Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 183 of 276
Found at i:60254585 original size:15 final size:14
Alignment explanation
Indices: 60254565--60254598 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
60254555 ATTCCTAAAT
*
60254565 TTTAATTTGATATAA
1 TTTAATTTAAT-TAA
60254580 TTTAATTTAATTAA
1 TTTAATTTAATTAA
60254594 TTTAA
1 TTTAA
60254599 CATCAAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTTAATTTAATTAA
Found at i:60261669 original size:12 final size:13
Alignment explanation
Indices: 60261646--60261670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60261636 CATGTCACTC
60261646 AAAATTTAAAAAA
1 AAAATTTAAAAAA
60261659 AAAATTTAAAAA
1 AAAATTTAAAAA
60261671 TTCATTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATTTAAAAAA
Found at i:60265993 original size:15 final size:15
Alignment explanation
Indices: 60265968--60266000 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
60265958 AAACTAATAA
60265968 TTTTAAATATTT-AT
1 TTTTAAATATTTAAT
60265982 TTTTATAATATTTAAT
1 TTTTA-AATATTTAAT
60265998 TTT
1 TTT
60266001 CTTAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAAATATTTAAT
Found at i:60266485 original size:30 final size:24
Alignment explanation
Indices: 60266425--60266490 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
60266415 GGTTTAAAGT
60266425 TTTTAGGGTTAGGGTTTTTGATTA
1 TTTTAGGGTTAGGGTTTTTGATTA
60266449 TTTTAGGGTTAGGGTTTTTGATTA
1 TTTTAGGGTTAGGGTTTTTGATTA
*
60266473 TTTTAGGATTAGGGTTTT
1 TTTTAGGGTTAGGGTTTT
60266491 AGTGGTTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.55
Consensus pattern (24 bp):
TTTTAGGGTTAGGGTTTTTGATTA
Found at i:60266816 original size:23 final size:24
Alignment explanation
Indices: 60266776--60266832 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
60266766 TTTTTAAGGC
* *
60266776 TAGGGTTTTTGATTGTTTTAGGA-T
1 TAGGGTTTTAGATAG-TTTAGGATT
60266800 TAGGGTTTTAG-TAGTTTAGGATT
1 TAGGGTTTTAGATAGTTTAGGATT
60266823 TCAGGGTTTT
1 T-AGGGTTTT
60266833 TTAAGGGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 7 0.24
23 4 0.14
24 18 0.62
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.51
Consensus pattern (24 bp):
TAGGGTTTTAGATAGTTTAGGATT
Found at i:60267043 original size:157 final size:157
Alignment explanation
Indices: 60266449--60267085 Score: 961
Period size: 158 Copynumber: 4.0 Consensus size: 157
60266439 TTTTTGATTA
*
60266449 TTTTAGGGTTAGGGTTTTTGATTATTTTAGGATTAGGGTTTTAGTGGTTTAGGGTTTTAGTGTTT
1 TTTTAAGGTTAGGGTTTTTGATTATTTTAGGATTAGGGTTTTAGTGGTTTAGGGTTTTAGTGTTT
* *
60266514 TTAAAGGTAAAATTAATTTAATTAGAGTTGAGGATTAATTAATTAAATTAACTATGAAAATAAAA
66 TTAAGGGAAAAATTAATTTAATTAGAGTTGAGGATTAATTAATTAAATTAACTATGAAAATAAAA
60266579 AAATCAATTAAATTAGGGTTTAGGGTT
131 AAATCAATTAAATTAGGGTTTAGGGTT
* * * * * *
60266606 TTTT-AGAGTTAGGGTTTTTTTTATCATTTTAGGGTTTAGGATTTTAGTGATTTAGAGTTTTAGT
1 TTTTAAG-GTTAGGG--TTTTTGATTATTTTA-GGATTAGGGTTTTAGTGGTTTAGGGTTTTAGT
*
60266670 ATTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGATTAATTAATTAAATTAACTATGAAAA
62 -GTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGATTAATTAATTAAATTAACTATGAAAA
** *
60266735 TAAAAAAATCAATTAAATTATAGTTTTGGGTT
126 TAAAAAAATCAATTAAATTAGGGTTTAGGGTT
* * * * * *
60266767 TTTTAAGGCTAGGGTTTTTGATTGTTTTAGGATTAGGGTTTTAGTAGTTTAGGATTTCAGGGTTT
1 TTTTAAGGTTAGGGTTTTTGATTATTTTAGGATTAGGGTTTTAGTGGTTTAGGGTTTTAGTG-TT
* *
60266832 TTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATAAAAATAAA
65 TTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGATTAATTAATTAAATTAACTATGAAAATAAA
*
60266897 AAAATCAGTTAAATTAGGGTTTAGGGTT
130 AAAATCAATTAAATTAGGGTTTAGGGTT
* *
60266925 TTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATTAGGGTTTTAGTGGCTTAGGGTTTTAGTGTTT
1 TTTTAAGGTTAGGGTTTTTGATTATTTTAGGATTAGGGTTTTAGTGGTTTAGGGTTTTAGTGTTT
* * **
60266990 TTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTTTAA
66 TTAAGGGAAAAATTAATTTAATTAGAGTTGAGGATTAATTAATTAAATTAACTATGAAAATAAAA
60267055 AAATCAATTAAATTAGGGTTTAGGGTT
131 AAATCAATTAAATTAGGGTTTAGGGTT
60267082 TTTT
1 TTTT
60267086 CAGGGTTCAT
Statistics
Matches: 430, Mismatches: 43, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
156 1 0.00
157 105 0.24
158 169 0.39
159 25 0.06
160 28 0.07
161 100 0.23
162 2 0.00
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (157 bp):
TTTTAAGGTTAGGGTTTTTGATTATTTTAGGATTAGGGTTTTAGTGGTTTAGGGTTTTAGTGTTT
TTAAGGGAAAAATTAATTTAATTAGAGTTGAGGATTAATTAATTAAATTAACTATGAAAATAAAA
AAATCAATTAAATTAGGGTTTAGGGTT
Found at i:60267462 original size:124 final size:125
Alignment explanation
Indices: 60267113--60267909 Score: 1156
Period size: 126 Copynumber: 6.5 Consensus size: 125
60267103 ATTAACTATT
* * * * * * *
60267113 AATTACCGAAAAAGCTCTCACGTGGACGATCTTTTGCTATAGTAGTATCTAAAAAAATAAATTTG
1 AATTACAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTTG
* *
60267178 AGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTATCAACAA
66 AGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTATCAGCAA
* * * *
60267238 AATTACGGAAAAACGCTCCCACGTGGACACTCTTTTGCTATAGTAATATCTGATAAAATAATTTT
1 AATTACAGAAAAA-GCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
*
60267303 GAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTATCAGCAA
65 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTATCAGCAA
60267364 AATTACAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAG-ATCTGATAAAATAATTTTG
1 AATTACAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTTG
60267428 AGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTATCAGCAA
66 AGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTATCAGCAA
60267488 AATTACAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAG-ATCTGATAAAATAATTTTG
1 AATTACAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTTG
*
60267552 AGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
66 AGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTATCAGCAA
* ** *
60267612 AATTACAGAAAAAAACTATCACGTGGACGCTCTTTTGCTACAGTAGTATATGATAAAATAATTTT
1 AATTACAG-AAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* * *
60267677 GAGAAAATGTTTCTGAACAAATAGTGTCAAAAAC-ATATCAAGAAGGATGCACTGTC-G---
65 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCT-TCAAGAAGGATGCACTATCAGCAA
* * *
60267734 -----GA-AAAAAGCTCCCACGTGGACGCTCTTTTGCTACA-TAAGTATTTCATAAAATAATTTT
1 AATTACAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGT-AGTATCTGATAAAATAATTTT
* * *
60267792 GAGAAGATGTTTCTGAACAAATAGTGTTAAAAACGCTTCAAGAAGGATGCACTGTCAGTAA
65 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTATCAGCAA
* * * *
60267853 AATTACGGAAAAAAGCTCCCATGTGGACGTTCTTTTGCTACAGTAGTATTTGA-AAAA
1 AATTACAG-AAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAA
60267910 GCCTTAGACT
Statistics
Matches: 617, Mismatches: 37, Indels: 36
0.89 0.05 0.05
Matches are distributed among these distances:
114 1 0.00
115 100 0.16
116 2 0.00
117 1 0.00
124 209 0.34
125 81 0.13
126 222 0.36
127 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (125 bp):
AATTACAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTTG
AGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTATCAGCAA
Found at i:60267824 original size:115 final size:115
Alignment explanation
Indices: 60267631--60267847 Score: 357
Period size: 115 Copynumber: 1.9 Consensus size: 115
60267621 AAAAAACTAT
*
60267631 CACGTGGACGCTCTTTTGCTACAGTAGTATATGATAAAATAATTTTGAGAAAATGTTTCTGAACA
1 CACGTGGACGCTCTTTTGCTACAGTAGTATATCATAAAATAATTTTGAGAAAATGTTTCTGAACA
60267696 AATAGTGTCAAAAAC-ATATCAAGAAGGATGCACTGTCGGAAAAAAGCTCC
66 AATAGTGTCAAAAACGAT-TCAAGAAGGATGCACTGTCGGAAAAAAGCTCC
* *
60267746 CACGTGGACGCTCTTTTGCTACA-TAAGTATTTCATAAAATAATTTTGAGAAGATGTTTCTGAAC
1 CACGTGGACGCTCTTTTGCTACAGT-AGTATATCATAAAATAATTTTGAGAAAATGTTTCTGAAC
* *
60267810 AAATAGTGTTAAAAACGCTTCAAGAAGGATGCACTGTC
65 AAATAGTGTCAAAAACGATTCAAGAAGGATGCACTGTC
60267848 AGTAAAATTA
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
114 1 0.01
115 93 0.98
116 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (115 bp):
CACGTGGACGCTCTTTTGCTACAGTAGTATATCATAAAATAATTTTGAGAAAATGTTTCTGAACA
AATAGTGTCAAAAACGATTCAAGAAGGATGCACTGTCGGAAAAAAGCTCC
Found at i:60271519 original size:18 final size:18
Alignment explanation
Indices: 60271493--60271538 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
60271483 AACTGGGAAA
* *
60271493 AGGAAACATAAAAAGGTT
1 AGGATACATAAAAAGGCT
* *
60271511 AGGATACATATAAGGGCT
1 AGGATACATAAAAAGGCT
60271529 AGGATACATA
1 AGGATACATA
60271539 TCTCGCATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.24, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAAGGCT
Found at i:60273356 original size:22 final size:21
Alignment explanation
Indices: 60273328--60273376 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
60273318 TAGCTTTTTT
60273328 ACAAAAATT-AGAGACAACTTTG
1 ACAAAAATTGAGAGA-AA-TTTG
60273350 ACAAAAATTGAGAGAAATTTG
1 ACAAAAATTGAGAGAAATTTG
*
60273371 AGAAAA
1 ACAAAA
60273377 TTTGGAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 9 0.36
22 11 0.44
23 5 0.20
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.20
Consensus pattern (21 bp):
ACAAAAATTGAGAGAAATTTG
Found at i:60273362 original size:21 final size:22
Alignment explanation
Indices: 60273328--60273376 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
60273318 TAGCTTTTTT
*
60273328 ACAAAAATTAGAGACAACTTTG
1 ACAAAAATTAGAGACAAATTTG
*
60273350 ACAAAAATT-GAGAGAAATTTG
1 ACAAAAATTAGAGACAAATTTG
*
60273371 AGAAAA
1 ACAAAA
60273377 TTTGGAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.20
Consensus pattern (22 bp):
ACAAAAATTAGAGACAAATTTG
Found at i:60280835 original size:19 final size:19
Alignment explanation
Indices: 60280792--60280836 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
60280782 TCAGGCCAGA
*
60280792 TGGGCCATATGAAGTTGATT
1 TGGGCCATATGAAG-TGAAT
60280812 TGGGCCATATGAA-TGAGAT
1 TGGGCCATATGAAGTGA-AT
60280831 TGGGCC
1 TGGGCC
60280837 TAGTGGGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 7 0.30
20 13 0.57
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.29
Consensus pattern (19 bp):
