Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 161 of 345
Found at i:44747259 original size:54 final size:54
Alignment explanation
Indices: 44747184--44747296 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 54
44747174 CACAAATCAG
* * * *
44747184 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTATAAACCAA
*
44747238 GGGTATTTTAGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTATAAACCAA
44747292 GGGTA
1 GGGTA
44747297 AAACGATAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTATAAACCAA
Found at i:44747358 original size:81 final size:81
Alignment explanation
Indices: 44747273--44747484 Score: 255
Period size: 81 Copynumber: 2.6 Consensus size: 81
44747263 AAGAGTATTT
* * * * ** *
44747273 TGGTAATTTTGTAAACCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTTTA
1 TGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
*
44747338 TAAATCGAGGGTAAAA
66 TAAATCGAGGGCAAAA
* * * * * * *
44747354 TGGTAATTTTATAAATTGAGGGTAAAATGGCAATTTTATAAATTGAAGGTAAAACAGTAATTCTA
1 TGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
*
44747419 TAAATTGAGGGCAAAA
66 TAAATCGAGGGCAAAA
* *
44747435 TGGTAATTCTATAAATCGAGAGTAAAACGGTAATTCTGTAAATCG-GGGTA
1 TGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
44747485 CTTTGATAAT
Statistics
Matches: 106, Mismatches: 25, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
80 4 0.04
81 102 0.96
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (81 bp):
TGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
TAAATCGAGGGCAAAA
Found at i:44747397 original size:27 final size:27
Alignment explanation
Indices: 44747273--44747484 Score: 228
Period size: 27 Copynumber: 7.9 Consensus size: 27
44747263 AAGAGTATTT
* * *
44747273 TGGTAATTTTGTAAACCAAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
* * * *
44747300 CGATAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
44747327 TGGTAATTTTATAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
*
44747354 TGGTAATTTTATAAATTGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
* * *
44747381 TGGCAATTTTATAAATTGAAGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
** * * *
44747408 CAGTAATTCTATAAATTGAGGGCAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
* *
44747435 TGGTAATTCTATAAATCGAGAGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
* * *
44747462 CGGTAATTCTGTAAATCG-GGGTA
1 TGGTAATTTTATAAATCGAGGGTA
44747485 CTTTGATAAT
Statistics
Matches: 159, Mismatches: 26, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 4 0.03
27 155 0.97
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
TGGTAATTTTATAAATCGAGGGTAAAA
Found at i:44749825 original size:49 final size:49
Alignment explanation
Indices: 44749769--44750325 Score: 945
Period size: 49 Copynumber: 11.4 Consensus size: 49
44749759 TACATATATG
* * * *
44749769 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
44749818 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
44749867 TGTGATGAGGCCTAAT-GCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
44749915 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
44749964 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* * *
44750013 TATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
44750062 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
44750111 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
44750160 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
44750209 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
44750258 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
44750307 TGTGACAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
44750326 TAATGTAAAT
Statistics
Matches: 480, Mismatches: 27, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
48 45 0.09
49 435 0.91
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:44750524 original size:37 final size:37
Alignment explanation
Indices: 44750427--44750547 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
44750417 GGAATATGTT
*
44750427 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
44750464 CCGGGTAAGA-CCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
44750500 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
44750537 CCGGGTAAGAC
1 CCGGGTAAGAC
44750548 TTCTTTTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
36 36 0.44
37 45 0.56
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:44753742 original size:6 final size:6
Alignment explanation
Indices: 44753724--44753811 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
44753714 AAGAAACATT
* * *
44753724 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAAA ATCAGG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
44753773 ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
44753812 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 4 0.06
6 50 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:44753745 original size:18 final size:18
Alignment explanation
Indices: 44753724--44753811 Score: 56
Period size: 19 Copynumber: 4.8 Consensus size: 18
44753714 AAGAAACATT
44753724 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
44753742 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* * * *
44753759 GTGACAAAATCAGGATTAGA
1 AT--CAGAATCAGAATCAGA
*
44753779 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
44753798 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
44753812 GTGAATGCAA
Statistics
Matches: 52, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
17 3 0.06
18 22 0.42
19 25 0.48
20 2 0.04
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:44753780 original size:31 final size:31
Alignment explanation
Indices: 44753735--44753811 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
44753725 TCAGAACTAG
*
44753735 AATCAGAATCAGAATCAGAATCAGGTGACAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAA
* * * *
44753766 AATCAGGATTAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAA
*
44753797 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
44753812 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAA
Found at i:44753952 original size:27 final size:26
Alignment explanation
Indices: 44753910--44754011 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
44753900 GCTCAGTTAT
* *
44753910 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
44753937 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
44753963 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
44753991 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
44754012 TTAACAAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:44754204 original size:22 final size:22
Alignment explanation
Indices: 44754170--44754234 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
44754160 GCAAATACGT
*
44754170 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
44754192 TTGGTACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
44754214 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
44754235 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:44754718 original size:27 final size:27
Alignment explanation
Indices: 44754660--44754928 Score: 292
Period size: 27 Copynumber: 10.0 Consensus size: 27
44754650 GGGGAAAAAT
* * * *
44754660 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
44754686 GGTAATTCTACCCTATAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
44754713 AATAATTCTACCCTACAGGGGTATTGT-
1 GGTAATTCTACCCTACAGGGGTATT-TC
* *
44754740 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
44754767 GGTAATTCTACCCTATATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
44754794 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
44754821 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
44754848 GGTAATTCTACCCTATAGGTGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
44754875 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
44754902 -GTCATTTTTACCCTACAAGGGTATTTC
1 GGT-AATTCTACCCTACAGGGGTATTTC
44754929 AATAATTTTG
Statistics
Matches: 206, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
26 17 0.08
27 188 0.91
28 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:44754900 original size:81 final size:80
Alignment explanation
Indices: 44754686--44754927 Score: 342
Period size: 81 Copynumber: 3.0 Consensus size: 80
44754676 AAGGTATCTC
* *
44754686 GGTAATTCTACCCTATAGGAGTATTTCAATAATTCTACCCTACAGGGGTATTGTGATAATTCTAC
1 GGTAATTCTACCCTATAGG-GTATTTCAGTAATTCTACCCTACAGGGGTATTTTGATAATTCTAC
44754751 CCTACAGGGGTATTTT
65 CCTACAGGGGTATTTT
* * *
44754767 GGTAATTCTACCCTATATGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTAT
1 GGTAATTCTACCCTATA-GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGATAATTCTAC
44754832 CCTACAGGGGTATTTT
65 CCTACAGGGGTATTTT
* * * * *
44754848 GGTAATTCTACCCTATAGGTGTATTTCGGTAATTCTATCCTACAGGGGTATTTCG-TCATTTTTA
1 GGTAATTCTACCCTATAGG-GTATTTCAGTAATTCTACCCTACAGGGGTATTTTGAT-AATTCTA
*
44754912 CCCTACAAGGGTATTT
64 CCCTACAGGGGTATTT
44754928 CAATAATTTT
Statistics
Matches: 145, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
80 3 0.02
81 140 0.97
82 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (80 bp):
GGTAATTCTACCCTATAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGATAATTCTACC
CTACAGGGGTATTTT
Found at i:44755005 original size:27 final size:27
Alignment explanation
Indices: 44754975--44755127 Score: 139
Period size: 27 Copynumber: 5.6 Consensus size: 27
44754965 GTAAATCAAT
* *
44754975 GGTACTTTGGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
