Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 177 of 322
Found at i:57903226 original size:261 final size:261
Alignment explanation
Indices: 57902760--57903229 Score: 558
Period size: 261 Copynumber: 1.8 Consensus size: 261
57902750 TCTTTACACC
* * * *
57902760 ATTATAATAAAAAAGGTTAATGCACTATTTTGGGCCTAAACTTGGCAAGTGTTCTCATATTAAGG
1 ATTATAATAAAAAAGGTTAACGCACTAGTTGGGGCCTAAACTTGGCAAGTGTTCTCATATTAAAG
* * * *
57902825 TTTAACTTTTTTTAGTCCAAGTTAGTCCTTGAACTAGACAATTATTCTCACATTGAGCTTGAACT
66 CTTAACTTTTTTTAGTCCAAGTTAGTCCTTAAACTAGACAATTATTCTCACACTAAGCTTGAACT
* * ** * * * *
57902890 TTTTTTTATCTAAGTTAGTCTCTAAACTTGGCAACTATTCTCACACTGAGCTTGGAATTTTTTTT
131 TTTTTTGATCCAAGTTACCCTCTAAACTTAGAAACTATTCTCACACTAAGCTTGGAACTTTTTTT
*
57902955 ATTAAAGTTAGTTCTTGAACTAGACAATTGTTTTCACATTGGTGACATAAACTTTTTTTTTACAA
196 ATCAAAGTTAGTTCTTGAACTAGACAATTGTTTTCACATTGGTGACATAAACTTTTTTTTTACAA
57903020 T
261 T
* * * *
57903021 ATTATAATAAAAAGGGTTAACGCATTGGTTGGGGCCTAAACTT-GTAAGTGTTC-CTATATTAAA
1 ATTATAATAAAAAAGGTTAACGCACTAGTTGGGGCCTAAACTTGGCAAGTGTTCTC-ATATTAAA
* * **
57903084 GCTTAACTTTTTTTTAGTCCAAGTTAGT-ATCTAAACTTGGTAATTATTCTCACACTAAGGCTT-
65 GCTTAAC-TTTTTTTAGTCCAAGTTAGTCCT-TAAACTAGACAATTATTCTCACACTAA-GCTTG
* * * *
57903147 AAGCTTTTTTTGGTCCAAGTTAACCCT-TGAACTTAGAAATTATTCTCACATTAAGGCTT-GAAC
127 AA-CTTTTTTTGATCCAAGTT-ACCCTCTAAACTTAGAAACTATTCTCACACTAA-GCTTGGAAC
*
57903210 TTTTTTT-TCCAAGTTAGTTC
189 TTTTTTTATCAAAGTTAGTTC
57903230 ATTATATTTC
Statistics
Matches: 172, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
259 1 0.01
260 23 0.13
261 91 0.53
262 50 0.29
263 7 0.04
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.41
Consensus pattern (261 bp):
ATTATAATAAAAAAGGTTAACGCACTAGTTGGGGCCTAAACTTGGCAAGTGTTCTCATATTAAAG
CTTAACTTTTTTTAGTCCAAGTTAGTCCTTAAACTAGACAATTATTCTCACACTAAGCTTGAACT
TTTTTTGATCCAAGTTACCCTCTAAACTTAGAAACTATTCTCACACTAAGCTTGGAACTTTTTTT
ATCAAAGTTAGTTCTTGAACTAGACAATTGTTTTCACATTGGTGACATAAACTTTTTTTTTACAA
T
Found at i:57904990 original size:162 final size:162
Alignment explanation
Indices: 57904723--57905046 Score: 648
Period size: 162 Copynumber: 2.0 Consensus size: 162
57904713 CTAAAATCAT
57904723 ACCTAAACATATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTTTCAACAT
1 ACCTAAACATATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTTTCAACAT
57904788 TGACCAATTCTTTGGCCAACCAAAACATACCACAATTTCACATTAGCATCACATATCATATACCA
66 TGACCAATTCTTTGGCCAACCAAAACATACCACAATTTCACATTAGCATCACATATCATATACCA
57904853 TTATCAAACTATAAGTTCAAACACAAACTAGC
131 TTATCAAACTATAAGTTCAAACACAAACTAGC
57904885 ACCTAAACATATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTTTCAACAT
1 ACCTAAACATATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTTTCAACAT
57904950 TGACCAATTCTTTGGCCAACCAAAACATACCACAATTTCACATTAGCATCACATATCATATACCA
66 TGACCAATTCTTTGGCCAACCAAAACATACCACAATTTCACATTAGCATCACATATCATATACCA
57905015 TTATCAAACTATAAGTTCAAACACAAACTAGC
131 TTATCAAACTATAAGTTCAAACACAAACTAGC
57905047 CATATCACAT
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 162 1.00
ACGTcount: A:0.43, C:0.26, G:0.05, T:0.27
Consensus pattern (162 bp):
ACCTAAACATATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTTTCAACAT
TGACCAATTCTTTGGCCAACCAAAACATACCACAATTTCACATTAGCATCACATATCATATACCA
TTATCAAACTATAAGTTCAAACACAAACTAGC
Found at i:57905562 original size:43 final size:43
Alignment explanation
Indices: 57905515--57905613 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 43
57905505 TCCCTGACGT
* *
57905515 GGTCTTACATGTAA-TCAAACATCGATGCCATTGTCCCAAACAG
1 GGTCTTACACGTAACTCAAACA-CGATGCCAATGTCCCAAACAG
* * *
57905558 GGTCTTACACG-AACTCAGATACGATGCCAATGTCCCAAACAT
1 GGTCTTACACGTAACTCAAACACGATGCCAATGTCCCAAACAG
*
57905600 GGACTTACACGTAA
1 GGTCTTACACGTAA
57905614 AACAAAAGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 31 0.65
43 17 0.35
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
GGTCTTACACGTAACTCAAACACGATGCCAATGTCCCAAACAG
Found at i:57914253 original size:24 final size:24
Alignment explanation
Indices: 57914226--57914271 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
57914216 TGAAGCCAAA
*
57914226 TATGAATTAACCATAGTTTATTAG
1 TATGAATTAACCATAATTTATTAG
*
57914250 TATGGATTAACCATAATTTATT
1 TATGAATTAACCATAATTTATT
57914272 CTTCACTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (24 bp):
TATGAATTAACCATAATTTATTAG
Found at i:57924980 original size:21 final size:20
Alignment explanation
Indices: 57924953--57924999 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
57924943 ATGATTTTTA
*
57924953 TTTTTTTTAGATTTTTTGAG
1 TTTTTTTTAGATTTTTTCAG
**
57924973 TATTTTTTTATTTTTTTTCAG
1 T-TTTTTTTAGATTTTTTCAG
57924994 TTTTTT
1 TTTTTT
57925000 AAATTTATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.77
Consensus pattern (20 bp):
TTTTTTTTAGATTTTTTCAG
Found at i:57924997 original size:11 final size:10
Alignment explanation
Indices: 57924947--57924999 Score: 56
Period size: 9 Copynumber: 5.3 Consensus size: 10
57924937 TTTTATATGA
57924947 TTTTTA-TTT
1 TTTTTAGTTT
*
57924956 TTTTTAGATT
1 TTTTTAGTTT
*
57924966 TTTTGAGTATT
1 TTTTTAGT-TT
57924977 TTTTTA-TTT
1 TTTTTAGTTT
57924986 TTTTTCAGTTT
1 TTTTT-AGTTT
57924997 TTT
1 TTT
57925000 AAATTTATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 13 0.36
10 10 0.28
11 13 0.36
ACGTcount: A:0.13, C:0.02, G:0.08, T:0.77
Consensus pattern (10 bp):
TTTTTAGTTT
Found at i:57932715 original size:48 final size:48
Alignment explanation
Indices: 57932660--57932755 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
57932650 GTCGATACCG
*
57932660 TATCGATACTTGGTAAGTCATTTTCAAGTTAGTAGCCTATTATGGTAT
1 TATCGATACTTGGTAACTCATTTTCAAGTTAGTAGCCTATTATGGTAT
* *
57932708 TATCGATACTTGGTAACTGATTTTCAAGTTAGTAGCCTATTTTGGTAT
1 TATCGATACTTGGTAACTCATTTTCAAGTTAGTAGCCTATTATGGTAT
57932756 CGATTTCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (48 bp):
TATCGATACTTGGTAACTCATTTTCAAGTTAGTAGCCTATTATGGTAT
Found at i:57936999 original size:6 final size:6
Alignment explanation
Indices: 57936983--57937013 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
57936973 CATTATCAGG
57936983 ATATCAA ATATAA ATATAA ATATAA ATATAA
1 ATAT-AA ATATAA ATATAA ATATAA ATATAA
57937014 GAATGGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:57937951 original size:41 final size:41
Alignment explanation
Indices: 57937901--57937994 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
57937891 TTTTTTGCAG
* * *
57937901 GTCTTGAGACTTAGGGGTTATGTTTTGAGACCTA-TC-CTCAT
1 GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCGC-C-T
*
57937942 GTCTCGAGACTTAGGGGTTATGTCTAGATACCTAGTCGCCT
1 GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCGCCT
57937983 GTCTCGAGACTT
1 GTCTCGAGACTT
57937995 TGGATCTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 43 0.91
42 3 0.06
43 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (41 bp):
GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCGCCT
Found at i:57942222 original size:44 final size:42
Alignment explanation
Indices: 57942134--57942297 Score: 154
Period size: 44 Copynumber: 3.8 Consensus size: 42
57942124 AAGCCCCATA
* * * *
57942134 CGATTTGAGATTTACGTGTAAGACCATGTCTGTGACGTTGGCAT
1 CGATTT-AGATTTACATGTAAGACCATGTCTGGGAAG-TAGCAT
* *
57942178 CGATTTGAGATTTACGTGTAAGACCATGTCTGGGAAATCAGCAT
1 CGATTT-AGATTTACATGTAAGACCATGTCTGGGAAGT-AGCAT
* *
57942222 CGTATTTA-ATTT-CATGTAAGACCCTGTTTGGGATAGTAGCAT
1 CG-ATTTAGATTTACATGTAAGACCATGTCTGGGA-AGTAGCAT
* *
57942264 CGATATTTGA-TTACATGTAAGACCACGTCTGGGA
1 CGAT-TTAGATTTACATGTAAGACCATGTCTGGGA
57942298 CGTTGGCATT
Statistics
Matches: 102, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 29 0.28
43 26 0.25
44 41 0.40
45 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
CGATTTAGATTTACATGTAAGACCATGTCTGGGAAGTAGCAT
Found at i:57944696 original size:33 final size:33
Alignment explanation
Indices: 57944659--57944736 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
57944649 TGGCCCTGTC
* * *
57944659 ATGGTCTTACACTCGTAG-TGTCATAACCCAGTT
1 ATGGTCTTACACTC-AAGATGCCATAACCCAGCT
*
57944692 ATGGTCTTATC-TTCAAGATGCCATAACCCAGCT
1 ATGGTCTTA-CACTCAAGATGCCATAACCCAGCT
57944725 ATGGTCTTACAC
1 ATGGTCTTACAC
57944737 ATATATATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
32 3 0.08
33 33 0.89
34 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACACTCAAGATGCCATAACCCAGCT
Found at i:57945601 original size:19 final size:19
Alignment explanation
Indices: 57945579--57945615 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
57945569 AAATATCAAG
57945579 AAAAGAGCAAGAATTGAAA
1 AAAAGAGCAAGAATTGAAA
*
57945598 AAAAGAGCAAGACTTGAA
1 AAAAGAGCAAGAATTGAA
57945616 CTAACATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.08, G:0.22, T:0.11
Consensus pattern (19 bp):
AAAAGAGCAAGAATTGAAA
Found at i:57956025 original size:40 final size:40
Alignment explanation
Indices: 57955966--57956177 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 40
57955956 CATTTGAATG
*
57955966 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
57956006 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
57956046 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
57956086 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
57956126 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
57956166 ATATCC-GGCTAA
1 ATATCCGGGCTAA
57956178 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 7 0.05
40 141 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:57959462 original size:24 final size:24
Alignment explanation
Indices: 57959430--57959477 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
57959420 ATTAATACAC
57959430 AACCCAAACCATTTAGAGATGCAT
1 AACCCAAACCATTTAGAGATGCAT
57959454 AACCCAAACCATTTAGAGATGCAT
1 AACCCAAACCATTTAGAGATGCAT
57959478 CACTATATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.21
Consensus pattern (24 bp):
AACCCAAACCATTTAGAGATGCAT
Found at i:57966475 original size:14 final size:14
Alignment explanation
Indices: 57966456--57966492 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57966446 AGCAGTTCCC
57966456 TGCCTCCTCCTCTG