TGGGCCATATGAAGTGAAT
Found at i:60283952 original size:19 final size:20
Alignment explanation
Indices: 60283909--60283953 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
60283899 TCAGGCCAAA
* * *
60283909 TGGGACATATGAAGGTGATT
1 TGGGCCATATGAACGAGATT
60283929 TGGGCCATATGAACGAGA-T
1 TGGGCCATATGAACGAGATT
60283948 TGGGCC
1 TGGGCC
60283954 TAGTGGGCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.27, C:0.13, G:0.36, T:0.24
Consensus pattern (20 bp):
TGGGCCATATGAACGAGATT
Found at i:60286175 original size:47 final size:46
Alignment explanation
Indices: 60286051--60286221 Score: 134
Period size: 47 Copynumber: 3.7 Consensus size: 46
60286041 CGTGCTGATG
** * * *
60286051 CATGTCCCAGACATGTCTTACACCAGCACTGC-GCT-TA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCACT-CATCTCGACGCCGATA
* * * *
60286095 CATGTCCTAGGCACGTCTTACACTGGCTA-TCATCATCGAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TCGACGCCGATA
* * * *
60286142 CATGTCCCAGACATGTCTTATACTGGCACTCATCTCTACACCGATGC
1 CATGTCCCAGACATGTCTTACACTGGCACTCATCTCGACGCCGAT-A
* *
60286189 CATGTCCCAGTCATGGTCTTACACTGGCTCTCA
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCA
60286222 CATAACCCAA
Statistics
Matches: 100, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
43 1 0.01
44 24 0.24
45 2 0.02
46 10 0.10
47 47 0.47
48 16 0.16
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATCTCGACGCCGATA
Found at i:60288105 original size:17 final size:18
Alignment explanation
Indices: 60288072--60288105 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60288062 TTTAAAGAAG
60288072 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
60288090 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
60288106 TTTCAATGTG
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:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:60293821 original size:23 final size:23
Alignment explanation
Indices: 60293795--60293839 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
60293785 TCTGTAAAGT
60293795 AAGAAAAAGATAACTACGTAAGA
1 AAGAAAAAGATAACTACGTAAGA
60293818 AAGAAAAAGATAACTACGTAAG
1 AAGAAAAAGATAACTACGTAAG
60293840 CAATGTATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.60, C:0.09, G:0.18, T:0.13
Consensus pattern (23 bp):
AAGAAAAAGATAACTACGTAAGA
Found at i:60298121 original size:82 final size:82
Alignment explanation
Indices: 60297975--60298148 Score: 213
Period size: 82 Copynumber: 2.1 Consensus size: 82
60297965 TAACCCTAGT
* * * * * * *
60297975 AGACTTCCCATTACTTTGATAATACATAATAGACTTCTAGTACAGATAGTCCCTATGGACGTCCC
1 AGACTTCCCTTTACTTTGATAATACATAACAGACCTCTAGTACAAATAGTCCCAACGAACGTCCC
* * *
60298040 ACGAGATAGTCCATGGC
66 ACAAGATAGTCAATGGA
* * * *
60298057 AGACTTCCCTTTACTTTGATAATACCTGACAGACCTCTAGTATAAATAGTCCCAACGAATGTCCC
1 AGACTTCCCTTTACTTTGATAATACATAACAGACCTCTAGTACAAATAGTCCCAACGAACGTCCC
60298122 ACAAGATAGTCAATGGA
66 ACAAGATAGTCAATGGA
*
60298139 AAACTTCCCT
1 AGACTTCCCT
60298149 AATATGATAA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (82 bp):
AGACTTCCCTTTACTTTGATAATACATAACAGACCTCTAGTACAAATAGTCCCAACGAACGTCCC
ACAAGATAGTCAATGGA
Found at i:60300243 original size:4 final size:4
Alignment explanation
Indices: 60300226--60300264 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
60300216 AAGACAAAAG
*
60300226 ATAA ATAA ACTAA ATAA A-AA TTAA ATAA ATAA ATAA ATA
1 ATAA ATAA A-TAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
60300265 CAGTCAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 2 0.06
4 25 0.81
5 4 0.13
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:60300520 original size:38 final size:37
Alignment explanation
Indices: 60300468--60300554 Score: 104
Period size: 37 Copynumber: 2.3 Consensus size: 37
60300458 CCACTTCATT
*
60300468 CACCTTACACACCACATTAAGG-CTACGGTAGGCCCATC
1 CACCTTACACACCACA--AAGGACCACGGTAGGCCCATC
* * * *
60300506 CACCTTACATACCACAAAGGACCATGGTTGGTCCATC
1 CACCTTACACACCACAAAGGACCACGGTAGGCCCATC
60300543 CACCTTACACAC
1 CACCTTACACAC
60300555 AAGAATTGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 4 0.10
37 23 0.55
38 15 0.36
ACGTcount: A:0.30, C:0.37, G:0.14, T:0.20
Consensus pattern (37 bp):
CACCTTACACACCACAAAGGACCACGGTAGGCCCATC
Found at i:60303327 original size:27 final size:26
Alignment explanation
Indices: 60303296--60303473 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
60303286 TAAATTGTAC
60303296 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
60303323 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
60303349 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
60303377 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
60303405 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
60303432 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
60303459 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60303474 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:60303412 original size:82 final size:81
Alignment explanation
Indices: 60303297--60303452 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
60303287 AAATTGTACA
* *
60303297 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
60303361 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
60303378 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
60303443 TGCGAGTTGA
65 TGCGAATTGA
60303453 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60303464 original size:82 final size:81
Alignment explanation
Indices: 60303293--60303473 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
60303283 GATTAAATTG
* *
60303293 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60303358 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
60303374 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60303438 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60303456 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60303474 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60303484 original size:27 final size:27
Alignment explanation
Indices: 60303378--60303484 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
60303368 TGACCATGCG
* * * *
60303378 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
60303406 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
60303433 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
60303460 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
60303485 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:60311391 original size:27 final size:27
Alignment explanation
Indices: 60311360--60311537 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60311350 TAAATTGTAC
60311360 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
60311387 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60311413 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
60311441 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
60311469 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60311496 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60311523 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60311538 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:60311474 original size:82 final size:81
Alignment explanation
Indices: 60311361--60311516 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60311351 AAATTGTACA
* *
60311361 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
60311425 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60311442 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
60311507 TGCGAGTTGA
65 TGCGAATTGA
60311517 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60311528 original size:82 final size:81
Alignment explanation
Indices: 60311357--60311537 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
60311347 GATTAAATTG
* *
60311357 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60311422 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60311438 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60311502 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60311520 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60311538 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60318602 original size:23 final size:22
Alignment explanation
Indices: 60318565--60318607 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
60318555 AAATTTGAAA
60318565 ATTTTAAAAAAATTATAAAATTT
1 ATTTTAAAAAAATTA-AAAATTT
**
60318588 ATTTTAAAATTATTAAAAAT
1 ATTTTAAAAAAATTAAAAAT
60318608 AAAAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTTAAAAAAATTAAAAATTT
Found at i:60325712 original size:46 final size:45
Alignment explanation
Indices: 60325643--60325732 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 45
60325633 TGATGTGCTT
*
60325643 CAGTTAGCTTCGGGCTTCTGTTTAGCACTTGTGTGCTTCAGTTAA
1 CAGTTAGCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAGTTAA
*
60325688 CAGTTAGCCTTCGGGCTTCCGTTTAGCATTTGTGTGCTTCAGTTA
1 CAGTTAG-CTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAGTTA
60325733 GCCTTCAGGC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 7 0.17
46 35 0.83
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.40
Consensus pattern (45 bp):
CAGTTAGCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAGTTAA
Found at i:60325744 original size:39 final size:39
Alignment explanation
Indices: 60325636--60325784 Score: 147
Period size: 39 Copynumber: 3.7 Consensus size: 39
60325626 TCAGCTCTGA
* *
60325636 TGTGCTTCAGTTAG-CTTCGGGCTTCTGTTTAGCACTTGTG
1 TGTGCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCA-TT-TG
* *
60325676 TGCTTCAGTTAACAGTTAGCCTTCGGGCTTCCGTTTAGCATTTG
1 TG-TGC--TT--CAGTTAGCCTTCAGGCTTCCGTTTAGCATTTG
* * *
60325720 TGTGCTTCAGTTAGCCTTCAGGCTTCCGTTTAACACTTA
1 TGTGCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCATTTG
* *
60325759 TGTGCTTCAGCTAGACTTCAGGCTTC
1 TGTGCTTCAGTTAGCCTTCAGGCTTC
60325785 AGATCACGAT
Statistics
Matches: 94, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
39 52 0.55
40 2 0.02
41 4 0.04
43 4 0.04
44 4 0.04
45 9 0.10
46 19 0.20
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (39 bp):
TGTGCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCATTTG
Found at i:60327547 original size:21 final size:21
Alignment explanation
Indices: 60327523--60327562 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
60327513 CAAAACAACG
60327523 TAGTTTT-ACCTTTTAACTTAA
1 TAGTTTTGA-CTTTTAACTTAA
60327544 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
60327563 TAGAAAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:60334526 original size:14 final size:14
Alignment explanation
Indices: 60334507--60334534 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60334497 TTTCAACATG
60334507 AGATTGTATTGATT
1 AGATTGTATTGATT
60334521 AGATTGTATTGATT
1 AGATTGTATTGATT
60334535 TACATGTTGT
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:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
AGATTGTATTGATT
Found at i:60340336 original size:41 final size:40
Alignment explanation
Indices: 60340291--60340413 Score: 128
Period size: 37 Copynumber: 3.1 Consensus size: 40
60340281 CTTTGAGTCA
*
60340291 ATGAGACACTAGGTGTCAATTTACTACTTCGGATTTATTTG
1 ATGAGACACTAGGTGTCAATTTA-TACTTCGGATTTATCTG
* * * *
60340332 ATGAGGCACTAGGTGCCAA-TT-TACTTCGG-TTTAACCG
1 ATGAGACACTAGGTGTCAATTTATACTTCGGATTTATCTG
* * *
60340369 ATGAGACACTGGGTGTCAATTTATTTCTTC-GAATTATCTG
1 ATGAGACACTAGGTGTCAATTTA-TACTTCGGATTTATCTG
60340409 ATGAG
1 ATGAG
60340414 GCATTGGGTG
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
37 21 0.32
38 10 0.15
39 1 0.02
40 17 0.26
41 17 0.26
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (40 bp):
ATGAGACACTAGGTGTCAATTTATACTTCGGATTTATCTG
Found at i:60341846 original size:24 final size:24
Alignment explanation
Indices: 60341814--60341861 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
60341804 ATACATAGCT
*
60341814 ATATTAGTATATTTGCAAATTATC
1 ATATCAGTATATTTGCAAATTATC
60341838 ATATCAGTATATTTGCAAATTATC
1 ATATCAGTATATTTGCAAATTATC
60341862 TTTTTTTTAA
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:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (24 bp):
ATATCAGTATATTTGCAAATTATC
Found at i:60344437 original size:55 final size:56
Alignment explanation
Indices: 60344377--60344485 Score: 141
Period size: 56 Copynumber: 2.0 Consensus size: 56
60344367 CAATGAATCT
* * * *
60344377 AAATTTA-ACAAAAATAATCTTATCT-AAAAAGTAAAGCATTAAATTGTTGAAAATA
1 AAATTTATA-AAAAAAAATCTAATCTAAAAAAATAAAGCATTAAATTATTGAAAATA
* *
60344432 AAATTTATAAAAAAAAATCTAATCTAAAAAAATAGAGCTTTAAATTATTGAAAA
1 AAATTTATAAAAAAAAATCTAATCTAAAAAAATAAAGCATTAAATTATTGAAAA
60344486 AATTAAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 21 0.46
56 25 0.54
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (56 bp):
AAATTTATAAAAAAAAATCTAATCTAAAAAAATAAAGCATTAAATTATTGAAAATA
Found at i:60349333 original size:25 final size:25
Alignment explanation
Indices: 60349305--60349422 Score: 64
Period size: 25 Copynumber: 4.8 Consensus size: 25
60349295 TTTTGGTATG
60349305 TATAATAATATATTATTTTTATTTT
1 TATAATAATATATTATTTTTATTTT
* * **
60349330 TATAATGATA-A-TGTTTTT-TTAA
1 TATAATAATATATTATTTTTATTTT
* * * * * * *
60349352 TAAAACAATTTAATATTTTTGGTATG
1 TATAATAATATATTATTTTT-ATTTT
* *
60349378 TATAATAAAATATTAATTTTATTTT
1 TATAATAATATATTATTTTTATTTT
*
60349403 TATAGTAATA-ATATATTTTT
1 TATAATAATATAT-TATTTTT
60349423 GGGAGAAGAG
Statistics
Matches: 64, Mismatches: 24, Indels: 10
0.65 0.24 0.10
Matches are distributed among these distances:
22 8 0.12
23 7 0.11
24 9 0.14
25 25 0.39
26 15 0.23
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (25 bp):
TATAATAATATATTATTTTTATTTT
Found at i:60349727 original size:11 final size:11
Alignment explanation
Indices: 60349711--60349735 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60349701 AAAAGTTTAA
60349711 GTGATATTATT
1 GTGATATTATT
60349722 GTGATATTATT
1 GTGATATTATT
60349733 GTG
1 GTG
60349736 TATAGAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (11 bp):
GTGATATTATT
Found at i:60366760 original size:21 final size:21
Alignment explanation
Indices: 60366734--60366781 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
60366724 ATAGAACTAA
* *
60366734 TAAAATGTACATAATAAAA-AT
1 TAAAATGTA-AAAAAAAAATAT
60366755 TAAAATGTAAAAAAAAAATAT
1 TAAAATGTAAAAAAAAAATAT
60366776 TAAAAT
1 TAAAAT
60366782 AAAATTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (21 bp):
TAAAATGTAAAAAAAAAATAT
Found at i:60367436 original size:13 final size:13
Alignment explanation
Indices: 60367404--60367437 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
60367394 ACGAAAACAC
*
60367404 AGAAAAAAAAAAA
1 AGAAAAGAAAAAA
*
60367417 AGAAAAGAAAAGA
1 AGAAAAGAAAAAA
60367430 AGAAAAGA
1 AGAAAAGA
60367438 CACGGTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAAAA
Found at i:60373578 original size:18 final size:18
Alignment explanation
Indices: 60373555--60373590 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
60373545 ACATTCGCAA
60373555 GGGCAAAAGGAAAGGGGT
1 GGGCAAAAGGAAAGGGGT
60373573 GGGCAAAAGGAAAGGGGT
1 GGGCAAAAGGAAAGGGGT
60373591 AGACAATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.50, T:0.06
Consensus pattern (18 bp):
GGGCAAAAGGAAAGGGGT
Found at i:60375653 original size:69 final size:69
Alignment explanation
Indices: 60375561--60375729 Score: 214
Period size: 69 Copynumber: 2.4 Consensus size: 69
60375551 CGACATACTC
* * * * **
60375561 TATTAGTTGTCATAGTCGAGCTATGGTCTTACACATTATAATCTTTATGCTTATTGTCCCTGCGG
1 TATTGGTTGTCATAGTCGAGCTATGGTCTTACACATTATAATCCTCATGCTTATTATCCCAACGG
60375626 ACTT
66 ACTT
* * * * *
60375630 TATTGGTTGCCATAGTCGAGCTATGGTCTTACACCTTTTAATCCTCGTGTTTATTATCCCAACGG
1 TATTGGTTGTCATAGTCGAGCTATGGTCTTACACATTATAATCCTCATGCTTATTATCCCAACGG
60375695 ACTT
66 ACTT
*
60375699 TATTGGTTGTCATAG-CTGAGCTATGATCTTA
1 TATTGGTTGTCATAGTC-GAGCTATGGTCTTA
60375730 TGTCACGGGG
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
68 1 0.01
69 85 0.99
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (69 bp):
TATTGGTTGTCATAGTCGAGCTATGGTCTTACACATTATAATCCTCATGCTTATTATCCCAACGG
ACTT
Found at i:60379674 original size:23 final size:23
Alignment explanation
Indices: 60379648--60379697 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
60379638 TGTAAACCTT
*
60379648 TCATTAA-AAACTAAAATATAAAA
1 TCATTAATAAAATAAAATA-AAAA
60379671 TCA-TAATAAAATAAAATAAAAA
1 TCATTAATAAAATAAAATAAAAA
60379693 T-ATTA
1 TCATTA
60379698 TGAATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 10 0.42
23 13 0.54
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (23 bp):
TCATTAATAAAATAAAATAAAAA
Found at i:60380105 original size:13 final size:13
Alignment explanation
Indices: 60380087--60380111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60380077 TCAATTTATT
60380087 ATTAAAAATATAA
1 ATTAAAAATATAA
60380100 ATTAAAAATATA
1 ATTAAAAATATA
60380112 TTTTATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAAAAATATAA
Found at i:60387410 original size:22 final size:22
Alignment explanation
Indices: 60387385--60387433 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
60387375 AAGAGCATTG
*
60387385 AAGTGTT-AAGCAGAGAGCACAA
1 AAGTGTTGAA-CACAGAGCACAA
60387407 AAGTGTTGAACACAGAGCACAA
1 AAGTGTTGAACACAGAGCACAA
60387429 AAGTG
1 AAGTG
60387434 CTAAACCCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.45, C:0.14, G:0.27, T:0.14
Consensus pattern (22 bp):
AAGTGTTGAACACAGAGCACAA
Found at i:60397098 original size:46 final size:46
Alignment explanation
Indices: 60397027--60397249 Score: 186
Period size: 46 Copynumber: 4.7 Consensus size: 46
60397017 TGATATGTGT
* *
60397027 GCTAGTGTAAGACATTTCTGGGACATGCATCAGCCACAGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATAAGA
** * * *
60397073 GCTAGTGTAAGACATGTCTAAGACATGCATTAGCCTCGAGATATTTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AG-TA-TAAGA
* * * *
60397121 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-TATTGAG-ACAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAGTATAAGA
* *
60397167 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACCTCGCGATATACA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CCAC-AG-TATA-AGA
* *
60397215 GCTAGTGTAAGTCCTGTCTGGGACATGGCATCAGC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGC
60397250 TTGTGGTGTG
Statistics
Matches: 140, Mismatches: 23, Indels: 25
0.74 0.12 0.13
Matches are distributed among these distances:
45 2 0.01
46 65 0.46
47 2 0.01
48 61 0.44
49 9 0.06
50 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATAAGA
Found at i:60397179 original size:94 final size:94
Alignment explanation
Indices: 60397030--60397249 Score: 257
Period size: 94 Copynumber: 2.3 Consensus size: 94
60397020 TATGTGTGCT
* **
60397030 AGTGTAAGACATTTCTGGGACATGCATCAGCCACAGTATGAGAGCTAGTGTAAGACATGTCTAAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTACAAGAGCTAGTGTAAGACATGTCTAAG
**
60397095 ACATGCATTAG-CCTCGAGATATTTAAGCC
66 ACATGCA-TAGACCTCGAGATATACAAGCC
* * *
60397124 AGTGTAAGACATGTCTGGGACATGCATCAG-TATTGAG-ACAAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAGTACAAGAGCTAGTGTAAGACATGTCTA
* * * *
60397187 GGACATGCATCGACCTCGCGATATACAAGCT
64 AGACATGCATAGACCTCGAGATATACAAGCC
* *
60397218 AGTGTAAGTCCTGTCTGGGACATGGCATCAGC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGC
60397250 TTGTGGTGTG
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
93 3 0.03
94 95 0.89
95 9 0.08
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTACAAGAGCTAGTGTAAGACATGTCTAAG
ACATGCATAGACCTCGAGATATACAAGCC
Found at i:60398561 original size:21 final size:20
Alignment explanation
Indices: 60398535--60398573 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
60398525 GTTATAATGA
*
60398535 CCACACGGGCGTGCTGCCCAT
1 CCACACGGACGTG-TGCCCAT
60398556 CCACACGGACGTGTGCCC
1 CCACACGGACGTGTGCCC
60398574 TATTTCAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.15, C:0.44, G:0.28, T:0.13
Consensus pattern (20 bp):
CCACACGGACGTGTGCCCAT
Found at i:60402994 original size:13 final size:13
Alignment explanation
Indices: 60402976--60403008 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
60402966 GTGATGTGGG
