Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 179 of 325
Found at i:56440037 original size:6 final size:6
Alignment explanation
Indices: 56440007--56440163 Score: 65
Period size: 6 Copynumber: 25.3 Consensus size: 6
56439997 AAGAAACATT
* * * *
56440007 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
56440056 ATCAGA ATCAGA ATTAG- GTCACAGA ATCAGA ATAAGT ATCAGGTA A-CAGA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * *
56440106 ATCAGA ATTAG- GTGACAAA ATCAGA ATCAGT ATCAGGCA A-CAGA ATCAGA
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
56440156 ATCAGA AT
1 ATCAGA AT
56440164 GTGAATGCAA
Statistics
Matches: 110, Mismatches: 24, Indels: 34
0.65 0.14 0.20
Matches are distributed among these distances:
5 8 0.07
6 84 0.76
7 13 0.12
8 5 0.05
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:56440081 original size:25 final size:25
Alignment explanation
Indices: 56440053--56440163 Score: 101
Period size: 25 Copynumber: 4.7 Consensus size: 25
56440043 TGACAGAATT
*
56440053 AGAATCAGAATCAGAATTAGGTCAC
1 AGAATCAGAATCAGAATCAGGTCAC
* *
56440078 AGAATCAGAATAAGTATCAGGT---
1 AGAATCAGAATCAGAATCAGGTCAC
* *
56440100 --AA-CAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTCAC
* *
56440122 AAAATCAGAATCAGTATCAGG-CAAC
1 AGAATCAGAATCAGAATCAGGTC-AC
56440147 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
56440164 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
19 14 0.21
20 2 0.03
24 2 0.03
25 50 0.74
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTCAC
Found at i:56440082 original size:19 final size:19
Alignment explanation
Indices: 56440046--56440132 Score: 70
Period size: 19 Copynumber: 4.3 Consensus size: 19
56440036 AATCAGGTGA
56440046 CAGAATTA-G-AATCAGAAT
1 CAGAATTAGGTAA-CAGAAT
*
56440064 CAGAATTAGGTCACAGAAT
1 CAGAATTAGGTAACAGAAT
56440083 CAGAATAAGTATCAGGTAACAGAAT
1 CAG---AA-T-T-AGGTAACAGAAT
* *
56440108 CAGAATTAGGTGACAAAAT
1 CAGAATTAGGTAACAGAAT
56440127 CAGAAT
1 CAGAAT
56440133 CAGTATCAGG
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
18 8 0.14
19 26 0.46
20 2 0.04
21 1 0.02
22 4 0.07
23 1 0.02
24 1 0.02
25 14 0.25
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.21
Consensus pattern (19 bp):
CAGAATTAGGTAACAGAAT
Found at i:56440088 original size:31 final size:31
Alignment explanation
Indices: 56440016--56440097 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
56440006 TATCAGAACT
* * *
56440016 AGAATCAAAATGAGAATCAGAATCAGGTGAC
1 AGAATCAGAATAAGAATCAGAATCAGGTCAC
* * *
56440047 AGAATTAGAATCAGAATCAGAATTAGGTCAC
1 AGAATCAGAATAAGAATCAGAATCAGGTCAC
*
56440078 AGAATCAGAATAAGTATCAG
1 AGAATCAGAATAAGAATCAG
56440098 GTAACAGAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATAAGAATCAGAATCAGGTCAC
Found at i:56440106 original size:44 final size:44
Alignment explanation
Indices: 56440058--56440157 Score: 164
Period size: 44 Copynumber: 2.3 Consensus size: 44
56440048 GAATTAGAAT
* *
56440058 CAGAATCAGAATTAGGTCACAGAATCAGAATAAGTATCAGGTAA
1 CAGAATCAGAATTAGGTCACAAAATCAGAATAAGTATCAGGCAA
* *
56440102 CAGAATCAGAATTAGGTGACAAAATCAGAATCAGTATCAGGCAA
1 CAGAATCAGAATTAGGTCACAAAATCAGAATAAGTATCAGGCAA
56440146 CAGAATCAGAAT
1 CAGAATCAGAAT
56440158 CAGAATGTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (44 bp):
CAGAATCAGAATTAGGTCACAAAATCAGAATAAGTATCAGGCAA
Found at i:56440321 original size:27 final size:26
Alignment explanation
Indices: 56440281--56440388 Score: 74
Period size: 27 Copynumber: 4.0 Consensus size: 26
56440271 AGCATGGCTG
* * * *
56440281 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAATAGATATTGTGACAAAGCCA
*
56440307 CCAGATATAGATATTGTGGCAAAGCCA
1 CCAGA-ATAGATATTGTGACAAAGCCA
* *
56440334 CCGGAATAGATATTTGTGGA-ATAGCCA
1 CCAGAATAGATA-TTGT-GACAAAGCCA
* * * *
56440361 CCAAAAACAGATAATGTGGCAAAGCCA
1 CC-AGAATAGATATTGTGACAAAGCCA
56440388 C
1 C
56440389 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
26 13 0.21
27 42 0.67
28 8 0.13
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (26 bp):
CCAGAATAGATATTGTGACAAAGCCA
Found at i:56440575 original size:22 final size:22
Alignment explanation
Indices: 56440547--56440611 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
56440537 GCAAATACGT
*
56440547 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
56440569 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
56440591 TTGGCGCAAATCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
56440612 AATAATTGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:56441061 original size:27 final size:27
Alignment explanation
Indices: 56440988--56441075 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 27
56440978 GAGTCAAAAT
* * * *
56440988 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56441015 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56441042 GGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
56441069 GGTAATT
1 GGTAATT
56441076 TTGTAAATCG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56441090 original size:27 final size:27
Alignment explanation
Indices: 56441060--56441318 Score: 177
Period size: 27 Copynumber: 9.6 Consensus size: 27
56441050 TACCTTATAG
**
56441060 GGGTATTTTGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
**** * * *
56441087 GGGTAAAACGGTAATTCTATAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * *
56441114 GCGTATTTTGGTAATTTTACAAGTCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
*** **
56441141 GGGTATTTCATTAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
** **
56441168 GGGTATTTCAGTAATTCCACAAATC-A
1 GGGTATTTTGGTAATTTTACAAATCGA
*
56441194 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTTGGTAATTTTACAAATCGA
* *
56441221 GGGGTATATTGGTAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTACAAATCGA
*
56441248 GGGATATTTTGGTAATTTTACAAA-CTA
1 GGG-TATTTTGGTAATTTTACAAATCGA
* * *
56441275 GGGGTATTTTTGTAATTTTATAAA-CTAA
1 -GGGTATTTTGGTAATTTTACAAATC-GA
*
56441303 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
56441319 CTACCCTATA
Statistics
Matches: 187, Mismatches: 40, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
26 5 0.03
27 178 0.95
28 4 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:56441226 original size:81 final size:80
Alignment explanation
Indices: 56441116--56441318 Score: 214
Period size: 81 Copynumber: 2.5 Consensus size: 80
56441106 TAAATTGAGC
* * ** *
56441116 GTATTTTGGTAATTTTAC-AAGTCAAGGGTATTTCATTAATTTTACAGGTCGAGGG-TATTTCAG
1 GTATTTTGGTAATTTTACAAACT-AAGGGTATTT-AGTAATTTTACA-AACCAGGGATATTTCAG
56441179 TAATTCCACAAA-TCAGGG
63 TAATTCCACAAACT-AGGG
* * **
56441197 GTATTTTGGTAATTTTACAAACTAGGGGTATATTGGTAATTTTACAAACCAGGGATATTTTGGTA
1 GTATTTTGGTAATTTTACAAACTAAGGGTAT-TTAGTAATTTTACAAACCAGGGATATTTCAGTA
**
56441262 ATTTTACAAACTAGGG
65 ATTCCACAAACTAGGG
* *
56441278 GTATTTTTGTAATTTTATAAACTAAGGGTATTTTAGTAATT
1 GTATTTTGGTAATTTTACAAACTAAGGGTA-TTTAGTAATT
56441319 CTACCCTATA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
80 5 0.05
81 90 0.88
82 7 0.07
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
GTATTTTGGTAATTTTACAAACTAAGGGTATTTAGTAATTTTACAAACCAGGGATATTTCAGTAA
TTCCACAAACTAGGG
Found at i:56441331 original size:54 final size:54
Alignment explanation
Indices: 56441116--56441344 Score: 162
Period size: 54 Copynumber: 4.2 Consensus size: 54
56441106 TAAATTGAGC
* * * * * ** *
56441116 GTATTTTGGTAATTTTACAAGTCAAGGG-TATTTCATTAATTTTAC-AGGTCGAGG
1 GTATTTTAGTAATTTTACAA-ACAAGGGATATTTTAGTAATTCTACAAACTAG-GG
* ** * * *
56441170 GTATTTCAGTAATTCCACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTAGTAATTTTACAAA-CAAGGGATATTTTAGTAATTCTACAAACTAGGG
* * * * *
56441224 GTATATTGGTAATTTTACAAACCAGGGATATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTAGTAATTTTACAAACAAGGGATATTTTAGTAATTCTACAAACTAGGG
* * **
56441278 GTATTTTTGTAATTTTATAAACTAAGGG-TATTTTAGTAATTCTACCCTA-TAGGG
1 GTATTTTAGTAATTTTACAAAC-AAGGGATATTTTAGTAATTCTA-CAAACTAGGG
*
56441332 GCATTTTAGTAAT
1 GTATTTTAGTAAT
56441345 ACTAGCCTAC
Statistics
Matches: 142, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
53 5 0.04
54 128 0.90
55 9 0.06
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
GTATTTTAGTAATTTTACAAACAAGGGATATTTTAGTAATTCTACAAACTAGGG
Found at i:56443160 original size:6 final size:6
Alignment explanation
Indices: 56443139--56443279 Score: 99
Period size: 6 Copynumber: 22.8 Consensus size: 6
56443129 TACCAGAAAT
* * *
56443139 AGAATC AAAATG AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * * *
56443188 AGAATC AGTATC AAGTAA-C AGAATC AGAATC AAAATC AGAATT AG-GTGAC
1 AGAATC AGAATC -AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C
* * * *
56443238 TGAATC AGAATC AGTATC AGATAAC AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAAT
56443280 GTGAATGCAA
Statistics
Matches: 103, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
5 4 0.04
6 84 0.82
7 12 0.12
8 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:56443186 original size:19 final size:20
Alignment explanation
Indices: 56443160--56443269 Score: 85
Period size: 19 Copynumber: 5.8 Consensus size: 20
56443150 GAGAATCAGA
56443160 ATCAGAATCAGAATCAGGTG
1 ATCAGAATCAGAATCAGGTG
56443180 A-CAGAATCAGAATCA-GT-
1 ATCAGAATCAGAATCAGGTG
*
56443197 ATCAAGTAA-CAGAATCA-G-A
1 ATC-AG-AATCAGAATCAGGTG
* *
56443216 ATCAAAATCAGAATTAGGTG
1 ATCAGAATCAGAATCAGGTG
*
56443236 A-CTGAATCAGAATCA-GT-
1 ATCAGAATCAGAATCAGGTG
*
56443253 ATCAGATAACAGAATCA
1 ATCAGA-ATCAGAATCA
56443270 AAATCAGAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
17 4 0.05
18 16 0.22
19 49 0.67
20 4 0.05
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCAGAATCAGAATCAGGTG
Found at i:56443187 original size:25 final size:25
Alignment explanation
Indices: 56443156--56443279 Score: 113
Period size: 25 Copynumber: 4.7 Consensus size: 25
56443146 AAATGAGAAT
56443156 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTGA
* *
56443181 CAGAATCAGAATCAGTATCAAGTAACAGAA
1 CAGAATCAGAATCAGAATCAGGT----G-A
* *
56443211 TCAGAATCAAAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAGAATCAGGTGA
* * * *