1 TGCCTCCTCCTCTG
57966470 TGCCTCCT-CT-TG
1 TGCCTCCTCCTCTG
57966482 T-CCTCCTCCTC
1 TGCCTCCTCCTC
57966493 CAAGGTCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.29
12 5 0.24
13 2 0.10
14 8 0.38
ACGTcount: A:0.00, C:0.51, G:0.11, T:0.38
Consensus pattern (14 bp):
TGCCTCCTCCTCTG
Found at i:57969166 original size:39 final size:39
Alignment explanation
Indices: 57969112--57969392 Score: 445
Period size: 39 Copynumber: 7.2 Consensus size: 39
57969102 GAAATGTGTA
57969112 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
57969151 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
57969190 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
57969229 TGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
57969268 TGGAAATATATCCGCGCTAAAGTCCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
57969307 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
57969346 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
57969385 TGGTAATA
1 TGGAAATA
57969393 AAATTTCGGG
Statistics
Matches: 224, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 224 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:57973021 original size:21 final size:21
Alignment explanation
Indices: 57972997--57973070 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
57972987 CGGGATTGTA
*
57972997 CCGCTATCATACGGGCGTATG
1 CCGCTATCACACGGGCGTATG
* *
57973018 CCGCTATCACATGGGCGTGTG
1 CCGCTATCACACGGGCGTATG
* * * *
57973039 CCACTATCACACGGCCATGTG
1 CCGCTATCACACGGGCGTATG
*
57973060 CCTCTATCACA
1 CCGCTATCACA
57973071 TGGTCGTGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (21 bp):
CCGCTATCACACGGGCGTATG
Found at i:57973080 original size:21 final size:21
Alignment explanation
Indices: 57973016--57973080 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
57973006 TACGGGCGTA
* *
57973016 TGCCGCTATCACATGGGCGTG
1 TGCCACTATCACATGGCCGTG
* *
57973037 TGCCACTATCACACGGCCATG
1 TGCCACTATCACATGGCCGTG
* *
57973058 TGCCTCTATCACATGGTCGTG
1 TGCCACTATCACATGGCCGTG
57973079 TG
1 TG
57973081 TTACCGTTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.17, C:0.31, G:0.26, T:0.26
Consensus pattern (21 bp):
TGCCACTATCACATGGCCGTG
Found at i:57985380 original size:40 final size:40
Alignment explanation
Indices: 57985297--57985521 Score: 249
Period size: 40 Copynumber: 5.7 Consensus size: 40
57985287 TTGAATGCTG
* * * * *
57985297 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
57985337 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57985377 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* **
57985417 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57985457 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
57985496 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
57985522 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 34 0.21
40 120 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57993290 original size:40 final size:39
Alignment explanation
Indices: 57993259--57993468 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
57993249 GGACTAAGAT
* *
57993259 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
57993299 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
57993339 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
57993379 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
57993419 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
57993458 CCGAAGGCATT
1 CCGAAGGCATT
57993469 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:57993422 original size:120 final size:120
Alignment explanation
Indices: 57993206--57993468 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
57993196 TTGAATGCTG
* *
57993206 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
57993270 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
57993326 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
57993389 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
57993445 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
57993469 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:57993488 original size:79 final size:80
Alignment explanation
Indices: 57993259--57993503 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
57993249 GGACTAAGAT
* * * * * * * ** *
57993259 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
57993322 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
57993339 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
57993404 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
57993419 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
57993483 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
57993497 CCGAAGG
1 CCGAAGG
57993504 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:57996168 original size:17 final size:17
Alignment explanation
Indices: 57996146--57996180 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
57996136 TATATTCGGT
57996146 TATATGATTAGCATATG
1 TATATGATTAGCATATG
*
57996163 TATATGATTAGCTTATG
1 TATATGATTAGCATATG
57996180 T
1 T
57996181 GTTTATGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (17 bp):
TATATGATTAGCATATG
Found at i:58003572 original size:18 final size:18
Alignment explanation
Indices: 58003543--58003592 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
58003533 TTCAAAATAT
58003543 AAAGACAAAATAAACATAA
1 AAAGA-AAAATAAACATAA
58003562 AAAGAAAAATAAACATAA
1 AAAGAAAAATAAACATAA
* *
58003580 AAATAAACATAAA
1 AAAGAAAAATAAA
58003593 GACAAATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (18 bp):
AAAGAAAAATAAACATAA
Found at i:58003579 original size:6 final size:6
Alignment explanation
Indices: 58003549--58003592 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
58003539 ATATAAAGAC
* * * *
58003549 AAAATA AACATA AAAAGA AAAATA AACATA AAAATA AACATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
58003593 GACAAATGGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:58008191 original size:33 final size:33
Alignment explanation
Indices: 58008154--58008228 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
58008144 AATGGTACAC
58008154 TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
1 TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
*
58008187 TTGAAAAGGTTATGTACACTTTGTGTGTACAAT
1 TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
58008220 TTGAAAAGG
1 TTGAAAAGG
58008229 CTATTGTAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (33 bp):
TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
Found at i:58009328 original size:11 final size:11
Alignment explanation
Indices: 58009312--58009351 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
58009302 AGAGAATGAT
58009312 GAATGAGTGAG
1 GAATGAGTGAG
58009323 GAATGAGTGAG
1 GAATGAGTGAG
* *
58009334 GGATGAATGAG
1 GAATGAGTGAG
*
58009345 GGATGAG
1 GAATGAG
58009352 GGATGATTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.17
Consensus pattern (11 bp):
GAATGAGTGAG
Found at i:58014534 original size:47 final size:47
Alignment explanation
Indices: 58014483--58014799 Score: 546
Period size: 47 Copynumber: 6.7 Consensus size: 47
58014473 TTAGGATTCT
* * *
58014483 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
58014530 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
58014577 ATGTGATGAATGTGAAAGCGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
58014624 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
58014671 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
58014718 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
58014765 ACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58014800 TCCCGAAGGG
Statistics
Matches: 259, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 258 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:58014974 original size:37 final size:37
Alignment explanation
Indices: 58014918--58014996 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
58014908 CCGAGCTCTA
* * *
58014918 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
58014955 AAGACCTGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58014992 AAGAC
1 AAGAC
58014997 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58019245 original size:52 final size:52
Alignment explanation
Indices: 58019184--58019282 Score: 198
Period size: 52 Copynumber: 1.9 Consensus size: 52
58019174 CTCCCAAGGA
58019184 TAATTGACACTTCCTTATCTACTTCAAAATCTAGAATAATGAAATCAGCAGG
1 TAATTGACACTTCCTTATCTACTTCAAAATCTAGAATAATGAAATCAGCAGG
58019236 TAATTGACACTTCCTTATCTACTTCAAAATCTAGAATAATGAAATCA
1 TAATTGACACTTCCTTATCTACTTCAAAATCTAGAATAATGAAATCA
58019283 ATAGGAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (52 bp):
TAATTGACACTTCCTTATCTACTTCAAAATCTAGAATAATGAAATCAGCAGG
Found at i:58025780 original size:17 final size:18
Alignment explanation
Indices: 58025750--58025783 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
58025740 AATTTCTATT
58025750 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
58025768 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
58025784 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:58046050 original size:33 final size:34
Alignment explanation
Indices: 58045977--58046074 Score: 110
Period size: 33 Copynumber: 2.9 Consensus size: 34
58045967 AGTTTACTGC
* *
58045977 TATGTACACCTTGTGTGTAAAACTTGAAAA-GGA
1 TATGTACACCTTGAGTGTACAACTTGAAAAGGGA
* * *
58046010 TACGTACACTTTGAGTGTACCACTTGAAAAGGGA
1 TATGTACACCTTGAGTGTACAACTTGAAAAGGGA
* * *
58046044 -ATGTACACCTCGAGTGTACGACTGGAAAAGG
1 TATGTACACCTTGAGTGTACAACTTGAAAAGG
58046075 TTACGTCCGT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 51 0.94
34 3 0.06
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (34 bp):
TATGTACACCTTGAGTGTACAACTTGAAAAGGGA
Found at i:58047778 original size:21 final size:21
Alignment explanation
Indices: 58047753--58047793 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
58047743 CGGCAATTTC
58047753 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
58047774 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
