTCTGGGACATG
93224448 GTATCGGTAT
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
138 1 0.01
139 21 0.21
140 80 0.78
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTAGGACATGCATCGACCACAAGATGAGAGCCAGTGTAAGACCATGTCTGA
GACATGGCATCTGAATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA
GACGTAAGCC
Found at i:93224448 original size:47 final size:47
Alignment explanation
Indices: 93224184--93224453 Score: 191
Period size: 47 Copynumber: 5.8 Consensus size: 47
93224174 CATTTGTGTG
* * * *
93224184 TGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCG-A-CCACATTA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAATCGAGA-TA
* * * *
93224228 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGTATCTGTATTGAGACGA
1 T--GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GAATCGAGA-TA
* ** **
93224279 -GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGACG
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GAATCGAGATA
* * ** *
93224324 TAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTACAAGATGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAAT-CGAGAT-A
* * * *
93224371 T-TGTCAGTGTAAGACCATGTCTGAGACATGGCATCGAATTGAGATA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAATCGAGATA
*
93224417 TGAGCCAGTGTAAGACCATGTCTGGGACATGGTATCG
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
93224454 GTATTTTACC
Statistics
Matches: 178, Mismatches: 35, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 70 0.39
47 76 0.43
48 23 0.13
49 1 0.01
50 1 0.01
51 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAATCGAGATA
Found at i:93225272 original size:23 final size:23
Alignment explanation
Indices: 93225235--93225362 Score: 84
Period size: 23 Copynumber: 5.5 Consensus size: 23
93225225 TTTTTTTTGT
*
93225235 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
93225258 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
93225280 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
93225303 TATTACGTATATA-TATT-ATACTA
1 TATTA--TATATATTCTTAATACTA
* *
93225326 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
93225351 TATTATTTATAT
1 TATTATATATAT
93225363 ATATATTTAC
Statistics
Matches: 79, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
21 5 0.06
22 17 0.22
23 29 0.37
24 8 0.10
25 20 0.25
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:93225338 original size:25 final size:25
Alignment explanation
Indices: 93225310--93225439 Score: 95
Period size: 25 Copynumber: 5.2 Consensus size: 25
93225300 CTATATTACG
*
93225310 TATATATATTATACTATTTTATGTA
1 TATATATATTATACTATATTATGTA
* *
93225335 TATATCT-TTAATACTATATTATTTA
1 TATATATATT-ATACTATATTATGTA
* *
93225360 TATATATATT-TAC-ATGTTATCTTA
1 TATATATATTATACTATATTAT-GTA
* * *
93225384 TGTATATATTTTAATTATATTATGTA
1 TATATATATTAT-ACTATATTATGTA
* * * *
93225410 TGTATTTTTTACACTATATTATGTA
1 TATATATATTATACTATATTATGTA
*
93225435 CATAT
1 TATAT
93225440 TTTTAATATT
Statistics
Matches: 83, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
23 6 0.07
24 17 0.20
25 41 0.49
26 13 0.16
27 6 0.07
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (25 bp):
TATATATATTATACTATATTATGTA
Found at i:93225626 original size:16 final size:15
Alignment explanation
Indices: 93225605--93225634 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
93225595 ATTATTATCC
93225605 TAATATTTTGATATTT
1 TAATATTTT-ATATTT
93225621 TAATATTTTATATT
1 TAATATTTTATATT
93225635 ATTCACATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TAATATTTTATATTT
Found at i:93234951 original size:126 final size:126
Alignment explanation
Indices: 93234726--93234973 Score: 487
Period size: 126 Copynumber: 2.0 Consensus size: 126
93234716 GAAATGCCAT
93234726 AACTTTAGAGGTATACGGAGACTCAGCCTTGGTGATTTACCAAATCCGTGGAGATTGGGAAGTGA
1 AACTTTAGAGGTATACGGAGACTCAGCCTTGGTGATTTACCAAATCCGTGGAGATTGGGAAGTGA
*
93234791 GAGACTCGAAACTGGTTAAATACAGTGATCTAGTGGCAGAATTGATTAAAGAATTCGTCAA
66 GAGACTCGAAACTGGTTAAATACAGTAATCTAGTGGCAGAATTGATTAAAGAATTCGTCAA
93234852 AACTTTAGAGGTATACGGAGACTCAGCCTTGGTGATTTACCAAATCCGTGGAGATTGGGAAGTGA
1 AACTTTAGAGGTATACGGAGACTCAGCCTTGGTGATTTACCAAATCCGTGGAGATTGGGAAGTGA
93234917 GAGACTCGAAACTGGTTAAATACAGTAATCTAGTGGCAGAATTGATTAAAGAATTCG
66 GAGACTCGAAACTGGTTAAATACAGTAATCTAGTGGCAGAATTGATTAAAGAATTCG
93234974 AAGAAATAAC
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 121 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.26