56443237 CTGAATCAGAATCAGTATCAGATAA
1 CAGAATCAGAATCAGAATCAGGTGA
*
56443262 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
56443280 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
25 55 0.71
26 1 0.01
27 1 0.01
29 1 0.01
30 1 0.01
31 19 0.24
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTGA
Found at i:56443189 original size:31 final size:31
Alignment explanation
Indices: 56443151--56443258 Score: 120
Period size: 31 Copynumber: 3.7 Consensus size: 31
56443141 AATCAAAATG
56443151 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
56443182 AGAATCAGAATCAG--T----ATCAAGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
56443207 AGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
56443238 TGAATCAGAATCAGTATCAGA
1 AGAATCAGAATCAGAATCAGA
56443259 TAACAGAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
25 21 0.34
27 1 0.02
29 1 0.02
31 39 0.63
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:56443216 original size:56 final size:56
Alignment explanation
Indices: 56443151--56443279 Score: 206
Period size: 56 Copynumber: 2.3 Consensus size: 56
56443141 AATCAAAATG
56443151 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGTATCA-AGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGTATCAGA-TAAC
* * *
56443207 AGAATCAGAATCAAAATCAGAATTAGGTGACTGAATCAGAATCAGTATCAGATAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGTATCAGATAAC
*
56443263 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
56443280 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
56 66 0.99
57 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (56 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGTATCAGATAAC
Found at i:56443437 original size:27 final size:26
Alignment explanation
Indices: 56443397--56443504 Score: 74
Period size: 27 Copynumber: 4.0 Consensus size: 26
56443387 AGCATGGCTG
* * * *
56443397 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAATAGATATTGTGACAAAGCCA
*
56443423 CCAGATATAGATATTGTGGCAAAGCCA
1 CCAGA-ATAGATATTGTGACAAAGCCA
* *
56443450 CCGGAATAGATATTTGTGGA-ATAGCCA
1 CCAGAATAGATA-TTGT-GACAAAGCCA
* * * *
56443477 CCAAAAACAGATAATGTGGCAAAGCCA
1 CC-AGAATAGATATTGTGACAAAGCCA
56443504 C
1 C
56443505 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
26 13 0.21
27 42 0.67
28 8 0.13
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (26 bp):
CCAGAATAGATATTGTGACAAAGCCA
Found at i:56443691 original size:22 final size:22
Alignment explanation
Indices: 56443663--56443727 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
56443653 GCAAATACGT
*
56443663 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
56443685 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
56443707 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
56443728 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:56444159 original size:27 final size:26
Alignment explanation
Indices: 56444102--56444189 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
56444092 AGGGGTAAAA
*
56444102 TGGTAATTTTACCC-ACAAGGGTATCT
1 TGGTAATTCTACCCTACAAGGGTAT-T
* * *
56444128 TGGTAATTCTACTCTATAGGGGTATT
1 TGGTAATTCTACCCTACAAGGGTATT
*
56444154 TAGGTATTTCTACCCTACAAGGGTATT
1 T-GGTAATTCTACCCTACAAGGGTATT
56444181 TCGGTAATT
1 T-GGTAATT
56444190 TTGTAAATCG
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 14 0.28
27 36 0.72
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
TGGTAATTCTACCCTACAAGGGTATT
Found at i:56444241 original size:27 final size:27
Alignment explanation
Indices: 56444211--56444405 Score: 194
Period size: 27 Copynumber: 7.2 Consensus size: 27
56444201 GGGTAAAACA
* * * *
56444211 GTAATTCTATAAATTAAGGGTACTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
* ** * *
56444238 GTAATTTTATAGGTCGAGGGTACTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
* *
56444265 GTAATTTTACAAGTCGAGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
* *
56444292 GTAATTTTACAAATTAGGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
*
56444319 GTAATTTTACAAA-CTAGGGGTATTTTG
1 GTAATTTTACAAATC-AAGGGTATTTTG
* *
56444346 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
* * * *
56444373 GCAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAATCAAGGGTATTTTG
56444400 GTAATT
1 GTAATT
56444406 CTACCCTACA
Statistics
Matches: 148, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
27 147 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCAAGGGTATTTTG
Found at i:56444258 original size:81 final size:81
Alignment explanation
Indices: 56444173--56444358 Score: 187
Period size: 81 Copynumber: 2.3 Consensus size: 81
56444163 CTACCCTACA
** *
56444173 AGGGTA-TTTCGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATTAAGGGTACTTT
1 AGGGTACTTT-GGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAATTAAGGGTACTTT
56444237 GGTAATTTTATAGGTCG
65 GGTAATTTTATAGGTCG
* ***** * * *
56444254 AGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTG
1 AGGGTACTTTGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAATTAAGGGTACTTTG
* ** *
56444319 GTAATTTTACA-AACT
66 GTAATTTTATAGGTCG
*
56444334 AGGGGTATTTTGGTAATTTTACAAA
1 A-GGGTACTTTGGTAATTTTACAAA
56444359 CCAGGGGTAT
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
80 2 0.02
81 80 0.94
82 3 0.04
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (81 bp):
AGGGTACTTTGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAATTAAGGGTACTTTG
GTAATTTTATAGGTCG
Found at i:56444367 original size:81 final size:81
Alignment explanation
Indices: 56444211--56444405 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 81
56444201 GGGTAAAACA
* * * ** *
56444211 GTAATTCTATAAATTAAGGGTACTTTGGTAATTTTATAGGTCGAGGGTACTTTGGTAATTTTACA
1 GTAATTTTATAAATTAAGGGTATTTTGGTAATTTTAAAACTAGAGGGTACTTTGGTAATTTTACA
**
56444276 AGTCGAGGGTATTTTG
66 AACCGAGGGTATTTTG
* * *
56444292 GTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTAC
1 GTAATTTTATAAATTAAGGGTATTTTGGTAATTTTA-AAACTAGAGGGTACTTTGGTAATTTTAC
56444356 AAACC-AGGGGTATTTTG
65 AAACCGA-GGGTATTTTG
* ** *
56444373 GCAATTTTATAAACCAAGGGTATTTTAGTAATT
1 GTAATTTTATAAATTAAGGGTATTTTGGTAATT
56444406 CTACCCTACA
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 1 0.01
81 91 0.96
82 3 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (81 bp):
GTAATTTTATAAATTAAGGGTATTTTGGTAATTTTAAAACTAGAGGGTACTTTGGTAATTTTACA
AACCGAGGGTATTTTG
Found at i:56444417 original size:27 final size:27
Alignment explanation
Indices: 56444387--56444442 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
56444377 TTTTATAAAC
* *
56444387 CAAGGGTATTTTAGTAATTCTACCCTA
1 CAAGGGCATTTTAGTAATACTACCCTA
*
56444414 CAAGGGCATTTTAGTAATACTAGCCTA
1 CAAGGGCATTTTAGTAATACTACCCTA
56444441 CA
1 CA
56444443 GATATAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (27 bp):
CAAGGGCATTTTAGTAATACTACCCTA
Found at i:56444425 original size:81 final size:81
Alignment explanation
Indices: 56444261--56444431 Score: 184
Period size: 81 Copynumber: 2.1 Consensus size: 81
56444251 TCGAGGGTAC
** * ** * * *
56444261 TTTGGTAATTTTACAAGTCGAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAACCGAGGGTATTTTGGCAATTTTACAAACCAAGGGTATTTTAGTAATTC
* *
56444326 TACAAACTAGGGGTAT
66 TACAAACTAAGGGCAT
*
56444342 TTTGGTAATTTTACAAACC-AGGGGTATTTTGGCAATTTTATAAACCAAGGGTATTTTAGTAATT
1 TTTGGTAATTTTACAAACCGA-GGGTATTTTGGCAATTTTACAAACCAAGGGTATTTTAGTAATT
**
56444406 CTACCCTAC-AAGGGCAT
65 CTA-CAAACTAAGGGCAT
*
56444423 TTTAGTAAT
1 TTTGGTAAT
56444432 ACTAGCCTAC
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
80 1 0.01
81 70 0.95
82 3 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
TTTGGTAATTTTACAAACCGAGGGTATTTTGGCAATTTTACAAACCAAGGGTATTTTAGTAATTC
TACAAACTAAGGGCAT
Found at i:56446348 original size:6 final size:6
Alignment explanation
Indices: 56446292--56446482 Score: 79
Period size: 6 Copynumber: 31.0 Consensus size: 6
56446282 TAGCCCATTA
* * * * *
56446292 CAGAAT AAGAAA CAGTAT CAGAA- CTAGAAT CAAAAT CAGAAT CAAAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT C-AGAAT CAGAAT CAGAAT CAGAAT
* * * * *
56446340 CAGAAT CAG-GT GACAGAAT CATAAT CAAAAT TATGTGA- CAGAAT CAGAAT
1 CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT
* * * * *
56446390 CAGAAT CAGGTAA- CAAAAT TAGAAT CAGAAT TAGAAT CAGAAT TAG-GT
1 CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT
* * *
56446438 GACAGAAT CAGAAT CAGTAT TAGGTAA- CAGAAT CAGAAT TAGAAT
1 --CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
56446483 GTGAATGCAA
Statistics
Matches: 134, Mismatches: 34, Indels: 34
0.66 0.17 0.17
Matches are distributed among these distances:
5 8 0.06
6 108 0.81
7 12 0.09
8 6 0.04
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
CAGAAT
Found at i:56446359 original size:25 final size:25
Alignment explanation
Indices: 56446328--56446420 Score: 114
Period size: 25 Copynumber: 3.7 Consensus size: 25
56446318 GAATCAAAAT
*
56446328 CAGAATCAAAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTGA
* * * *
56446353 CAGAATCATAATCAAAATTATGTGA
1 CAGAATCAGAATCAGAATCAGGTGA
*
56446378 CAGAATCAGAATCAGAATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTGA
* *
56446403 CAAAATTAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
56446421 TAGAATCAGA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTGA
Found at i:56446416 original size:50 final size:50
Alignment explanation
Indices: 56446328--56446422 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
56446318 GAATCAAAAT
* * *
56446328 CAGAATCAAAATCAGAATCAGGTGACAGAATCATAATCAAAATTATGTGA
1 CAGAATCAAAATCAGAATCAGGTAACAAAATCAGAATCAAAATTATGTGA
* * *
56446378 CAGAATCAGAATCAGAATCAGGTAACAAAATTAGAATCAGAATTA
1 CAGAATCAAAATCAGAATCAGGTAACAAAATCAGAATCAAAATTA
56446423 GAATCAGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (50 bp):
CAGAATCAAAATCAGAATCAGGTAACAAAATCAGAATCAAAATTATGTGA
Found at i:56446419 original size:62 final size:62
Alignment explanation
Indices: 56446353--56446482 Score: 179
Period size: 62 Copynumber: 2.1 Consensus size: 62
56446343 AATCAGGTGA
* * *
56446353 CAGAATCATAATCAAAATTATGTGACAGAATCAGAATCAGAATCAGGTAACAAAATTAGAAT