58047794 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:58053625 original size:21 final size:21
Alignment explanation
Indices: 58053600--58053640 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
58053590 CGGCAATTTC
58053600 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
58053621 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
58053641 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:58059918 original size:46 final size:46
Alignment explanation
Indices: 58059731--58059927 Score: 147
Period size: 50 Copynumber: 4.2 Consensus size: 46
58059721 ATGCCGAGGC
* *
58059731 CATGTCCCAGACATGGTCGTACACT-AGCTTACA-CGTCAAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGA-CTTACATC-TCAGGTCGATG
* * * *
58059777 CGATGTCCCAGAAATGTTCTTACACTGACTTTAACATATCTCTGCT-GATG
1 C-ATGTCCCAGACATGGTCTTACACTGAC-TT-AC--ATCTCAGGTCGATG
* * *
58059827 CCATGTCCCATACATGGTCTTACACTGAC--ACATCT-TGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGACTTACATCTCAG--GTCGATG
*
58059873 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGACTTACATCTC-AGGTCGATG
*
58059919 CGTGTCCCA
1 CATGTCCCA
58059928 ATACACTAGC
Statistics
Matches: 120, Mismatches: 16, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
43 2 0.02
44 16 0.13
45 13 0.11
46 27 0.22
47 22 0.18
48 4 0.03
49 2 0.02
50 28 0.23
51 5 0.04
52 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGACTTACATCTCAGGTCGATG
Found at i:58064875 original size:20 final size:22
Alignment explanation
Indices: 58064852--58064893 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
58064842 AGAATCCCAA
58064852 ATTTA-GTTTTTA-TATGTTCT
1 ATTTACGTTTTTATTATGTTCT
*
58064872 ATTTACTTTTTTATTATGTTCT
1 ATTTACGTTTTTATTATGTTCT
58064894 CTCTATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (22 bp):
ATTTACGTTTTTATTATGTTCT
Found at i:58084555 original size:40 final size:41
Alignment explanation
Indices: 58084450--58084595 Score: 167
Period size: 40 Copynumber: 3.6 Consensus size: 41
58084440 GCTACTCGTT
* *
58084450 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAATAACTCGCA
*
58084490 CAAATGCCTTCGGGACTTAACCCGGATT-TAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAATAACTCGCA
* ** * *
58084530 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAATAAC-TCGCA
58084571 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58084596 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
39 4 0.04
40 74 0.81
41 13 0.14
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAATAACTCGCA
Found at i:58088776 original size:62 final size:62
Alignment explanation
Indices: 58088679--58088798 Score: 240
Period size: 62 Copynumber: 1.9 Consensus size: 62
58088669 CTGGCAACCC
58088679 ATCCAAGTCCGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTTAATTCAATAAGTA
1 ATCCAAGTCCGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTTAATTCAATAAGTA
58088741 ATCCAAGTCCGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTTAATTCAATA
1 ATCCAAGTCCGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTTAATTCAATA
58088799 GTCTTGCTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (62 bp):
ATCCAAGTCCGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTTAATTCAATAAGTA
Found at i:58091987 original size:79 final size:81
Alignment explanation
Indices: 58091885--58092069 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
58091875 GCTCCTCGTT
* * *
58091885 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
58091948 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
58091965 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
58092029 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
58092045 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58092070 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:58092069 original size:40 final size:40
Alignment explanation
Indices: 58091885--58092069 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
58091875 GCTCCTCGTT
* *
58091885 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
58091925 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
58091965 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
58092004 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
58092045 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58092070 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:58094089 original size:73 final size:75
Alignment explanation
Indices: 58093982--58094123 Score: 173
Period size: 73 Copynumber: 1.9 Consensus size: 75
58093972 TTTTGAGCAG
* * * *
58093982 ATATTATTTCATTCGTAATTATACTATGTAAATAATTACACTTAGACCCTTTT-GTTCTTTGGA-
1 ATATTATTTCATTCATAATCATACCATGCAAATAATTACACTTAGA-CCTTTTCGTTCTTTGGAT
58094045 CTTTCTCCCAA
65 CTTTCTCCCAA
* ** **
58094056 ATATTA-TTCATTCATGATCATACCATGCAAATAATTATTCTTAGATTTTTTCGTTCTTTGGATC
1 ATATTATTTCATTCATAATCATACCATGCAAATAATTACACTTAGACCTTTTCGTTCTTTGGATC
58094120 TTTC
66 TTTC
58094124 GTTCGCCTCT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
72 4 0.07
73 42 0.74
74 11 0.19
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.46
Consensus pattern (75 bp):
ATATTATTTCATTCATAATCATACCATGCAAATAATTACACTTAGACCTTTTCGTTCTTTGGATC
TTTCTCCCAA
Found at i:58098905 original size:44 final size:44
Alignment explanation
Indices: 58098839--58099366 Score: 307
Period size: 44 Copynumber: 11.6 Consensus size: 44
58098829 TGGCGAATCG
* *
58098839 TATCTCCCTGAATTTGCAGTAGAGCAGATTGAAGCCATAAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAGTCT
* * * *
58098883 TATCTCCCTGAAGTTGCGGTAGAACAGATTGAAGCCACAAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAGTCT
* * **
58098927 TATCTCCCTGAAGTTGCAG-CGAAGCAGACTAAAGAAAGTGAA-TCT
1 TATCTCCCTGAAGTTGCAGTAG-AGCAGATTAAAGCCA-T-AAGTCT
* * * *
58098972 TATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATCATGGCGAATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGC--C--AT-A-----AGTCT
* * **
58099026 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCCCAAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAGTCT
* * * * * * ** *
58099070 TATCTCCC-AAGAGTTACAATGGAGCAAACTAAAGATAGCAAGTCT
1 TATCTCCCTGA-AGTTGCAGTAGAGCAGATTAAAGCCA-TAAGTCT
* * *
58099115 TATCTACCT-AATGTTGCAGTAGAGTAGATTGAAG--ATAGCAGATCT
1 TATCTCCCTGAA-GTTGCAGTAGAGCAGATTAAAGCCATA--AG-TCT
* * *
58099160 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCATAA-TCCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAGT-CT
* * ** * **
58099204 TATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAAATACACAAACCT
1 TATCTCCCTGAAGTTGCAGTAGAGC-AGAT-TAAAGCCATAAGTCT
* * *
58099250 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCATAA-TCCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAGT-CT
* * ** * **
58099294 TATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAAATACACAAACCT
1 TATCTCCCTGAAGTTGCAGTAGAGC-AGAT-TAAAGCCATAAGTCT
* *
58099340 TATCTCCCTGAAGTTGTAGTGGAGCAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAG
58099367 GTTGAAATTA
Statistics
Matches: 376, Mismatches: 76, Indels: 63
0.73 0.15 0.12
Matches are distributed among these distances:
42 1 0.00
43 4 0.01
44 156 0.41
45 104 0.28
46 67 0.18
47 3 0.01
48 2 0.01
49 2 0.01
52 1 0.00
53 1 0.00
54 35 0.09
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAGTCT
Found at i:58099144 original size:143 final size:143
Alignment explanation
Indices: 58098880--58099137 Score: 333
Period size: 143 Copynumber: 1.8 Consensus size: 143
58098870 AAGCCATAAG
* * *
58098880 TCTTATCTCCCTGAAGTTGCGGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCAGAAGTTACA
* * * * * *
58098945 GCGAAGCAGACTAAAGAAAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
66 ACGAAGCAAACTAAAGAAAGTCAATCTTATCTACCTGAAGTTGCAGTAGAACAGATTAAAGCTAC
58099010 AAATCATGGCGAA
131 AAATCATGGCGAA
* * *
58099023 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCCCAAGTCTTATCTCCCA-AGAGTTAC
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCAGA-AGTTAC
* * *
58099087 AATGGAGCAAACTAAAGATAG-CAAGTCTTATCTACCT-AATGTTGCAGTAGA
65 AACGAAGCAAACTAAAGAAAGTCAA-TCTTATCTACCTGAA-GTTGCAGTAGA
58099138 GTAGATTGAA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
142 5 0.05
143 92 0.95
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (143 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCAGAAGTTACA
ACGAAGCAAACTAAAGAAAGTCAATCTTATCTACCTGAAGTTGCAGTAGAACAGATTAAAGCTAC
AAATCATGGCGAA
Found at i:58099252 original size:90 final size:90
Alignment explanation
Indices: 58099158--58099366 Score: 418
Period size: 90 Copynumber: 2.3 Consensus size: 90
58099148 GATAGCAGAT
58099158 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCATAATCCTTATCTCTCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCATAATCCTTATCTCTCTGAAGTTGCAG
58099223 TAGAGCAAGATAAAAATACACAAAC
66 TAGAGCAAGATAAAAATACACAAAC
58099248 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCATAATCCTTATCTCTCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCATAATCCTTATCTCTCTGAAGTTGCAG
58099313 TAGAGCAAGATAAAAATACACAAAC
66 TAGAGCAAGATAAAAATACACAAAC
58099338 CTTATCTCCCTGAAGTTGTAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAG
58099367 GTTGAAATTA
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 119 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (90 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCATAATCCTTATCTCTCTGAAGTTGCAG
TAGAGCAAGATAAAAATACACAAAC
Found at i:58099275 original size:46 final size:46
Alignment explanation
Indices: 58099158--58099391 Score: 262
Period size: 46 Copynumber: 5.2 Consensus size: 46
58099148 GATAGCAGAT
* * * *
58099158 CTTATCTCCCTGAAGTTGTAGTGGAGC-AGATTAAAA-CCATAATC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
* * *
58099202 CTTATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAAATACACAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
* * * *
58099248 CTTATCTCCCTGAAGTTGTAGTGGAGC-AGATTAAAA-CCATAATC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
* * *
58099292 CTTATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAAATACACAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