60402976 CGTGTGGCTTGGC
1 CGTGTGGCTTGGC
60402989 CGTGTGGCTTGGC
1 CGTGTGGCTTGGC
60403002 CGTGTGG
1 CGTGTGG
60403009 TTCAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.21, G:0.48, T:0.30
Consensus pattern (13 bp):
CGTGTGGCTTGGC
Found at i:60403664 original size:952 final size:947
Alignment explanation
Indices: 60401811--60403720 Score: 3395
Period size: 952 Copynumber: 2.0 Consensus size: 947
60401801 GGTTTAATGT
60401811 GAGAATGTGTAACACATGCATTTTGATAGGTAAATGATATGTTTGTATCATAATTGAGGATGTTG
1 GAGAATGTGTAACACATGCATTTTGATAGGTAAATGATATGTTTGTATCATAATTGAGGATGTTG
60401876 AACATTATTGGATCCATGTATATGTGTGTGCATGTAAGGGTGACAAAAAGGCTTGGAAAATAGCT
66 AACATTATTGGATCCATGTATATGTGTGTGCATGTAAGGGTGACAAAAAGGCTTGGAAAATAGCT
* *
60401941 TAAGAGTTAACTACACGGGATGAGACACGGCTGTGTGTCTCAACCGTGTGAGGGACACAGCCTGG
131 TAAGAGTTAACTACACGGGATGAGACACGGCTATGTGTCTCAACCATGTGAGGGACACAGCCTGG
60402006 TGATGTGGGCGTGTGGCTTGGCCGTGTGGTTCAATTTATTTGCTAATTCCATAAACAGAGAGTTA
196 TGATGTGGGCGTGTGGCTTGGCCGTGTGGTTCAATTTATTTGCTAATTCCATAAACAGAGAGTTA
60402071 CATGGCCTGAGGACACGGGCGTGTTGATGGCACACGGGCGTGCCCTTGTGTCTACACGGGCGTGT
261 CATGGCCTGAGGACACGGGCGTGTT-ATGG--CA----------C-TGTGTCTACACGGGCGTGT
*
60402136 GACCATTTTTCATGAGAAAAATTTCTAAGTTTTTCCCAGAACTTTCCAAAGTTTGCGGTTTAGTC
312 GACCATTTTTCATGAGAAAAATTTCTAAGTTTTTCCCAGAACTTTCCAAAGTTCGCGGTTTAGTC
60402201 CCGAACCCTTTCTAATGTATGTTTTGGGTTTCGTAGACCCAAATAAGGGACTATGTGCATGTGAT
377 CCGAACCCTTTCTAATGTATGTTTTGGGTTTCGTAGACCCAAATAAGGGACTATGTGCATGTGAT
60402266 TGAATGTTTTAAAATATGAATGAAATTTTATGGCCTGGTTTGCATGATTGTTTGTGTTTAAGTCC
442 TGAATGTTTTAAAATATGAATGAAATTTTATGGCCTGGTTTGCATGATTGTTTGTGTTTAAGTCC
60402331 GGTAATGCCTCGTATCCTGTCCCAGTGTAGGACACGGGTAAGGGGTGTTACACCGTGTATGGTAC
507 GGTAATGCCTCGTATCCTGTCCCAGTGTAGGACACGGGTAAGGGGTGTTACACCGTGTATGGTAC
* *
60402396 ACGGCCTAGAACATAGGTGTGTGTCTTGGCTGTGTGAAACCTGCACCTAATTTCGAAGAATTTAA
572 ACGACCTAGAACACAGGTGTGTGTCTTGGCTGTGTGAAACCTGCACCTAATTTCGAAGAATTTAA
* *
60402461 TTAACCATACGGCTTATCACACGGGCGTGTGGCATGACTGTGTGCACAAGCCAGAGAGTTACACG
637 TTAACCATACGGCCTATCACACGGGCGTGTGGCATGACCGTGTGCACAAGCCAGAGAGTTACACG
60402526 GGGTCAAACACGGCCTGTAGCATGGCCGTGTCATAGGGTCACACGGGTGTGTCCCTTGGACCACA
702 GGGTCAAACACGGCCTGTAGCATGGCCGTGTCATAGGGTCACACGGGTGTGTCCCTTGGACCACA
*
60402591 TGGGCGTATAAGTTCTGTAACTTAGAAAATTTTTGAAATTTTGCAAAAAATTCTTAGAGTTTTCA
767 CGGGCGTATAAGTTCTGTAACTTAGAAAATTTTTGAAATTTTGCAAAAAATTCTTAGAGTTTTCA
60402656 ATTAAGTCTTAACTTGATTCTAATGCTCGTATTGAGCCTCAAGGGTCTATTTAAGGGACGATATG
832 ATTAAGTCTTAACTTGATTCTAATGCTCGTATTGAGCCTCAAGGGTCTATTTAAGGGACGATATG
60402721 AATAATCTCGGTTAATGAATAGTAAATTTCATGAATTATCTAAAAAATTGC
897 AATAATCTCGGTTAATGAATAGTAAATTTCATGAATTATCTAAAAAATTGC
60402772 GAGAATGTGTAACACATGCATTTTGATAGGTAAATGATATGTTTGTATCATAATTGAGGATGTTG
1 GAGAATGTGTAACACATGCATTTTGATAGGTAAATGATATGTTTGTATCATAATTGAGGATGTTG
60402837 AACATTATTGGATCCATGTATATGTGTGTGCATGTAAGGGTGACAAAAAGGCTTGGAAAATAGCT
66 AACATTATTGGATCCATGTATATGTGTGTGCATGTAAGGGTGACAAAAAGGCTTGGAAAATAGCT
60402902 TAAGAGTTAACTACACGGGATGAGACACGGCTATGTGTCTCAACCATGTGAGGGACACAGCCTAG
131 TAAGAGTTAACTACACGGGATGAGACACGGCTATGTGTCTCAACCATGTGAGGGACACAGCC---
*
60402967 TGATGTGGGCGTGTGGCTTGGCCGTGTGGCTTGGCCGTGTGGTTCAATTTATTTGCTAATTCCAT
193 TG--GT--G-ATGT-G---GG-CGTGTGGCTTGGCCGTGTGGTTCAATTTATTTGCTAATTCCAT
60403032 AAACAGAGAGTTACATGGCCTGAGGACACGGGCGTG-T-T-G-A-TG-G-C-ACACGGGCGTGTG
248 AAACAGAGAGTTACATGGCCTGAGGACACGGGCGTGTTATGGCACTGTGTCTACACGGGCGTGTG
60403089 ACCATTTTTCATGAGAAAAATTTCTAAGTTTTTCCCAGAACTTTCCAAAGTTCGCGGTTTAGTCC
313 ACCATTTTTCATGAGAAAAATTTCTAAGTTTTTCCCAGAACTTTCCAAAGTTCGCGGTTTAGTCC
60403154 CGAACCCTTTCTAATGTATGTTTTGGGTTTCGTAGACCCAAATAAGGGACTATGTGCATGTGATT
378 CGAACCCTTTCTAATGTATGTTTTGGGTTTCGTAGACCCAAATAAGGGACTATGTGCATGTGATT
60403219 GAATGTTTTAAAATATGAATGAAATTTTATGGCCTGGTTTGCATGATTGTTTGTGTTTAAGTCCG
443 GAATGTTTTAAAATATGAATGAAATTTTATGGCCTGGTTTGCATGATTGTTTGTGTTTAAGTCCG
60403284 GTAATGCCTCGTATCCTGTCCCAGTGTAGGACACGGGTAAGGGGTGTTACACCGTGTATGGTACA
508 GTAATGCCTCGTATCCTGTCCCAGTGTAGGACACGGGTAAGGGGTGTTACACCGTGTATGGTACA
60403349 CGACCTAGAACACAGGTGTGTGTCTTGGCTGTGTGAAACCTGCACCTAATTTCGAAGAATTTAAT
573 CGACCTAGAACACAGGTGTGTGTCTTGGCTGTGTGAAACCTGCACCTAATTTCGAAGAATTTAAT
*
60403414 TAACCATACGGCCTATCACACGGGCGTGTGGCATGACCGTGTGCACAAGCCAGAGAGTTACATGG
638 TAACCATACGGCCTATCACACGGGCGTGTGGCATGACCGTGTGCACAAGCCAGAGAGTTACACGG
* *
60403479 GGTCGAACACGGCCTGTAGCATGGCCGTGTCATAGGGTCACACGGGTGTGTCCCTTGGACCATAC
703 GGTCAAACACGGCCTGTAGCATGGCCGTGTCATAGGGTCACACGGGTGTGTCCCTTGGACCACAC
60403544 GGGCGTATAAGTTCTGTAACTTAGAAAATTTTTGAAATTTTGCAAAAAATTCTTAGAGTTTTCAA
768 GGGCGTATAAGTTCTGTAACTTAGAAAATTTTTGAAATTTTGCAAAAAATTCTTAGAGTTTTCAA
*
60403609 TTAAGTCTTGACTTGATTCTAATGCTCGTATTGAGCCTCAAGGGTCTATTTAAGGGACGATATGA
833 TTAAGTCTTAACTTGATTCTAATGCTCGTATTGAGCCTCAAGGGTCTATTTAAGGGACGATATGA
*
60403674 ATAATCTCGGTTAATGAATAGTAAATTTCGTGAATTATCTAAAAAAT
898 ATAATCTCGGTTAATGAATAGTAAATTTCATGAATTATCTAAAAAAT
60403721 GTTCTGGAAG
Statistics
Matches: 922, Mismatches: 14, Indels: 35
0.95 0.01 0.04
Matches are distributed among these distances:
952 634 0.69
953 1 0.00
954 1 0.00
955 2 0.00
961 190 0.21
964 2 0.00
966 2 0.00
967 1 0.00
968 1 0.00
969 3 0.00
970 2 0.00
971 1 0.00
973 3 0.00
974 79 0.09
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (947 bp):
GAGAATGTGTAACACATGCATTTTGATAGGTAAATGATATGTTTGTATCATAATTGAGGATGTTG
AACATTATTGGATCCATGTATATGTGTGTGCATGTAAGGGTGACAAAAAGGCTTGGAAAATAGCT
TAAGAGTTAACTACACGGGATGAGACACGGCTATGTGTCTCAACCATGTGAGGGACACAGCCTGG
TGATGTGGGCGTGTGGCTTGGCCGTGTGGTTCAATTTATTTGCTAATTCCATAAACAGAGAGTTA
CATGGCCTGAGGACACGGGCGTGTTATGGCACTGTGTCTACACGGGCGTGTGACCATTTTTCATG
AGAAAAATTTCTAAGTTTTTCCCAGAACTTTCCAAAGTTCGCGGTTTAGTCCCGAACCCTTTCTA
ATGTATGTTTTGGGTTTCGTAGACCCAAATAAGGGACTATGTGCATGTGATTGAATGTTTTAAAA
TATGAATGAAATTTTATGGCCTGGTTTGCATGATTGTTTGTGTTTAAGTCCGGTAATGCCTCGTA
TCCTGTCCCAGTGTAGGACACGGGTAAGGGGTGTTACACCGTGTATGGTACACGACCTAGAACAC
AGGTGTGTGTCTTGGCTGTGTGAAACCTGCACCTAATTTCGAAGAATTTAATTAACCATACGGCC
TATCACACGGGCGTGTGGCATGACCGTGTGCACAAGCCAGAGAGTTACACGGGGTCAAACACGGC
CTGTAGCATGGCCGTGTCATAGGGTCACACGGGTGTGTCCCTTGGACCACACGGGCGTATAAGTT
CTGTAACTTAGAAAATTTTTGAAATTTTGCAAAAAATTCTTAGAGTTTTCAATTAAGTCTTAACT
TGATTCTAATGCTCGTATTGAGCCTCAAGGGTCTATTTAAGGGACGATATGAATAATCTCGGTTA
ATGAATAGTAAATTTCATGAATTATCTAAAAAATTGC
Found at i:60406092 original size:31 final size:31
Alignment explanation
Indices: 60406019--60406106 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 31
60406009 ATAATAATTA
* * *
60406019 AATTTAGTATTTAATATTTTACACATTCTGTC
1 AATTTAGTCTTTAATA-TTTACAAATTCTATC
* *
60406051 AATCTAGTCTTTAATATTTACAAATTCTATT
1 AATTTAGTCTTTAATATTTACAAATTCTATC
* *
60406082 AATTTGGTC-TTAAT-TTTAAAAATTC
1 AATTTAGTCTTTAATATTTACAAATTC
60406107 AAAAACATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 10 0.21
30 5 0.10
31 19 0.40
32 14 0.29
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (31 bp):
AATTTAGTCTTTAATATTTACAAATTCTATC
Found at i:60406508 original size:33 final size:33
Alignment explanation
Indices: 60406470--60406537 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 33
60406460 AATAAGTAAA
*
60406470 TTTAA-TATTGCTACATAAATTCAAATTATATTT
1 TTTAATTATTGCCACATAAATTCAAATTA-ATTT
* *
60406503 TTTAATTTATTTCCACATAAATTTAAATTAATTT
1 TTTAA-TTATTGCCACATAAATTCAAATTAATTT
60406537 T
1 T
60406538 CTATTGCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 5 0.17
34 5 0.17
35 20 0.67
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (33 bp):
TTTAATTATTGCCACATAAATTCAAATTAATTT
Found at i:60407763 original size:68 final size:68
Alignment explanation
Indices: 60407648--60407826 Score: 189
Period size: 68 Copynumber: 2.6 Consensus size: 68
60407638 ATGCAACATG
* * * * * * * * *
60407648 ACATGCTTATAACAAATCAATACGGTAGCAGT-AACATGCTTATAACAAGTTGATACAATAAAAA
1 ACATGATTACAACAGATCATTACAGTAGCAATAAACTTGCTTATAACAAATCGATACAATAAAAA
60407712 TTA
66 TTA
* * * **
60407715 TCATGATTACAATAGATCATTACAGTAGCAATAAACTTGCTTATAACAAATCGATACAGTAGCAA
1 ACATGATTACAACAGATCATTACAGTAGCAATAAACTTGCTTATAACAAATCGATACAATAAAAA
60407780 TTA
66 TTA
* * * *
60407783 ACATGTTTATAACAGATCATTACGGTAGCAATAAATTTGCTTAT
1 ACATGATTACAACAGATCATTACAGTAGCAATAAACTTGCTTAT
60407827 CATGCATTTG
Statistics
Matches: 91, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
67 24 0.26
68 67 0.74
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (68 bp):
ACATGATTACAACAGATCATTACAGTAGCAATAAACTTGCTTATAACAAATCGATACAATAAAAA
TTA
Found at i:60407778 original size:34 final size:33
Alignment explanation
Indices: 60407648--60407826 Score: 126
Period size: 34 Copynumber: 5.3 Consensus size: 33
60407638 ATGCAACATG
* *
60407648 ACATGCTTATAACAAATCAATACGGTAGCAGT-A
1 ACATGCTTATAACAAATC-ATACAGTAGCAATAA
* * * ** *
60407681 ACATGCTTATAACAAGTTGATACAATAAAAATTA
1 ACATGCTTATAACAA-ATCATACAGTAGCAATAA
* * * * *
60407715 TCATGATTACAATAGATCATTACAGTAGCAATAA
1 ACATGCTTATAACAAATCA-TACAGTAGCAATAA
* *
60407749 ACTTGCTTATAACAAATCGATACAGTAGCAATTA
1 ACATGCTTATAACAAATC-ATACAGTAGCAATAA
* * *
60407783 ACATGTTTATAACAGATCATTACGGTAGCAATAA
1 ACATGCTTATAACAAATCA-TACAGTAGCAATAA
**
60407817 ATTTGCTTAT
1 ACATGCTTAT
60407827 CATGCATTTG
Statistics
Matches: 108, Mismatches: 33, Indels: 9
0.72 0.22 0.06
Matches are distributed among these distances:
33 26 0.24
34 81 0.75
35 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (33 bp):
ACATGCTTATAACAAATCATACAGTAGCAATAA
Found at i:60415952 original size:50 final size:48
Alignment explanation
Indices: 60415744--60415972 Score: 170
Period size: 46 Copynumber: 4.9 Consensus size: 48
60415734 TATAGGTTAT
* * * ***
60415744 TGTGAGCTAGTGTAAGACCACGTCTGGGACATGGCATCGAC-ATTGGGA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCTA-CAAGA
* * * * * * *
60415792 TGAGTGCTAGTGTAAGA-AATGTCTGGGAGAT-GCATCGACCT-CGAGA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCG-GCTACAAGA
* *
60415838 TGTAAGCTAGTGTAAGA-CATGTTTGGCACAT-GCATCGGCTACAAGA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCTACAAGA
* * *
60415884 TGTG-TC-AGTGTAAGACCATGTTTGGGGCATGGCATCGGC-ACAGATA
1 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCTACA-AGA
* *