1 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGAATCAGGTAACAAAATCAGAAT
* * * * *
56446415 CAGAATTAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATTAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGAATCAGGTAACAAAATCAGAAT
*
56446477 TAGAAT
1 CAGAAT
56446483 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.23
Consensus pattern (62 bp):
CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGAATCAGGTAACAAAATCAGAAT
Found at i:56446443 original size:25 final size:25
Alignment explanation
Indices: 56446415--56446482 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
56446405 AAATTAGAAT
* *
56446415 CAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTAA
*
56446440 CAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
*
56446465 CAGAATCAGAATTAGAAT
1 CAGAATCAGAATCAGAAT
56446483 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.24
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:56446451 original size:37 final size:37
Alignment explanation
Indices: 56446378--56446473 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
56446368 AATTATGTGA
* *
56446378 CAGAATCAGAATCAGAATCAGGTAACAAAATTAGAAT
1 CAGAATTAGAATCAGAATCAGGTAACAAAATCAGAAT
* * *
56446415 CAGAATTAGAATCAGAATTAGGTGACAGAATCAGAAT
1 CAGAATTAGAATCAGAATCAGGTAACAAAATCAGAAT
*
56446452 CAGTATTAGGTAA-CAGAATCAG
1 CAGAATTA-G-AATCAGAATCAG
56446474 AATTAGAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
37 39 0.78
38 9 0.18
39 2 0.04
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (37 bp):
CAGAATTAGAATCAGAATCAGGTAACAAAATCAGAAT
Found at i:56446637 original size:27 final size:26
Alignment explanation
Indices: 56446600--56446697 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 26
56446590 AGCATGGCTG
**
56446600 CCAGAACAGATATTGTGACAGAGTTA
1 CCAGAACAGATATTGTGACAGAGACA
*
56446626 CCAGATACAGATATTGTGACAGGGACA
1 CCAGA-ACAGATATTGTGACAGAGACA
* *
56446653 CCAGAACAGATATT-TGTAGCATAGCCA
1 CCAGAACAGATATTGTG-A-CAGAGACA
*
56446680 CCAGAAACAGATAATGTG
1 CCAG-AACAGATATTGTG
56446698 GCAAAGCCAC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.03
26 15 0.25
27 32 0.53
28 9 0.15
29 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGACA
Found at i:56446705 original size:27 final size:27
Alignment explanation
Indices: 56446651--56446707 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
56446641 GTGACAGGGA
* *
56446651 CACCAGAACAGATATTTGTAGCATAGC
1 CACCAGAACAGATATATGTAGCAAAGC
*
56446678 CACCAGAAACAGATA-ATGTGGCAAAGC
1 CACCAG-AACAGATATATGTAGCAAAGC
56446705 CAC
1 CAC
56446708 TTAACAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAGAACAGATATATGTAGCAAAGC
Found at i:56446894 original size:22 final size:22
Alignment explanation
Indices: 56446866--56446930 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
56446856 GCAAATACGT
*
56446866 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
56446888 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
56446910 TTGGCGCAAAGTCATAATCAG
1 TTGGCACAAAGCCATAATCAG
56446931 AATAATTGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:56447403 original size:62 final size:62
Alignment explanation
Indices: 56447306--56447423 Score: 193
Period size: 62 Copynumber: 1.9 Consensus size: 62
56447296 AGGGGCAAAA
56447306 TGGTAATTTTACCCCACAAGGGTATCTCCATAATTCTACCCTACAGGGGTATTTCGATATTT
1 TGGTAATTTTACCCCACAAGGGTATCTCCATAATTCTACCCTACAGGGGTATTTCGATATTT
* * *
56447368 TGGT-ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCG
1 TGGTAATTT-TACCCCACAAGGGTATCTCCATAATTCTACCCTACAGGGGTATTTCG
56447424 GTAATTCTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
61 4 0.08
62 48 0.92
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (62 bp):
TGGTAATTTTACCCCACAAGGGTATCTCCATAATTCTACCCTACAGGGGTATTTCGATATTT
Found at i:56447456 original size:27 final size:27
Alignment explanation
Indices: 56447374--56447448 Score: 132
Period size: 27 Copynumber: 2.8 Consensus size: 27
56447364 ATTTTGGTAT
56447374 TTCTACCCTACAAGGGTATTTCGATAA
1 TTCTACCCTACAAGGGTATTTCGATAA
* *
56447401 TTCTACCCTACAGGGGTATTTCGGTAA
1 TTCTACCCTACAAGGGTATTTCGATAA
56447428 TTCTACCCTACAAGGGTATTT
1 TTCTACCCTACAAGGGTATTT
56447449 TGACAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (27 bp):
TTCTACCCTACAAGGGTATTTCGATAA
Found at i:56447470 original size:27 final size:27
Alignment explanation
Indices: 56447440--56447504 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
56447430 CTACCCTACA
*
56447440 AGGGTATTTTGACAATTTTGTAAATTG
1 AGGGTAATTTGACAATTTTGTAAATTG
*** **
56447467 AGGGTAAAGCGGTAATTTTGTAAATTG
1 AGGGTAATTTGACAATTTTGTAAATTG
*
56447494 AGGGTACTTTG
1 AGGGTAATTTG
56447505 GTAATTTTAC
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.28, T:0.38
Consensus pattern (27 bp):
AGGGTAATTTGACAATTTTGTAAATTG
Found at i:56447625 original size:27 final size:26
Alignment explanation
Indices: 56447493--56447672 Score: 155
Period size: 27 Copynumber: 6.7 Consensus size: 26
56447483 TTTGTAAATT
* * *
56447493 GAGGGTACTTTGGTAATTTTACAAGTC
1 GAGGGTATTTTAGTAATTTTACAA-AC
* **
56447520 GAGGGTATTTCAGTAATTTTACAGGTC
1 GAGGGTATTTTAGTAATTTTACA-AAC
* *
56447547 GAGGGTATTTCAGTAATTTCACAAATC
1 GAGGGTATTTTAGTAATTTTACAAA-C
*
56447574 -AGTGGTATTTTGGTAATTTTACAAAC
1 GAG-GGTATTTTAGTAATTTTACAAAC
* *
56447600 TAGTGGTATTTTGGTAATTTTACAAAC
1 GAG-GGTATTTTAGTAATTTTACAAAC
* * *
56447627 CAGGGGTATTTTTGTAATTTTATAAACC
1 GA-GGGTATTTTAGTAATTTTACAAA-C
*
56447655 AAGGGTATTTTAGTAATT
1 GAGGGTATTTTAGTAATT
56447673 CTACCCTACA
Statistics
Matches: 132, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
26 3 0.02
27 126 0.95
28 3 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (26 bp):
GAGGGTATTTTAGTAATTTTACAAAC
Found at i:56447634 original size:81 final size:81
Alignment explanation
Indices: 56447494--56447672 Score: 184
Period size: 81 Copynumber: 2.2 Consensus size: 81
56447484 TTGTAAATTG
* * ***
56447494 AGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTCGAGGGTATTTCA
1 AGGGTATTTTGGTAATTTTACAAGACGAGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTCA
*
56447559 GTAATTTCACAAATC-
66 GTAATTTCACAAACCA
* **
56447574 AGTGGTATTTTGGTAATTTTACAA-ACTAGTGGTATTTTGGTAATTTTACAAACC-AGGGGTATT
1 AG-GGTATTTTGGTAATTTTACAAGACGAG-GGTATTTCAGTAATTTTACAAACCGA-GGGTATT
** * *
56447637 TTTGTAATTTTATAAACCA
63 TCAGTAATTTCACAAACCA
*
56447656 AGGGTATTTTAGTAATT
1 AGGGTATTTTGGTAATT
56447673 CTACCCTACA
Statistics
Matches: 81, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
80 6 0.07
81 73 0.90
82 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAGACGAGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTCA
GTAATTTCACAAACCA
Found at i:56447665 original size:54 final size:53
Alignment explanation
Indices: 56447494--56447672 Score: 171
Period size: 54 Copynumber: 3.3 Consensus size: 53
56447484 TTGTAAATTG
* * * * ** *
56447494 AGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAGGTCG
1 AGGGTATTTTAGTAATTTTACAAATCAG-GGGTATTTTAGTAATTTTACA-AACA
* * * * *
56447548 AGGGTATTTCAGTAATTTCACAAATCAGTGGTATTTTGGTAATTTTACAAACT
1 AGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACA
* * * *
56447601 AGTGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTTGTAATTTTATAAACCA
1 AG-GGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAA-CA
56447656 AGGGTATTTTAGTAATT
1 AGGGTATTTTAGTAATT
56447673 CTACCCTACA
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
53 3 0.03
54 95 0.93
55 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACA
Found at i:56455192 original size:26 final size:26
Alignment explanation
Indices: 56455163--56455215 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
56455153 TGATAAAAAT
56455163 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56455189 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56455215 T
1 T
56455216 ATGGGCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56471980 original size:34 final size:34
Alignment explanation
Indices: 56471937--56472003 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
56471927 TGAACAAAAT
56471937 AGTCTGGGCCTAAGCCCATATCAGTAACAGTAGC
1 AGTCTGGGCCTAAGCCCATATCAGTAACAGTAGC
* * *
56471971 AGTCTGGGCCTTAGCCCATTTTAGTAACAGTAG
1 AGTCTGGGCCTAAGCCCATATCAGTAACAGTAG
56472004 TTGTGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (34 bp):
AGTCTGGGCCTAAGCCCATATCAGTAACAGTAGC
Found at i:56479162 original size:15 final size:15
Alignment explanation
Indices: 56479142--56479171 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56479132 CAATGTCAGG
56479142 ATTCATCACACTATC
1 ATTCATCACACTATC
56479157 ATTCATCACACTATC
1 ATTCATCACACTATC
56479172 GTAGTTCATA
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:0.33, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTCATCACACTATC
Found at i:56487695 original size:64 final size:65
Alignment explanation
Indices: 56487591--56487725 Score: 184
Period size: 64 Copynumber: 2.1 Consensus size: 65
56487581 GTCCCTTCCC
* * * * *
56487591 AATCAATTAATGACATGTCAGCTATTTTTTACATGCCATTTACACCTCATTTAATAAGA-TTTTT
1 AATCATTTAATGACATGTCAACTAATTTTTACATGCCATTTACACATAATTTAATAAGATTTTTT
* *
56487655 AATCATTTAATGACATGTCAATTAATTTTTACAT-CTCATTTACACATAATTTAATTAGATTTTT
1 AATCATTTAATGACATGTCAACTAATTTTTACATGC-CATTTACACATAATTTAATAAGATTTTT
56487719 T
65 T
56487720 AATCAT
1 AATCAT
56487726 AAATCCCTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
63 1 0.02
64 50 0.81
65 11 0.18
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (65 bp):
AATCATTTAATGACATGTCAACTAATTTTTACATGCCATTTACACATAATTTAATAAGATTTTTT
Found at i:56487799 original size:19 final size:19
Alignment explanation
Indices: 56487777--56487830 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
56487767 AATGTTCTAT
*
56487777 CTTCACGTCTCTGTTGCTA
1 CTTCACGTCTCTGCTGCTA
* *
56487796 CTTCATGTCTCTGCTGCTG
1 CTTCACGTCTCTGCTGCTA
* *
56487815 CTTTACGTCCCTGCTG
1 CTTCACGTCTCTGCTG
56487831 TTATATTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.07, C:0.33, G:0.19, T:0.41
Consensus pattern (19 bp):
CTTCACGTCTCTGCTGCTA