** **
44755002 GGTATTTTAATAATTTTACAGGTCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
* ** *
44755029 GATATTTCAGTCATTTTCACAAATC-AGG
1 GGTATTTTGGTAATTTT-ACAAATCGA-G
*
44755057 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTACAAATCGA-G
* * *
44755084 GGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCGAG
44755111 GGTATTTTGGTAATTTT
1 GGTATTTTGGTAATTTT
44755128 GTAAACCAAG
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 84 0.79
28 21 0.20
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCGAG
Found at i:44755132 original size:27 final size:27
Alignment explanation
Indices: 44755056--44755141 Score: 136
Period size: 27 Copynumber: 3.2 Consensus size: 27
44755046 CACAAATCAG
* * *
44755056 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
44755083 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
44755110 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
44755137 GGGTA
1 GGGTA
44755142 AAACGATAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:44755342 original size:27 final size:27
Alignment explanation
Indices: 44755091--44755357 Score: 268
Period size: 27 Copynumber: 9.9 Consensus size: 27
44755081 AGGGGTATTT
* * ***
44755091 TGGTAATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTATAAATCGAGGGTAAAA
* * *
44755118 TGGTAATTTTGTAAACCAAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
* * * * *
44755145 CGATAATTCTGTAAATCAAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
***
44755172 CAATAATTTTATAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
44755199 TGGTAATTTTATAAA-CTGAGGGTAAAA
1 TGGTAATTTTATAAATC-GAGGGTAAAA
44755226 TGGTAATTTTATAAA-CTGAGGGTAAAA
1 TGGTAATTTTATAAATC-GAGGGTAAAA
* * *
44755253 AGGTAATTTTGTAAATTGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
* * *
44755280 CGGTAATTCTATAAATTGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
*
44755307 TGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
* * *
44755334 TGGTAATTCTGTAAATCGGGGGTA
1 TGGTAATTTTATAAATCGAGGGTA
44755358 CTTTGATAAT
Statistics
Matches: 213, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.00
27 212 1.00
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (27 bp):
TGGTAATTTTATAAATCGAGGGTAAAA
Found at i:44755781 original size:16 final size:16
Alignment explanation
Indices: 44755743--44755784 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
44755733 GCCACAAAGC
*
44755743 GAAAGGGATCAGCCAA
1 GAAAGGTATCAGCCAA
44755759 GAAAGGTATCAGCCAA
1 GAAAGGTATCAGCCAA
44755775 GAAAGGTATC
1 GAAAGGTATC
44755785 TTTACTCTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.29, T:0.12
Consensus pattern (16 bp):
GAAAGGTATCAGCCAA
Found at i:44758478 original size:68 final size:67
Alignment explanation
Indices: 44758406--44758599 Score: 266
Period size: 67 Copynumber: 2.8 Consensus size: 67
44758396 ACACCCTGTA
* * *
44758406 GTAGCTAGGTCACATGTGTGATA-CGAGATGTATC-CCATGTAGACAAGAGAGCTACGTGAAAGA
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TG-A-CACCATGTAGACAAGAGAGCTACGTGAAAGA
44758469 TAAAT
63 TAAAT
*
44758474 GTAGCTAGGTCGCATGCGTGATTCCAAGTGACACCATGTAGACAAGAGAGCTACGTGAAAGATAA
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGACACCATGTAGACAAGAGAGCTACGTGAAAGATAA
44758539 AT
66 AT
*
44758541 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGT----GACACCATGTAGACAAGAGAGCTACG
44758600 AGACAAATCG
Statistics
Matches: 116, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
66 1 0.01
67 64 0.55
68 22 0.19
69 3 0.03
71 26 0.22
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.21
Consensus pattern (67 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGACACCATGTAGACAAGAGAGCTACGTGAAAGATAA
AT
Found at i:44758529 original size:67 final size:68
Alignment explanation
Indices: 44758440--44758599 Score: 286
Period size: 67 Copynumber: 2.3 Consensus size: 68
44758430 GAGATGTATC
44758440 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGT-G
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTAG
44758504 ACA
66 ACA
44758507 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGT--
44758572 AGGACA
64 A-GACA
44758578 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
44758600 AGACAAATCG
Statistics
Matches: 89, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
67 63 0.71
71 26 0.29
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTAG
ACA
Found at i:44765526 original size:68 final size:66
Alignment explanation
Indices: 44765405--44765667 Score: 244
Period size: 66 Copynumber: 3.9 Consensus size: 66
44765395 TAGATGGAGC
* * * * * *
44765405 GTAGCTAGGTCACATGTATGATGCGAG-TGCACATCATGT-GTACAAGAAAGCTACGAGACACCC
1 GTAGCTAGGTCACATGTGTGATACGAGATG-AC-CCATGTAG-ACAAGAGAGCTACGAGA-AACA
**
44765468 TGTA-
62 TAAAT
* *
44765472 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGTGAAAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATG-A-CCCATGTAGACAAGAGAGCTACGAGAAACATA
44765537 AAT
64 AAT
* * *
44765540 GTAGCTAGGTCACATGTGTGATACGAGATGACCCATGTAGACAACAGAGCTACGTGAAAGATAAA
1 GTAGCTAGGTCACATGTGTGATACGAGATGACCCATGTAGACAAGAGAGCTACGAGAAACATAAA
44765605 T
66 T
* * * * *
44765606 GTAGCTAGGTCGCATGCGTGATTCCAAGTGACGGACACCATGTAGACAAGAGAGCTACGAGA
1 GTAGCTAGGTCACATGTGTGA-T--ACGAGA-TGAC-CCATGTAGACAAGAGAGCTACGAGA
44765668 CAAATCGGCT
Statistics
Matches: 168, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
66 53 0.32
67 30 0.18
68 53 0.32
69 6 0.04
70 3 0.02
71 23 0.14
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.21
Consensus pattern (66 bp):
GTAGCTAGGTCACATGTGTGATACGAGATGACCCATGTAGACAAGAGAGCTACGAGAAACATAAA
T
Found at i:44765601 original size:66 final size:68
Alignment explanation
Indices: 44765472--44765627 Score: 271
Period size: 66 Copynumber: 2.3 Consensus size: 68
44765462 ACACCCTGTA
*
44765472 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGTGAAAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAACAGAGCTACGTGAAAGATA
44765537 AAT
66 AAT
44765540 GTAGCTAGGTCACATGTGTGATACGAGATG-A-CCCATGTAGACAACAGAGCTACGTGAAAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAACAGAGCTACGTGAAAGATA
44765603 AAT
66 AAT
* *
44765606 GTAGCTAGGTCGCATGCGTGAT
1 GTAGCTAGGTCACATGTGTGAT
44765628 TCCAAGTGAC
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
66 54 0.64
67 1 0.01
68 30 0.35
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAACAGAGCTACGTGAAAGATA
AAT
Found at i:44778436 original size:28 final size:28
Alignment explanation
Indices: 44778365--44778438 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
44778355 ATAATAAGCC
* *
44778365 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
44778393 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
44778421 TGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
44778439 CAATTTGAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 41 0.98
29 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44781413 original size:14 final size:14
Alignment explanation
Indices: 44781394--44781420 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44781384 ATAATCAATA
44781394 ACAAGCTCATAATG
1 ACAAGCTCATAATG
44781408 ACAAGCTCATAAT
1 ACAAGCTCATAAT
44781421 CTTTTAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (14 bp):
ACAAGCTCATAATG
Found at i:44786026 original size:24 final size:27
Alignment explanation
Indices: 44785988--44786093 Score: 101
Period size: 28 Copynumber: 3.9 Consensus size: 27
44785978 TATTGAGATG
* *
44785988 TATAATAAGCCCGCACACTTAGTG-TA
1 TATAATAAACTCGCACACTTAGTGCTA
*
44786014 -ATAGT-AACTCGCACACTTAGTGCTA
1 TATAATAAACTCGCACACTTAGTGCTA
*
44786039 TATAATCAAACTTGCACACTTAGTGCTA
1 TATAAT-AAACTCGCACACTTAGTGCTA
* * *
44786067 TACAATTTGAACCCGCACACTTAGTGC
1 TATAA--TAAACTCGCACACTTAGTGC
44786094 CAATTTGTGA
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
24 15 0.23
25 6 0.09
26 4 0.06
28 23 0.35
29 16 0.25
30 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (27 bp):
TATAATAAACTCGCACACTTAGTGCTA
Found at i:44788130 original size:17 final size:18
Alignment explanation
Indices: 44788088--44788136 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
44788078 AGTTGAAAAG
44788088 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
44788107 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
44788124 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
44788137 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:44789024 original size:40 final size:40
Alignment explanation
Indices: 44788958--44789124 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
44788948 AAATTGAATG
* * *
44788958 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
44788997 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
44789037 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
44789077 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
44789117 ATATCCGG
1 ATATCCGG
44789125 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44796131 original size:17 final size:18
Alignment explanation
Indices: 44796089--44796137 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
44796079 AGTTGAAAAG
44796089 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
44796108 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
44796125 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
44796138 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:44797025 original size:40 final size:40
Alignment explanation
Indices: 44796959--44797125 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
44796949 AAATTGAATG
* * *