60415930 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGC
1 TGT--GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC
60415973 CTCGATTTCG
Statistics
Matches: 145, Mismatches: 26, Indels: 18
0.77 0.14 0.10
Matches are distributed among these distances:
44 9 0.06
45 18 0.12
46 59 0.41
47 12 0.08
48 16 0.11
49 1 0.01
50 30 0.21
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (48 bp):
TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCTACAAGA
Found at i:60416009 original size:49 final size:50
Alignment explanation
Indices: 60415846--60416018 Score: 152
Period size: 50 Copynumber: 3.6 Consensus size: 50
60415836 GATGTAAGCT
* *
60415846 AGTGTAAGA-CATGTTTGGCACAT-GCATCGGCTACA-AGATGT----GTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACAGATATGTGAGAGTC
*
60415890 AGTGTAAGACCATGTTTGGGGCATGGCATCGGCACAGATATGTGAGAG-C
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGTGAGAGTC
* * * *
60415939 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGC-CTCGAT-T-TCGATAGTC
1 -AGTGTAAGACCATGTTTGGGACATGGCATCGGCAC-AGATATGT-GAGAGTC
* *
60415989 AGTCTAAGACCATGTTTGGGACAGGGCATC
1 AGTGTAAGACCATGTTTGGGACATGGCATC
60416019 AACTTGATGG
Statistics
Matches: 106, Mismatches: 12, Indels: 17
0.79 0.09 0.13
Matches are distributed among these distances:
44 9 0.08
45 15 0.14
46 13 0.12
48 1 0.01
49 33 0.31
50 35 0.33
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (50 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGTGAGAGTC
Found at i:60416106 original size:47 final size:47
Alignment explanation
Indices: 60415746--60416113 Score: 211
Period size: 47 Copynumber: 7.8 Consensus size: 47
60415736 TAGGTTATTG
* * *
60415746 TGAGCTAGTGTAAGACCACGTCTGGGACATGGCATCGACATTG--GGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-TTGATGGA
* * * * *
60415792 TGAGTGCTAGTGTAAGA-AATGTCTGGGAGAT-GCATCGACCTCGA--GA
1 TGA--GCCAGTGTAAGACCATGTCTGGGACATGGCATC-AACTTGATGGA
* * * ** ** *
60415838 TGTAAGCTAGTGTAAGA-CATGTTTGGCACAT-GCATCGGCTACA-AGA
1 TG--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGATGGA
* * * * * *
60415884 TGTGTCAGTGTAAGACCATGTTTGGGGCATGGCATCGGCAC-AGATATGTGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC--AACTTG--ATG-GA
* * ** * *
60415935 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AACTTGA--TGGA
* * * *
60415984 T-AGTCAGTCTAAGACCATGTTTGGGACAGGGCATCAACTTGATGGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGATGGA
* *
60416030 TGAGCCAGTGAAAGACCATGTCTGGGACATAGCATCAACTTGATGGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGATGGA
*
60416077 TGAGCCAGTGTAAGACCATGTCTGGGACATGGTATCA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCA
60416114 GCATTATATC
Statistics
Matches: 250, Mismatches: 52, Indels: 39
0.73 0.15 0.11
Matches are distributed among these distances:
44 10 0.04
45 15 0.06
46 54 0.22
47 86 0.34
48 19 0.08
49 33 0.13
50 31 0.12
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGATGGA
Found at i:60422873 original size:32 final size:32
Alignment explanation
Indices: 60422832--60422895 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
60422822 CGAGAGTAAA
*
60422832 ATTATGGAATTATCCATATGGAACTTAATCAT
1 ATTATGGAATTATCCATATAGAACTTAATCAT
*
60422864 ATTATGGAATTGTCCATATAGAACTTAATCAT
1 ATTATGGAATTATCCATATAGAACTTAATCAT
60422896 GCAAATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
ATTATGGAATTATCCATATAGAACTTAATCAT
Found at i:60426958 original size:5 final size:5
Alignment explanation
Indices: 60426948--60426985 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
60426938 TGAATTCTCT
60426948 TTTTC TTTTC -TTTC -TTTC TTTTC TTTTC -TTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
60426986 AATTTGCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 12 0.39
5 19 0.61
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:60426963 original size:9 final size:9
Alignment explanation
Indices: 60426949--60426985 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
60426939 GAATTCTCTT
60426949 TTTCTTTTC
1 TTTCTTTTC
60426958 TTTC-TTTC
1 TTTCTTTTC
60426966 TTTTCTTTTC
1 -TTTCTTTTC
60426976 TTTCTTTTC
1 TTTCTTTTC
60426985 T
1 T
60426986 AATTTGCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 4 0.15
9 18 0.69
10 4 0.15
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:60426971 original size:18 final size:18
Alignment explanation
Indices: 60426948--60426982 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
60426938 TGAATTCTCT
60426948 TTTTCTTTTCTTTCTTTC
1 TTTTCTTTTCTTTCTTTC
60426966 TTTTCTTTTCTTTCTTT
1 TTTTCTTTTCTTTCTTT
60426983 TCTAATTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTCTTTCTTTC
Found at i:60427057 original size:26 final size:26
Alignment explanation
Indices: 60427009--60427061 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
60426999 TCCTCTTTCC
*
60427009 ATTTTCTTTATTATTTCTTTTATTAT
1 ATTTTCATTATTATTTCTTTTATTAT
60427035 ATTTTCATT-TTATTTCTTATTATTAT
1 ATTTTCATTATTATTTCTT-TTATTAT
60427061 A
1 A
60427062 ACATATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.70
Consensus pattern (26 bp):
ATTTTCATTATTATTTCTTTTATTAT
Found at i:60427072 original size:15 final size:15
Alignment explanation
Indices: 60427052--60427083 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
60427042 TTTTATTTCT
60427052 TATTATTATAACATA
1 TATTATTATAACATA
*
60427067 TATTATTATAACTTA
1 TATTATTATAACATA
60427082 TA
1 TA
60427084 CATATTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATTATAACATA
Found at i:60427072 original size:25 final size:25
Alignment explanation
Indices: 60427017--60427073 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
60427007 CCATTTTCTT
***
60427017 TATTATTTCTTTTATTATATTTTCA
1 TATTATTTCTTTTATTATAACATCA
*
60427042 TTTTATTTCTTATTATTATAACAT-A
1 TATTATTTCTT-TTATTATAACATCA
60427067 TATTATT
1 TATTATT
60427074 ATAACTTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (25 bp):
TATTATTTCTTTTATTATAACATCA
Found at i:60430222 original size:25 final size:25
Alignment explanation
Indices: 60430194--60430266 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 25
60430184 TGTTATACTT
60430194 TGATTGATTATTATTGTGACCATCA
1 TGATTGATTATTATTGTGACCATCA
* *
60430219 TGA-T-ATT-TTA-TGGGTA-C-T-T
1 TGATTGATTATTATTGTG-ACCATCA
60430238 TGATTGATTATTATTGTGACCATCA
1 TGATTGATTATTATTGTGACCATCA
60430263 TGAT
1 TGAT
60430267 ATTTTATGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
19 3 0.08
20 2 0.06
21 7 0.19
22 8 0.22
23 7 0.19
24 2 0.06
25 7 0.19
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.47
Consensus pattern (25 bp):
TGATTGATTATTATTGTGACCATCA
Found at i:60430239 original size:44 final size:44
Alignment explanation
Indices: 60430189--60430277 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
60430179 AATGTTGTTA
60430189 TACTTTGATTGATTATTATTGTGACCATCATGATATTTTATGGG
1 TACTTTGATTGATTATTATTGTGACCATCATGATATTTTATGGG
60430233 TACTTTGATTGATTATTATTGTGACCATCATGATATTTTATGGG
1 TACTTTGATTGATTATTATTGTGACCATCATGATATTTTATGGG
60430277 T
1 T
60430278 TTAGTTTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (44 bp):
TACTTTGATTGATTATTATTGTGACCATCATGATATTTTATGGG
Found at i:60431534 original size:42 final size:42
Alignment explanation
Indices: 60431458--60431570 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 42
60431448 ACTAATATTG
* * *
60431458 CGTGTAAGACCATATCTAGGATGTGGTATTGATATGAGA-CC
1 CGTGTAAGACCATAGCTAGGATGTGGCATCGATATGAGATCC
60431499 TCGTGTAAGACCATAGCT-GGCTAT-TGGCATCGATATGAGATCC
1 -CGTGTAAGACCATAGCTAGG--ATGTGGCATCGATATGAGATCC
* * *
60431542 CATGTAAGACCATATCTAGGATATGGCAT
1 CGTGTAAGACCATAGCTAGGATGTGGCAT
60431571 TGGTATGGTA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
41 4 0.07
42 51 0.84
43 6 0.10
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATAGCTAGGATGTGGCATCGATATGAGATCC
Found at i:60446440 original size:40 final size:40
Alignment explanation
Indices: 60446345--60446562 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
60446335 TGGATGATAA
*
60446345 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
60446386 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
60446426 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
60446466 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
60446506 CCGGGCTATGTCCCGAAAGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
60446545 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
60446563 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 14 0.09
39 15 0.09
40 103 0.64
41 24 0.15
42 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:60448522 original size:38 final size:38
Alignment explanation
Indices: 60448466--60448545 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
60448456 GATGTGTATT
* * *
60448466 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
60448504 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
60448542 CGGG
1 CGGG
60448546 CCTTTGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:60448598 original size:43 final size:43
Alignment explanation
Indices: 60448517--60448692 Score: 284
Period size: 43 Copynumber: 4.1 Consensus size: 43
60448507 GATAAATCCC
* * * *
60448517 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTTGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
60448558 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGTCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
60448601 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
60448644 GCAGGCGTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
60448687 GCAGGC
1 GCAGGC
60448693 GTAATGCTGG
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 109 0.87
ACGTcount: A:0.12, C:0.23, G:0.35, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:60454001 original size:152 final size:152
Alignment explanation
Indices: 60453722--60454001 Score: 497
Period size: 152 Copynumber: 1.8 Consensus size: 152
60453712 ACGCTGGCTA
*
60453722 TCATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTCTGTGT
1 TCATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGT
* * * *