* * * * *
58099338 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAATTAC-CAAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
58099383 CTTATCTCC
1 CTTATCTCC
58099392 TTTAAGTTCC
Statistics
Matches: 157, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
44 53 0.34
45 37 0.24
46 67 0.43
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (46 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
Found at i:58101129 original size:3 final size:3
Alignment explanation
Indices: 58101121--58101162 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
58101111 TACTATTACC
58101121 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
58101163 TATTTCAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:58102732 original size:85 final size:84
Alignment explanation
Indices: 58102599--58102754 Score: 192
Period size: 85 Copynumber: 1.8 Consensus size: 84
58102589 TTCCGATATA
* * * *
58102599 TGATTTCGTGTAAGACAACGTCTGGGACGTTGGCATTGATTTGAGATTTACTTGTAAGACCATGT
1 TGATTTCGTGTAAGACAACGTCAGGGACGTTGGCATCGATTTGAGATTT-CATGTAAGACCACGT
58102664 CTAGGACATCGCATCGTATT
65 CTAGGACATCGCATCGTATT
* * *
58102684 TGATTTCGTGTAAGAC-CCAGTCAGGGACAG-TGGCATCGATATT-TGATTTCATGTAAGATCAC
1 TGATTTCGTGTAAGACAAC-GTCAGGGAC-GTTGGCATCGAT-TTGAGATTTCATGTAAGACCAC
58102746 GTCTAGGAC
63 GTCTAGGAC
58102755 GTAGGCATTG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
84 20 0.33
85 38 0.62
86 3 0.05
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (84 bp):
TGATTTCGTGTAAGACAACGTCAGGGACGTTGGCATCGATTTGAGATTTCATGTAAGACCACGTC
TAGGACATCGCATCGTATT
Found at i:58102762 original size:43 final size:41
Alignment explanation
Indices: 58102592--58102762 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 41
58102582 CATAGGATTC
* *
58102592 CGATATATGATTTCGTGTAAGACAACGTCTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGAC-ACGTCTAGGACG-TGGCAT
* * * * * *
58102635 TGAT-TTGAGATTTACTTGTAAGACCATGTCTAGGACATCGCAT
1 CGATATT-TGATTT-CGTGTAAGA-CACGTCTAGGACGTGGCAT
*
58102678 CG-TATTTGATTTCGTGTAAGACCCAGTC-AGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACAC-GTCTA-GGAC-GTGGCAT
*
58102720 CGATATTTGATTTCATGTAAGATCACGTCTAGGACGTAGGCAT
1 CGATATTTGATTTCGTGTAAGA-CACGTCTAGGACGT-GGCAT
58102763 TGTACGAGTT
Statistics
Matches: 100, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
40 2 0.02
41 15 0.15
42 16 0.16
43 46 0.46
44 20 0.20
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
CGATATTTGATTTCGTGTAAGACACGTCTAGGACGTGGCAT
Found at i:58110314 original size:42 final size:43
Alignment explanation
Indices: 58110251--58110361 Score: 129
Period size: 42 Copynumber: 2.6 Consensus size: 43
58110241 TTGATTTGAA
*
58110251 ATTTACGTGTAAGACCATGTCTGGGACA-TCGACATCGTATTTG
1 ATTTACGTGTAAGACCATGTCTGGGACAGT-GACATCATATTTG
* *
58110294 ATTT-CGTGTAAGACCCTGTCTGGGACAGTGGCATCATATTTG
1 ATTTACGTGTAAGACCATGTCTGGGACAGTGACATCATATTTG
* * * *
58110336 A-TTACATGTAATATCACGTCTGGGAC
1 ATTTACGTGTAAGACCATGTCTGGGAC
58110362 GTTGGCATTG
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.03
42 51 0.88
43 5 0.09
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
ATTTACGTGTAAGACCATGTCTGGGACAGTGACATCATATTTG
Found at i:58114153 original size:30 final size:30
Alignment explanation
Indices: 58114119--58114179 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
58114109 TCCTTAACTC
58114119 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
58114149 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
58114179 A
1 A
58114180 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:58115439 original size:40 final size:40
Alignment explanation
Indices: 58115378--58115522 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
58115368 CAATGCCTCA
* * * *
58115378 CACACTAAGTGCCGTACATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
**
58115418 CACACTAAGTGCCATATATAGCTAAAGCTATGTCGAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
* * *
58115458 CACGCTAAGTGTCATATATAGCCGAAGCTATGTCGAATCC
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
* *
58115498 CACACTAAGTGCCACAAATAGCCGA
1 CACACTAAGTGCCATATATAGCCGA
58115523 TTTGTCATCG
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
Found at i:58118539 original size:43 final size:42
Alignment explanation
Indices: 58118395--58118566 Score: 161
Period size: 43 Copynumber: 4.1 Consensus size: 42
58118385 GGTTATTGAG
* *
58118395 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* *
58118437 ATTGAGATTACATGTAAGACCATGTCTGGGAC-TTGTCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * * * *
58118480 AAT-CGATTTCGTGTAAGACCTTGTTTGGGACAGTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * *
58118523 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
58118564 ATG
1 ATG
58118567 AGCTTATGTG
Statistics
Matches: 104, Mismatches: 21, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
41 4 0.04
42 39 0.38
43 60 0.58
44 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:58122219 original size:17 final size:17
Alignment explanation
Indices: 58122191--58122224 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
58122181 AATCGATTGG
58122191 TTGATACTCACTTATCTC
1 TTGATACTCACTT-TCTC
58122209 TTGAT-CTCACTTTCTC
1 TTGATACTCACTTTCTC
58122225 AACCAGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.18, C:0.29, G:0.06, T:0.47
Consensus pattern (17 bp):
TTGATACTCACTTTCTC
Found at i:58128647 original size:21 final size:21
Alignment explanation
Indices: 58128621--58128665 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
58128611 AACATCAAAG
* *
58128621 ATGTTCATACTAATAATTAAA
1 ATGTTCACACTAAGAATTAAA
*
58128642 ATGTTCACACTAAGCATTAAA
1 ATGTTCACACTAAGAATTAAA
58128663 ATG
1 ATG
58128666 ATGTTGATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (21 bp):
ATGTTCACACTAAGAATTAAA
Found at i:58137872 original size:6 final size:6
Alignment explanation
Indices: 58137842--58137966 Score: 105
Period size: 6 Copynumber: 20.3 Consensus size: 6
58137832 AAGAAACATT
* *
58137842 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
58137890 ATCAG- GTGACAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATTAGT
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
58137940 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
58137967 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
5 6 0.06
6 77 0.80
7 9 0.09
8 4 0.04
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:58137906 original size:25 final size:25
Alignment explanation
Indices: 58137851--58137966 Score: 155
Period size: 25 Copynumber: 4.7 Consensus size: 25
58137841 TATCAGAACT
* *
58137851 AGAATCAAAATGAGAATCA-G-AATC
1 AGAATCAGAATCAGAATCAGGTAA-C
*
58137875 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
58137900 AGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
58137925 AGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
58137950 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
58137967 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
24 17 0.21
25 62 0.77
26 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:58138121 original size:27 final size:26
Alignment explanation
Indices: 58138084--58138191 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
58138074 AGCATGGTTG
* *
58138084 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
58138110 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
58138137 GCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
58138164 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAGAGCCA
58138191 C
1 C
58138192 TTAATAGAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 12 0.17
27 54 0.75
28 6 0.08
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:58138924 original size:108 final size:108
Alignment explanation
Indices: 58138735--58139273 Score: 749
Period size: 108 Copynumber: 5.0 Consensus size: 108
58138725 AACTCGGTAA
* * * * * *
58138735 TTCTACCCTAC-AGAGGTATTTTGGTATTTCTACCCTACAAGGGTATTTTGGTAATTCTATCCTA
1 TTCTACCCTACAAG-GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTA
* * * *
58138799 CAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAATAT
65 CAGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAT
* * *
58138843 TTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCTTAC
1 TTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTAC
* * *
58138908 AGGGGTATTTTAGTAATTCTATCCTATAGGGGTATTTCAGTAT
66 AGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAT
*
58138951 TTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTAC
1 TTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTAC
* * *
58139016 AGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTTAGTAT
66 AGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAT
*
58139059 TTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTAC
1 TTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTAC
* * * *
58139124 AGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTTAGTAA
66 AGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAT
* * * *
58139167 TTCTACCTTACAAGTGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGATAATTCTACCCTAC
1 TTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTAC
* * * *
58139232 AGGGGTATTTC-GATAATTCTATCCTACAAAGGTATTTTAGTA
66 AGGGGTATTTCAG-TAATTCTACCCTATAAGGGTATTTCAGTA
58139274 ATTTTGTAAT
Statistics
Matches: 399, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
107 1 0.00
108 396 0.99
109 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (108 bp):
TTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTAC
AGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAT
Found at i:58139275 original size:27 final size:27
Alignment explanation
Indices: 58138731--58139276 Score: 639
Period size: 27 Copynumber: 20.2 Consensus size: 27
58138721 GCAAAACTCG
* **
58138731 GTAATTCTACCCTACAGAGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * **
58138758 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
58138785 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
58138812 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