44796959 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
44796998 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
44797038 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
44797078 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
44797118 ATATCCGG
1 ATATCCGG
44797126 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44799182 original size:44 final size:44
Alignment explanation
Indices: 44799119--44799208 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
44799109 GGCATTGTTA
44799119 GTACAACCAGAACCAGGTAAGGAGTTTGTGATTTACAGTGATGC
1 GTACAACCAGAACCAGGTAAGGAGTTTGTGATTTACAGTGATGC
44799163 GTACAACCAGAACCAGGTAAGGAGTTTGTGATTTACAGTGATGC
1 GTACAACCAGAACCAGGTAAGGAGTTTGTGATTTACAGTGATGC
44799207 GT
1 GT
44799209 CCTTGAATGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (44 bp):
GTACAACCAGAACCAGGTAAGGAGTTTGTGATTTACAGTGATGC
Found at i:44810120 original size:48 final size:48
Alignment explanation
Indices: 44810061--44810153 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
44810051 ATATATGTGT
*
44810061 GATATGTATATGAGGTAAAGCTGAATGGCGAATGTGAAATATATACAA
1 GATATGTATATGAGGTAAAGCCGAATGGCGAATGTGAAATATATACAA
*
44810109 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATA
1 GATATGTATATGAGGTAAAGCCGAATGGCGAATGTGAAATATATA
44810154 ATGGCGAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (48 bp):
GATATGTATATGAGGTAAAGCCGAATGGCGAATGTGAAATATATACAA
Found at i:44810157 original size:21 final size:21
Alignment explanation
Indices: 44810132--44810174 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
44810122 GGTAAAGCCG
44810132 AATGGCGAATGTGAAATATAT
1 AATGGCGAATGTGAAATATAT
44810153 AATGGCGAATGTGAAATATAT
1 AATGGCGAATGTGAAATATAT
44810174 A
1 A
44810175 CGAGATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (21 bp):
AATGGCGAATGTGAAATATAT
Found at i:44810158 original size:69 final size:69
Alignment explanation
Indices: 44810084--44810221 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
44810074 GGTAAAGCTG
*
44810084 AATGGCGAATGTGAAATATATACAAGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAAT
1 AATGGCGAATGTGAAATATATACAAGATATGTATATGTGGTAAAGCCAAATGGCGAATGTGAAAT
44810149 ATAT
66 ATAT
*
44810153 AATGGCGAATGTGAAATATATACGAGATATGTATATGTGGTAAAGCCAAATGGCGAATGTGAAAT
1 AATGGCGAATGTGAAATATATACAAGATATGTATATGTGGTAAAGCCAAATGGCGAATGTGAAAT
44810218 ATAT
66 ATAT
44810222 GTGTGATATG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.28
Consensus pattern (69 bp):
AATGGCGAATGTGAAATATATACAAGATATGTATATGTGGTAAAGCCAAATGGCGAATGTGAAAT
ATAT
Found at i:44810205 original size:48 final size:48
Alignment explanation
Indices: 44810153--44810599 Score: 687
Period size: 48 Copynumber: 9.3 Consensus size: 48
44810143 TGAAATATAT
** * *
44810153 AATGGCGAATGTGAAATATATACGAGATATGTATATGTGGTAAAGCCA
1 AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
44810201 AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
* ** *
44810249 AATGGCTAATGTGAAATATATACGAGATATGTATATGTGGTAAAGCCG
1 AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
44810297 AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
* * *
44810345 AATGACTAATGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCG
1 AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
*
44810393 AATGGCGAATGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCG
1 AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
* * *
44810441 AATGCCAAATGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCG
1 AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
* * *
44810489 AATGGCGAATGTGAAATATATATGAGATATGTATATGTCGTAAAGCCG
1 AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
* * * *
44810537 AATGGCGAATGTGAAATATGTATGAGATATGAATATGTGGTAAAGCCG
1 AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
*
44810585 AATGGCTAATGTGAA
1 AATGGCGAATGTGAA
44810600 GGTTGTAACA
Statistics
Matches: 370, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 370 1.00
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.29
Consensus pattern (48 bp):
AATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
Found at i:44810698 original size:37 final size:37
Alignment explanation
Indices: 44810644--44810751 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
44810634 GGAAATATAT
*
44810644 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTATG
* *
44810681 TCCTGGTAAGACCCGATGACTACGCGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTATG
*
44810718 TCCGGGTAAGACCCGATGACTTCGCGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGCGTGGAGATT
44810752 TCGTCTGAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGCGTGGAGATTATG
Found at i:44814043 original size:46 final size:44
Alignment explanation
Indices: 44813990--44814164 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 44
44813980 TATTTGGGCA
44813990 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
44814036 TCCGAACTCGTTGAGTTGA-TCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
* *
44814082 TCCGAGCTCGTTGAGTTGAGTCCGACTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* * *
44814128 -CCCAAGCTCATTGAGTTGATTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44814165 GTGGGTTACA
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 13 0.13
46 73 0.71
47 9 0.09
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:44814143 original size:92 final size:93
Alignment explanation
Indices: 44813986--44814156 Score: 265
Period size: 92 Copynumber: 1.8 Consensus size: 93
44813976 AGGATATTTG
* * * *
44813986 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAACGTCCCAACTCATTGAG
44814051 TTGA-TCCGAGTTCGAGAGATGTAACTA
66 TTGATTCCGAGTTCGAGAGATGTAACTA
* *
44814078 GGCATCCGAGCTCGTTGAGTTGAGTCCGACTTCACTTATGGATGTGAACG-CCCAAGCTCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAACGTCCCAA-CTCATTGA
44814142 GTTGATTCCGAGTTC
65 GTTGATTCCGAGTTC
44814157 ACTTATGGGT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
91 4 0.06
92 58 0.82
93 9 0.13
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAACGTCCCAACTCATTGAG
TTGATTCCGAGTTCGAGAGATGTAACTA
Found at i:44817561 original size:37 final size:37
Alignment explanation
Indices: 44817502--44817610 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
44817492 AGCTCAGACG
* * *
44817502 AAATATCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
44817539 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
44817576 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
44817611 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:44817811 original size:48 final size:48
Alignment explanation
Indices: 44817757--44817999 Score: 432
Period size: 48 Copynumber: 5.1 Consensus size: 48
44817747 GCACATCGCC
44817757 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
44817805 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
44817853 TACATATTTCACAGTAGCCATTCGGCTTTACCGCATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
44817901 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
44817949 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATGTCTTA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
44817997 TAC
1 TAC
44818000 CGAAAATTTC
Statistics
Matches: 189, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 189 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:44819136 original size:40 final size:40
Alignment explanation
Indices: 44819083--44819596 Score: 634
Period size: 40 Copynumber: 12.9 Consensus size: 40
44819073 ACACATCACC
* * *
44819083 AGCATGAATGCTCTTCTGGACTTAGCCCGAATATAACACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
* * * * *
44819123 AGTACGAATGCTCTTCGGGACTTAACCCTGATATAACTCC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
** * *
44819163 AGCACGAATGCTCTTCGAAACTTAGCCCAGATATAACTCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
* ** * *
44819203 AGCACGAATGCTCTTCGAGACTTAGCCCAAATATAACTCC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
* * *
44819243 AGTACGAATGCTCTTCGAGACTTAGCCCGGATATAACTCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
*
44819283 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
* * * *
44819323 AGCACGAATGCTCTTTGAGACTTAGCTCGGATATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
* * *
44819363 AGCACGTATGCTCTTCGGGACTTAACCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
* *
44819403 AGCGCGAATGCTCTTCGGGACTTA-CCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
* * *
44819442 AGCACGAATGCTCCTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
* ** * *
44819482 AGCACGAATGCTCCTCGGGACTTAGCCTAGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
* * *
44819522 AGCACGAATGCTCCTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
* *
44819562 AGCACGAATGCTTTTCGGGACTTAACCCGGATATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
44819597 TCATACTGAA
Statistics
Matches: 427, Mismatches: 46, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 0.09
40 390 0.91
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
Found at i:44820885 original size:37 final size:37
Alignment explanation
Indices: 44820826--44820934 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
44820816 AGCTCAGACG
* * *
44820826 AAATCACCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
44820863 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
44820900 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
44820935 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:44821182 original size:48 final size:48
Alignment explanation