Consensus pattern (126 bp):
AACTTTAGAGGTATACGGAGACTCAGCCTTGGTGATTTACCAAATCCGTGGAGATTGGGAAGTGA
GAGACTCGAAACTGGTTAAATACAGTAATCTAGTGGCAGAATTGATTAAAGAATTCGTCAA
Found at i:93235989 original size:38 final size:37
Alignment explanation
Indices: 93235947--93236063 Score: 90
Period size: 38 Copynumber: 3.2 Consensus size: 37
93235937 GATGTACCAA
93235947 AAGAGAATGATCGCAGCCCATGACAAGAAAGTACGGCC
1 AAGAGAATGATCGCAGCCCATGA-AAGAAAGTACGGCC
* *
93235985 AAGAGAAT--TC-CA---C--GAAGGAGAACT-CGTGCTC
1 AAGAGAATGATCGCAGCCCATGAAAGA-AAGTACG-GC-C
93236016 AAAAGAGAATGATCGCAGCCCATGAAAAGAAAGTACGGCC
1 --AAGAGAATGATCGCAGCCCATG-AAAGAAAGTACGGCC
93236056 AAGAGAAT
1 AAGAGAAT
93236064 TCCACAAAGG
Statistics
Matches: 60, Mismatches: 4, Indels: 30
0.64 0.04 0.32
Matches are distributed among these distances:
29 5 0.08
30 7 0.12
31 1 0.02
32 1 0.02
33 8 0.13
35 4 0.07
36 4 0.07
38 16 0.27
39 1 0.02
40 1 0.02
41 6 0.10
42 6 0.10
ACGTcount: A:0.42, C:0.21, G:0.26, T:0.12
Consensus pattern (37 bp):
AAGAGAATGATCGCAGCCCATGAAAGAAAGTACGGCC
Found at i:93236032 original size:71 final size:71
Alignment explanation
Indices: 93235944--93236085 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
93235934 ACAGATGTAC
* *
93235944 CAAAAGAGAATGATCGCAGCCCATGACAAGAAAGTACGGCCAAGAGAATTCCACGAAGGAGAACT
1 CAAAAGAGAATGATCGCAGCCCATGAAAAGAAAGTACGGCCAAGAGAATTCCACAAAGGAGAACT
93236009 CGTGCT
66 CGTGCT
93236015 CAAAAGAGAATGATCGCAGCCCATGAAAAGAAAGTACGGCCAAGAGAATTCCACAAAGGAGAACT
1 CAAAAGAGAATGATCGCAGCCCATGAAAAGAAAGTACGGCCAAGAGAATTCCACAAAGGAGAACT
93236080 CGTGCT
66 CGTGCT
93236086 AAGAAAGATT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.13
Consensus pattern (71 bp):
CAAAAGAGAATGATCGCAGCCCATGAAAAGAAAGTACGGCCAAGAGAATTCCACAAAGGAGAACT
CGTGCT
Found at i:93237361 original size:75 final size:72
Alignment explanation
Indices: 93237252--93237536 Score: 306
Period size: 75 Copynumber: 3.8 Consensus size: 72
93237242 CGGTTCAAAA
* * * * *
93237252 AAAAATCAGCTCATATTACGAGAGGTGAGTTGAGCCTTGACTGACATGTTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC-TCA-GGACACGCTGAGGTATTTTCAATT
93237317 TCTGCCTTTC
64 TCTG-CTTTC
* * * *
93237327 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
93237392 TGTCTTTC
66 TG-CTTTC
*
93237400 AAAATAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-GAT
1 -AAA-AATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAAT
* *
93237464 ATCTGTTTTC
63 TTCTGCTTTC
** * *
93237474 AAAAATCAACTCATATTGTGAGAGTTGAGTGGAGCCTC-GGATCACATG-TCGAGGTATTTTCAA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGA-CAC--GCT-GAGGTATTTTCAA
93237537 AATCTATTTT
Statistics
Matches: 180, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
71 3 0.02
72 34 0.19
73 36 0.20
74 16 0.09
75 87 0.48
76 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (72 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGCTTTC
Found at i:93238899 original size:23 final size:23
Alignment explanation
Indices: 93238862--93238989 Score: 84
Period size: 23 Copynumber: 5.5 Consensus size: 23
93238852 CTTTTTTTGT
*
93238862 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
93238885 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
93238907 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
93238930 TATTACGTATATA-TATT-ATACTA
1 TATTA--TATATATTCTTAATACTA
* *
93238953 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
93238978 TATTATTTATAT
1 TATTATATATAT
93238990 ATATTTTTTT
Statistics
Matches: 79, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
21 5 0.06
22 17 0.22
23 29 0.37
24 8 0.10
25 20 0.25
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:93238965 original size:25 final size:25
Alignment explanation
Indices: 93238927--93239078 Score: 89
Period size: 25 Copynumber: 6.0 Consensus size: 25
93238917 ATTCTAAATT
*
93238927 CTATATTACGTATATATA-TT-ATA
1 CTATATTATGTATATATATTTAATA
* *
93238950 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* *
93238975 CTATATTATTTATATATATTTTTTTTTACATG
1 CTATATTATGTATATATA------TTTA-ATA
* *
93239007 TTATCTTATGTATATAT-TTTAAT-
1 CTATATTATGTATATATATTTAATA
* * * *
93239030 -TATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATATTTAATA
* *
93239054 CTATATTATGTACATATTTTTAATA
1 CTATATTATGTATATATATTTAATA
93239079 TTATCACGTA
Statistics
Matches: 99, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
22 14 0.14
23 19 0.19
24 4 0.04
25 42 0.42
31 4 0.04
32 16 0.16