60453787 ACACCATGTAGACAAGAGAGCTATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
66 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATACGTAGTACCAAGTGAA
60453852 GGACACCATGTAGACAAGAGAG
131 GGACACCATGTAGACAAGAGAG
60453874 TCATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGT
1 TCATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGT
* *
60453939 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATATGTAGTACTAAGTG
66 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATACGTAGTACCAAGTG
60454002 TAGGCTACTA
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
152 121 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (152 bp):
TCATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGT
ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATACGTAGTACCAAGTGAA
GGACACCATGTAGACAAGAGAG
Found at i:60461444 original size:40 final size:40
Alignment explanation
Indices: 60461349--60461526 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
60461339 TGGATGATAA
*
60461349 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
60461390 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
60461430 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
60461470 CCGGGCTATGTCCCGAAAGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
60461509 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
60461527 TACTTGGCTT
Statistics
Matches: 124, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
38 14 0.11
39 16 0.13
40 66 0.53
41 24 0.19
42 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:60463486 original size:38 final size:38
Alignment explanation
Indices: 60463430--60463509 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
60463420 GATGTGTATT
* * *
60463430 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
60463468 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
60463506 CGGG
1 CGGG
60463510 CCTTTGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:60463583 original size:43 final size:42
Alignment explanation
Indices: 60463481--60463583 Score: 136
Period size: 43 Copynumber: 2.5 Consensus size: 42
60463471 GATAAATCCC
*
60463481 GCAGGCCTAGTGCTGGT-ATTATATTCGGGCCTTTGTGCCTA
1 GCAGGCCTAGTGCTGGTGATTATATTCGGGCCTTCGTGCCTA
* * *
60463522 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCCTAGTGCTGGTGAT-TATATTCGGGCCTTCGTGCCTA
* *
60463565 GCAGGCGTAATGCTGGTGA
1 GCAGGCCTAGTGCTGGTGA
60463584 AATGATATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
41 15 0.28
42 2 0.04
43 36 0.68
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (42 bp):
GCAGGCCTAGTGCTGGTGATTATATTCGGGCCTTCGTGCCTA
Found at i:60472378 original size:15 final size:15
Alignment explanation
Indices: 60472358--60472386 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
60472348 GTTTTGTTGC
60472358 TTGATAACACGGTGA
1 TTGATAACACGGTGA
60472373 TTGATAACACGGTG
1 TTGATAACACGGTG
60472387 TGTGAAGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:60474783 original size:33 final size:33
Alignment explanation
Indices: 60474741--60474807 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
60474731 GTATTGTTAC
60474741 ATTCTCTTTAAGGAATAAACATTTTTTCACTAG
1 ATTCTCTTTAAGGAATAAACATTTTTTCACTAG
*
60474774 ATTCTCTTTAAGGAATAAACTTTTTTTCACTAG
1 ATTCTCTTTAAGGAATAAACATTTTTTCACTAG
60474807 A
1 A
60474808 AGGCATGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (33 bp):
ATTCTCTTTAAGGAATAAACATTTTTTCACTAG
Found at i:60475237 original size:20 final size:20
Alignment explanation
Indices: 60475199--60475237 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
60475189 ATATCAATGT
*
60475199 CATATGTTATGAAAGATATG
1 CATATGTTATGAAAAATATG
60475219 CATAT-TTATGCAAAAATAT
1 CATATGTTATG-AAAAATAT
60475238 CCAAGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (20 bp):
CATATGTTATGAAAAATATG
Found at i:60489138 original size:27 final size:26
Alignment explanation
Indices: 60489103--60489214 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
60489093 AGCATGGCTG
* *
60489103 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
60489129 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
60489157 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
60489184 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
60489211 CCAG
1 CCAG
60489215 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:60489195 original size:54 final size:54
Alignment explanation
Indices: 60489103--60489214 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
60489093 AGCATGGCTG
* *
60489103 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
60489157 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
60489211 CCAG
1 CCAG
60489215 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:60494903 original size:13 final size:14
Alignment explanation
Indices: 60494885--60494918 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
60494875 TTTATCTTTG
60494885 TCTTTAAT-TTTAA
1 TCTTTAATCTTTAA
60494898 TCTTTAATCTTTAA
1 TCTTTAATCTTTAA
60494912 T-TTTAAT
1 TCTTTAAT
60494919 GTTAGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTTAATCTTTAA
Found at i:60494905 original size:7 final size:7
Alignment explanation
Indices: 60494885--60494918 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
60494875 TTTATCTTTG
60494885 TCTTTAA
1 TCTTTAA
60494892 T-TTTAA
1 TCTTTAA
60494898 TCTTTAA
1 TCTTTAA
60494905 TCTTTAA
1 TCTTTAA
60494912 T-TTTAA
1 TCTTTAA
60494918 T
1 T
60494919 GTTAGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (7 bp):
TCTTTAA
Found at i:60494910 original size:20 final size:19
Alignment explanation
Indices: 60494872--60494918 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
60494862 TTTATTTCTC
* *
60494872 ATTTTTATCTTTGTCTTTA
1 ATTTTAATCTTTATCTTTA
60494891 ATTTTAATCTTTAATCTTTA
1 ATTTTAATCTTT-ATCTTTA
60494911 ATTTTAAT
1 ATTTTAAT
60494919 GTTAGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTAATCTTTATCTTTA
Found at i:60495024 original size:44 final size:44
Alignment explanation
Indices: 60494973--60495059 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
60494963 TACTAATAAG
*
60494973 TTTGTTTATTTTTAAACAGTCCAATTTTCAAATAAAGTTTGGGT
1 TTTGTTTATTTTTAAACAATCCAATTTTCAAATAAAGTTTGGGT
* *
60495017 TTTGTTTATTTTTAAGCAATCCAATTTTCAAATAATGTTTGGG
1 TTTGTTTATTTTTAAACAATCCAATTTTCAAATAAAGTTTGGG
60495060 CTCAAGGCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (44 bp):
TTTGTTTATTTTTAAACAATCCAATTTTCAAATAAAGTTTGGGT
Found at i:60496998 original size:38 final size:38
Alignment explanation
Indices: 60496955--60497160 Score: 126
Period size: 38 Copynumber: 4.9 Consensus size: 38
60496945 TTTCAAATTA
*
60496955 ACATGTATAACTGTGGCATATCCACTTAGCACCACATT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
* * *
60496993 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
* * *
60497031 A-ATGAATCAATACATGTAACCGTGGTATATTCACTTAGCACCACGTT
1 ACATG------T--A--TAACCGTGGCATATCCACTTAGCACCACATT
* * *
60497078 ACATGATTCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGCATATCCACTTAGCACCACATT
*
60497126 ACATGTATAACCGTGGTATATCCACTTAGCACCAC
1 ACATGTATAACCGTGGCATATCCACTTAGCACCAC
60497161 GTTTTTTTCA
Statistics
Matches: 145, Mismatches: 10, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
37 3 0.02
38 62 0.43
42 2 0.01
43 1 0.01
46 1 0.01
47 31 0.21
48 45 0.31
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
Found at i:60497107 original size:48 final size:48
Alignment explanation
Indices: 60496995--60497130 Score: 211
Period size: 48 Copynumber: 2.9 Consensus size: 48
60496985 ACCACATTAC
*
60496995 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
** * *
60497042 ACATGTAACCGTGGTATATTCACTTAGCACCACGTTACATGATTCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
*
60497090 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATG
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
60497131 TATAACCGTG
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 33 0.42
48 46 0.58
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
Found at i:60497161 original size:38 final size:38
Alignment explanation
Indices: 60497090--60497163 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
60497080 ATGATTCAAT
* *
60497090 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAC
1 ATGTATAACCGTGGTATATCCACTTAGCACCACGTTAC
60497128 ATGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ATGTATAACCGTGGTATATCCACTTAGCACCACGTT
60497164 TTTTTCATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (38 bp):
ATGTATAACCGTGGTATATCCACTTAGCACCACGTTAC
Found at i:60504556 original size:64 final size:64
Alignment explanation
Indices: 60504476--60504657 Score: 199
Period size: 67 Copynumber: 2.8 Consensus size: 64
60504466 AGACATTATG
* * * *
60504476 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGATAAGAGAGCTACGAGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAACTACGAGATAA
* * * *
60504540 ATGTAGCTAGGTCGCATGTGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAACTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAACTACGAGAT
60504605 AA
63 AA
* * *
60504607 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGA
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGA
60504658 GCCAAAATTA
Statistics
Matches: 98, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.17
64 26 0.27
66 22 0.22
67 30 0.31
68 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAACTACGAGATAA
Found at i:60504594 original size:67 final size:65
Alignment explanation
Indices: 60504452--60504605 Score: 175
Period size: 67 Copynumber: 2.3 Consensus size: 65
60504442 CATCATGTGT
* * *
60504452 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TATGATGTAGCTAGGTCGCATGGGTGATACTATGAGGACACCATG
60504517 TAG
63 TAG
* * * *
60504520 ATAAGAGAGCTACGAGATAT-ATGTAGCTAGGTCGCATGTGTGGTTCTAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATATGATGTAGCTAGGTCGCATGGGTGATACTA--TG-AGGACACCATG
60504584 TAG
63 TAG
*
60504587 ACAAGAGAACTACGAGATA
1 ACAAGAGAGCTACGAGATA
60504606 AACTGGCTAG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 25 0.34