Indices: 44821081--44822128 Score: 1461
Period size: 48 Copynumber: 21.1 Consensus size: 48
44821071 GCACATCGCC
44821081 TACATATTTCACACTAGCCATTCGGCTTTA-CGCATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
* *
44821128 TACATATTTCACACTAGCCATTCGGATTTACCGCATATACATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
*
44821176 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
*
44821224 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
*
44821272 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
*
44821320 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCCCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
* *
44821368 TACGTATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCCCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
* *
44821416 TACGTATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCCCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
44821464 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATATACATATCCCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATAC--ATAT-C---T--CA
*
44821520 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
* *
44821568 TACATATTTCACACTAGCCATTCGGCTTTACCACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTT---A-C---C-GC-ATA-TAC--AT--AT--CTCA
* * *
44821632 TACATATTTCACACTAGCCATTTGGCTTTACCACATATACATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
* *
44821680 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
* *
44821728 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
*
44821776 TACATATTTCACACTAGCCATTCGGCTTTACCACATGTATTACCACATATACATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCA--TA-T---AC--AT--AT--CTCA
*
44821836 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
* *
44821884 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
* *
44821932 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
* *
44821980 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
*
44822028 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
* * *
44822076 TACATATTTCACATTAGCCATTCGG-TGTTACCACATATACATATCTTA
1 TACATATTTCACACTAGCCATTCGGCT-TTACCGCATATACATATCTCA
44822124 TACAT
1 TACAT
44822129 CAATTTCAGC
Statistics
Matches: 938, Mismatches: 25, Indels: 75
0.90 0.02 0.07
Matches are distributed among these distances:
47 30 0.03
48 745 0.79
50 10 0.01
51 3 0.00
52 5 0.01
53 1 0.00
54 10 0.01
55 3 0.00
56 45 0.05
57 4 0.00
58 5 0.01
60 42 0.04
61 1 0.00
62 2 0.00
64 32 0.03
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
Found at i:44821606 original size:16 final size:16
Alignment explanation
Indices: 44821585--44821617 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44821575 TTCACACTAG
44821585 CCATTCGGCTTTACCA
1 CCATTCGGCTTTACCA
44821601 CCATTCGGCTTTACCA
1 CCATTCGGCTTTACCA
44821617 C
1 C
44821618 ATATACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.39, G:0.12, T:0.30
Consensus pattern (16 bp):
CCATTCGGCTTTACCA
Found at i:44821608 original size:64 final size:64
Alignment explanation
Indices: 44821537--44821665 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
44821527 TTCACACTAG
44821537 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
*
44821601 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTTGGCTTTACCA
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
44821665 C
1 C
44821666 ATATACATGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (64 bp):
CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
Found at i:44821635 original size:112 final size:112
Alignment explanation
Indices: 44821506--44821713 Score: 389
Period size: 112 Copynumber: 1.9 Consensus size: 112
44821496 GCATATACAT
44821506 ATATACATATCCCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATACATATCCCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
44821571 ATATTTCACACTAGCCATTCGGCTTTACCACCATTCGGCTTTACCAC
66 ATATTTCACACTAGCCATTCGGCTTTACCACCATTCGGCTTTACCAC
* * *
44821618 ATATACATATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATACATGTCTCATAC
1 ATATACATATCCCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
44821683 ATATTTCACACTAGCCATTCGGCTTTACCAC
66 ATATTTCACACTAGCCATTCGGCTTTACCAC
44821714 ATATACATGT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 93 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (112 bp):
ATATACATATCCCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
ATATTTCACACTAGCCATTCGGCTTTACCACCATTCGGCTTTACCAC
Found at i:44830658 original size:37 final size:37
Alignment explanation
Indices: 44830608--44830681 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
44830598 AACTTACCTG
44830608 GTATTCATTTCGATGTTGTGTTTTGGTTATTCCGAAA
1 GTATTCATTTCGATGTTGTGTTTTGGTTATTCCGAAA
*
44830645 GTATTCGTTTCGATGTTGTGTTTTGGTTATTCCGAAA
1 GTATTCATTTCGATGTTGTGTTTTGGTTATTCCGAAA
44830682 CCTTTCATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.18, C:0.11, G:0.23, T:0.49
Consensus pattern (37 bp):
GTATTCATTTCGATGTTGTGTTTTGGTTATTCCGAAA
Found at i:44833246 original size:40 final size:40
Alignment explanation
Indices: 44833172--44833349 Score: 182
Period size: 40 Copynumber: 4.5 Consensus size: 40
44833162 GAGTCACGTA
** *
44833172 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
44833211 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* * *
44833251 CCTTCGAGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
44833291 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
44833331 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
44833350 GTATCATTCA
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 100 0.85
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:44841350 original size:40 final size:40
Alignment explanation
Indices: 44841276--44841453 Score: 173
Period size: 40 Copynumber: 4.5 Consensus size: 40
44841266 GAGTCACGTA
** *
44841276 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * * *
44841315 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACATTTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
44841355 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * * *
44841395 CCTTCGGGTCTTAGCCCAGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
44841435 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
44841454 GTATCATTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 99 0.86
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:44841437 original size:80 final size:80
Alignment explanation
Indices: 44841276--44841453 Score: 191
Period size: 80 Copynumber: 2.2 Consensus size: 80
44841266 GAGTCACGTA
* * *
44841276 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTA
1 CCTTCGGG-TCTTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCAGATATA
* * **
44841339 GTAACTTGCACATTTG
65 ATAACTAGCACAAATG
** *
44841355 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCAGATATA
1 CCTTCGGGTCTTAACCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCAGATATA
* *
44841419 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
* *
44841435 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
44841454 GTATCATTCA
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 1 0.01
79 12 0.15
80 67 0.82
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (80 bp):
CCTTCGGGTCTTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCAGATATAA
TAACTAGCACAAATG
Found at i:44844702 original size:55 final size:53
Alignment explanation
Indices: 44844638--44844777 Score: 174
Period size: 53 Copynumber: 2.6 Consensus size: 53
44844628 CTAAGGTAAT
*
44844638 GATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGACAAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATAAG-TTC-ATAAGAC-AAG
* * * * * *
44844694 G-TCCCATGTAAGACCATGACAAGGCATGGCATTGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGACAAG
*
44844746 GATACCATGTAAGACCATGTCGAGACATGGCA
1 GATACCATGTAAGACCATGTCAAGACATGGCA
44844778 ATGGTAAATT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.06
53 32 0.44
54 3 0.04
55 32 0.44
56 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGACAAG
Found at i:44844763 original size:53 final size:53
Alignment explanation
Indices: 44844580--44844782 Score: 185
Period size: 55 Copynumber: 3.8 Consensus size: 53
44844570 CAATAGGCTT
* *** * * *
44844580 AAGGATACCATGTAAGACCATGCCAAGGTTTGACAATTGGTTAGATTTC-TAAGGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGG-T-GAGTTCATAAGGC
* * * * *
44844635 AATGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAG-TTC-ATAAGGC
* * *
44844690 AAAGG-TCCCATGTAAGACCATGACAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGGC
* *
44844743 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGT
44844783 AAATTTCAAA
Statistics
Matches: 118, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
52 5 0.04
53 40 0.34
54 7 0.06
55 63 0.53
56 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGGC
Found at i:44848279 original size:28 final size:28
Alignment explanation
Indices: 44848210--44848310 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44848200 GACAAGATTG
* * * *
44848210 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44848240 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44848268 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44848297 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44848311 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44848304 original size:29 final size:28
Alignment explanation
Indices: 44848239--44848310 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