58138839 ATATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
58138866 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
58138892 GATAATTCTACCTTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
58138920 GTAATTCTATCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
58138947 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
58138974 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
58139001 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
58139028 GTATTTCTACCCTATAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
58139055 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
58139082 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
58139109 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
58139136 GTATTTCTACCCTATAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
58139163 GTAATTCTACCTTACAAGTGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
58139190 GTAATTCTACCCTACAGGGGTATTT-T
1 GTAATTCTACCCTACAGGGGTATTTCA
58139216 GATAATTCTACCCTACAGGGGTATTTC-
1 G-TAATTCTACCCTACAGGGGTATTTCA
* ** *
58139243 GATAATTCTATCCTACAAAGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
58139271 GTAATT
1 GTAATT
58139277 TTGTAATTTG
Statistics
Matches: 447, Mismatches: 67, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.00
27 443 0.99
28 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:58139329 original size:27 final size:27
Alignment explanation
Indices: 58139262--58139332 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
58139252 ATCCTACAAA
* *
58139262 GGTATTTTAGTAATTTTGTAATTTGAG
1 GGTAATTTGGTAATTTTGTAATTTGAG
*** *
58139289 GGTAAAACGATAATTTTGTAATTTGAG
1 GGTAATTTGGTAATTTTGTAATTTGAG
58139316 GGTAATTTGGTAATTTT
1 GGTAATTTGGTAATTTT
58139333 ACAAGTCGAA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (27 bp):
GGTAATTTGGTAATTTTGTAATTTGAG
Found at i:58139346 original size:27 final size:27
Alignment explanation
Indices: 58139325--58139544 Score: 231
Period size: 27 Copynumber: 8.3 Consensus size: 27
58139315 GGGTAATTTG
*
58139325 GTAATTTTACAAGTCGAAGGTATTTTC-
1 GTAATTTTACAAATCGAAGGTA-TTTCA
*
58139352 GTAATTTTACAAATC-AGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
58139378 GTAATTTTGCAAATC-AGAGGTATTTCG
1 GTAATTTTACAAATCGA-AGGTATTTCA
*
58139405 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
58139432 GTAATTTTAC-AATCGACGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
58139458 GTAATTTTACAAATCG-AGGATATTTCA
1 GTAATTTTACAAATCGAAGG-TATTTCA
* * *
58139485 GTAATTTTATAAA-CCAAGGGTACTTT-G
1 GTAATTTTACAAATCGAA-GGTA-TTTCA
* **
58139512 GTAATTTTACAACT-GGGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
58139538 GTAATTT
1 GTAATTT
58139545 GATAAACTAA
Statistics
Matches: 164, Mismatches: 19, Indels: 21
0.80 0.09 0.10
Matches are distributed among these distances:
25 7 0.04
26 59 0.36
27 92 0.56
28 6 0.04
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:58139399 original size:53 final size:54
Alignment explanation
Indices: 58139325--58139544 Score: 263
Period size: 53 Copynumber: 4.1 Consensus size: 54
58139315 GGGTAATTTG
* *
58139325 GTAATTTTACAAGTCGAAGGTATTTTC-GTAATTTTACAAATC-AGGGTATTTCA
1 GTAATTTTACAAATCGACGGTA-TTTCAGTAATTTTACAAATCGAGGGTATTTCA
* *
58139378 GTAATTTTGCAAATCAGA-GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATC-GACGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
*
58139432 GTAATTTTAC-AATCGACGGTATTTCAGTAATTTTACAAATCGAGGATATTTCA
1 GTAATTTTACAAATCGACGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
* * * * * * *
58139485 GTAATTTTATAAACCAAGGGTACTTT-GGTAATTTTACAACT-GGGGGTATTTCA
1 GTAATTTTACAAATCGACGGTA-TTTCAGTAATTTTACAAATCGAGGGTATTTCA
58139538 GTAATTT
1 GTAATTT
58139545 GATAAACTAA
Statistics
Matches: 148, Mismatches: 13, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
52 6 0.04
53 96 0.65
54 43 0.29
55 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAATCGACGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
Found at i:58139411 original size:80 final size:78
Alignment explanation
Indices: 58139320--58139544 Score: 258
Period size: 80 Copynumber: 2.8 Consensus size: 78
58139310 TTTGAGGGTA
58139320 ATTT-GGTAATTTTACAAGTCGAAGGTATTTTCGTAATTTTACAAATCAGGGTATTTCAGTAATT
1 ATTTCGGTAATTTTACAA-TCGAAGGTA-TTTCGTAATTTTACAAATCAGGGTATTTCAGTAATT
*
58139384 TTGCAAATCAGAGG-T
64 TTACAAATC-GAGGAT
* *
58139399 ATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC-AATCGACGGTATTTCAGTAAT
1 ATTTCGGTAATTTTAC-AATCGAAGGTATTTC-GTAATTTTACAAATC-AGGGTATTTCAGTAAT
58139463 TTTACAAATCGAGGAT
63 TTTACAAATCGAGGAT
* * * * * * **
58139479 ATTTCAGTAATTTTATAAACCAAGGGTACTTTGGTAATTTTACAACTGGGGGTATTTCAGTAATT
1 ATTTCGGTAATTTTACAATCGAA-GGTA-TTTCGTAATTTTACAAATCAGGGTATTTCAGTAATT
58139544 T
64 T
58139545 GATAAACTAA
Statistics
Matches: 125, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
79 20 0.16
80 98 0.78
81 7 0.06
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (78 bp):
ATTTCGGTAATTTTACAATCGAAGGTATTTCGTAATTTTACAAATCAGGGTATTTCAGTAATTTT
ACAAATCGAGGAT
Found at i:58141159 original size:42 final size:43
Alignment explanation
Indices: 58141042--58141211 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 43
58141032 TAGGATTTCG
* *
58141042 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCA
1 ATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCA
* * *
58141085 ATTTAAGATTTACGTGTAAGACCATGTATGGGACATTGGCATC-
1 ATATATGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCA
* * * * **
58141128 GTATATGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATTG
1 ATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCA
* * * * *
58141171 ATATTTGATTACATGTAAGAGC-TCGTCTGGGACGTTGGCAT
1 ATATATGATTTCGTGTAAGACCAT-GTCTGGGACATTGGCAT
58141212 TGTACAAGCT
Statistics
Matches: 103, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.26
43 47 0.46
44 29 0.28
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
ATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCA
Found at i:58151533 original size:41 final size:41
Alignment explanation
Indices: 58151469--58151548 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
58151459 TTTTACTTTT
*
58151469 CCTGTTGATTTCATCATCTTAGATTTTGAAGCAGATAAGAA
1 CCTGCTGATTTCATCATCTTAGATTTTGAAGCAGATAAGAA
*
58151510 CCTGCTGATTTCATTAT-TCTAGATTTTGAAGCAGATAAG
1 CCTGCTGATTTCATCATCT-TAGATTTTGAAGCAGATAAG
58151549 GAAGTGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 35 0.97
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (41 bp):
CCTGCTGATTTCATCATCTTAGATTTTGAAGCAGATAAGAA
Found at i:58162010 original size:24 final size:24
Alignment explanation
Indices: 58161983--58162030 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
58161973 TGAGTTTACG
*
58161983 TAAACTCAGTGTGTAATCCCATAT
1 TAAACTCAATGTGTAATCCCATAT
58162007 TAAACTCAATGTGTAATCCCATAT
1 TAAACTCAATGTGTAATCCCATAT
58162031 AAGCAAACAA
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:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (24 bp):
TAAACTCAATGTGTAATCCCATAT
Found at i:58162160 original size:18 final size:18
Alignment explanation
Indices: 58162137--58162171 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58162127 CCCATATCAG
*
58162137 TAACAGTAAATAGTGCAA
1 TAACAGTAAACAGTGCAA
58162155 TAACAGTAAACAGTGCA
1 TAACAGTAAACAGTGCA
58162172 GCAGCAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (18 bp):
TAACAGTAAACAGTGCAA
Found at i:58162465 original size:23 final size:23
Alignment explanation
Indices: 58162439--58162488 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
58162429 ACCTCATGCA
58162439 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
58162462 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
58162485 ATGC
1 ATGC
58162489 TCAAATACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:58162617 original size:27 final size:27
Alignment explanation
Indices: 58162579--58162703 Score: 180
Period size: 27 Copynumber: 4.6 Consensus size: 27
58162569 GTATTTCGGT
58162579 ATTTTATCACATAAGGGCAAAATTATC
1 ATTTTATCACATAAGGGCAAAATTATC
*
58162606 ATTTTATCACATAAGGG-AAAAATAGTC
1 ATTTTATCACATAAGGGCAAAATTA-TC
* *
58162633 ATTTTATCACATAAGGGTAAAATTGTC
1 ATTTTATCACATAAGGGCAAAATTATC
* *
58162660 ATTTTATCACCTAAGGGCAAAATTTTC
1 ATTTTATCACATAAGGGCAAAATTATC
*
58162687 ATTTTATCACATGAGGG
1 ATTTTATCACATAAGGG
58162704 TTCAGATACG
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.07
27 77 0.88
28 5 0.06
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (27 bp):
ATTTTATCACATAAGGGCAAAATTATC
Found at i:58165888 original size:18 final size:18
Alignment explanation
Indices: 58165865--58165899 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58165855 CCCATATCAG
58165865 TAACAGTAAACAGTGCAA
1 TAACAGTAAACAGTGCAA
*
58165883 TAACAGTAAATAGTGCA
1 TAACAGTAAACAGTGCA
58165900 GCAGTAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (18 bp):
TAACAGTAAACAGTGCAA
Found at i:58166192 original size:23 final size:23
Alignment explanation
Indices: 58166166--58166215 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
58166156 ACCCTATCCA
58166166 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
58166189 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
58166212 ATGC
1 ATGC
58166216 TCAAATGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:58166362 original size:27 final size:26
Alignment explanation
Indices: 58166304--58166402 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
58166294 GGGTATTTCG
*
58166304 GTCATTTTATCAGATAAGGGAAAATC
1 GTCATTTTATCACATAAGGGAAAATC
58166330 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGG-AAAATC
* *
58166357 GTCATTTTATCACTTAGGGGAAAATC
1 GTCATTTTATCACATAAGGGAAAATC
* *
58166383 ATCATTTTATCACATGAGGG
1 GTCATTTTATCACATAAGGG
58166403 TTTAGGTATG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 41 0.63
27 24 0.37
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (26 bp):
GTCATTTTATCACATAAGGGAAAATC
Found at i:58169671 original size:21 final size:21
Alignment explanation