65 3 0.04
66 5 0.07
67 29 0.39
68 12 0.16
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (65 bp):
ACAAGAGAGCTACGAGATATGATGTAGCTAGGTCGCATGGGTGATACTATGAGGACACCATGTAG
Found at i:60508805 original size:12 final size:13
Alignment explanation
Indices: 60508777--60508809 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
60508767 TTATTTCTTT
60508777 TTCTCCATCTACC
1 TTCTCCATCTACC
*
60508790 TTCTCC-TCTTCC
1 TTCTCCATCTACC
60508802 TTCTCCAT
1 TTCTCCAT
60508810 AGCTGAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:60509909 original size:28 final size:28
Alignment explanation
Indices: 60509877--60509941 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
60509867 ATTTACTAGA
*
60509877 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
60509905 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
60509933 ATACCCCTA
1 ATACCCCTA
60509942 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:60510088 original size:28 final size:29
Alignment explanation
Indices: 60510047--60510109 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
60510037 AGGAAGCGTC
*
60510047 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
60510075 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
60510104 CTGGTG
1 CTGGTG
60510110 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:60510120 original size:29 final size:28
Alignment explanation
Indices: 60510057--60510120 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
60510047 CTGGTGGCTA
* *
60510057 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
60510085 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
60510114 TGTCACA
1 TGCCACA
60510121 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:60510597 original size:19 final size:19
Alignment explanation
Indices: 60510573--60510611 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
60510563 TTTTAATTAT
* *
60510573 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
60510592 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
60510611 T
1 T
60510612 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:60511225 original size:11 final size:10
Alignment explanation
Indices: 60511197--60511230 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
60511187 AGCCTGTAAG
60511197 TATTCTGAAT
1 TATTCTGAAT
*
60511207 TTTTCTGAAT
1 TATTCTGAAT
60511217 ATATTCTGAAT
1 -TATTCTGAAT
60511228 TAT
1 TAT
60511231 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:60516540 original size:12 final size:13
Alignment explanation
Indices: 60516512--60516544 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
60516502 TTATTTCTTT
60516512 TTCTCCATCTACC
1 TTCTCCATCTACC
*
60516525 TTCTCC-TCTTCC
1 TTCTCCATCTACC
60516537 TTCTCCAT
1 TTCTCCAT
60516545 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:60523463 original size:31 final size:30
Alignment explanation
Indices: 60523402--60523479 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
60523392 AAGTTACAAA
* * *
60523402 TTTAGTCCCTGTAC-TTTTATTTGATCAAT
1 TTTAGTCCTTGTACTTTTTAATTGATAAAT
60523431 TTTAGTCCTTGTACTTTTTGAATTGATAAAT
1 TTTAGTCCTTGTACTTTTT-AATTGATAAAT
60523462 TTTAGTCCCTT-TACTTTT
1 TTTAGT-CCTTGTACTTTT
60523480 CAAAAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 13 0.30
30 4 0.09
31 22 0.51
32 4 0.09
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (30 bp):
TTTAGTCCTTGTACTTTTTAATTGATAAAT
Found at i:60526018 original size:16 final size:16
Alignment explanation
Indices: 60525997--60526028 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60525987 GTTTTGTTGC
*
60525997 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
60526013 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
60526029 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:60526312 original size:51 final size:51
Alignment explanation
Indices: 60526254--60526427 Score: 264
Period size: 51 Copynumber: 3.6 Consensus size: 51
60526244 TATCAGTTCA
60526254 CATAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTATCCAGTACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTATCCAGTACG
60526305 CATAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTATCCAGTACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTATCCAGTACG
60526356 CATAGTAGCCTGCAC-----A-T----A-GT-ATCAAAGCTATCCAGTACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTATCCAGTACG
60526395 CATAGTAGCCTGCACATAGTACTACACACGTGA
1 CATAGTAGCCTGCACATAGTACTACACACGTGA
60526428 CCATCACTTT
Statistics
Matches: 111, Mismatches: 0, Indels: 24
0.82 0.00 0.18
Matches are distributed among these distances:
39 34 0.31
40 2 0.02
41 1 0.01
44 1 0.01
45 2 0.02
46 1 0.01
49 1 0.01
50 2 0.02
51 67 0.60
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (51 bp):
CATAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTATCCAGTACG
Found at i:60526382 original size:39 final size:39
Alignment explanation
Indices: 60526337--60526415 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
60526327 TACACACGTG
60526337 ATCAAAGCTATCCAGTACGCATAGTAGCCTGCACATAGT
1 ATCAAAGCTATCCAGTACGCATAGTAGCCTGCACATAGT
60526376 ATCAAAGCTATCCAGTACGCATAGTAGCCTGCACATAGT
1 ATCAAAGCTATCCAGTACGCATAGTAGCCTGCACATAGT
60526415 A
1 A
60526416 CTACACACGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (39 bp):
ATCAAAGCTATCCAGTACGCATAGTAGCCTGCACATAGT
Found at i:60529240 original size:43 final size:42
Alignment explanation
Indices: 60529190--60529457 Score: 186
Period size: 43 Copynumber: 6.3 Consensus size: 42
60529180 TTTTAGCAAT
* *
60529190 AAACGCCGCTATAGAACAAGACCTTTAGCAGTGCATTTCACAC
1 AAACGCCGCTATAGAACAA-ACCTTTAGCAGCGCTTTTCACAC
* ** * * *
60529233 AAACGCCGCTATAGAATAGGGCCTTTAG-TGACGCTTATCCCAC
1 AAACGCCGCTATAGAACA-AACCTTTAGCAG-CGCTTTTCACAC
* * * *** * *
60529276 AAACGCCGCTAAAGATCACAACTTTTAATGGCACTTTTTACAC
1 AAACGCCGCTATAGAACA-AACCTTTAGCAGCGCTTTTCACAC
*
60529319 AAACGCCGCTATAGAACAAAACCTTTAGCGGCGCTTTTC-CTAC
1 AAACGCCGCTATAGAAC-AAACCTTTAGCAGCGCTTTTCAC-AC
* * *
60529362 AAACACCGCTA-AAAATCATAACCTTTAGC-GACGCTTTTCCCAC
1 AAACGCCGCTATAGAA-CA-AACCTTTAGCAG-CGCTTTTCACAC
* * * *
60529405 AAACGCCGCTCA-ATATCAAACCTTTAGCGGTGCTTTTCACAC
1 AAACGCCGCT-ATAGAACAAACCTTTAGCAGCGCTTTTCACAC
*
60529447 AAACACCGCTA
1 AAACGCCGCTA
60529458 AAAACATATC
Statistics
Matches: 178, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.01
42 36 0.20
43 135 0.76
44 6 0.03
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTATAGAACAAACCTTTAGCAGCGCTTTTCACAC
Found at i:60529327 original size:86 final size:86
Alignment explanation
Indices: 60529229--60529461 Score: 227
Period size: 86 Copynumber: 2.7 Consensus size: 86
60529219 AGTGCATTTC
* *** * * *
60529229 ACACAAACGCCGCTATAGAATAGGGCCTTTAGTGACGCTTATCCCACAAACGCCGCTAAAGATCA
1 ACACAAACGCCGCTATAGAACAAAACCTTTAGCGACGCTTATCCCACAAACACCGCTAAAAATCA
*
60529294 CAACTTTTAATGGCACTTTTT
66 CAACCTTTAATGGCACTTTTT
* * *
60529315 ACACAAACGCCGCTATAGAACAAAACCTTTAGCGGCGCTTTTCCTACAAACACCGCTAAAAATCA
1 ACACAAACGCCGCTATAGAACAAAACCTTTAGCGACGCTTATCCCACAAACACCGCTAAAAATCA
* ** * * *
60529380 TAACCTTTAGCGACGCTTTTC
66 CAACCTTTAATGGCACTTTTT
* * * ** * *
60529401 CCACAAACGCCGCTCA-ATATC-AAACCTTTAGCGGTGCTTTTCACACAAACACCGCTAAAAA
1 ACACAAACGCCGCT-ATAGAACAAAACCTTTAGCGACGCTTATCCCACAAACACCGCTAAAAA
60529462 CATATCTTTA
Statistics
Matches: 123, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
85 37 0.30
86 85 0.69
87 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (86 bp):
ACACAAACGCCGCTATAGAACAAAACCTTTAGCGACGCTTATCCCACAAACACCGCTAAAAATCA
CAACCTTTAATGGCACTTTTT
Found at i:60530828 original size:29 final size:29
Alignment explanation
Indices: 60530786--60530843 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
60530776 CATATTTCCT
*
60530786 TAAGTTTTTCTTGCGTTCTTCAATAGAAA
1 TAAGTTTTTCTTGCATTCTTCAATAGAAA
60530815 TAAGTTTTTCTTGCATTCTTCAATAGAAA
1 TAAGTTTTTCTTGCATTCTTCAATAGAAA
60530844 CCCTCTGGCG
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:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (29 bp):
TAAGTTTTTCTTGCATTCTTCAATAGAAA
Found at i:60532931 original size:43 final size:43
Alignment explanation
Indices: 60532883--60532968 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
60532873 GGAATTTTTT
60532883 AAAGTAAAATTATTCTTTGCAGCGTTTATTATAAAAACGCTGC
1 AAAGTAAAATTATTCTTTGCAGCGTTTATTATAAAAACGCTGC
*
60532926 AAAGTAAAATTATTCTTTGCGGCGTTTATTATAAAAACGCTGC
1 AAAGTAAAATTATTCTTTGCAGCGTTTATTATAAAAACGCTGC
60532969 TATTGCTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (43 bp):
AAAGTAAAATTATTCTTTGCAGCGTTTATTATAAAAACGCTGC
Found at i:60535948 original size:41 final size:41
Alignment explanation
Indices: 60535903--60536205 Score: 426
Period size: 41 Copynumber: 7.4 Consensus size: 41
60535893 GGTTTTAAAA
* * * *
60535903 CCTAGCAGGCTAAGTACCGGTGATCTAAATCAGGTTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
60535944 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
60535985 CCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
60536026 CCTAGCAGGCTAAGTGCCGATGATTTGAATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
60536067 CCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * * *
60536108 CCTAGCAGGCTAAGTGTCGGTGAACTGGATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
60536149 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
60536190 CCTAACAAGCTAAGTG
1 CCTAGCAGGCTAAGTG
60536206 ACAGTGAATC
Statistics
Matches: 239, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 239 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:60537698 original size:8 final size:7
Alignment explanation
Indices: 60537663--60537795 Score: 65
Period size: 7 Copynumber: 18.7 Consensus size: 7
60537653 ACTAGTTTAT
60537663 CTAAACC
1 CTAAACC
*
60537670 CTAAATC
1 CTAAACC
*
60537677 ATAAA-C
1 CTAAACC
60537683 CTAAACC
1 CTAAACC
60537690 CTAAAACC
1 CT-AAACC
60537698 CTAAACC
1 CTAAACC
* *
60537705 CTTAACA
1 CTAAACC
60537712 C-ATAACC
1 CTA-AACC
60537719 TCTAAACC
1 -CTAAACC
*
60537727 TTAAACC
1 CTAAACC
*
60537734 C-CAACC
1 CTAAACC
*
60537740 TTTAAACC
1 -CTAAACC
*
60537748 ATAAACC