44848229 AAAATTGTAC
*
44848239 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
44848267 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
44848296 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44848311 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:44850181 original size:41 final size:41
Alignment explanation
Indices: 44850117--44850366 Score: 344
Period size: 41 Copynumber: 6.0 Consensus size: 41
44850107 ACATAAAATT
*
44850117 TGCTAGGC-ATAAAGCCT-AGTATAATACACCGGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
* *
44850158 TACTAGGCAATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
*
44850201 TGCTAGG-AATTAAGCCTGATATAATACACCGGTACAAAGCC
1 TGCTAGGCAA-TAAGCCTGATATAATACACCGGCACAAAGCC
*
44850242 TGCTAGGCAATAAGCCTGATTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * *
44850283 TGCTAGTCAATAAGCCTGATTTAATGCACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* *
44850324 TACTAGGCAATAAGCCTGGTATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
44850365 TG
1 TG
44850367 GTATAATACA
Statistics
Matches: 187, Mismatches: 16, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
41 146 0.78
42 7 0.04
43 34 0.18
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:44850363 original size:25 final size:25
Alignment explanation
Indices: 44850335--44850391 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
44850325 ACTAGGCAAT
44850335 AAGCCTGGTATAATACACCGGCACA
1 AAGCCTGGTATAATACACCGGCACA
44850360 AAGCCTGGTATAATACACCGGCACA
1 AAGCCTGGTATAATACACCGGCACA
44850385 AAGCCTG
1 AAGCCTG
44850392 CTAGGCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (25 bp):
AAGCCTGGTATAATACACCGGCACA
Found at i:44850383 original size:66 final size:66
Alignment explanation
Indices: 44850294--44850432 Score: 233
Period size: 66 Copynumber: 2.1 Consensus size: 66
44850284 GCTAGTCAAT
* * *
44850294 AAGCCTGATTTAATGCACCGGCACAAAGCCTACTAGGCAATAAGCCTGGTATAATACACCGGCAC
1 AAGCCTGATATAATACACCGGCACAAAGCCTACTAGGCAATAAGCCTGATATAATACACCGGCAC
44850359 A
66 A
* *
44850360 AAGCCTGGTATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCAC
1 AAGCCTGATATAATACACCGGCACAAAGCCTACTAGGCAATAAGCCTGATATAATACACCGGCAC
44850425 A
66 A
44850426 AAGCCTG
1 AAGCCTG
44850433 CTAGGCAATA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.17
Consensus pattern (66 bp):
AAGCCTGATATAATACACCGGCACAAAGCCTACTAGGCAATAAGCCTGATATAATACACCGGCAC
A
Found at i:44850405 original size:41 final size:41
Alignment explanation
Indices: 44850360--44850443 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
44850350 CACCGGCACA
*
44850360 AAGCCTGGTATAATACACCGGCACAAAGCCTGCTAGGCAAT
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
44850401 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
44850442 AA
1 AA
44850444 AGTCCGAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (41 bp):
AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
Found at i:44855010 original size:2 final size:2
Alignment explanation
Indices: 44855003--44855032 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
44854993 AAGCCAATTC
44855003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44855033 TCATCTCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44857594 original size:29 final size:29
Alignment explanation
Indices: 44857504--44857663 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
44857494 ACTCGATTTC
* * **
44857504 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
44857533 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
44857561 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
44857591 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44857620 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44857649 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
44857664 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:44859980 original size:27 final size:27
Alignment explanation
Indices: 44859949--44860046 Score: 126
Period size: 27 Copynumber: 3.6 Consensus size: 27
44859939 TTAGTTTACC
* *
44859949 AAATTATCAAAATACCTTCGATTAGAA
1 AAATTACCAAAATACCCTCGATTAGAA
44859976 AAATTACCAAAATACCCTCGATTAGAA
1 AAATTACCAAAATACCCTCGATTAGAA
* * * *
44860003 AAGTTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTAGAA
44860030 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
44860047 CTAATTTGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
26 1 0.02
27 62 0.98
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTAGAA
Found at i:44860047 original size:27 final size:27
Alignment explanation
Indices: 44859949--44860061 Score: 115
Period size: 27 Copynumber: 4.2 Consensus size: 27
44859939 TTAGTTTACC
* * * *
44859949 AAATTATCAAAATA-CCTTCGATTAGAA
1 AAATTACCAAAATACCCCT-GATTTGTA
*
44859976 AAATTACCAAAATA-CCCTCGATTAG-A
1 AAATTACCAAAATACCCCT-GATTTGTA
*
44860002 AAAGTTACCAAAATACCCCTGGTTTGTA
1 AAA-TTACCAAAATACCCCTGATTTGTA
*
44860030 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
44860057 AAATT
1 AAATT
44860062 TTTGAAATAC
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
26 4 0.05
27 65 0.84
28 8 0.10
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:44860182 original size:27 final size:27
Alignment explanation
Indices: 44860064--44860199 Score: 166
Period size: 27 Copynumber: 5.0 Consensus size: 27
44860054 GTAAAATTTT
*
44860064 TGAAATACCCCTGTAAGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * *
44860091 TGAAATACCCCTATAGGGTAGGATTAT
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
44860118 TGAAATACCCCTGTAAGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
*
44860145 TGAAATACCCTTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTAC
* * * *
44860172 CGAGATA-CCCTCGTGGGGTAAAATTAC
1 TGAAATACCCCT-GTAGGGTAGAATTAC
44860199 T
1 T
44860200 ATTTTGCCCC
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
26 3 0.03
27 89 0.97
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (27 bp):
TGAAATACCCCTGTAGGGTAGAATTAC
Found at i:44860346 original size:10 final size:10
Alignment explanation
Indices: 44860331--44860361 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
44860321 CGTGGGAGAT
44860331 ATCGTCATCA
1 ATCGTCATCA
44860341 ATCGTCATCA
1 ATCGTCATCA
44860351 ATCGTCATCA
1 ATCGTCATCA
44860361 A
1 A
44860362 CCAGGTGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (10 bp):
ATCGTCATCA
Found at i:44860872 original size:27 final size:26
Alignment explanation
Indices: 44860834--44860885 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
44860824 CTCGCTGCAA
*
44860834 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
44860861 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
44860886 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:44861128 original size:6 final size:6
Alignment explanation
Indices: 44861111--44861241 Score: 74
Period size: 6 Copynumber: 21.3 Consensus size: 6
44861101 TTGCATTCAT
* * * *
44861111 ATTCTA ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
44861161 AGTT-TA ATTCTG ATTCTG ATTCTG ATTTTG -TCACCTG ATTCTG ATTCTG
1 A-TTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
44861210 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
44861242 AATGTTTCTT
Statistics
Matches: 97, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
5 7 0.07
6 79 0.81
7 8 0.08
8 2 0.02
9 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:44861152 original size:31 final size:31
Alignment explanation
Indices: 44861111--44861220 Score: 102
Period size: 31 Copynumber: 3.5 Consensus size: 31
44861101 TTGCATTCAT
* *
44861111 ATTCTAATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
* *
44861142 ATTCTGATTCTG-TCACCTAAGTT---TAATTCTG
1 ATTCTGATTCTGAT--TCT--GTTACCTGATTCTG
* *
44861173 ATTCTGATTCTGATTTTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
44861204 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
44861221 CATTTTGATT
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
28 2 0.03
30 2 0.03
31 52 0.84
32 3 0.05
34 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATTCTG
Found at i:44861170 original size:25 final size:25
Alignment explanation
Indices: 44861114--44861178 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
44861104 CATTCATATT
* *
44861114 CTAATTCTGATTCTGTTACCTGATA
1 CTAATTCTGATTCTGTCACCTAATA
*
44861139 CTGATTCTGATTCTGTCACCTAAGT-
1 CTAATTCTGATTCTGTCACCTAA-TA
*
44861164 TTAATTCTGATTCTG
1 CTAATTCTGATTCTG
44861179 ATTCTGATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.45
Consensus pattern (25 bp):
CTAATTCTGATTCTGTCACCTAATA
Found at i:44861226 original size:37 final size:37
Alignment explanation
Indices: 44861120--44861227 Score: 130
Period size: 37 Copynumber: 2.9 Consensus size: 37
44861110 TATTCTAATT
* *
44861120 CTGATTCTG-TTACCTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATT--CTGATTCTGATTCTGATTTTGTCAC
* *
44861158 CTAAGTT-TAATTCTGATTCTGATTCTGATTTTGTCAC
1 CTGA-TTCTGATTCTGATTCTGATTCTGATTTTGTCAC
*
44861195 CTGATTCTGATTCTGATTCTGATTCTCATTTTG
1 CTGATTCTGATTCTGATTCTGATTCTGATTTTG
44861228 ATTCTAGTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
36 2 0.03
37 50 0.83
38 4 0.07
39 4 0.07
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGATTCTGATTTTGTCAC
Found at i:44862497 original size:43 final size:41
Alignment explanation
Indices: 44862410--44862625 Score: 301
Period size: 41 Copynumber: 5.2 Consensus size: 41
44862400 GCGAGGCATA
* * *
44862410 AAGCCT-AGTATAATACAACGGCACAGAGCCTACTAGGCAAT
1 AAGCCTGA-TATAATACACCGGCACAAAGCCTGCTAGGCAAT