Found at i:56492408 original size:62 final size:64
Alignment explanation
Indices: 56492329--56492461 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 64
56492319 TTAGGGATTT
* * * *
56492329 ATGATTAAAAAATCTAATTAATTAATGTGTAAAT-G-AGATAAAAATTAATTGACATGTCATTAA
1 ATGATTAAAAAATCTAATTAAATAAGGTGTAAATGGCAG-TAAAAAATAACTGACATGTCATTAA
* *
56492392 ATGATT-AAAAATCTAATTAAATGAGGTGTAAATGGCATGTAAAAAATAGCTGACATGTCATTAA
1 ATGATTAAAAAATCTAATTAAATAAGGTGTAAATGGCA-GTAAAAAATAACTGACATGTCATTAA
*
56492456 TTGATT
1 ATGATT
56492462 GGGAAGGGAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
62 24 0.40
63 7 0.12
64 28 0.47
65 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (64 bp):
ATGATTAAAAAATCTAATTAAATAAGGTGTAAATGGCAGTAAAAAATAACTGACATGTCATTAA
Found at i:56492424 original size:31 final size:31
Alignment explanation
Indices: 56492329--56492425 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 31
56492319 TTAGGGATTT
* * *
56492329 ATGATTAAAAAATCTAATTAATTAATGTGTAA
1 ATGATT-AAAAATCTAATTAAATGACGTGTAA
* * * *
56492361 ATGAGATAAAAAT-TAATTGACATGTCAT-TAA
1 ATGA-TTAAAAATCTAATT-AAATGACGTGTAA
*
56492392 ATGATTAAAAATCTAATTAAATGAGGTGTAA
1 ATGATTAAAAATCTAATTAAATGACGTGTAA
56492423 ATG
1 ATG
56492426 GCATGTAAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
30 12 0.24
31 23 0.47
32 13 0.27
33 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.34
Consensus pattern (31 bp):
ATGATTAAAAATCTAATTAAATGACGTGTAA
Found at i:56493178 original size:11 final size:11
Alignment explanation
Indices: 56493164--56493204 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
56493154 TATTTCCTCC
56493164 CTATTTTGCTA
1 CTATTTTGCTA
*
56493175 CTATTTTACTA
1 CTATTTTGCTA
56493186 CTATTTTGCTA
1 CTATTTTGCTA
56493197 CTATTTTG
1 CTATTTTG
56493205 TTGTTATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:56493278 original size:30 final size:31
Alignment explanation
Indices: 56493242--56493305 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
56493232 ACTTATTTTA
56493242 TTGTTAA-TTTTCTTATTATTTTAAAGACAT
1 TTGTTAATTTTTCTTATTATTTTAAAGACAT
* * *
56493272 TTGTTAATTTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTTCTTATTATTTTAAAGACAT
56493303 TTG
1 TTG
56493306 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTCTTATTATTTTAAAGACAT
Found at i:56494820 original size:9 final size:9
Alignment explanation
Indices: 56494770--56494892 Score: 54
Period size: 9 Copynumber: 13.2 Consensus size: 9
56494760 ATGAGAAAAG
56494770 ATAAAAATT
1 ATAAAAATT
*
56494779 ATTAAAATT
1 ATAAAAATT
*
56494788 AT-TAAATT
1 ATAAAAATT
* *
56494796 TTAATGAAA-A
1 ATAA--AAATT
56494806 ATAAAAATT
1 ATAAAAATT
56494815 AT-AAAATT
1 ATAAAAATT
* * *
56494823 TTATAAAGT
1 ATAAAAATT
56494832 ATAAGAAAATT
1 AT-A-AAAATT
*
56494843 ATAAAAAAT
1 ATAAAAATT
* *
56494852 GTAAAAAAT
1 ATAAAAATT
*
56494861 ATAAAATTCGT
1 ATAAAAAT--T
*
56494872 AAAAAAAATT
1 -ATAAAAATT
56494882 ATAAAAATT
1 ATAAAAATT
56494891 AT
1 AT
56494893 CATACCAGAA
Statistics
Matches: 83, Mismatches: 21, Indels: 20
0.67 0.17 0.16
Matches are distributed among these distances:
8 16 0.19
9 45 0.54
10 6 0.07
11 10 0.12
12 6 0.07
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:56495087 original size:10 final size:10
Alignment explanation
Indices: 56495074--56495136 Score: 62
Period size: 10 Copynumber: 6.4 Consensus size: 10
56495064 TTTTGATACA
56495074 TTTTATAATTT
1 TTTTATAA-TT
56495085 TTTTATAATT
1 TTTTATAATT
*
56495095 TTTAATTAA--
1 TTTTA-TAATT
56495104 TTTTA-AATAT
1 TTTTATAAT-T
56495114 TTTTAT-ATT
1 TTTTATAATT
56495123 TTTTATAATT
1 TTTTATAATT
56495133 TTTT
1 TTTT
56495137 TTGCTACATG
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
7 2 0.05
9 11 0.25
10 20 0.45
11 11 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:56495088 original size:11 final size:11
Alignment explanation
Indices: 56495074--56495137 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
56495064 TTTTGATACA
56495074 TTTTATAATTT
1 TTTTATAATTT
56495085 TTTTATAA---
1 TTTTATAATTT
*
56495093 TTTT-TAATTAA
1 TTTTATAATT-T
*
56495104 TTTTA-AATAT
1 TTTTATAATTT
56495114 TTTTAT-A-TT
1 TTTTATAATTT
56495123 TTTTATAATTT
1 TTTTATAATTT
56495134 TTTT
1 TTTT
56495138 TGCTACATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
7 3 0.07
8 4 0.10
9 7 0.17
10 7 0.17
11 21 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:56495096 original size:9 final size:9
Alignment explanation
Indices: 56495074--56495135 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 9
56495064 TTTTGATACA
56495074 TTTTATAATTT
1 TTTTATAA--T
56495085 TTTTATAAT
1 TTTTATAAT
56495094 TTTTAATTAA-
1 TTTT-A-TAAT
*
56495104 TTTTAAATAT
1 TTTTATA-AT
*
56495114 TTTTATATT
1 TTTTATAAT
56495123 TTTTATAAT
1 TTTTATAAT
56495132 TTTT
1 TTTT
56495136 TTTGCTACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 1 0.02
9 20 0.47
10 11 0.26
11 11 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:56495446 original size:88 final size:90
Alignment explanation
Indices: 56495236--56495469 Score: 260
Period size: 88 Copynumber: 2.6 Consensus size: 90
56495226 TTAATGGTCA
* * * * * *
56495236 AAGGGCCTTTTTGATACATTTTGATACTTCAAGTACCCAATTGAGTGCAAAAAAAAAGCAGGGGC
1 AAGGGTCTTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTG---AAAAAAAGCAGGAGC
* *
56495301 TTAATTGCTTTTTGTTTAAAAAAGTTTG
63 TTAATTGCATTTTGTTTAAAAAAGTTTC
** * * * *
56495329 AA-AATCTTTTTGATGTATTTCGAATGTTTAAGTACCCAATTGAGTGAAAGAAAA-CATGAGCTT
1 AAGGGTCTTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGAAA-AAAAGCAGGAGCTT
*
56495392 AATTGCATTTT-TTTGAAAAAG-TTC
65 AATTGCATTTTGTTTAAAAAAGTTTC
*
56495416 AAGGGTCTTTTTGATGCATTTTAAAAGTTTAAGTACCCAATTGAGTGAAAAAAA
1 AAGGGTCTTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGAAAAAAA
56495470 TACATTTTTT
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
87 8 0.07
88 50 0.42
89 20 0.17
90 4 0.03
92 34 0.29
93 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (90 bp):
AAGGGTCTTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGAAAAAAAGCAGGAGCTTA
ATTGCATTTTGTTTAAAAAAGTTTC
Found at i:56495488 original size:19 final size:20
Alignment explanation
Indices: 56495461--56495510 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
56495451 CCCAATTGAG
*
56495461 TGAAAAAAATACATTTTTTT
1 TGAAAAAAATACATTTTTAT
56495481 TGAAAAAAATACATTTTTAT
1 TGAAAAAAATACATTTTTAT
56495501 TGAAAAAAAT
1 TGAAAAAAAT
56495511 TGTGAACTTT
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:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (20 bp):
TGAAAAAAATACATTTTTAT
Found at i:56502760 original size:40 final size:40
Alignment explanation
Indices: 56502716--56502850 Score: 173
Period size: 40 Copynumber: 3.3 Consensus size: 40
56502706 CAGCTACATG
* *
56502716 TGGCACTTAGTGTGCGATTCGAAATAGTTTTGGCTATATA
1 TGGCACTTAGTGTGCGATTCGAAATAGCTTTGGCTATGTA
* * **
56502756 TGGCACTTAGTGTGCGATTCGAGATAGCTTCGATTATGTA
1 TGGCACTTAGTGTGCGATTCGAAATAGCTTTGGCTATGTA
*
56502796 TGGCACTTAGTGTGCGAGATT-AAAATAGCTTTGGCTATGTAA
1 TGGCACTTAGTGTGC--GATTCGAAATAGCTTTGGCTATGT-A
56502838 TGGCACTTAGTGT
1 TGGCACTTAGTGT
56502851 ACGAGATATC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 49 0.60
41 14 0.17
42 18 0.22
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGAAATAGCTTTGGCTATGTA
Found at i:56506650 original size:12 final size:12
Alignment explanation
Indices: 56506635--56506659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56506625 AAATGGAAGA
56506635 TGAGTTGGAATT
1 TGAGTTGGAATT
56506647 TGAGTTGGAATT
1 TGAGTTGGAATT
56506659 T
1 T
56506660 ATAAGATATA
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:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (12 bp):
TGAGTTGGAATT
Found at i:56510824 original size:28 final size:28
Alignment explanation
Indices: 56510793--56510887 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
56510783 GATGTCTTGT
56510793 ACACTAAGTGCCATCTTCAATAATTTGC
1 ACACTAAGTGCCATCTTCAATAATTTGC
* * *
56510821 ACACTAAGTGCTAT-TTCTGGAT-GTTTCGC
1 ACACTAAGTGCCATCTTC--AATAATTT-GC
* * *
56510850 ACACTAAGTTCCATCCTCAATAATTCGC
1 ACACTAAGTGCCATCTTCAATAATTTGC
56510878 ACACTAAGTG
1 ACACTAAGTG
56510888 TCGTTTTCAC
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
27 3 0.06
28 29 0.56
29 18 0.35
30 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (28 bp):
ACACTAAGTGCCATCTTCAATAATTTGC
Found at i:56510864 original size:57 final size:56
Alignment explanation
Indices: 56510761--56510887 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 56
56510751 CACGGACGTA
* *
56510761 TCGCACACTAAGTGCCATCCTGGATGTCTTGTACACTAAGTGCCATCTTCAATAAT
1 TCGCACACTAAGTGCCATCCTGGATGTCTTGCACACTAAGTGCCATCCTCAATAAT
* * * *
56510817 TTGCACACTAAGTGCTATTTCTGGATGT-TTCGCACACTAAGTTCCATCCTCAATAAT
1 TCGCACACTAAGTGCCA-TCCTGGATGTCTT-GCACACTAAGTGCCATCCTCAATAAT
56510874 TCGCACACTAAGTG
1 TCGCACACTAAGTG
56510888 TCGTTTTCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 17 0.27
57 45 0.73
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (56 bp):
TCGCACACTAAGTGCCATCCTGGATGTCTTGCACACTAAGTGCCATCCTCAATAAT
Found at i:56516146 original size:47 final size:47
Alignment explanation
Indices: 56516088--56516297 Score: 341
Period size: 47 Copynumber: 4.5 Consensus size: 47
56516078 ATTCAGCCAA
56516088 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
56516135 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
56516182 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * *
56516229 GAAAGTGTATATATGTGACTGA-GCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGA-TAAGGCCTAATGGCCGATGTGATGAATGT
*
56516276 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
56516298 TCCCGAAGGG
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.01
47 149 0.97
48 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:56516466 original size:37 final size:37
Alignment explanation
Indices: 56516416--56516554 Score: 260
Period size: 37 Copynumber: 3.8 Consensus size: 37
56516406 CCGAGCTCTA
56516416 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
56516453 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