1 CTAAACC
* *
60537755 ATAAATC
1 CTAAACC
* *
60537762 ATAACCC
1 CTAAACC
60537769 CTAAACC
1 CTAAACC
*
60537776 CATAATCC
1 C-TAAACC
*
60537784 ATAAACC
1 CTAAACC
*
60537791 TTAAA
1 CTAAA
60537796 ATAGTAACTC
Statistics
Matches: 96, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
6 9 0.09
7 65 0.68
8 21 0.22
9 1 0.01
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:60538370 original size:40 final size:40
Alignment explanation
Indices: 60538286--60538403 Score: 116
Period size: 40 Copynumber: 3.0 Consensus size: 40
60538276 GCGCTTATTG
* **
60538286 GAAAA-CGCCGCTAATGCTC-ATTTTTAGAGGCGTTTTCC
1 GAAAAGCGCCGCTAATACTCGATTTTTAGAGGCGTTTTTT
* *
60538324 GAAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTTT
1 GAAAAGCGCCGCTAATACTCGATTTTTAGAGGCGTTTTTT
** * * *
60538364 TTAAAGCGCCGCTAGTGA-TTGATTTTTAGTGGCGTTTTTT
1 GAAAAGCGCCGCTAAT-ACTCGATTTTTAGAGGCGTTTTTT
60538404 ATCCAAACGC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 5 0.08
39 13 0.20
40 47 0.71
41 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (40 bp):
GAAAAGCGCCGCTAATACTCGATTTTTAGAGGCGTTTTTT
Found at i:60544811 original size:19 final size:19
Alignment explanation
Indices: 60544777--60544827 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
60544767 CATCTTTTTT
60544777 CATT-CATTTCATTCATCA-G
1 CATTACATTTCA-TCAT-ATG
60544796 CATTACATTTCATCATATG
1 CATTACATTTCATCATATG
*
60544815 CATTAAATTTCAT
1 CATTACATTTCAT
60544828 AAAAAGACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 21 0.72
20 7 0.24
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.43
Consensus pattern (19 bp):
CATTACATTTCATCATATG
Found at i:60552783 original size:44 final size:44
Alignment explanation
Indices: 60552733--60553018 Score: 347
Period size: 44 Copynumber: 6.5 Consensus size: 44
60552723 CATCATAACG
* * ** *
60552733 AATCTTATCTCCCTAAAGTTGTAGTGGATTAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
60552777 AATCTTATCTCCCTGAAGTTGCAGTGGAGTATATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
60552821 AATCATATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* *
60552865 AATCTTATCTCCCTGAAGTTGCAGTGGATCAGATTAAAACTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
60552909 AATCTTATCTCCCTGAAGTTGTAGTGGACCAGATTGAAGATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* * *
60552954 AATCTTATCTCCTTCAAGTTGCAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
**
60552998 AATCTTATCTCATTGAAGTTG
1 AATCTTATCTCCCTGAAGTTG
60553019 TAATAGACTA
Statistics
Matches: 210, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
44 172 0.82
45 38 0.18
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:60559064 original size:12 final size:12
Alignment explanation
Indices: 60559049--60559073 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60559039 CTCTCAAAAG
60559049 AGCAAACAAATA
1 AGCAAACAAATA
60559061 AGCAAACAAATA
1 AGCAAACAAATA
60559073 A
1 A
60559074 ATAATCGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.16, G:0.08, T:0.08
Consensus pattern (12 bp):
AGCAAACAAATA
Found at i:60564141 original size:31 final size:32
Alignment explanation
Indices: 60564078--60564213 Score: 102
Period size: 30 Copynumber: 4.4 Consensus size: 32
60564068 AAAAGAAAGC
60564078 TTAGGTACCAAATTAGGAAAAAAAATACCAAGT
1 TTAGGTACCAAATTAGGAAAAAAAATA-CAAGT
***
60564111 TTAGGTACCAAATTAGGAAAAAGCGT-CAAGT
1 TTAGGTACCAAATTAGGAAAAAAAATACAAGT
* * * * *** *
60564142 TCAGATGCTAAATT-GG-GCCAAAATAAAAGT
1 TTAGGTACCAAATTAGGAAAAAAAATACAAGT
* *
60564172 TTAGGTACCAAGTTA-AAAAAAAAAT-CAAGT
1 TTAGGTACCAAATTAGGAAAAAAAATACAAGT
*
60564202 TTAGATACCAAA
1 TTAGGTACCAAA
60564214 AATTATATTA
Statistics
Matches: 74, Mismatches: 26, Indels: 9
0.68 0.24 0.08
Matches are distributed among these distances:
29 2 0.03
30 29 0.39
31 20 0.27
33 23 0.31
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.23
Consensus pattern (32 bp):
TTAGGTACCAAATTAGGAAAAAAAATACAAGT
Found at i:60569319 original size:19 final size:19
Alignment explanation
Indices: 60569292--60569333 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
60569282 CTCGTTAATG
* *
60569292 GTGTTTGATTAGTGGAATT
1 GTGTCTGATTAGTGGAACT
60569311 GTGTCTGATTAGTGGAACT
1 GTGTCTGATTAGTGGAACT
60569330 GTGT
1 GTGT
60569334 GTGCATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.33, T:0.43
Consensus pattern (19 bp):
GTGTCTGATTAGTGGAACT
Found at i:60574015 original size:24 final size:23
Alignment explanation
Indices: 60573970--60574018 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
60573960 GATTTATCTC
**
60573970 ATTTTTATTGGCATCTTGTCTGT
1 ATTTTTATTGGCAAATTGTCTGT
*
60573993 ATTTTTATTGGCAAAATTTTCTGT
1 ATTTTTATTGGC-AAATTGTCTGT
60574017 AT
1 AT
60574019 ATTGTTATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.20, C:0.10, G:0.14, T:0.55
Consensus pattern (23 bp):
ATTTTTATTGGCAAATTGTCTGT
Found at i:60577426 original size:3 final size:3
Alignment explanation
Indices: 60577418--60578217 Score: 1591
Period size: 3 Copynumber: 266.7 Consensus size: 3
60577408 TAGATCGACA
60577418 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577466 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577514 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577562 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577610 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577658 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577706 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577754 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577802 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577850 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577898 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577946 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60577994 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60578042 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60578090 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60578138 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
60578186 AAG AAG AAG AAG AAG AAG GAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
60578218 ATGGACGCAC
Statistics
Matches: 795, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 795 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:60578673 original size:13 final size:14
Alignment explanation
Indices: 60578649--60578677 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
60578639 TAATTTAGAA
60578649 AATTTAATTAATTT
1 AATTTAATTAATTT
60578663 AATTT-ATTAATTT
1 AATTTAATTAATTT
60578676 AA
1 AA
60578678 AAAATCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTAATTT
Found at i:60579138 original size:21 final size:21
Alignment explanation
Indices: 60579114--60579153 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
60579104 AAATGAGTTA
* *
60579114 TTTATATAGGTTAAATACGGG
1 TTTAGATAGGTCAAATACGGG
*
60579135 TTTAGATCGGTCAAATACG
1 TTTAGATAGGTCAAATACG
60579154 ATTTGGTGGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (21 bp):
TTTAGATAGGTCAAATACGGG
Found at i:60579320 original size:14 final size:14
Alignment explanation
Indices: 60579301--60579327 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60579291 CCAGTGTTTT
60579301 GTGCAAAAAAATTA
1 GTGCAAAAAAATTA
60579315 GTGCAAAAAAATT
1 GTGCAAAAAAATT
60579328 GAGAAAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (14 bp):
GTGCAAAAAAATTA
Found at i:60584314 original size:12 final size:13
Alignment explanation
Indices: 60584287--60584330 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 13
60584277 ATCAAAACAC
60584287 ATAAATATAATACA
1 ATAAATAT-ATACA
60584301 ATAAATAT-TACA
1 ATAAATATATACA
60584313 ATAAATATAGTACA
1 ATAAATATA-TACA
60584327 ATAA
1 ATAA
60584331 TATCATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.43
14 16 0.57
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (13 bp):
ATAAATATATACA
Found at i:60584316 original size:26 final size:28
Alignment explanation
Indices: 60584287--60584341 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
60584277 ATCAAAACAC
60584287 ATAAATATAATACAATAA-AT-ATTACA
1 ATAAATATAATACAATAATATCATTACA
*
60584313 ATAAATATAGTACAATAATATCATTACA
1 ATAAATATAATACAATAATATCATTACA
60584341 A
1 A
60584342 AAAAACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 17 0.65
27 2 0.08
28 7 0.27
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (28 bp):
ATAAATATAATACAATAATATCATTACA
Found at i:60584340 original size:14 final size:13
Alignment explanation
Indices: 60584290--60584341 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 13
60584280 AAAACACATA
*
60584290 AATATAATACAAT
1 AATATATTACAAT
60584303 AA-ATATTACAAT
1 AATATATTACAAT
*
60584315 AAATATAGTACAAT
1 -AATATATTACAAT
60584329 AATATCATTACAA
1 AATAT-ATTACAA
60584342 AAAAACTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 9 0.27
13 9 0.27
14 15 0.45
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (13 bp):
AATATATTACAAT
Found at i:60584575 original size:3 final size:3
Alignment explanation
Indices: 60584569--60584601 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
60584559 TATTTGTATC
60584569 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
60584602 CAACAACAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:60584693 original size:16 final size:16
Alignment explanation
Indices: 60584674--60584718 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
60584664 ACCTTCCTTT
*
60584674 CTTACAAAACTAATAC
1 CTTACAAAAATAATAC
60584690 CTTACAAAAATAATAC
1 CTTACAAAAATAATAC
60584706 CTTACAAAAATAA
1 CTTACAAAAATAA
60584719 ATCAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (16 bp):
CTTACAAAAATAATAC
Found at i:60585104 original size:5 final size:5
Alignment explanation
Indices: 60585096--60585125 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
60585086 AACCTTTTGC
60585096 CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT
1 CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT
60585126 ATACTCTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
CTTCT
Done.