*
44862451 AAGCCTGATATAATACACCGGCATATAAAGCCTGCTAGGCAAT
1 AAGCCTGATATAATACACCGGC--ACAAAGCCTGCTAGGCAAT
*
44862494 AAGCCTGATTTAATACACCGGCACAAAGCCTGCTAGGCAAT
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
*
44862535 AAGACTGAT-TAAATACACCGGCACAAAGCCTGCTAGGCAAT
1 AAGCCTGATAT-AATACACCGGCACAAAGCCTGCTAGGCAAT
* *
44862576 AAGCTTGATATAATACACCGGTACAAAGCCTGCTAGGCAAT
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
44862617 AAAGCCTGA
1 -AAGCCTGA
44862626 ATTTCACTGA
Statistics
Matches: 158, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
40 1 0.01
41 111 0.70
42 9 0.06
43 37 0.23
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (41 bp):
AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
Found at i:44874388 original size:51 final size:51
Alignment explanation
Indices: 44874311--44874493 Score: 210
Period size: 52 Copynumber: 3.6 Consensus size: 51
44874301 CGGATACCCG
* ** *
44874311 GTGGCCTGCACATAGTGTCACCCTTGTAGTCAAAGCT-TCCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTG-AGTCAAAGCTATCCTTCTTCACAAA
* * * *
44874362 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCAAAAA
1 GTGGCCTTCACATAGTACCACACTTGAG-TCAAAGCTATCCTTCTTCACAAA
* * * *
44874414 GTGGCCTTCACATAGTACCACACTTGCGACCAAGCTAT-C-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGAGTCAAAGCTATCCTTCTTCACAAA
*
44874463 GTGGCCTTTACATAGTACCACACTTGAGTCA
1 GTGGCCTTCACATAGTACCACACTTGAGTCA
44874494 CTAGTGACAT
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
49 35 0.31
50 1 0.01
51 37 0.33
52 39 0.35
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGAGTCAAAGCTATCCTTCTTCACAAA
Found at i:44874423 original size:52 final size:51
Alignment explanation
Indices: 44874341--44874488 Score: 214
Period size: 52 Copynumber: 2.9 Consensus size: 51
44874331 CCCTTGTAGT
* *
44874341 CAAAGCT-TCCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTGAC
1 CAAAGCTATCTTTCTTCA-AAAGTGGCCTTCACATAGTACCACACTTGCGAC
44874392 CAAAGCTATCTTTCTTCAAAAAGTGGCCTTCACATAGTACCACACTTGCGAC
1 CAAAGCTATCTTTCTTC-AAAAGTGGCCTTCACATAGTACCACACTTGCGAC
*
44874444 C-AAGCTATCTCTTC-TC-AAAGTGGCCTTTACATAGTACCACACTTG
1 CAAAGCTATCT-TTCTTCAAAAGTGGCCTTCACATAGTACCACACTTG
44874489 AGTCACTAGT
Statistics
Matches: 91, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
49 28 0.31
51 18 0.20
52 44 0.48
53 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (51 bp):
CAAAGCTATCTTTCTTCAAAAGTGGCCTTCACATAGTACCACACTTGCGAC
Found at i:44877171 original size:29 final size:29
Alignment explanation
Indices: 44877132--44877210 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
44877122 CTTAATAATC
*
44877132 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
44877162 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
44877191 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44877211 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:44883271 original size:21 final size:20
Alignment explanation
Indices: 44883233--44883272 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
44883223 ACAAAACTTG
44883233 CATAACTACCATCAAACATT
1 CATAACTACCATCAAACATT
* *
44883253 CATAATCTATCATTAAACAT
1 CATAA-CTACCATCAAACAT
44883273 CAAAATATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
CATAACTACCATCAAACATT
Found at i:44886137 original size:21 final size:22
Alignment explanation
Indices: 44886098--44886138 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
44886088 AAATGCCCAA
*
44886098 AATGTGTTTGTGTATTAAATTG
1 AATGTGTTGGTGTATTAAATTG
44886120 AATGTGTTGGTG-ATTAAAT
1 AATGTGTTGGTGTATTAAAT
44886139 AAGTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (22 bp):
AATGTGTTGGTGTATTAAATTG
Found at i:44889023 original size:62 final size:62
Alignment explanation
Indices: 44888953--44889078 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
44888943 GTCTTTATTA
*
44888953 AAACGATCATAACTTGAGCTCTCGAACTCAAAATCAAATAATTCAAAGTGCATTTTGAAGCT
1 AAACGATCATAACTTGAGCTCTCGAACTCAAAATCAAATAATTCAAAGTGCATTTCGAAGCT
* ** * *
44889015 AAACGATCATAACTTGAGCTCTTGAACTCAAAATTGAATGATTCAAAGTGCGTTTCGAAGCT
1 AAACGATCATAACTTGAGCTCTCGAACTCAAAATCAAATAATTCAAAGTGCATTTCGAAGCT
44889077 AA
1 AA
44889079 GAGATGGATT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (62 bp):
AAACGATCATAACTTGAGCTCTCGAACTCAAAATCAAATAATTCAAAGTGCATTTCGAAGCT
Found at i:44889779 original size:29 final size:29
Alignment explanation
Indices: 44889746--44889804 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
44889736 TACTATAGGC
44889746 TACAGCCTTGGCCTTTGTAGATCCCTCTA
1 TACAGCCTTGGCCTTTGTAGATCCCTCTA
44889775 TACAGCCTTGGCCTTTGTAGATCCCTCTA
1 TACAGCCTTGGCCTTTGTAGATCCCTCTA
44889804 T
1 T
44889805 CTTACAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.36
Consensus pattern (29 bp):
TACAGCCTTGGCCTTTGTAGATCCCTCTA
Found at i:44891337 original size:20 final size:20
Alignment explanation
Indices: 44891312--44891352 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
44891302 TATTAAGTTT
*
44891312 CACATTTGCCTTGTTGAAAC
1 CACATTTGCCTTATTGAAAC
*
44891332 CACATTTTCCTTATTGAAAC
1 CACATTTGCCTTATTGAAAC
44891352 C
1 C
44891353 TATGGAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (20 bp):
CACATTTGCCTTATTGAAAC
Found at i:44891724 original size:5 final size:5
Alignment explanation
Indices: 44891714--44891750 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
44891704 TCTATGTGAA
44891714 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
44891751 GAACACACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:44891734 original size:15 final size:14
Alignment explanation
Indices: 44891714--44891750 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
44891704 TCTATGTGAA
44891714 AAAATAAAATAAAAT
1 AAAATAAAAT-AAAT
44891729 AAAATAAAATAAAT
1 AAAATAAAATAAAT
44891743 AAAATAAA
1 AAAATAAA
44891751 GAACACACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:44897743 original size:1 final size:1
Alignment explanation
Indices: 44897739--44897763 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
44897729 TCATCTCTAG
44897739 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
44897764 ACTTTGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:44903541 original size:24 final size:24
Alignment explanation
Indices: 44903514--44903560 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
44903504 ACATCCTAAA
44903514 ATAATTTACAGTCATTAAAAGTAG
1 ATAATTTACAGTCATTAAAAGTAG
* *
44903538 ATAATTTACTGTCATTAGAAGTA
1 ATAATTTACAGTCATTAAAAGTA
44903561 AAATTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (24 bp):
ATAATTTACAGTCATTAAAAGTAG
Found at i:44904188 original size:10 final size:10
Alignment explanation
Indices: 44904161--44904215 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 10
44904151 TAAAAATATT
* *
44904161 TAAAAGTTAT
1 TAAAAATTAG
*
44904171 TAAGAATTAG
1 TAAAAATTAG
*
44904181 AAAAAATTA-
1 TAAAAATTAG
44904190 TAAAAATT-G
1 TAAAAATTAG
*
44904199 TAAAAATTAT
1 TAAAAATTAG
44904209 TAAAAAT
1 TAAAAAT
44904216 GCAAAATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
9 15 0.42
10 21 0.58
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (10 bp):
TAAAAATTAG
Found at i:44904197 original size:19 final size:19
Alignment explanation
Indices: 44904162--44904215 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
44904152 AAAAATATTT
* *
44904162 AAAAGTTATTAAGAATTAGA
1 AAAAATTATTAAAAATT-GA
*
44904182 AAAAATTA-TAAAAATTGT
1 AAAAATTATTAAAAATTGA
44904200 AAAAATTATTAAAAAT
1 AAAAATTATTAAAAAT
44904216 GCAAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.30
19 14 0.47
20 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (19 bp):
AAAAATTATTAAAAATTGA
Found at i:44904251 original size:18 final size:17
Alignment explanation
Indices: 44904182--44904251 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 17
44904172 AAGAATTAGA
44904182 AAAAATTATAAAAATTGT
1 AAAAATTATAAAAA-TGT
*
44904200 AAAAATTATTAAAAATGC
1 AAAAATTA-TAAAAATGT
*
44904218 AAAATTTTATAAAAAAATCGT
1 AAAA-ATTAT--AAAAAT-GT
*
44904239 GAAAATTATAAAA
1 AAAAATTATAAAA
44904252 TATATAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
18 19 0.45
19 9 0.21
20 10 0.24
21 4 0.10
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (17 bp):
AAAAATTATAAAAATGT
Found at i:44905638 original size:20 final size:20
Alignment explanation
Indices: 44905610--44905652 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
44905600 CTAACATACT
* * *
44905610 TATCTACGTGGCACGTCTTA
1 TATCCACGTCGCACGTCATA
*
44905630 TATCCACGTCGCATGTCATA
1 TATCCACGTCGCACGTCATA
44905650 TAT
1 TAT
44905653 TAGCTTCTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (20 bp):
TATCCACGTCGCACGTCATA
Found at i:44905874 original size:9 final size:9
Alignment explanation
Indices: 44905835--44905879 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
44905825 TTTTCTAACA
*
44905835 TATAAAATT
1 TATAATATT
44905844 TATAATTATTT
1 TATAA-TA-TT
44905855 TATATATATT
1 TATA-ATATT
44905865 TATAATATT
1 TATAATATT
44905874 TATAAT
1 TATAAT
44905880 TTATATTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 16 0.50
10 7 0.22
11 8 0.25
12 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATAATATT
Found at i:44906536 original size:19 final size:20
Alignment explanation
Indices: 44906498--44906538 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
44906488 TAGAAAAATC
44906498 TTATTATGTATAAATTATAA
1 TTATTATGTATAAATTATAA
44906518 TTATTA-GT-TAAATTTATAA
1 TTATTATGTATAAA-TTATAA
44906537 TT
1 TT
44906539 TTCAGATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTATTATGTATAAATTATAA
Found at i:44907513 original size:25 final size:25
Alignment explanation
Indices: 44907479--44907530 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
44907469 GCTTCAGATG
*
44907479 TATTGACCTTCAAACTAAAATTATC
1 TATTGACCTTCAAACTAAAACTATC
44907504 TATTGACCTTCAAACTAAAACTATC
1 TATTGACCTTCAAACTAAAACTATC
44907529 TA
1 TA
44907531 CTAGCTTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (25 bp):
TATTGACCTTCAAACTAAAACTATC
Found at i:44909121 original size:16 final size:16
Alignment explanation
Indices: 44909102--44909132 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44909092 CTTCTTCACT
44909102 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
44909118 TACTTACTTACTTAA
1 TACTCACTTACTTAA
44909133 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:44909138 original size:20 final size:20
Alignment explanation
Indices: 44909099--44909138 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44909089 AAACTTCTTC
* *
44909099 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
44909119 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
44909139 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:44909452 original size:53 final size:54
Alignment explanation
Indices: 44909363--44909578 Score: 251
Period size: 55 Copynumber: 4.0 Consensus size: 54
44909353 TATGTGGTAT
* * *
44909363 CCTTTTGAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* * *
44909417 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTG
* * * * *
44909470 CCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
*
44909525 CCTTA-GAAACCTTACCAATTCCCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGA-CATGGTCTTACATGGTATCCTT
44909579 AAACCCTAAT
Statistics
Matches: 136, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.01
53 47 0.35
54 15 0.11
55 70 0.51
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
Found at i:44909523 original size:108 final size:110
Alignment explanation
Indices: 44909371--44909571 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
44909361 ATCCTTTTGA
* *
44909371 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
* *
44909434 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTCCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
44909479 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
44909544 TCCCATGCCTTAGCATGGTCTTACATGG
66 TCCCATGCCTTAGCATGGTCTTACATGG
44909572 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 7 0.08
110 26 0.31
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TCCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:44912133 original size:14 final size:15
Alignment explanation
Indices: 44912114--44912146 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
44912104 TTAATAATTG
44912114 TAAATGAAAG-AAAA
1 TAAATGAAAGTAAAA
*
44912128 TAAATGAAGGTAAAA
1 TAAATGAAAGTAAAA
44912143 TAAA
1 TAAA
44912147 AGATATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (15 bp):
TAAATGAAAGTAAAA
Found at i:44915406 original size:23 final size:22
Alignment explanation
Indices: 44915375--44915434 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
44915365 TTTAAACAAG
* *
44915375 TATTCATATTTATGTTATTAAAA
1 TATTAATATTTATGTTA-GAAAA
*
44915398 TATTAATATCTTTTGTTAGAAAA
1 TATTAATAT-TTATGTTAGAAAA
*
44915421 TATTTATTATTTAT
1 TA-TTAATATTTAT
44915435 AAATTGAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 17 0.57
24 13 0.43
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (22 bp):
TATTAATATTTATGTTAGAAAA
Found at i:44915931 original size:7 final size:7
Alignment explanation
Indices: 44915921--44915950 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
44915911 ATAATTTTTG
44915921 AAAATTT
1 AAAATTT
44915928 AAAATTT
1 AAAATTT
44915935 AAAATTT
1 AAAATTT
44915942 AAAACTTT
1 AAAA-TTT
44915950 A
1 A
44915951 GTATTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (7 bp):
AAAATTT
Found at i:44915990 original size:21 final size:21
Alignment explanation
Indices: 44915966--44916006 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
44915956 TGTATTTGTA
44915966 TTTTTATTTTTAAAAATTTAT
1 TTTTTATTTTTAAAAATTTAT
*
44915987 TTTTTATTTTTAAAATTTTA
1 TTTTTATTTTTAAAAATTTA
44916007 AAACTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTATTTTTAAAAATTTAT
Found at i:44916198 original size:14 final size:15
Alignment explanation
Indices: 44916173--44916206 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
44916163 ATAAAACTTA
44916173 AAAAATATAAAATAT
1 AAAAATATAAAATAT
44916188 AAAAATA-AAAATAT
1 AAAAATATAAAATAT
44916202 AAAAA
1 AAAAA
44916207 CTGAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATATAAAATAT
Found at i:44920654 original size:40 final size:40
Alignment explanation
Indices: 44920598--44920775 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
44920588 TGGATGATAA
* * * *
44920598 CCGGGCTAAGTGCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
44920638 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44920678 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
44920718 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
44920758 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44920776 TACGTGGCTT
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.13
40 110 0.87
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44923696 original size:25 final size:26
Alignment explanation
Indices: 44923660--44923716 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
44923650 GTGTTCTTGG
*
44923660 TTCTTTTTTATTTT-TATTTA-GTTTT
1 TTCTTTTGTATTTTCT-TTTATGTTTT
*
44923685 TTCTTTTGTATTTTCTTTTATTTTTT
1 TTCTTTTGTATTTTCTTTTATGTTTT
44923711 TTCTTT
1 TTCTTT
44923717 CTCTTCGCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.09, C:0.07, G:0.04, T:0.81
Consensus pattern (26 bp):
TTCTTTTGTATTTTCTTTTATGTTTT
Found at i:44924711 original size:3 final size:3
Alignment explanation
Indices: 44924705--44924805 Score: 98
Period size: 3 Copynumber: 33.7 Consensus size: 3
44924695 CATCATCATC
44924705 ATT ATT ATT GA-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
44924750 ATT ATT GTT ACTT TTT GTC ACT ATT GTC ATT ATT A-T ATT ATT ACT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44924795 ATT ATT ATT AT
1 ATT ATT ATT AT
44924806 ACTTATATTC
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
2 3 0.04
3 73 0.92
4 3 0.04
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:44929563 original size:19 final size:20
Alignment explanation
Indices: 44929536--44929577 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
44929526 ACTTTTTGCA
* *
44929536 TTCATTCATTTGCATTACAT
1 TTCATTCATGTGCATTAAAT
44929556 TTCA-TCATGTGCATTAAAT
1 TTCATTCATGTGCATTAAAT
44929575 TTC
1 TTC
44929578 GCGAAAAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (20 bp):
TTCATTCATGTGCATTAAAT
Found at i:44932725 original size:37 final size:37
Alignment explanation
Indices: 44932672--44932762 Score: 128
Period size: 37 Copynumber: 2.4 Consensus size: 37
44932662 TTATTACGAA
*
44932672 GTCTTACCCGGACATAATCTCCAAACGTAGTCATTGG
1 GTCTTACCCGGACATAATCTCCAAACGTAGTCATCGG
* * *
44932709 GTCTTACCGGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCAAACGTAGTCATCGG
*
44932746 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
44932763 TTCCAAGTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 42 0.91
38 4 0.09
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCAAACGTAGTCATCGG
Found at i:44932918 original size:49 final size:49
Alignment explanation
Indices: 44932862--44933076 Score: 358
Period size: 49 Copynumber: 4.4 Consensus size: 49
44932852 ACATTAGCCG
* * *
44932862 TTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCG
1 TTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCGGCCA
*
44932911 CTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCGGCCA
1 TTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCGGCCA
* *
44932960 TTAGGCCTTATCACGTATACATACACCTTCACATTCATCACATCGACCA
1 TTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCGGCCA
* *
44933009 TTAGGCGTTATCACATATACATACACTTTCACATTCATCACATCGGCCA
1 TTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCGGCCA
44933058 TTAGGCCTTATCACATATA
1 TTAGGCCTTATCACATATA
44933077 TATATCTCAT
Statistics
Matches: 154, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 154 1.00
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.29
Consensus pattern (49 bp):
TTAGGCCTTATCACATATACATACACCTTCACATTCATCACATCGGCCA
Found at i:44941932 original size:87 final size:85
Alignment explanation
Indices: 44941687--44942035 Score: 531
Period size: 87 Copynumber: 4.1 Consensus size: 85
44941677 AGAATGGTGT
44941687 AACAGATCGAAGACGAAGGGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTA-A-ATCT
1 AACAGATCGAAGACGAAGGGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCT
* *
44941750 TAGTCCCCTAAGTAGTAGGGA
66 TA-ACCCCTAAGCAGTAGGGA
* * *
44941771 AAGAGATCGAAGATGAAGGGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGATCT
1 AACAGATCGAAGACGAAGGGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCT
**
44941836 TAGTTCCCTAAGCAGTAGGGA
66 TA-ACCCCTAAGCAGTAGGGA
* *
44941857 AATAGATCGAAGACAAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
44941922 TTAACGCCCTAAGCAGTAGGGA
65 TTAAC-CCCTAAGCAGTAGGGA
44941944 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
* *
44942009 TTAACCCCCTAAGTAGTAGGGT
65 TTAA-CCCCTAAGCAGTAGGGA
44942031 AACAG
1 AACAG
44942036 GCTGGAAATC
Statistics
Matches: 246, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