56516490 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* *
56516527 AAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
56516555 CGTCTGAGCT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:56517876 original size:40 final size:40
Alignment explanation
Indices: 56517831--56518050 Score: 359
Period size: 40 Copynumber: 5.5 Consensus size: 40
56517821 AGTGAAATGC
56517831 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
56517871 CCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
56517911 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
56517951 CCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* * * *
56517991 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
56518031 CCGGGCTAGGTCCCGAAGAG
1 CCGGGCTAAGTCCCGAAGAG
56518051 AAATCATGCT
Statistics
Matches: 165, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:56522499 original size:11 final size:11
Alignment explanation
Indices: 56522483--56522583 Score: 82
Period size: 11 Copynumber: 9.4 Consensus size: 11
56522473 TTTTGTAGGT
56522483 TTTTGGTGTTG
1 TTTTGGTGTTG
56522494 TTTTGGTGTTG
1 TTTTGGTGTTG
* *
56522505 TTGGTGATGTTG
1 TT-TTGGTGTTG
56522517 -TTTGGTGTTG
1 TTTTGGTGTTG
**
56522527 TTTTTATGTTG
1 TTTTGGTGTTG
* *
56522538 -TTTGGTGCTA
1 TTTTGGTGTTG
**
56522548 TTTTTATGTTG
1 TTTTGGTGTTG
*
56522559 -TTTGGTGCTG
1 TTTTGGTGTTG
*
56522569 TTTTGATGTTG
1 TTTTGGTGTTG
56522580 TTTT
1 TTTT
56522584 ATTGTTCTTT
Statistics
Matches: 67, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
10 20 0.30
11 40 0.60
12 7 0.10
ACGTcount: A:0.05, C:0.02, G:0.31, T:0.62
Consensus pattern (11 bp):
TTTTGGTGTTG
Found at i:56522537 original size:21 final size:21
Alignment explanation
Indices: 56522483--56522582 Score: 119
Period size: 21 Copynumber: 4.7 Consensus size: 21
56522473 TTTTGTAGGT
* *
56522483 TTTTGGTGTTGTTTTGGTGTTG
1 TTTTGATGTTG-TTTGGTGCTG
* *
56522505 TTGGTGATGTTGTTTGGTGTTG
1 TT-TTGATGTTGTTTGGTGCTG
* *
56522527 TTTTTATGTTGTTTGGTGCTA
1 TTTTGATGTTGTTTGGTGCTG
*
56522548 TTTTTATGTTGTTTGGTGCTG
1 TTTTGATGTTGTTTGGTGCTG
56522569 TTTTGATGTTGTTT
1 TTTTGATGTTGTTT
56522583 TATTGTTCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
21 48 0.70
22 14 0.20
23 7 0.10
ACGTcount: A:0.05, C:0.02, G:0.31, T:0.62
Consensus pattern (21 bp):
TTTTGATGTTGTTTGGTGCTG
Found at i:56522602 original size:21 final size:21
Alignment explanation
Indices: 56522569--56522617 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
56522559 TTTGGTGCTG
*
56522569 TTTTGATGTTGTTTTATTGTTC
1 TTTTG-TGGTGTTTTATTGTTC
*
56522591 TTTTGTGGTGTTTTATTGTTT
1 TTTTGTGGTGTTTTATTGTTC
56522612 TTTTGT
1 TTTTGT
56522618 CATTTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.06, C:0.02, G:0.20, T:0.71
Consensus pattern (21 bp):
TTTTGTGGTGTTTTATTGTTC
Found at i:56523588 original size:14 final size:14
Alignment explanation
Indices: 56523569--56523603 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
56523559 TGACATTTTT
*
56523569 TTCTAATGATACTA
1 TTCTAACGATACTA
56523583 TTCTAACGATACTA
1 TTCTAACGATACTA
56523597 TTCTAAC
1 TTCTAAC
56523604 ACGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:56526563 original size:50 final size:50
Alignment explanation
Indices: 56526488--56526699 Score: 316
Period size: 50 Copynumber: 4.2 Consensus size: 50
56526478 TAAACGACCA
*
56526488 TGTATATTCGGCCACATAGATATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
56526538 TGTATATTCGGCCACATAGGTATGTACATACGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* * ** *
56526588 TGTATATTCAGCCACATAGGTATGTACATAGGTTTTGTTATGTTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* * * *
56526638 TGTATATTCGACCATATATGTATTTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
56526688 TGTGTATTCGGC
1 TGTATATTCGGC
56526700 TAAATGAGTG
Statistics
Matches: 144, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 144 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.43
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:56534522 original size:50 final size:50
Alignment explanation
Indices: 56534447--56534758 Score: 516
Period size: 50 Copynumber: 6.2 Consensus size: 50
56534437 TAAACGACCA
*
56534447 TGTATATTCGACCACATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
56534497 TGTATATTCGGCCACATAGGTATGTACATATGTGAAGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
**
56534547 TGTATATTCATCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* * * *
56534597 TGTATATTCGGCCTCAAAGGTATGTACATATGTGATGCTATGTTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
56534647 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
56534697 TGTATATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
56534747 TGTGTATTCGGC
1 TGTATATTCGGC
56534759 TAAATGATTG
Statistics
Matches: 244, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 244 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:56538386 original size:40 final size:39
Alignment explanation
Indices: 56538302--56538486 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 39
56538292 TCGAATGATG
* * *
56538302 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT
*
56538341 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56538382 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT-AAT
* *
56538422 T-CGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
* *
56538460 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGT-CCGAAGGCATTTG
56538487 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 81 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:56538508 original size:79 final size:79
Alignment explanation
Indices: 56538355--56538519 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
56538345 GGACTAAGAT
* * **
56538355 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
56538420 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* *
56538434 CCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCAAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
56538497 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
56538513 CCGAAGG
1 CCGAAGG
56538520 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 50 0.68
80 21 0.29
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:56539951 original size:8 final size:8
Alignment explanation
Indices: 56539938--56539964 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
56539928 AAAATAAACA
56539938 AAACTTTC
1 AAACTTTC
56539946 AAACTTTC
1 AAACTTTC
56539954 AAACTTTC
1 AAACTTTC
56539962 AAA
1 AAA
56539965 TATATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (8 bp):
AAACTTTC
Found at i:56540195 original size:16 final size:19
Alignment explanation
Indices: 56540157--56540192 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
56540147 TAATCATACT
56540157 TTTTATTTCTTCTCTTCTC
1 TTTTATTTCTTCTCTTCTC
56540176 TTTTATTTC-TCTCTTCT
1 TTTTATTTCTTCTCTTCT
56540193 TTTCTCCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATTTCTTCTCTTCTC
Found at i:56542634 original size:25 final size:27
Alignment explanation
Indices: 56542585--56542640 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
56542575 AGATTGTTAA
*
56542585 AATTCTTCTAAAAGAAACTCAAAAG-G
1 AATTCTTCGAAAAGAAACTCAAAAGAG
56542611 AATTCTT-GAAAAGAAAACTC-AAAGAG
1 AATTCTTCGAAAAG-AAACTCAAAAGAG
56542637 AATT
1 AATT
56542641 TAATGACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (27 bp):
AATTCTTCGAAAAGAAACTCAAAAGAG
Found at i:56544724 original size:96 final size:96
Alignment explanation
Indices: 56544560--56544740 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
56544550 TCTCTAGTTG
* * ** * *
56544560 GATATTTAATTGGACATTGGAAACTTTTATGATCTTTTAAACTACACCAATAGCATTACACAAAA
1 GATATTTAATTGAACATTAGAAACCATTATGAACTTTTAAACTACACCAATAACATTACACAAAA
* *
56544625 GGTAATATCTCAATTGTATTATCTTTATTTA
66 GGTAATAGCTCAATCGTATTATCTTTATTTA
* * *
56544656 GATATTTAATTGAACATTAGAAACCATTATGAACTTTTGAACTACACCAATAATATTGCACAAAA
1 GATATTTAATTGAACATTAGAAACCATTATGAACTTTTAAACTACACCAATAACATTACACAAAA
56544721 GGTAATAGCTCAATCGTATT
66 GGTAATAGCTCAATCGTATT
56544741 CCTCTTTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (96 bp):
GATATTTAATTGAACATTAGAAACCATTATGAACTTTTAAACTACACCAATAACATTACACAAAA
GGTAATAGCTCAATCGTATTATCTTTATTTA
Found at i:56553672 original size:46 final size:45
Alignment explanation
Indices: 56553619--56553827 Score: 165
Period size: 46 Copynumber: 4.5 Consensus size: 45
56553609 ATTGTGTGCT
* *
56553619 AGTGTAAGACATGTCTGGGACATGAATCGGCCACATTATCATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGAT-ATAGCC
* * * *
56553665 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CA-TTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT--GA-TATAGCC
* * * *
56553713 AGTGTAAGACATGTTTGGGACATGCATTGGCCTCGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATAT-AGCC
* * * * * *
56553759 AGTGTAAGACATGCCTGGGACATGCATCAGCTACAAGATGT-GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATATAGCC
56553803 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
56553828 GCTTCAGCAT
Statistics
Matches: 130, Mismatches: 22, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
44 11 0.08
45 15 0.12
46 54 0.42
47 30 0.23
48 20 0.15
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATATAGCC
Found at i:56554518 original size:31 final size:31
Alignment explanation
Indices: 56554480--56554541 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
56554470 GAATGCAAAG
56554480 TAGTCTTTCATGAATGTCAAATTGTAGGTAT
1 TAGTCTTTCATGAATGTCAAATTGTAGGTAT
* *
56554511 TAGTCTTTCATGAATGTGAAATTGTTGGTAT
1 TAGTCTTTCATGAATGTCAAATTGTAGGTAT
56554542 GCTTGAGTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (31 bp):
TAGTCTTTCATGAATGTCAAATTGTAGGTAT
Found at i:56565555 original size:44 final size:44
Alignment explanation
Indices: 56565491--56565619 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 44
56565481 ATAGGATTTT
*
56565491 GATATGTGATTTA-GTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGAGATTTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* ** * *