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:93238985 original size:30 final size:28
Alignment explanation
Indices: 93238954--93239062 Score: 95
Period size: 28 Copynumber: 4.0 Consensus size: 28
93238944 ATTATACTAT
93238954 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* * ** *
93238983 TTTATATATATTTTTTTTTAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
93239010 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
93239037 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
93239062 T
1 T
93239063 GTACATATTT
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 9 0.14
26 7 0.11
27 12 0.19
28 20 0.31
29 11 0.17
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:93239032 original size:22 final size:22
Alignment explanation
Indices: 93239007--93239114 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
93238997 TTTTTACATG
*
93239007 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
93239029 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
93239054 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
93239077 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
93239097 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
93239115 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 17 0.25
23 12 0.18
24 13 0.19
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:93239081 original size:20 final size:20
Alignment explanation
Indices: 93239056--93239114 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
93239046 TTTTTACACT
93239056 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
93239076 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
93239099 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
93239115 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:93239253 original size:16 final size:15
Alignment explanation
Indices: 93239229--93239263 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
93239219 TAATTATTAT
93239229 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
93239245 TATTTTAATATTTTA
1 TATTCTAATATTTTA
93239260 TATT
1 TATT
93239264 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:93253137 original size:39 final size:40
Alignment explanation
Indices: 93253042--93253264 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
93253032 TTGAATGATG
*
93253042 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
93253080 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
93253121 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
93253160 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
93253199 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
93253238 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
93253265 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 92 0.57
40 58 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:93253228 original size:79 final size:81
Alignment explanation
Indices: 93253042--93253264 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
93253032 TTGAATGATG
* * *
93253042 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
93253104 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
*
93253121 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCAAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
93253182 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
93253199 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
93253263 TG
66 TG
93253265 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 45 0.36
79 56 0.45
80 24 0.19
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:93253286 original size:79 final size:79
Alignment explanation
Indices: 93253042--93253297 Score: 199
Period size: 79 Copynumber: 3.3 Consensus size: 79
93253032 TTGAATGATG
* * * * *
93253042 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCAAAGGCA
** *
93253103 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
93253121 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCAAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTG
** *
93253185 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
93253199 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCAAAGGCAT
*
93253262 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
93253279 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
93253298 TACGTGATTT
Statistics
Matches: 151, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
77 1 0.01