84 56 0.23
85 1 0.00
86 46 0.19
87 142 0.58
88 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (85 bp):
AACAGATCGAAGACGAAGGGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCT
TAACCCCTAAGCAGTAGGGA
Found at i:44942027 original size:43 final size:43
Alignment explanation
Indices: 44941708--44942039 Score: 245
Period size: 43 Copynumber: 7.7 Consensus size: 43
44941698 GACGAAGGGC
44941708 CTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTA-A-AT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
** * * * * **
44941748 CTTAGTCCCCTAAGTAGTAGGG-AA-AGAGATCGAAGATGA-AGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCT-GAA-TTTACA-GAT
*
44941792 CTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
*** * * * *** * **
44941834 CTTAGTTCCCTAAGCAGTAGGGAAATA-GATCGAAGACAAAGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA-GAT
44941878 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * **
44941921 CTTAACGCCCTAAGCAGTAGGGAAACA-GATCGAA--GACGAAGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAATTTAC--A-GAT
44941965 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
*
44942008 CTTAACCCCCTAAGTAGTAGGGTAACAGGCTG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTG
44942040 GAAATCAAAT
Statistics
Matches: 222, Mismatches: 50, Indels: 37
0.72 0.16 0.12
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 20 0.09
42 14 0.06
43 104 0.47
44 66 0.30
45 6 0.03
46 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
Found at i:44942828 original size:25 final size:26
Alignment explanation
Indices: 44942792--44942848 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
44942782 GTGTTCTTGG
*
44942792 TTCTTTTTTATTTT-TATTTA-GTTTT
1 TTCTTTTGTATTTTCT-TTTACGTTTT
*
44942817 TTCTTTTGTATTTTCTTTTACTTTTT
1 TTCTTTTGTATTTTCTTTTACGTTTT
44942843 TTCTTT
1 TTCTTT
44942849 CTCTTCGCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (26 bp):
TTCTTTTGTATTTTCTTTTACGTTTT
Found at i:44943844 original size:3 final size:3
Alignment explanation
Indices: 44943838--44943929 Score: 80
Period size: 3 Copynumber: 30.7 Consensus size: 3
44943828 CATCATCATC
*
44943838 ATT ATT ATT GA-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
44943883 ACTT TTT GTC ACT ATT GTC ATT ATT A-T ATT ATT ACT ATT ATT ATT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44943928 AT
1 AT
44943930 ACTTATATTC
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
2 3 0.04
3 64 0.91
4 3 0.04
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:44951652 original size:46 final size:48
Alignment explanation
Indices: 44951530--44951657 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 48
44951520 TGTAACCCGC
*
44951530 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G-TGACTAGTTACAT
* * *
44951580 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-TGAC-A-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGTGACTAGTT-ACAT
44951623 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
44951658 GATGCCCAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 4 0.06
45 2 0.03
46 26 0.39
47 26 0.39
48 2 0.03
49 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGTGACTAGTTACAT
Found at i:44951678 original size:46 final size:45
Alignment explanation
Indices: 44951535--44951665 Score: 140
Period size: 47 Copynumber: 2.8 Consensus size: 45
44951525 CCCGCCCATA
*
44951535 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * * * *
44951583 A-CGAACTCGGACTCAACTCAACGAGTTCTGACATTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCATACATCC
44951628 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
44951666 AATATCCCAG
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
44 5 0.07
45 2 0.03
46 26 0.38
47 30 0.43
48 2 0.03
49 4 0.06
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:44959095 original size:46 final size:46
Alignment explanation
Indices: 44959021--44959149 Score: 140
Period size: 47 Copynumber: 2.8 Consensus size: 46
44959011 ATAGTTGAGC
**
44959021 ATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--GATG-GAACTAG
* * *
44959068 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGGAACTA-G
44959113 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
44959150 GGGCGGGTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 27 0.39
47 29 0.42
48 3 0.04
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGGAACTAG
Found at i:44960257 original size:2 final size:2
Alignment explanation
Indices: 44960252--44960277 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44960242 AAATTAATAA
44960252 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
44960278 GAGTCTAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44962981 original size:18 final size:18
Alignment explanation
Indices: 44962958--44962993 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44962948 ATGTACTAGT
44962958 CAAGCAATAACTTAAGAA
1 CAAGCAATAACTTAAGAA
44962976 CAAGCAATAACTTAAGAA
1 CAAGCAATAACTTAAGAA
44962994 AATTTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.17, G:0.11, T:0.17
Consensus pattern (18 bp):
CAAGCAATAACTTAAGAA
Found at i:44963942 original size:28 final size:27
Alignment explanation
Indices: 44963899--44963971 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
44963889 CACATACATA
* * *
44963899 AGATAGCCATAGAGGCGTCCA-TATAGAT
1 AGATAGCCACAAAGGCATCCACT-TA-AT
44963927 AGATAGCCACAAAGGCATCCACTTAAT
1 AGATAGCCACAAAGGCATCCACTTAAT
44963954 AGATATAGCCACAAAGGC
1 AG--ATAGCCACAAAGGC
44963972 TCTTATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.10
28 20 0.51
29 15 0.38
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (27 bp):
AGATAGCCACAAAGGCATCCACTTAAT
Found at i:44968129 original size:3 final size:3
Alignment explanation
Indices: 44968121--44968168 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
44968111 AAATAGATAT
* *
44968121 TTA TTA TTA TTA -TA TTA TTA TAA TGTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
44968166 TTA
1 TTA
44968169 ACTAACATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:44970436 original size:24 final size:24
Alignment explanation
Indices: 44970409--44970471 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
44970399 CTTATTATGT
44970409 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
44970433 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
44970457 TCGTACACATAGTGC
1 TCGCACACATAGTGC
44970472 ATTTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:44972403 original size:16 final size:17
Alignment explanation
Indices: 44972382--44972419 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
44972372 AAAAGTGAAT
44972382 TTGAATTGAA-TGAGAA
1 TTGAATTGAATTGAGAA
*
44972398 TTGAATTGAATTGTGAA
1 TTGAATTGAATTGAGAA
44972415 TTGAA
1 TTGAA
44972420 AGTGAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (17 bp):
TTGAATTGAATTGAGAA
Found at i:44972415 original size:17 final size:16
Alignment explanation
Indices: 44972376--44972419 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
44972366 AAGTGGAAAA
44972376 GTGAATTTGAATTGAAT
1 GTGAA-TTGAATTGAAT
*
44972393 GAGAATTGAATTGAATT
1 GTGAATTGAATTGAA-T
44972410 GTGAATTGAA
1 GTGAATTGAA
44972420 AGTGAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (16 bp):
GTGAATTGAATTGAAT
Found at i:44972648 original size:38 final size:38
Alignment explanation
Indices: 44972596--44972678 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
44972586 TATATGAGGT
* *
44972596 ACTGGGT-TCCACTTTGCTTCGG-CTCTGCCGATGAGAC
1 ACTGGGTGTCAACTTTGCTTCGGACTGT-CCGATGAGAC
*
44972633 ACTGGGTGTCAACTTTGCTTCGGACTGTCCGATGAGGC
1 ACTGGGTGTCAACTTTGCTTCGGACTGTCCGATGAGAC
44972671 ACTGGGTG
1 ACTGGGTG
44972679 CCAATCTGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
37 7 0.17
38 31 0.76
39 3 0.07
ACGTcount: A:0.14, C:0.25, G:0.31, T:0.29
Consensus pattern (38 bp):
ACTGGGTGTCAACTTTGCTTCGGACTGTCCGATGAGAC
Found at i:44983789 original size:14 final size:13
Alignment explanation
Indices: 44983761--44983797 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
44983751 ATCCTGGAGT
44983761 ATTAA-AACAATA
1 ATTAAGAACAATA
44983773 ATTAAGAACACATA
1 ATTAAGAACA-ATA
44983787 ATTAAGAACAA
1 ATTAAGAACAA
44983798 GTCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:44990835 original size:28 final size:29
Alignment explanation
Indices: 44990794--44990851 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
44990784 CATAGAGTCT
*
44990794 GCCTTGTGATGAACATG-AAAGACAACCC
1 GCCTTGTGACGAACATGAAAAGACAACCC
44990822 GCCTTGTGACGAACATGAAAAGACAACCC
1 GCCTTGTGACGAACATGAAAAGACAACCC
44990851 G
1 G
44990852 AACCTTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (29 bp):
GCCTTGTGACGAACATGAAAAGACAACCC
Found at i:45004615 original size:17 final size:17
Alignment explanation
Indices: 45004593--45004629 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
45004583 TGATAAGTTG
45004593 ATTTTTAAGAATTTAAA
1 ATTTTTAAGAATTTAAA
45004610 ATTTTTAAGAATTTAAA
1 ATTTTTAAGAATTTAAA
45004627 ATT
1 ATT
45004630 ATAGGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
ATTTTTAAGAATTTAAA
Found at i:45014847 original size:14 final size:14
Alignment explanation
Indices: 45014828--45014857 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45014818 CATCCGAACT
45014828 CGTTGAGTTGAGTC
1 CGTTGAGTTGAGTC
45014842 CGTTGAGTTGAGTC
1 CGTTGAGTTGAGTC
45014856 CG
1 CG
45014858 AGTTCGTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.17, G:0.37, T:0.33
Consensus pattern (14 bp):
CGTTGAGTTGAGTC
Done.