56565534 GATTTGAGATTTACGTGTAAGACCTTGTTTAGGACAG-TGGCATC
1 GATATGAGATTTACGTGTAAGACCACGTCTGGGAC-GTTGGCATC
* *
56565578 GATATGCGA-TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGAGATTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
56565620 TGTACGAGTT
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
42 1 0.01
43 37 0.53
44 31 0.44
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (44 bp):
GATATGAGATTTACGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:56568038 original size:22 final size:21
Alignment explanation
Indices: 56567995--56568038 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
56567985 AACAATATGT
* *
56567995 AAAATTCAATATTGTTTGAAA
1 AAAAATCAATATCGTTTGAAA
56568016 AAAAATCAATATCGTTTGAAA
1 AAAAATCAATATCGTTTGAAA
56568037 AA
1 AA
56568039 CATTTACCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (21 bp):
AAAAATCAATATCGTTTGAAA
Found at i:56568831 original size:8 final size:8
Alignment explanation
Indices: 56568818--56568849 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
56568808 AAAAATTTAG
56568818 AATAATAA
1 AATAATAA
56568826 AATAATAA
1 AATAATAA
56568834 AATAATAA
1 AATAATAA
56568842 AATAATAA
1 AATAATAA
56568850 GAACTGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AATAATAA
Found at i:56571180 original size:68 final size:64
Alignment explanation
Indices: 56570943--56571194 Score: 174
Period size: 68 Copynumber: 3.9 Consensus size: 64
56570933 CAAAATTTTG
* * * * * *
56570943 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTCG
1 GCTCTCTTGT-CTACATGATGTACACATAGCACCACACATGTGACCTAGCTACA-TATATTC-CG
56571004 TA
63 TA
* * * * * ** * *
56571006 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAAACGCATGCGACCTAGCTACATATATTCCGT
1 GCTCTCTTGTCTACATGATGTAC-ACA-TAGCACCACACATGTGACCTAGCTACATATATTCCGT
56571071 A
64 A
* * * *
56571072 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGATGTACACATAGCACCACACATGTGACCTAGCTACAT-AT-AT-TC-C
56571137 GTA
62 GTA
* *
56571140 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGATGTACACAT-AGCACCACACATGTGACCTAGCTACATA
56571195 CCATCTGTAT
Statistics
Matches: 152, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 23 0.15
65 21 0.14
66 31 0.20
67 8 0.05
68 48 0.32
69 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGATGTACACATAGCACCACACATGTGACCTAGCTACATATATTCCGTA
Found at i:56573003 original size:45 final size:45
Alignment explanation
Indices: 56572939--56573094 Score: 161
Period size: 45 Copynumber: 3.4 Consensus size: 45
56572929 TTTCCATGGC
* * * *
56572939 GTCTTTCAGCCATAGTCTTATTTATTTTCGACTTAATGTCATAGT
1 GTCTTTCAACTATGGTCTTATTTATTTTCGACTTATTGTCATAGT
* * *
56572984 GTCTTTCAACTATGGTCTTACTCATTTTCCATCATT-TTGTCATAGT
1 GTCTTTCAACTATGGTCTTATTTATTTTCGA-C-TTATTGTCATAGT
* * * * * * *
56573030 GTCATTCAACTATGGTCTTATTTGTTTCCGTCATATTGCCATAAT
1 GTCTTTCAACTATGGTCTTATTTATTTTCGACTTATTGTCATAGT
56573075 GTCTTTCAACTATGGTCTTA
1 GTCTTTCAACTATGGTCTTA
56573095 CAGGTTTGAA
Statistics
Matches: 90, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
44 1 0.01
45 53 0.59
46 34 0.38
47 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (45 bp):
GTCTTTCAACTATGGTCTTATTTATTTTCGACTTATTGTCATAGT
Found at i:56573038 original size:46 final size:46
Alignment explanation
Indices: 56572975--56573095 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 46
56572965 TTCGACTTAA
*
56572975 TGTCATAGTGTCTTTCAACTATGGTCTTACTCAT-TTTCCATCATTT
1 TGTCATAGTGTCTTTCAACTATGGTCTTACT-ATGTTTCCATCATAT
* * *
56573021 TGTCATAGTGTCATTCAACTATGGTCTTA-TTTGTTTCCGTCATAT
1 TGTCATAGTGTCTTTCAACTATGGTCTTACTATGTTTCCATCATAT
* *
56573066 TGCCATAATGTCTTTCAACTATGGTCTTAC
1 TGTCATAGTGTCTTTCAACTATGGTCTTAC
56573096 AGGTTTGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.02
45 37 0.56
46 28 0.42
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (46 bp):
TGTCATAGTGTCTTTCAACTATGGTCTTACTATGTTTCCATCATAT
Found at i:56579326 original size:23 final size:23
Alignment explanation
Indices: 56579298--56579345 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
56579288 GGTTTTTGTG
56579298 TTATGTTTCTTGTTTTCATTATT
1 TTATGTTTCTTGTTTTCATTATT
56579321 TTATGTTTCTTGTTTTCATTATT
1 TTATGTTTCTTGTTTTCATTATT
56579344 TT
1 TT
56579346 CTGCGTCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.71
Consensus pattern (23 bp):
TTATGTTTCTTGTTTTCATTATT
Found at i:56579365 original size:23 final size:23
Alignment explanation
Indices: 56579305--56579358 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
56579295 GTGTTATGTT
**
56579305 TCTTGTTTTCATTATTTTATGTT
1 TCTTGTTTTCATTATTTTATGCG
*
56579328 TCTTGTTTTCATTATTTTCTGCG
1 TCTTGTTTTCATTATTTTATGCG
56579351 TCTTGTTT
1 TCTTGTTT
56579359 GTATTATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.09, C:0.13, G:0.11, T:0.67
Consensus pattern (23 bp):
TCTTGTTTTCATTATTTTATGCG
Found at i:56579403 original size:17 final size:18
Alignment explanation
Indices: 56579371--56579409 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
56579361 ATTATGTTGT
56579371 TTTTAATAAAATTTATAA
1 TTTTAATAAAATTTATAA
*
56579389 TTTTAA-AATATTTATAA
1 TTTTAATAAAATTTATAA
56579406 TTTT
1 TTTT
56579410 TTAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATAAAATTTATAA
Found at i:56579410 original size:18 final size:18
Alignment explanation
Indices: 56579370--56579416 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
56579360 TATTATGTTG
*
56579370 TTTTTAATAAAATTTATAA
1 TTTTTAA-AATATTTATAA
56579389 -TTTTAAAATATTTATAA
1 TTTTTAAAATATTTATAA
*
56579406 TTTTTTAAATA
1 TTTTTAAAATA
56579417 ATTTTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTTAAAATATTTATAA
Found at i:56579411 original size:19 final size:18
Alignment explanation
Indices: 56579370--56579420 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
56579360 TATTATGTTG
56579370 TTTTTAATAAAATTTATAA
1 TTTTTAA-AAAATTTATAA
*
56579389 -TTTTAAAATATTTATAA
1 TTTTTAAAAAATTTATAA
*
56579406 TTTTTTAAATAATTT
1 -TTTTTAAAAAATTT
56579421 TACTTATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 10 0.37
18 6 0.22
19 11 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAAAAAATTTATAA
Found at i:56581536 original size:23 final size:23
Alignment explanation
Indices: 56581481--56581536 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
56581471 CCATTTCGGA
* *
56581481 AAGGGACTTATCCAAAGAATGCC
1 AAGGTACTTTTCCAAAGAATGCC
56581504 AAGGTACTTTTCCAAAGAATGCC
1 AAGGTACTTTTCCAAAGAATGCC
56581527 AAGGTACTTT
1 AAGGTACTTT
56581537 AAGCGTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (23 bp):
AAGGTACTTTTCCAAAGAATGCC
Found at i:56581832 original size:11 final size:10
Alignment explanation
Indices: 56581808--56581832 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
56581798 CAATTTTGAG
56581808 TTTTTAAATA
1 TTTTTAAATA
56581818 TTTTTAAATA
1 TTTTTAAATA
56581828 TTTTT
1 TTTTT
56581833 CACACATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTAAATA
Found at i:56591576 original size:79 final size:78
Alignment explanation
Indices: 56591475--56591699 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 78
56591465 GCTCCTCGTT
* *
56591475 CAAATGCCTTCGGGACATAGCCCGGTTATAGTCATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTCATTCGCACAAATGCCTTCGGGACTTAGCCCGG
56591540 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * *
56591555 CAAATGTCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTCAT-TCGCACAAATGCCTTCGGGA-CTTAGCCCG
*
56591618 GATTTAGTATCTCGCA
63 GATTTAGTAACTCGCA
* * * * *
56591634 CAAATGCCTTTGGATCTTAGTCCGGATATGGTCACTTAGCACAAAT-CCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTCA-TTCGCACAAATGCCTTCGGGACTTAGCCCG
56591698 GA
63 GA
56591700 CATCATTCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
78 6 0.05
79 62 0.50
80 40 0.33
81 14 0.11
82 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTCATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:56591592 original size:39 final size:40
Alignment explanation
Indices: 56591475--56591699 Score: 248
Period size: 40 Copynumber: 5.7 Consensus size: 40
56591465 GCTCCTCGTT
*
56591475 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTCAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
56591515 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* *
56591555 CAAATGTCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
56591594 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTATCTCGCA
* * * * *
56591634 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ATC-TCGCA
56591675 CAAAT-CCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56591700 CATCATTCAA
Statistics
Matches: 162, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 112 0.69
41 15 0.09
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:56591659 original size:119 final size:120
Alignment explanation
Indices: 56591475--56591699 Score: 273
Period size: 119 Copynumber: 1.9 Consensus size: 120
56591465 GCTCCTCGTT
56591475 CAAATGCCTTCGGGACATAGCCCGGTTATAGTCATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTCATTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
56591540 ATTTAGTAAC-TCGCACAAATGTCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAAT-CCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
56591594 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTT-TGGATCTTAGT
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTCAT-TCGCACAAATGCCTTCGGGA-CTTAAC
* *
56591655 CCGGATATGGTCACTTAGCACAAATCCTTCGGGACTTAGCCCGGA
62 CCGGATATAGTAACTTAGCACAAATCCTTCGGGACTTAGCCCGGA
56591700 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
118 8 0.09
119 60 0.67
120 22 0.24
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTCATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAATCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:56593310 original size:47 final size:47
Alignment explanation
Indices: 56593252--56593367 Score: 196
Period size: 47 Copynumber: 2.5 Consensus size: 47
56593242 GGCTGTCACA
56593252 AAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGAC
1 AAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGAC
* * *
56593299 AAGGATACCATGTAAGACCATGTTTGGAATATGGCATTTGGTAAGAT
1 AAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGAC
*
56593346 AAGGATATCATGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
56593368 CCAAGGCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (47 bp):
AAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGAC
Found at i:56593410 original size:54 final size:54
Alignment explanation
Indices: 56593346--56593552 Score: 233
Period size: 55 Copynumber: 3.9 Consensus size: 54
56593336 TTGGTAAGAT
*
56593346 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * *
56593400 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * * *
56593455 AA--ATGTCCCATGTAAGACCATGCCATGTCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATAT--CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
56593508 AAGGATACCACGTAAGTCCATG-CAAGACATGGCAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
56593553 AAAAAGGAAA
Statistics
Matches: 130, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 19 0.15
53 23 0.18
54 42 0.32
55 46 0.35
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:56597669 original size:20 final size:19
Alignment explanation
Indices: 56597644--56597684 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
56597634 CGTGAAATTT
*
56597644 AATGCATATGATGCAATGCA
1 AATGCATAGGATG-AATGCA
*
56597664 AATGCATGGGATGAATGCA
1 AATGCATAGGATGAATGCA
56597683 AA
1 AA
56597685 AAGAAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.22
Consensus pattern (19 bp):
AATGCATAGGATGAATGCA
Found at i:56601954 original size:40 final size:40
Alignment explanation
Indices: 56601899--56602121 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
56601889 TATTCGGATG
*
56601899 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
*
56601939 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT
* * *
56601979 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--GTG-AGTTACT
* *
56602022 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT
* * *
56602062 ATATCCGGGCTAAG-ACCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
*
56602101 ATAT-C-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
56602122 TACTTGGGTT
Statistics
Matches: 157, Mismatches: 18, Indels: 18
0.81 0.09 0.09
Matches are distributed among these distances:
37 6 0.04
38 8 0.05
39 24 0.15
40 83 0.53
41 2 0.01
42 1 0.01
43 33 0.21
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
Found at i:56602050 original size:83 final size:83
Alignment explanation
Indices: 56601899--56602096 Score: 323
Period size: 83 Copynumber: 2.4 Consensus size: 83
56601889 TATTCGGATG
* *
56601899 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--GTG-AGTTCCTATATCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCTATACCCGGGCTAAGTCCCGAAG
56601961 GCATTTGTGCTAGTGACT
66 GCATTTGTGCTAGTGACT
* *
56601979 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCTATACCCGGGCTAAGTCCCGAAG
56602044 GCATTTGTGCTAGTGACT
66 GCATTTGTGCTAGTGACT
*
56602062 ATATCCGGGCTAAG-ACCGAAGGCATTTGTGCGAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
56602097 TGCTATATCG
Statistics
Matches: 109, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
80 29 0.27
82 22 0.20
83 58 0.53
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (83 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTCCTATACCCGGGCTAAGTCCCGAAG
GCATTTGTGCTAGTGACT
Found at i:56609402 original size:79 final size:82
Alignment explanation
Indices: 56609291--56609475 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
56609281 GCTACTCGTT
* * *
56609291 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
56609354 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
56609371 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
56609434 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
56609451 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56609476 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 (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:56609475 original size:40 final size:40
Alignment explanation
Indices: 56609272--56609475 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
56609262 CGGAATTTAA
** *
56609272 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
56609312 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
56609352 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56609391 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
56609431 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56609471 CCGGA
1 CCGGA
56609476 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56613240 original size:40 final size:40
Alignment explanation
Indices: 56613186--56613408 Score: 306
Period size: 40 Copynumber: 5.6 Consensus size: 40
56613176 TATTCGGATG
*
56613186 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
56613225 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
56613265 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--GAGTTACT
* * *
56613307 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
56613347 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
56613387 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
56613409 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 20 0.12
40 105 0.66
42 35 0.22
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:56613324 original size:82 final size:80
Alignment explanation
Indices: 56613186--56613408 Score: 360
Period size: 82 Copynumber: 2.8 Consensus size: 80
56613176 TATTCGGATG
*
56613186 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
56613250 TTTGTGCTAGTGACT
66 TTTGTGCTAGTGACT
* *
56613265 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGAGTTGCTATACCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--GAGTTGCTATATCCGGGCTAAGTCCCGAAGG
56613330 CATTTGTGCTAGTGACT
64 CATTTGTGCTAGTGACT
* * *
56613347 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
56613409 TACTTGGGTT
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
79 21 0.16
80 37 0.28
82 75 0.56
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:56615528 original size:27 final size:27
Alignment explanation
Indices: 56615488--56615600 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
56615478 AGGAAGCATC
*
56615488 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
56615515 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
56615542 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
56615570 CTGGTGACTCTGTCAC-ATTATTTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
56615596 CTGGT
1 CTGGT
56615601 AGCCATGCTG
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 9 0.12
27 48 0.64
28 18 0.24
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:56615596 original size:54 final size:54
Alignment explanation
Indices: 56615488--56615600 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
56615478 AGGAAGCATC
*
56615488 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATTTCTGTT
* * *
56615542 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATT-TGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATAT-TTCTGTT
56615596 CTGGT
1 CTGGT
56615601 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 33 0.62
55 20 0.38
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATTTCTGTT
Found at i:56617899 original size:22 final size:22
Alignment explanation
Indices: 56617871--56617916 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
56617861 CGATGCGGAT
*
56617871 CTATGGAGCATAGAGTTAAGGA
1 CTATGGAGAATAGAGTTAAGGA
56617893 CTATGGAGAATAGAGTTAAGGA
1 CTATGGAGAATAGAGTTAAGGA
56617915 CT
1 CT
56617917 GCCCACAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.30, T:0.24
Consensus pattern (22 bp):
CTATGGAGAATAGAGTTAAGGA
Found at i:56621925 original size:24 final size:24
Alignment explanation
Indices: 56621892--56621965 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
56621882 AAGTCTGTCT
*
56621892 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
56621916 GGAGAGGATTTAGGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
56621940 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
56621964 GG
1 GG
56621966 TGAACTGTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:56624703 original size:40 final size:39
Alignment explanation
Indices: 56624591--56624732 Score: 162
Period size: 40 Copynumber: 3.6 Consensus size: 39
56624581 TACTCGAATG
*
56624591 ATATCCGGGCTAAGT-CGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCT-AGCGACT
* *
56624630 ACAT-CGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACT
* * *
56624669 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGCGACT
* *
56624709 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
56624733 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
38 8 0.09
39 15 0.17
40 65 0.74
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
Found at i:56631808 original size:13 final size:13
Alignment explanation
Indices: 56631790--56631820 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
56631780 TGGTAGGTAA
56631790 GATTTGTGTTTTG
1 GATTTGTGTTTTG
56631803 GATTTGTGTTTTG
1 GATTTGTGTTTTG
56631816 GATTT
1 GATTT
56631821 ATGTATTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.10, C:0.00, G:0.29, T:0.61
Consensus pattern (13 bp):
GATTTGTGTTTTG
Found at i:56632652 original size:40 final size:40
Alignment explanation
Indices: 56632558--56632702 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
56632548 TACTCGAATG
*
56632558 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
56632599 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
56632639 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
56632679 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
56632703 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:56636070 original size:30 final size:29
Alignment explanation
Indices: 56636012--56636070 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
56636002 TTCTCGAGCC
*