Indices: 58169641--58169687 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
58169631 AATAGCTTTC
*
58169641 AGAATCCTGAGACAGCACTTA
1 AGAATACTGAGACAGCACTTA
58169662 AGAATACTGAGACAGCACTTA
1 AGAATACTGAGACAGCACTTA
58169683 AGAAT
1 AGAAT
58169688 CAACAAGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAATACTGAGACAGCACTTA
Found at i:58173415 original size:14 final size:13
Alignment explanation
Indices: 58173389--58173428 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
58173379 GTTTAAATAC
*
58173389 TTTTATTTATTAT
1 TTTTATTTTTTAT
58173402 TTTTATGTTTTTAT
1 TTTTAT-TTTTTAT
58173416 TTTTATCTTTTTA
1 TTTTAT-TTTTTA
58173429 AAACTACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:58180474 original size:41 final size:41
Alignment explanation
Indices: 58180400--58180561 Score: 146
Period size: 41 Copynumber: 3.9 Consensus size: 41
58180390 TTTTGATATG
* * * *
58180400 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATT
1 TGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGATT
**
58180441 TGAGAACGTGTAAGACCATGTCTAGGACATTGGCATC-ATAT
1 TGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGAT-T
** * * *
58180482 ATGATTTTGTGTAAGACCCTATCTAGGACAGTGGCATCGATATT
1 -TGATTACGTGTAAGACCATGTCTAGGACATTGGCATCG--ATT
* * * *
58180526 TTATTACATGTAAGACCTTGTCTAGGACGTTGGCAT
1 TGATTACGTGTAAGACCATGTCTAGGACATTGGCAT
58180562 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 2 0.02
41 32 0.34
42 30 0.32
43 28 0.29
44 1 0.01
45 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
TGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGATT
Found at i:58180552 original size:43 final size:42
Alignment explanation
Indices: 58180449--58180561 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 42
58180439 TTTGAGAACG
* ***
58180449 TGTAAGACCATGTCTAGGACATTGGCATCATATATGATTTTG
1 TGTAAGACCATGTCTAGGACAGTGGCATCATATATGATTACA
* * * *
58180491 TGTAAGACCCTATCTAGGACAGTGGCATCGATATTTTATTACA
1 TGTAAGACCATGTCTAGGACAGTGGCATC-ATATATGATTACA
*
58180534 TGTAAGACCTTGTCTAGGAC-GTTGGCAT
1 TGTAAGACCATGTCTAGGACAG-TGGCAT
58180562 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCATATATGATTACA
Found at i:58187827 original size:15 final size:15
Alignment explanation
Indices: 58187807--58187836 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
58187797 ATTCACACCT
58187807 AGTTATCACATGTTA
1 AGTTATCACATGTTA
58187822 AGTTATCACATGTTA
1 AGTTATCACATGTTA
58187837 GTCATTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
AGTTATCACATGTTA
Found at i:58188137 original size:22 final size:22
Alignment explanation
Indices: 58188081--58188141 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 22
58188071 CCTAAGCTGA
*
58188081 TGAACAATAAGCTCTATTGAGC
1 TGAACAATAAGCTCTATTGACC
* *
58188103 TAAAAACAGTAAGCTCTATTGACC
1 T--GAACAATAAGCTCTATTGACC
58188127 TGAACAATAAGCTCT
1 TGAACAATAAGCTCT
58188142 TTCAAGCTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 13 0.41
24 19 0.59
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (22 bp):
TGAACAATAAGCTCTATTGACC
Found at i:58188163 original size:23 final size:22
Alignment explanation
Indices: 58188107--58188163 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
58188097 TTGAGCTAAA
*
58188107 AACAGTAAGCTCTATTGACCTG
1 AACAGTAAGCTCTATTAACCTG
* *
58188129 AACAATAAGCTCT-TTCAAGCTG
1 AACAGTAAGCTCTATT-AACCTG
58188151 AATCAGTAAGCTC
1 AA-CAGTAAGCTC
58188164 CAATGAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 18 0.62
23 9 0.31
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (22 bp):
AACAGTAAGCTCTATTAACCTG
Found at i:58195598 original size:24 final size:23
Alignment explanation
Indices: 58195564--58195668 Score: 115
Period size: 23 Copynumber: 4.6 Consensus size: 23
58195554 TAAGCTGATG
58195564 AACAGTAAGCTCTATTGAGCTGAA
1 AACAGTAAGCTCTATTGAGCTG-A
* *
58195588 AATAGTAAGCTCTATTAAGCTG-
1 AACAGTAAGCTCTATTGAGCTGA
58195610 AACAGTAAGCTCT-TTCGAGCTGA
1 AACAGTAAGCTCTATT-GAGCTGA
*** * *
58195633 ATTTGTAAGCTCCAATGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
58195656 AACAGTAAGCTCT
1 AACAGTAAGCTCT
58195669 TACGAGCTGT
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
21 2 0.03
22 17 0.26
23 25 0.38
24 21 0.32
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:58195615 original size:46 final size:45
Alignment explanation
Indices: 58195562--58195677 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 45
58195552 CCTAAGCTGA
* *
58195562 TGAACAGTAAGCTCTATT-GAGCTGAAAATAGTAAGCTCTATTAAGC
1 TGAACAGTAAGCTCT-TTCGAGCTG-AAATAGTAAGCTCCAATAAGC
* * *
58195608 TGAACAGTAAGCTCTTTCGAGCTGAATTTGTAAGCTCCAATGAGC
1 TGAACAGTAAGCTCTTTCGAGCTGAAATAGTAAGCTCCAATAAGC
*
58195653 TGAAACAGTAAGCTCTTACGAGCTG
1 TG-AACAGTAAGCTCTTTCGAGCTG
58195678 TGGTGAGTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
45 20 0.32
46 42 0.68
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
TGAACAGTAAGCTCTTTCGAGCTGAAATAGTAAGCTCCAATAAGC
Found at i:58201900 original size:43 final size:43
Alignment explanation
Indices: 58201845--58201947 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
58201835 TACTGAGATG
* * *
58201845 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATT
1 TGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTTATT
*
58201887 ATGATTACGTGTAAGACCATGTTTGGGACATTAGCATCGTTATT
1 -TGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTTATT
*
58201931 TGATTTCGTGTAAGACC
1 TGATTACGTGTAAGACC
58201948 CTATCTAGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 50 0.93
44 4 0.07
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTTATT
Found at i:58202238 original size:28 final size:28
Alignment explanation
Indices: 58202206--58202262 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
58202196 TATGTATAAG
58202206 TATGTTTCATGCCAAAATGTGTTTATTT
1 TATGTTTCATGCCAAAATGTGTTTATTT
*
58202234 TATGTTTCATTCCAAAATGTGTTTATTT
1 TATGTTTCATGCCAAAATGTGTTTATTT
58202262 T
1 T
58202263 TCTATAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.53
Consensus pattern (28 bp):
TATGTTTCATGCCAAAATGTGTTTATTT
Found at i:58210064 original size:24 final size:23
Alignment explanation
Indices: 58210037--58210081 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
58210027 ATGTTGCCCT
58210037 GCTTC-AACTCAACAAACTCTTTAC
1 GCTTCTAA-TCAACAAA-TCTTTAC
*
58210061 GCTTCTGATCAACAAATCTTT
1 GCTTCTAATCAACAAATCTTT
58210082 CACTGATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 13 0.68
25 1 0.05
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (23 bp):
GCTTCTAATCAACAAATCTTTAC
Found at i:58217127 original size:42 final size:44
Alignment explanation
Indices: 58217070--58217171 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 44
58217060 CCACTATCCT
* * *
58217070 AGACAGGGTCTTACACG-AAATCA-AA-TACAATGTCAATGTCCC
1 AGACATGGTCTTACACGTAAATCATAAGT-CAATGCCAACGTCCC
* *
58217112 AGACATGGCCTTACACGTAAATCATAAGTCGATGCCAACGTCCC
1 AGACATGGTCTTACACGTAAATCATAAGTCAATGCCAACGTCCC
58217156 AGACATGGTCTTACAC
1 AGACATGGTCTTACAC
58217172 AAAAACACAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
42 15 0.29
43 6 0.12
44 29 0.57
45 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (44 bp):
AGACATGGTCTTACACGTAAATCATAAGTCAATGCCAACGTCCC
Found at i:58227522 original size:43 final size:44
Alignment explanation
Indices: 58227473--58227631 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 44
58227463 GGTTATTGAG
* *
58227473 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
58227517 -TGTGATGAC-TAGTAAGACCATGTCTGGGACATTGGCATCGT-T
1 ATGTGATTACAT-GTAAGACCATATCTGGGACATTGGCATCGTAT
* * * * * *
58227559 ATATGATTTCGTGTAAGACCCTACCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
*
58227602 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATATCTGGGA
58227632 TATGACATTG
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.02
43 93 0.97
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:58231457 original size:27 final size:26
Alignment explanation
Indices: 58231417--58231528 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
58231407 AACATGGCTG
* * *
58231417 CCAGAACAAATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGACA
58231443 CCAGATACAGATAATCGTGGCAGAGACA
1 CCAGA-ACAGATAAT-GTGGCAGAGACA
* * *
58231471 CCAGAACAGAAATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGACA
* * *
58231498 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGACA
58231525 CCAG
1 CCAG
58231529 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.68
28 17 0.24
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGACA
Found at i:58236526 original size:43 final size:41
Alignment explanation
Indices: 58236409--58236551 Score: 151
Period size: 43 Copynumber: 3.3 Consensus size: 41
58236399 AGATGTGATT
* *
58236409 ACATGTAAGACCATGTCTGAGACATTGGCATTGTATTAAGATA
1 ACATGTAAGACCATGTCTGGGACATTGGCA-T-CATTAAGATA
*
58236452 ACGTGTAAGACCATGTCTGGGACATTGGCATCATTAATCGATA
1 ACATGTAAGACCATGTCTGGGACATTGGCATCATTAA--GATA
* * * **
58236495 TCATGTAAGACCCTGTCTGGGACAATGGCATCGATATGTGATA
1 ACATGTAAGACCATGTCTGGGACATTGGCATC-AT-TAAGATA
*
58236538 ATATGTAAGACCAT
1 ACATGTAAGACCAT
58236552 ATCTAGGATA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
41 5 0.06
42 1 0.01
43 75 0.89
44 2 0.02
45 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (41 bp):
ACATGTAAGACCATGTCTGGGACATTGGCATCATTAAGATA
Found at i:58246772 original size:5 final size:5
Alignment explanation
Indices: 58246749--58246825 Score: 59
Period size: 6 Copynumber: 14.4 Consensus size: 5
58246739 AAATTAAAAT
* *
58246749 AATAA AATTGA AATGAA AATAAA AAGAAA AATAAA AATAA AATAA AATAA
1 AATAA AA-TAA AAT-AA AAT-AA AATA-A AAT-AA AATAA AATAA AATAA
58246799 AAT-A AAT-A AATAAA AATAA GAATAA AA
1 AATAA AATAA AAT-AA AATAA -AATAA AA
58246826 AGATAGGAGG
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
4 8 0.13
5 23 0.38
6 28 0.47
7 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:58246790 original size:35 final size:35
Alignment explanation
Indices: 58246749--58246825 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
58246739 AAATTAAAAT
*