78 45 0.30
79 69 0.46
80 35 0.23
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTG
AACGAGTGACTAAA
Found at i:93261079 original size:142 final size:142
Alignment explanation
Indices: 93260823--93261105 Score: 548
Period size: 142 Copynumber: 2.0 Consensus size: 142
93260813 TGATTAAATC
93260823 AATTTATTTGTTTAATTAAGCTCAAGAGCAAAGGGGAAATAAATCCGATAAAGGGAAGGAAAAAG
1 AATTTATTTGTTTAATTAAGCTCAAGAGCAAAGGGGAAATAAATCCGATAAAGGGAAGGAAAAAG
93260888 TGGTCGAATAGCCATCGAAATCGTTCGACGACATCCGAGGTAAGTTCTTGAGTAAGAGAGCTTAA
66 TGGTCGAATAGCCATCGAAATCGTTCGACGACATCCGAGGTAAGTTCTTGAGTAAGAGAGCTTAA
*
93260953 ATTATGATGTGT
131 ATTAGGATGTGT
93260965 AATTTATTTGTTTAATTAAGCTCAAGAGCAAAGGGGAAATAAATCCGATAAAGGGAAGGAAAAAG
1 AATTTATTTGTTTAATTAAGCTCAAGAGCAAAGGGGAAATAAATCCGATAAAGGGAAGGAAAAAG
*
93261030 TGGTCGAATAGCCATCGGAATCGTTCGACGACATCCGAGGTAAGTTCTTGAGTAAGAGAGCTTAA
66 TGGTCGAATAGCCATCGAAATCGTTCGACGACATCCGAGGTAAGTTCTTGAGTAAGAGAGCTTAA
93261095 ATTAGGATGTG
131 ATTAGGATGTG
93261106 ATTAGATCAT
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 139 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (142 bp):
AATTTATTTGTTTAATTAAGCTCAAGAGCAAAGGGGAAATAAATCCGATAAAGGGAAGGAAAAAG
TGGTCGAATAGCCATCGAAATCGTTCGACGACATCCGAGGTAAGTTCTTGAGTAAGAGAGCTTAA
ATTAGGATGTGT
Found at i:93261416 original size:112 final size:112
Alignment explanation
Indices: 93261219--93261441 Score: 437
Period size: 112 Copynumber: 2.0 Consensus size: 112
93261209 AATGAAATAT
93261219 GAATGGGCCATGATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGAGCTAAGTCCCGA
1 GAATGGGCCATGATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGAGCTAAGTCCCGA
93261284 AGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTC
66 AGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTC
*
93261331 GAATGGGCCATGATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGA
1 GAATGGGCCATGATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGAGCTAAGTCCCGA
93261396 AGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
66 AGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
93261442 TGTGCGAGAT
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (112 bp):
GAATGGGCCATGATTTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGAGCTAAGTCCCGA
AGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTC
Found at i:93261474 original size:39 final size:40
Alignment explanation
Indices: 93261379--93261758 Score: 514
Period size: 39 Copynumber: 9.7 Consensus size: 40
93261369 TTGAATGATG
*
93261379 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
93261417 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
93261458 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
93261497 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
93261536 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
93261576 TCCGGGCTAAG-CCCGAAGGCATTTGTCCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
93261615 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
93261654 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
93261693 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AT
*
93261734 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
93261759 AACGAGGAGC
Statistics
Matches: 312, Mismatches: 19, Indels: 19
0.89 0.05 0.05
Matches are distributed among these distances:
39 203 0.65
40 94 0.30
41 14 0.04
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:93261587 original size:118 final size:119
Alignment explanation
Indices: 93261379--93261758 Score: 526
Period size: 118 Copynumber: 3.2 Consensus size: 119
93261369 TTGAATGATG
* * *
93261379 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
93261440 TTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
93261497 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
93261561 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTCCGAGATACTAAT
66 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
93261615 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* * * *
93261678 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
66 GTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-AT
*
93261734 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
93261759 AACGAGGAGC
Statistics
Matches: 239, Mismatches: 15, Indels: 15
0.89 0.06 0.06
Matches are distributed among these distances:
117 47 0.20
118 169 0.71
119 23 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Done.