56636012 TAGGGGAAAAAGTGTAATTATGCAAAGTT
1 TAGGGGAAAAAGTGTAATTATCCAAAGTT
* *
56636041 TAGGGGCAAAAGTGTAATTTTTCCAAAGTT
1 TAGGGGAAAAAGTGTAA-TTATCCAAAGTT
56636071 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (29 bp):
TAGGGGAAAAAGTGTAATTATCCAAAGTT
Found at i:56636547 original size:46 final size:46
Alignment explanation
Indices: 56636497--56636669 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
56636487 TGGTTGAGCA
*
56636497 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
56636543 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
56636590 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
56636636 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
56636670 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 5 0.05
45 7 0.07
46 57 0.55
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56636653 original size:93 final size:93
Alignment explanation
Indices: 56636494--56636664 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
56636484 GGATGGTTGA
* *
56636494 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
56636559 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
56636587 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
56636651 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
56636665 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:56638148 original size:31 final size:31
Alignment explanation
Indices: 56638110--56638169 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
56638100 TTCATATTTC
56638110 ATATTTCATAACACTGGGCCGAAGCCTTTTT
1 ATATTTCATAACACTGGGCCGAAGCCTTTTT
**
56638141 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTGGGCCGAAGCCTTT
56638170 ATTGTAAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (31 bp):
ATATTTCATAACACTGGGCCGAAGCCTTTTT
Found at i:56638435 original size:26 final size:26
Alignment explanation
Indices: 56638390--56638461 Score: 137
Period size: 26 Copynumber: 2.8 Consensus size: 26
56638380 CTCTTTTAAT
56638390 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
56638415 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
56638441 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
56638462 GCACTTCCTC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 10 0.22
26 36 0.78
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:56639385 original size:27 final size:27
Alignment explanation
Indices: 56639355--56639552 Score: 152
Period size: 27 Copynumber: 7.3 Consensus size: 27
56639345 GTAAATCTAC
*
56639355 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
* *
56639382 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACTAAGGGTATTT-TAGTAATTTTGT
* *
56639408 AGAAAGTCAAGGGTATTTCT-GTAACTTTGT
1 --AAACT-AAGGGTATTT-TAGTAATTTTGT
* * *
56639438 AAA-TCAGGGGTATTTTGGTAATTTTAT
1 AAACT-AAGGGTATTTTAGTAATTTTGT
* * **
56639465 AAACAAATGGTATTTTAGTAATTTTAC
1 AAACTAAGGGTATTTTAGTAATTTTGT
* * *
56639492 AAACCAGGGGTATTTTGGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
* * *
56639519 AAACCAAGGGTATTTTGGTAATTTGGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
56639546 AAACTAA
1 AAACTAA
56639553 AGTATTCTAA
Statistics
Matches: 139, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.01
27 112 0.81
28 7 0.05
29 17 0.12
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACTAAGGGTATTTTAGTAATTTTGT
Found at i:56639460 original size:56 final size:55
Alignment explanation
Indices: 56639355--56639549 Score: 170
Period size: 54 Copynumber: 3.6 Consensus size: 55
56639345 GTAAATCTAC
* * ** *
56639355 AAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAG
1 AAACAAAGGGTATTTCTGTAATTTTGTAAACCAGGGGTATTT-TGGTAATTTTTAG
* * *
56639410 AAAGTC-AAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAA-TTTTAT
1 AAA--CAAAGGGTATTTCTGTAATTTTGTAAACCAGGGGTATTTTGGTAATTTTTAG
* **
56639465 AAACAAATGGTATTT-TAGTAATTTTACAAACCAGGGGTATTTTGGTAA-TTTT-G
1 AAACAAAGGGTATTTCT-GTAATTTTGTAAACCAGGGGTATTTTGGTAATTTTTAG
* *
56639518 TAAACCAAGGGTATTT-TGGTAATTTGGTAAAC
1 -AAACAAAGGGTATTTCT-GTAATTTTGTAAAC
56639550 TAAAGTATTC
Statistics
Matches: 115, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
53 2 0.02
54 65 0.57
55 12 0.10
56 35 0.30
57 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (55 bp):
AAACAAAGGGTATTTCTGTAATTTTGTAAACCAGGGGTATTTTGGTAATTTTTAG
Found at i:56639549 original size:81 final size:83
Alignment explanation
Indices: 56639355--56639549 Score: 236
Period size: 81 Copynumber: 2.4 Consensus size: 83
56639345 GTAAATCTAC
* ** * * *
56639355 AAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGTCAAGG
1 AAACCAAGGGTATTTTGGTAATTTTGTAAACAAATGGTATTTCTATAATTTTTACAAAGCCAAGG
56639420 GTATTTCTGTAACTTTGT
66 GTATTTCTGTAACTTTGT
* * * *
56639438 AAATCAGGGGTATTTTGGTAATTTTATAAACAAATGGTATTT-TAGTAA-TTTTACAAA-CCAGG
1 AAACCAAGGGTATTTTGGTAATTTTGTAAACAAATGGTATTTCTA-TAATTTTTACAAAGCCAAG
*
56639500 GGTATTT-TGGTAATTTTGT
65 GGTATTTCT-GTAACTTTGT
*
56639519 AAACCAAGGGTATTTTGGTAATTTGGTAAAC
1 AAACCAAGGGTATTTTGGTAATTTTGTAAAC
56639550 TAAAGTATTC
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.01
81 46 0.48
82 10 0.11
83 38 0.40
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (83 bp):
AAACCAAGGGTATTTTGGTAATTTTGTAAACAAATGGTATTTCTATAATTTTTACAAAGCCAAGG
GTATTTCTGTAACTTTGT
Found at i:56640607 original size:27 final size:26
Alignment explanation
Indices: 56640569--56640654 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
56640559 GTGTTACAGA
*
56640569 TCTGGTGGCTCTGCCACATATTTCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGT
56640596 TCTGGTGGCTCTGCCACGATTATCTGT
1 TCTGGTGGCTCTGCCAC-ATTATCTGT
* * *
56640623 ATCTAGTGACTCTGTCACATTATCTGT
1 -TCTGGTGGCTCTGCCACATTATCTGT
56640650 TCTGG
1 TCTGG
56640655 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 4 0.08
27 32 0.62
28 16 0.31
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.40
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGT
Found at i:56642419 original size:45 final size:45
Alignment explanation
Indices: 56642353--56642526 Score: 214
Period size: 45 Copynumber: 3.9 Consensus size: 45
56642343 TATTGTACGG
*
56642353 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
56642398 TACTATTCGGGCCTTTAAGCCTAGCAGGTTATAATGTCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
56642443 TACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
56642488 TGA--AATCGGG-CTTTGACCCTAGCAGG-TGA-AATGCCGGTG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCT-ATAATGCCGGTG
56642527 GATGAATTCG
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
42 11 0.10
43 14 0.12
44 6 0.05
45 81 0.72
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:56645576 original size:40 final size:40
Alignment explanation
Indices: 56645501--56645765 Score: 322
Period size: 40 Copynumber: 6.6 Consensus size: 40
56645491 AAAAAAAGTA
*
56645501 CCTTCGGGATTTAG-CCGGATATA-GCAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGGC-ACT-AGCACAAATG
* * *
56645540 CCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGGCACTAGCACAAATG
* *
56645580 CCTTCAGGACTTAGCCCGGGTATA-GCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGGC-ACTA---GCACAAATG
* *
56645623 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGGCACTAGCACAAATG
* *
56645663 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGGCACTAGCACAAATG
* *
56645703 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGGCACTAGCACAAATG
**
56645743 CCTTTAGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
56645766 CATCCGAATA
Statistics
Matches: 199, Mismatches: 19, Indels: 15
0.85 0.08 0.06
Matches are distributed among these distances:
39 14 0.07
40 149 0.75
41 1 0.01
43 34 0.17
44 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGGCACTAGCACAAATG
Found at i:56645738 original size:80 final size:80
Alignment explanation
Indices: 56645501--56645765 Score: 370
Period size: 80 Copynumber: 3.3 Consensus size: 80
56645491 AAAAAAAGTA
* * * * * *
56645501 CCTTCGGGATTTAG-CCGGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATGTAG
1 CCTTCAGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
56645565 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* *
56645580 CCTTCAGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCAGGACTTAGCCCGGATATAG-AA--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
56645645 TAGTCACTAGCACAAATG
63 TAGTCACTAGCACAAATG
* *
56645663 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCAGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
** *
56645728 GAACTCGCACAAATG
66 TCACTAGCACAAATG
*
56645743 CCTTTAGGACTTAGCCCGGATAT
1 CCTTCAGGACTTAGCCCGGATAT
56645766 CATCCGAATA
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
79 12 0.07
80 79 0.48
81 1 0.01
82 1 0.01
83 72 0.44
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCAGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:56651122 original size:39 final size:38
Alignment explanation
Indices: 56651030--56651287 Score: 233
Period size: 39 Copynumber: 6.6 Consensus size: 38
56651020 AAAAAAAGTA
56651030 CCTTCGGGA-TTAGCCGGATATAGCAACT--CACACAATG
1 CCTTCGGGACTTAGCCGGATATAGC-ACTAGCACA-AATG
* *
56651067 CCTTC-GGTCTTAGCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAG-CACTAGCACAAATG
* *
56651105 CCTTCAGGACTTAGCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAGC-ACTA---GCACAAATG
*
56651147 CCTTCGGGACTTCGCCCGG-TAATAGTTCACTAGCACAAATG
1 CCTTCGGGACTTAG-CCGGAT-ATAG--CACTAGCACAAATG
* *
56651188 CCTTC-GGACTTAGCCCGG-TATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATA-GCACTAGCACAAATG
* *
56651226 CCTTCGGGACTTAGCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGATATA-GCACTAGCACAAATG
**
56651265 CCTTTAGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAG-CCGGATAT
56651288 CATCCGAATA
Statistics
Matches: 192, Mismatches: 12, Indels: 31
0.82 0.05 0.13
Matches are distributed among these distances:
36 2 0.01
37 21 0.11
38 32 0.17
39 66 0.34
40 22 0.11
41 14 0.07
42 22 0.11
43 8 0.04
44 4 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (38 bp):
CCTTCGGGACTTAGCCGGATATAGCACTAGCACAAATG
Done.