58246749 AATAAAATTGAAATGAAAAT-AA-AAAGAAAAATAAA
1 AATAAAA-TAAAAT-AAAATAAATAAAGAAAAATAAA
* *
58246784 AATAAAATAAAATAAAATAAATAAATAAAAATAAG
1 AATAAAATAAAATAAAATAAATAAAGAAAAATAAA
58246819 AATAAAA
1 AATAAAA
58246826 AGATAGGAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 5 0.14
34 7 0.19
35 25 0.68
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (35 bp):
AATAAAATAAAATAAAATAAATAAAGAAAAATAAA
Found at i:58246807 original size:4 final size:5
Alignment explanation
Indices: 58246776--58246825 Score: 59
Period size: 5 Copynumber: 9.8 Consensus size: 5
58246766 AATAAAAAGA
58246776 AAAAT AAAAAT AAAAT AAAAT AAAAT -AAAT -AAAT AAAAAT AAGAAT
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT
58246822 AAAA
1 AAAA
58246826 AGATAGGAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
4 8 0.20
5 19 0.46
6 14 0.34
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:58246817 original size:6 final size:6
Alignment explanation
Indices: 58246759--58246826 Score: 70
Period size: 6 Copynumber: 11.5 Consensus size: 6
58246749 AATAAAATTG
* *
58246759 AAATGA AAATAA AAAGAA AAATAA AAAT-A AAAT-A AAAT-A AAATAAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA
*
58246805 TAAATAA AAATAA GAATAA AAA
1 -AAATAA AAATAA AAATAA AAA
58246827 GATAGGAGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
5 15 0.28
6 32 0.59
7 3 0.06
8 4 0.07
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:58250566 original size:13 final size:13
Alignment explanation
Indices: 58250543--58250575 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
58250533 AAGGATTTGT
58250543 TTATC-AAACTAA
1 TTATCTAAACTAA
58250555 TTATCTAAACTAA
1 TTATCTAAACTAA
*
58250568 TTAACTAA
1 TTATCTAA
58250576 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:58253855 original size:33 final size:33
Alignment explanation
Indices: 58253812--58253877 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
58253802 TATAGTCCTC
58253812 ATTCCGGCTATGAATT-TCATCAAAATAAGGTTT
1 ATTCCGGCTAT-AATTCTCATCAAAATAAGGTTT
* *
58253845 ATTCCTGCTATCATTCTCATCAAAATAAGGTTT
1 ATTCCGGCTATAATTCTCATCAAAATAAGGTTT
58253878 TAGATGAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 27 0.90
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (33 bp):
ATTCCGGCTATAATTCTCATCAAAATAAGGTTT
Found at i:58256050 original size:44 final size:44
Alignment explanation
Indices: 58255982--58256068 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
58255972 TTTCTTCACA
58255982 AAAGTTTCACACAATCATGCAATCATATCATAGACCTCAAAATG
1 AAAGTTTCACACAATCATGCAATCATATCATAGACCTCAAAATG
*
58256026 AAAGTTTCACACAATCATGGAATCATATCATAGACCTCAAAAT
1 AAAGTTTCACACAATCATGCAATCATATCATAGACCTCAAAAT
58256069 AATCATAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (44 bp):
AAAGTTTCACACAATCATGCAATCATATCATAGACCTCAAAATG
Found at i:58257289 original size:30 final size:30
Alignment explanation
Indices: 58257245--58257333 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
58257235 CAAAGATAAC
58257245 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
58257274 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
58257304 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
58257334 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:58257293 original size:15 final size:15
Alignment explanation
Indices: 58257245--58257324 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
58257235 CAAAGATAAC
*
58257245 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
58257259 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
58257274 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
58257289 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
58257304 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
58257319 AAGAAA
1 AAGAAA
58257325 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:58257333 original size:15 final size:15
Alignment explanation
Indices: 58257256--58257333 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
58257246 AGAAAACCGA
58257256 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
58257271 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
58257285 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
58257300 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
58257316 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
58257331 ATA
1 ATA
58257334 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:58264183 original size:53 final size:53
Alignment explanation
Indices: 58264120--58264228 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
58264110 CAGAAAGTAG
* * *
58264120 AATTGGGGAATTACTTTTGGAAAATGGTTGAATTAAGACAATACTTAAGGAAA
1 AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
58264173 AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
1 AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
58264226 AAT
1 AAT
58264229 CTACCTAGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.28
Consensus pattern (53 bp):
AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
Found at i:58269300 original size:43 final size:43
Alignment explanation
Indices: 58269252--58269418 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
58269242 ATTGAGATTT
58269252 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * ** * *
58269295 GATTACGTGTAAGACCATGTATGGGACATTGGCATCACTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTGA
* * * * * *
58269338 GATTTCGTGTAAGACCTTGTCTGAGACAGTGGCATTG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
* * * *
58269381 GATAACATGTAATACCATATCTGGGATA-TGGCATTGTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
58269419 CGAGCTTATG
Statistics
Matches: 97, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 84 0.87
44 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:58276554 original size:20 final size:20
Alignment explanation
Indices: 58276508--58276557 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
58276498 GCAACCATAG
*
58276508 CACATTACCACAGAAACACC
1 CACATTTCCACAGAAACACC
58276528 CACATTTCCACAGAAACACC
1 CACATTTCCACAGAAACACC
58276548 CACATTTCCA
1 CACATTTCCA
58276558 TTGATATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.40, G:0.04, T:0.16
Consensus pattern (20 bp):
CACATTTCCACAGAAACACC
Found at i:58278388 original size:21 final size:22
Alignment explanation
Indices: 58278346--58278395 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
58278336 TTTAAGGTTC
*
58278346 CACATGCCTGTGTGGGTATGGGG
1 CACACGCCTGTGTGGGTAT-GGG
58278369 CACACGCCTGTGT-GGT-TGGG
1 CACACGCCTGTGTGGGTATGGG
58278389 -ACACGCC
1 CACACGCC
58278396 CATGTCCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 7 0.27
20 3 0.12
21 1 0.04
22 3 0.12
23 12 0.46
ACGTcount: A:0.14, C:0.26, G:0.38, T:0.22
Consensus pattern (22 bp):
CACACGCCTGTGTGGGTATGGG
Found at i:58279541 original size:50 final size:50
Alignment explanation
Indices: 58279473--58279599 Score: 161
Period size: 50 Copynumber: 2.5 Consensus size: 50
58279463 ATCGAGGCCG
* * *
58279473 ATGCCATGTCCCAAACATGGTCTTACACTAGCTC-T-CGTACTTACGTGAT-A
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTA--TACATG-TCA
* *
58279523 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATCCATGTCG
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATACATGTCA
58279573 ATGCCATGTCCTAGACATGGTCTTACA
1 ATGCCATGTCCTAGACATGGTCTTACA
58279600 TTGGTACACA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
49 1 0.01
50 63 0.91
51 1 0.01
52 4 0.06
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (50 bp):
ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATACATGTCA
Found at i:58280338 original size:12 final size:12
Alignment explanation
Indices: 58280321--58280345 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58280311 CAAAAATGTA
58280321 AAAATCATCAAG
1 AAAATCATCAAG
58280333 AAAATCATCAAG
1 AAAATCATCAAG
58280345 A
1 A
58280346 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:58281382 original size:15 final size:17
Alignment explanation
Indices: 58281362--58281394 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
58281352 GGAGTTTTGG
58281362 GTTATC-TTATG-TTTT
1 GTTATCTTTATGCTTTT
58281377 GTTATCTTTATGCTTTT
1 GTTATCTTTATGCTTTT
58281394 G
1 G
58281395 AGATGTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.12, C:0.09, G:0.15, T:0.64
Consensus pattern (17 bp):
GTTATCTTTATGCTTTT
Found at i:58290754 original size:15 final size:13
Alignment explanation
Indices: 58290723--58290753 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
58290713 TCAGTAATTG
*
58290723 CACACGGGTGTGT
1 CACACGGGCGTGT
58290736 CACACGGGCGTGT
1 CACACGGGCGTGT
58290749 CACAC
1 CACAC
58290754 AAGCGTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.16
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:58307572 original size:50 final size:50
Alignment explanation
Indices: 58307510--58307770 Score: 158
Period size: 50 Copynumber: 5.5 Consensus size: 50
58307500 GCCGATGGCG
* *
58307510 TGTCCCAAACATGGTCTTACACTAGCTC-T-CGTA-CTTACGTGCTGATTCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATC-TA--TGCTGATGCCA
* *
58307560 TGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATCTATGTTGATGCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATCTATGCTGATGCCA
* * * * *
58307610 TGTCCCAGATATGGTCTTACACT-G-ACAT--GTCTCGTA-GCCGATG-CA
1 TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATC-TATGCTGATGCCA
** * * * * * *
58307655 TGTCTTAGACAT-GTCTTACACTAG--CTTACGTCTCGAGGCCGAT-ACA
1 TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATCTATGCTGATGCCA
* * * * * * *
58307701 TGTCCCGGACAT-GTCTTACACTGGCAC-T-CGTCTCAATTCTGGTGCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATCTATGCTGATGCCA
58307748 TGTCCCAGACATGGTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
58307771 GGCACACAAA
Statistics
Matches: 171, Mismatches: 27, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.07
45 13 0.08
46 52 0.30
47 16 0.09
48 13 0.08
49 1 0.01
50 56 0.33
51 1 0.01
52 6 0.04
53 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (50 bp):
TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATCTATGCTGATGCCA
Found at i:58307733 original size:46 final size:46
Alignment explanation
Indices: 58307459--58307775 Score: 151
Period size: 50 Copynumber: 6.7 Consensus size: 46
58307449 TTGTCGATGC
* * * *
58307459 CATGTCTCAGACATGATCTTACACTGGCTA-TCCTCATCGAGGCCGATGG
1 CATGTCCCAGACATGGTCTTACACTGGC-ACTCGTC-TCGA-GCCGAT-A
* * * * * * *
58307508 CGTGTCCCAAACATGGTCTTACACTAGCTCTCGTACTTACGTGCTGATTC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCGT-C-T-CGAGCCGA-TA
* * * * * ** *
58307558 CATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATCTATGTTGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCAC-T-CGTCTCGA-GCCGAT-A
* * *
58307608 CATGTCCCAGATATGGTCTTACACTGACA-T-GTCTCGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCG-AGCCGATA
** * *
58307653 CATGTCTTAGACAT-GTCTTACACTAGC-TTACGTCTCGAGGCCGATA
1 CATGTCCCAGACATGGTCTTACACTGGCACT-CGTCTCGA-GCCGATA
* * * * * *
58307699 CATGTCCCGGACAT-GTCTTACACTGGCACTCGTCTCAATTCTGGTGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCGA-GCCGAT-A
58307746 CATGTCCCAGACATGGTCTTACACTGGCAC
1 CATGTCCCAGACATGGTCTTACACTGGCAC
58307776 ACAAATTACC
Statistics
Matches: 206, Mismatches: 46, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
44 12 0.06
45 12 0.06
46 53 0.26
47 15 0.07
48 16 0.08
49 28 0.14
50 63 0.31
51 4 0.02
52 3 0.01
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCGAGCCGATA
Found at i:58308507 original size:12 final size:12
Alignment explanation
Indices: 58308490--58308515 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58308480 CAAAAAATGT
58308490 GAAAATCATCAA
1 GAAAATCATCAA
58308502 GAAAATCATCAA
1 GAAAATCATCAA
58308514 GA
1 GA
58308516 TCACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAATCATCAA
Found at i:58313799 original size:41 final size:41
Alignment explanation
Indices: 58313741--58313846 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 41
58313731 TGACAACAAA
* * *
58313741 TCAGCTATATGTAGCACTTAGTGTGTGA-GATCGAAATAGCT
1 TCAGCTATATATGGCACTTAGTGTG-CATGATCGAAATAGCT
* *
58313782 TCAGCTATATATGGCACTTAATGTGCATGATCGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCATGATCGAAATAGCT
** *
58313823 TTGGCTATACATGGCACTTAGTGT
1 TCAGCTATATATGGCACTTAGTGT
58313847 ACGATTTGAG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.02
41 54 0.98
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (41 bp):
TCAGCTATATATGGCACTTAGTGTGCATGATCGAAATAGCT
Found at i:58313870 original size:40 final size:40
Alignment explanation
Indices: 58313770--58313870 Score: 114
Period size: 41 Copynumber: 2.5 Consensus size: 40
58313760 AGTGTGTGAG
* * * *
58313770 ATCGAAATAGCTTCAGCTATATATGGCACTTAATGTGCAT
1 ATCGAGATAGCTTTAGCTATACATGGCACTTAATGTACAT
* *
58313810 GATCGAGATAGCTTTGGCTATACATGGCACTTAGTGTACGAT
1 -ATCGAGATAGCTTTAGCTATACATGGCACTTAATGTAC-AT
*
58313852 -TTGAGATAGCTTTAGCTAT
1 ATCGAGATAGCTTTAGCTAT
58313871 GTACGACACT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 17 0.33
41 32 0.63
42 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (40 bp):
ATCGAGATAGCTTTAGCTATACATGGCACTTAATGTACAT
Found at i:58315539 original size:17 final size:18
Alignment explanation
Indices: 58315517--58315555 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
58315507 AATTAGGCTA
58315517 TGTGGGCC-ACACAGGCG
1 TGTGGGCCTACACAGGCG
* *
58315534 TGTGGGCCTATACGGGCG
1 TGTGGGCCTACACAGGCG
58315552 TGTG
1 TGTG
58315556 AGATTCTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.13, C:0.23, G:0.44, T:0.21
Consensus pattern (18 bp):
TGTGGGCCTACACAGGCG
Found at i:58323910 original size:46 final size:48
Alignment explanation
Indices: 58323806--58324074 Score: 229
Period size: 46 Copynumber: 5.8 Consensus size: 48
58323796 GGTTATTATG
* * **
58323806 AGCCAGTGTAAGATCATGTCTGGGACATGTCATCGGTATTGAGATG-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTA
* * *
58323853 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTA
* *
58323900 AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGG-C-TAAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTA
* * * *
58323943 -GTCAGTATAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTTGAGATGT-A
* * * * * * *
58323991 GAGCTAGTGTAAGATCATGTATGGAACATGGCATC-GACTTGAGATATG
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTA
*
58324039 AGCCAGTGTAAGACCATGT-TTGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
58324075 ATTCTACCCC
Statistics
Matches: 177, Mismatches: 33, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
42 10 0.06
43 13 0.07
44 12 0.07
45 1 0.01
46 62 0.35
47 33 0.19
48 13 0.07
49 6 0.03
50 27 0.15
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTA
Found at i:58329075 original size:44 final size:44
Alignment explanation
Indices: 58329022--58329860 Score: 1678
Period size: 44 Copynumber: 19.1 Consensus size: 44
58329012 CAAATCTTAT
58329022 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329066 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329110 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329154 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329198 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329242 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329286 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329330 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329374 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329418 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329462 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329506 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329550 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329594 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329638 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329682 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329726 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329770 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329814 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
58329858 TTA
1 TTA
58329861 ATTTGTGTCG
Statistics
Matches: 795, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 795 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.46
Consensus pattern (44 bp):
TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
Found at i:58338677 original size:36 final size:36
Alignment explanation
Indices: 58338615--58338698 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 36
58338605 GTTATATTGT
* * * * *
58338615 GAACCATGTTAACTTGGTGAATTATATTATTATGGC
1 GAACTATGTTAAATTAGTGAATTATATTAATATGAC
*
58338651 GAACTATGTTAAATTAGTG-ATCTATATTAATATGAT
1 GAACTATGTTAAATTAGTGAAT-TATATTAATATGAC
*
58338687 GAACTATATTAA
1 GAACTATGTTAA
58338699 TTTGTCAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (36 bp):
GAACTATGTTAAATTAGTGAATTATATTAATATGAC
Found at i:58338680 original size:18 final size:18
Alignment explanation
Indices: 58338632--58338699 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
58338622 GTTAACTTGG
* * *
58338632 TGAATTATATTATTATGG
1 TGAACTATATTAATATGA
* * *
58338650 CGAACTATGTTAA-ATTA
1 TGAACTATATTAATATGA
*
58338667 GTGATCTATATTAATATGA
1 -TGAACTATATTAATATGA
58338686 TGAACTATATTAAT
1 TGAACTATATTAAT
58338700 TTGTCAAACT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
17 2 0.05
18 32 0.86
19 3 0.08
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (18 bp):
TGAACTATATTAATATGA
Found at i:58340145 original size:46 final size:46
Alignment explanation
Indices: 58340078--58340295 Score: 307
Period size: 46 Copynumber: 4.7 Consensus size: 46
58340068 AACCCGCCCC
* * *
58340078 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
58340124 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* * * *
58340170 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCA
*
58340218 TAA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
58340263 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
58340296 ATGCTCAACC
Statistics
Matches: 152, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
43 6 0.04
44 1 0.01
45 4 0.03
46 103 0.68
47 27 0.18
48 4 0.03
49 1 0.01
50 6 0.04
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:58340249 original size:93 final size:93
Alignment explanation
Indices: 58340129--58340299 Score: 333
Period size: 93 Copynumber: 1.8 Consensus size: 93
58340119 ATCCATAAGT
58340129 GAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
*
58340194 CGAGTTTGGATGCCTAGTTACATTTAAC
66 CGAGTTCGGATGCCTAGTTACATTTAAC
58340222 GAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
58340287 CGAGTTCGGATGC
66 CGAGTTCGGATGC
58340300 TCAACCATCC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTAAC
Found at i:58342194 original size:17 final size:17
Alignment explanation
Indices: 58342141--58342197 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
58342131 ATGATGGAGC
* *
58342141 ATGAACTATTATTTTAC
1 ATGAACTATTATTTCAT
* * *
58342158 ATGAATTGTTA-TTCGGT
1 ATGAACTATTATTTC-AT
58342175 ATGAACTATTATTTCAT
1 ATGAACTATTATTTCAT
58342192 ATGAAC
1 ATGAAC
58342198 AGATCTTTGG
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
16 2 0.07
17 25 0.83
18 3 0.10
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (17 bp):
ATGAACTATTATTTCAT
Found at i:58343717 original size:43 final size:42
Alignment explanation
Indices: 58343670--58343797 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 42
58343660 CCTTGATTGA
* * *
58343670 GATTTACTTATAAGACCATGACTGGGACATTGGCATCGTATCT
1 GATTTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-T
* * ***
58343713 GATTT-CGTGTAAGACCCTGTCTGGGACAGAAGCATCGATATT
1 GATTTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATT
* * * *
58343755 GAATTACATGTAAGACCATGTCCGGGACGTTGGCATTGTATT
1 GATTTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
58343797 G
1 G
58343798 TTTCTGAATC
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
42 35 0.52
43 32 0.48
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
GATTTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
Done.